Query 002017
Match_columns 981
No_of_seqs 285 out of 1197
Neff 5.7
Searched_HMMs 46136
Date Thu Mar 28 14:38:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002017.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002017hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5113 UFD2 Ubiquitin fusion 100.0 1E-154 2E-159 1296.1 58.4 842 11-958 3-926 (929)
2 KOG2042 Ubiquitin fusion degra 100.0 5E-145 1E-149 1294.2 52.5 812 41-957 53-941 (943)
3 PF10408 Ufd2P_core: Ubiquitin 100.0 1E-133 3E-138 1206.3 50.4 539 266-868 1-629 (629)
4 PF04564 U-box: U-box domain; 99.8 3.2E-21 6.9E-26 171.0 5.0 72 883-955 1-73 (73)
5 smart00504 Ubox Modified RING 99.6 1.6E-15 3.4E-20 129.8 5.6 63 886-949 1-63 (63)
6 KOG4642 Chaperone-dependent E3 99.2 1.7E-11 3.6E-16 129.4 6.4 77 880-957 205-282 (284)
7 TIGR00599 rad18 DNA repair pro 98.3 1E-06 2.3E-11 101.1 6.7 73 880-953 20-92 (397)
8 PLN03208 E3 ubiquitin-protein 98.2 7.5E-07 1.6E-11 92.6 3.4 67 876-943 8-90 (193)
9 PF11789 zf-Nse: Zinc-finger o 98.1 1.1E-06 2.4E-11 74.8 2.2 47 882-928 7-55 (57)
10 KOG0289 mRNA splicing factor [ 98.0 3.4E-06 7.3E-11 95.4 2.4 52 887-938 1-52 (506)
11 KOG4692 Predicted E3 ubiquitin 97.9 0.0011 2.3E-08 73.8 19.4 239 671-932 185-467 (489)
12 COG5222 Uncharacterized conser 97.3 0.00058 1.3E-08 74.3 7.5 100 852-954 241-344 (427)
13 PF15227 zf-C3HC4_4: zinc fing 97.1 0.00034 7.4E-09 55.9 2.4 32 889-921 1-32 (42)
14 PF13923 zf-C3HC4_2: Zinc fing 97.1 0.00047 1E-08 53.9 3.0 38 889-927 1-39 (39)
15 PHA02929 N1R/p28-like protein; 97.0 0.00075 1.6E-08 73.2 5.2 50 882-932 170-227 (238)
16 PF13920 zf-C3HC4_3: Zinc fing 96.8 0.00089 1.9E-08 55.1 3.0 47 885-932 1-48 (50)
17 PF13445 zf-RING_UBOX: RING-ty 96.8 0.00076 1.7E-08 54.3 2.5 31 889-921 1-35 (43)
18 KOG0287 Postreplication repair 96.7 0.0011 2.4E-08 73.4 2.9 67 885-952 22-88 (442)
19 KOG0823 Predicted E3 ubiquitin 96.6 0.0012 2.7E-08 70.3 2.5 56 885-941 46-104 (230)
20 PF14835 zf-RING_6: zf-RING of 96.5 0.00075 1.6E-08 58.5 0.6 58 887-946 8-65 (65)
21 KOG2177 Predicted E3 ubiquitin 96.5 0.0025 5.4E-08 68.4 4.4 74 881-957 8-81 (386)
22 KOG0317 Predicted E3 ubiquitin 96.4 0.0024 5.2E-08 70.0 3.4 57 880-937 232-289 (293)
23 COG5432 RAD18 RING-finger-cont 96.1 0.0035 7.5E-08 68.3 2.7 66 887-953 26-91 (391)
24 PF13639 zf-RING_2: Ring finge 95.9 0.0045 9.8E-08 49.5 2.0 39 889-928 3-44 (44)
25 TIGR00570 cdk7 CDK-activating 95.2 0.031 6.7E-07 62.7 6.0 63 885-948 2-74 (309)
26 PF00097 zf-C3HC4: Zinc finger 94.9 0.027 5.9E-07 44.1 3.2 37 889-926 1-40 (41)
27 KOG0320 Predicted E3 ubiquitin 94.7 0.02 4.3E-07 59.1 2.6 51 887-938 132-184 (187)
28 KOG0297 TNF receptor-associate 94.5 0.029 6.2E-07 65.5 3.8 71 881-952 16-88 (391)
29 KOG3039 Uncharacterized conser 94.5 0.029 6.3E-07 60.3 3.3 55 883-938 218-276 (303)
30 KOG2979 Protein involved in DN 94.4 0.041 8.9E-07 59.8 4.3 70 881-950 171-246 (262)
31 cd00162 RING RING-finger (Real 94.2 0.056 1.2E-06 41.9 3.6 44 888-931 1-45 (45)
32 KOG0883 Cyclophilin type, U bo 94.2 0.032 6.9E-07 63.3 2.9 52 887-939 41-92 (518)
33 PHA02926 zinc finger-like prot 94.1 0.042 9.1E-07 58.7 3.5 58 880-940 164-236 (242)
34 COG5243 HRD1 HRD ubiquitin lig 93.7 0.14 3.1E-06 57.9 6.8 54 883-937 284-350 (491)
35 PF04641 Rtf2: Rtf2 RING-finge 93.6 0.1 2.2E-06 57.7 5.5 55 882-938 109-167 (260)
36 PF06416 DUF1076: Protein of u 93.1 0.041 8.9E-07 52.7 1.3 56 883-938 37-97 (113)
37 smart00184 RING Ring finger. E 92.9 0.1 2.2E-06 38.9 3.0 38 889-927 1-39 (39)
38 PF12678 zf-rbx1: RING-H2 zinc 92.7 0.13 2.8E-06 46.1 3.8 39 889-928 22-73 (73)
39 KOG2660 Locus-specific chromos 92.3 0.075 1.6E-06 59.6 2.2 68 879-946 8-79 (331)
40 COG5574 PEX10 RING-finger-cont 91.7 0.099 2.1E-06 57.1 2.2 54 882-936 210-266 (271)
41 KOG4159 Predicted E3 ubiquitin 91.7 0.13 2.8E-06 59.9 3.3 72 880-952 78-154 (398)
42 KOG3039 Uncharacterized conser 91.1 0.17 3.6E-06 54.7 3.1 39 882-921 39-77 (303)
43 KOG0802 E3 ubiquitin ligase [P 90.5 0.11 2.4E-06 63.1 1.3 49 883-932 288-341 (543)
44 KOG0311 Predicted E3 ubiquitin 90.3 0.048 1E-06 61.5 -1.8 71 877-947 34-106 (381)
45 KOG0826 Predicted E3 ubiquitin 90.2 0.14 3.1E-06 57.3 1.7 55 883-937 297-351 (357)
46 KOG2164 Predicted E3 ubiquitin 89.7 0.26 5.7E-06 58.2 3.4 71 883-954 183-262 (513)
47 KOG0978 E3 ubiquitin ligase in 87.4 0.3 6.6E-06 60.1 2.1 57 881-938 638-695 (698)
48 KOG3113 Uncharacterized conser 87.2 0.8 1.7E-05 49.9 4.8 123 823-954 44-187 (293)
49 PF14634 zf-RING_5: zinc-RING 85.0 0.69 1.5E-05 37.1 2.3 40 889-929 2-44 (44)
50 PF02891 zf-MIZ: MIZ/SP-RING z 80.0 1.6 3.4E-05 36.5 2.7 44 887-930 3-50 (50)
51 KOG2817 Predicted E3 ubiquitin 80.0 1.3 2.7E-05 51.3 2.8 43 887-930 335-383 (394)
52 PF04641 Rtf2: Rtf2 RING-finge 77.6 2.6 5.6E-05 46.7 4.3 39 885-923 33-71 (260)
53 KOG4367 Predicted Zn-finger pr 76.5 1.3 2.9E-05 51.1 1.7 37 884-921 2-38 (699)
54 COG5540 RING-finger-containing 74.1 2.4 5.3E-05 47.4 2.8 44 888-932 325-372 (374)
55 PF12861 zf-Apc11: Anaphase-pr 72.9 3.3 7.1E-05 38.5 2.9 46 888-933 34-83 (85)
56 KOG1002 Nucleotide excision re 70.1 2.7 5.9E-05 49.9 2.2 54 885-939 535-593 (791)
57 KOG0824 Predicted E3 ubiquitin 68.7 2.8 6.1E-05 46.9 1.9 46 888-934 9-55 (324)
58 KOG1813 Predicted E3 ubiquitin 66.5 2.7 5.8E-05 47.0 1.1 59 887-947 242-300 (313)
59 KOG0396 Uncharacterized conser 63.5 3.4 7.4E-05 47.5 1.3 49 887-936 331-383 (389)
60 COG5109 Uncharacterized conser 62.9 5.1 0.00011 45.1 2.4 43 887-930 337-385 (396)
61 KOG4628 Predicted E3 ubiquitin 57.0 7.1 0.00015 45.0 2.4 45 887-932 230-278 (348)
62 COG5627 MMS21 DNA repair prote 52.0 14 0.00031 40.2 3.5 67 887-953 190-262 (275)
63 KOG1785 Tyrosine kinase negati 50.4 6.1 0.00013 45.7 0.5 53 879-932 361-416 (563)
64 COG5219 Uncharacterized conser 45.2 24 0.00053 45.1 4.4 45 888-932 1471-1523(1525)
65 COG5152 Uncharacterized conser 44.4 12 0.00027 39.6 1.6 44 887-931 197-240 (259)
66 KOG1039 Predicted E3 ubiquitin 41.2 17 0.00037 42.0 2.3 49 884-932 159-221 (344)
67 COG5194 APC11 Component of SCF 39.8 17 0.00038 33.3 1.6 35 899-933 48-82 (88)
68 KOG0828 Predicted E3 ubiquitin 37.6 17 0.00038 43.3 1.6 33 899-932 601-634 (636)
69 KOG1001 Helicase-like transcri 32.8 25 0.00053 44.3 2.0 122 805-938 377-506 (674)
70 KOG1645 RING-finger-containing 28.8 35 0.00077 40.0 2.2 59 887-946 5-70 (463)
71 PF11793 FANCL_C: FANCL C-term 28.6 11 0.00024 33.6 -1.5 49 886-934 2-68 (70)
72 KOG1734 Predicted RING-contain 28.4 12 0.00027 41.4 -1.4 54 897-951 245-305 (328)
73 PF09454 Vps23_core: Vps23 cor 27.6 1.9E+02 0.004 25.7 6.0 30 656-696 8-37 (65)
74 PF05883 Baculo_RING: Baculovi 26.4 42 0.00092 33.8 2.0 46 886-931 26-79 (134)
75 PF11672 DUF3268: Protein of u 26.4 1E+02 0.0023 29.7 4.5 41 313-353 58-99 (102)
76 PF14447 Prok-RING_4: Prokaryo 23.1 48 0.001 28.6 1.4 39 894-935 15-53 (55)
77 PF05266 DUF724: Protein of un 22.8 9.1E+02 0.02 25.8 11.2 107 583-710 13-122 (190)
No 1
>COG5113 UFD2 Ubiquitin fusion degradation protein 2 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.1e-154 Score=1296.10 Aligned_cols=842 Identities=25% Similarity=0.362 Sum_probs=743.7
Q ss_pred HHHHHHHHHHhheeeccCCCCCCCCCeeechhhHHHHhhcCCccccChhhhhHHHHHHHhCCCCCCCChhhHHHHHHHHH
Q 002017 11 EEIEDIILRKIFLVTLNEATTDADPRIAYLELTAAELLSEGKDMRLSRDLMERVLVDRLSGNFPAAEPPFLYLINCYRRA 90 (981)
Q Consensus 11 ~~~~~~~l~~if~vTl~~~~~~~~~~~~~L~~l~~el~~e~~~~~l~~d~ld~~l~erl~~~~~~~~~~~~YL~~c~~R~ 90 (981)
.+|.+++-..++.||.+|++ .+-++| +.+++..+|. .|..+.+|.+|+.+|+... ..+|.||.+||+-.
T Consensus 3 ~~~M~~ie~~~l~it~~p~D----~~~y~l--fk~~e~~~gS--~l~~n~~d~~LL~~l~~~~---nn~fsYl~~s~~fl 71 (929)
T COG5113 3 YPGMNRIELYELFITGMPAD----MDPYEL--FKEAECIRGS--YLTNNSSDNILLTLLPRYK---NNTFSYLQESAKFL 71 (929)
T ss_pred CcccchhhhhhhhcccCccc----cchhhh--cchhhccccC--ccccccHHHHHHHHccccC---CCchHHHHHHHHHH
Confidence 46999998899999999983 445777 5566666676 4677799999999999864 78899999999944
Q ss_pred HHHHHhhcCCCCccchhHHHHHHHHHHHHHHhhhHHhhcCCcccCCCCCCcccccccCCCCCCCCchhHHHhhcCCCCCC
Q 002017 91 HDELKKIGNMKDKNLRSELEAVVKQAKKMIVSYCRIHLANPDFFGSNNDNNYEINNSNNKSSISPLLPFIFAEVGGGIDG 170 (981)
Q Consensus 91 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~vsy~~~~l~~Pd~F~~~~~~~~~~~~~~~~~~~~~ll~~ll~~~~~~~~~ 170 (981)
.+.++++.+ .+.......+-++.|.+++++|+|.++.+||-|...- |+ ++.-|...
T Consensus 72 ~q~~kri~k--n~~~a~s~hs~~~li~~l~~~y~g~v~~~~e~FN~e~-----i~----------~ieg~~~~------- 127 (929)
T COG5113 72 IQTIKRIVK--NPEMAGSAHSPVALIPLLTNTYGGSVFDVMECFNSEK-----IS----------EIEGMARK------- 127 (929)
T ss_pred HHHHHHhcC--CccccccccchHHHHHHHHhhccceEeehHhhcchhH-----HH----------HHHHHHHh-------
Confidence 444444433 2333344556889999999999999999999993211 11 11112211
Q ss_pred CCCCCCCCCCCChHHHHHHHHh--hccCChHHHHHHHHHHHHHHhhccccccccchHHHHHHHhhCChhHHHhhhcCCCC
Q 002017 171 FGNSTSSGSQCPPGFLKEFFEE--ADFDTLDPILKGLYENLRGSVLNVSALGNFQQPLRALLYLVSFPVGVKSLVNHQWW 248 (981)
Q Consensus 171 ~~~s~~~~~~~~~~Fl~eli~r--~~~d~l~~vf~~~~~~l~~~~~~~s~~~~~~~~l~~L~~L~~~k~ia~~l~~~~~f 248 (981)
-+ +|-.|+.+++.| ++...++.+|.++++.+....+-+.....-..++.++..|++.||||.++.+.|.|
T Consensus 128 ------~~--~p~~fls~f~qr~l~e~~nld~lF~~~LE~l~~~~g~~~~dtV~~NVm~I~~~lv~~kPia~v~~k~p~~ 199 (929)
T COG5113 128 ------ML--LPMIFLSSFKQRQLDEASNLDNLFTSALEALTGLHGVLEEDTVLKNVMEIYWGLVNTKPIADVILKFPIY 199 (929)
T ss_pred ------cc--cHHHHHHHHHHHHHhhhhhHHHhhHHHHHHHhhhcccchHHHHHHHHHHHHHHHhcCccHHHHhhcCccc
Confidence 11 577999999999 46666999999999999887766655323355899999999999999999999999
Q ss_pred CCCccCCCchhhhhccccccccccCCCCCCccccCCChhhhhhcCCCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002017 249 IPKSVYLNGRVIEMTSILGPFFHVSALPDHAIFKSQPDVGQQCFSEASTRRPADLLSSFTTIKTVMRGLYKDLGDVLLAL 328 (981)
Q Consensus 249 ~p~~~~~~G~~~E~~SlLGp~f~lS~l~~~~~f~~~p~v~~~~F~~~~~~~~~~i~~~~~slr~~l~~~~~~L~~I~~~L 328 (981)
.|.+ .+.+||.+|+|||+.++|++ .-+||..+|++...|+.+.+..+..+||.+|+.+++.||+|+++|
T Consensus 200 ~~t~---~p~~fe~kt~lG~i~sls~~--------~~dvA~r~~~~~~~rs~q~v~~s~~Sl~~t~s~~~d~lfqIi~~l 268 (929)
T COG5113 200 SGTN---FPCGFEYKTLLGFIESLSYK--------KCDVAARALDYLGIRSRQVVEKSRRSLRLTLSDHSDKLFQIIHSL 268 (929)
T ss_pred CCCC---CCCCCcceeecccccccchh--------hhhhhhhhccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9864 34479999999999999999 357899999999999999999999999999999999999999999
Q ss_pred hc-CchhHHHHHHHHHHHHHhchhhccccCCCCccCchhhhHHHHHHHHHhhhhhccCCCCCcCcccccccccCCccCCC
Q 002017 329 LK-NTDTRENVLEYLAEVINRNSSRAHIQVEPLSCASSGMFVNLSAVMLRLCDPFLDANLTKRDKIDPKYVFYSSRLDLR 407 (981)
Q Consensus 329 lr-~~~sRe~vL~w~a~~l~~N~~R~~~~~d~~~~aSDGFmlNl~~VLlrLc~PF~d~~~~K~dKID~~Y~~~~~rvdi~ 407 (981)
+| |.+.|+.+++|||.|+|+||+|++.++.-+...|||||.|++.||.||++||+|.+++|||+||..|++ ++||||+
T Consensus 269 vr~S~~lr~~~~~yfa~v~n~nh~R~~~~~~~~e~~Sdgfm~N~s~vlsRfs~pflDi~~sKID~vd~~YFn-NP~vDik 347 (929)
T COG5113 269 VRSSKELRANFMKYFAKVINVNHERSKTIFSWRENISDGFMYNMSMVLSRFSRPFLDIGCSKIDMVDKIYFN-NPRVDIK 347 (929)
T ss_pred HhccHHHHHHHHHHHHHHhccchhhccccCCHhhhcchHHHHHHHHHHHHhcccccccccchhhhHhHHhhc-CCccccc
Confidence 99 689999999999999999999999999999999999999999999999999999999999999999999 7899999
Q ss_pred CcccccCChHHHHHHHhcCCCCCCCCCCCCCcchhhhhhhhhhccCCCCCCCCCCCCCCCCCCCCCCCCCCchhhHHHHH
Q 002017 408 SLTALHASSEEVSEWINKGNPAKADGSKHFSDGENQLLQSQEATSSSGGASEPSLPAGRPASIGGGKSKYPFICECFFMT 487 (981)
Q Consensus 408 ~eTrl~a~~~e~~~~~~~~~p~~~~~~~~~~~~e~~~l~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~nFItecFFLT 487 (981)
+|||+|+|+.+++.||++ ..++++||||+||||+
T Consensus 348 ~ETklN~d~k~~dsFy~K----------------------------------------------~Ae~s~NFISD~FFl~ 381 (929)
T COG5113 348 EETKLNVDEKSLDSFYTK----------------------------------------------PAEGSNNFISDIFFLY 381 (929)
T ss_pred cchhcchhhhhhhccccC----------------------------------------------ccccCCccchhhHHhH
Confidence 999999999999999952 1567889999999999
Q ss_pred HHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CCCCChHHHHHHHHHHHHHHHHhHHHHHHHHHhhHH-------
Q 002017 488 ARVLNLGLLKAFSDFKHLVQDISRAEDTLATLKATQ-GQTPSSQLNLEITRIEKEIELSSQEKLCYEAQILRD------- 559 (981)
Q Consensus 488 ~~~lhlG~~~~~~~~~~l~~~i~~~~~~l~~~~~~~-~~~~~~~~~~~l~~~~~~l~~l~~~~~~~~~~~L~~------- 559 (981)
+..+|||++++..-..++.+.|+.++++++.-.... +.-...++..++.|+++.++...+...|+++.+.+.
T Consensus 382 lt~~HyGv~~tf~~~ek~g~~IrkLKE~le~e~~~~~gs~~At~lTaqlsrme~~lk~~~S~~~al~gfl~~tsl~~~~f 461 (929)
T COG5113 382 LTKIHYGVNATFTSCEKFGEYIRKLKESLEYECRLLDGSFQATRLTAQLSRMEAYLKGIDSKMSALNGFLFMTSLFADEF 461 (929)
T ss_pred HHHHHhccchhHHHHHHHHHHHHHHHHHHHHHHHHhcCchhhhhHHhHHHHHHHHHhhhHHHHHHHHHHHHHhhhhhhcc
Confidence 999999999999999999999998888887543211 111233456778899999988888888887733211
Q ss_pred ---------------------------------------------------------------------HHHHHHHHHhc
Q 002017 560 ---------------------------------------------------------------------DFMNFIIMFMA 570 (981)
Q Consensus 560 ---------------------------------------------------------------------~~~~f~i~~l~ 570 (981)
++..||.++++
T Consensus 462 ~F~~f~t~~l~rv~dp~~typf~~~~Lp~~ENap~~fk~~pe~~ie~~~ny~l~~~k~~~Spif~~~L~~l~Ef~~~vl~ 541 (929)
T COG5113 462 PFTDFMTEYLARVEDPWPTYPFYYKTLPWMENAPMTFKLIPEATIENALNYVLESIKDWRSPIFKKELEPLCEFVKIVLH 541 (929)
T ss_pred chHHHHHHHHHHhcCCCCCCCccccccchhcCCcchhhhchHHHhccHHHHHHHHHhcccCchhhccccchhhhhhhhcc
Confidence 67889999999
Q ss_pred CCCcccCchhhhhHHHHhh-hhcCCCCCCcchhHhhhhcccchHHHHHHHHHHHhhhheecCCCccchhhhhhhHHHHHH
Q 002017 571 SPKYIRNPYLRSKMVEVLN-CWMPRRSGSSSATATLFEGHQMSLEYLVRNLLKLYVDIEFTGSHTQFYDKFNIRHNIAEL 649 (981)
Q Consensus 571 s~~~ikNP~LraklvevL~-~~~p~~~g~~~~~~~lf~~~~l~~~~L~~aLm~fYidvE~TG~~~qFYdKFn~Ry~I~~I 649 (981)
+|++||||||++||+++|. +.+|.+..++|.+.++|...+++.++|+||||.|||+||+||+|+|||||||+||.|+.+
T Consensus 542 ~~~~iknp~L~~kl~~~ls~G~~~~~~~s~~~~~dif~~~kv~~r~LL~ALmaFYi~iEsTGqStqfydkfNirf~ic~~ 621 (929)
T COG5113 542 RSSAIKNPMLNRKLDYYLSLGRDEMRMESRSIIHDIFKEGKVFSRWLLPALMAFYIEIESTGQSTQFYDKFNIRFIICMM 621 (929)
T ss_pred cHhhhccHHHHHHHHHHHhcCcchhccCchHHHHHHHHhhhhhhhhhHHHHHhHheeeeccCcccceeeeccceeehhHH
Confidence 9999999999999999996 577777666778999999999999999999999999999999999999999999999999
Q ss_pred HHHHcCChhHHHHHHHHHHHhcchhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhcchhhhcCCCHHHHHHHHHHHH
Q 002017 650 LEYLWQVPSHRNAWRQIAKEEEKGVYLNFLNFLINDSIYLLDESLNKILELKVIEAEMSNTAEWERRPAQERQERTRLFH 729 (981)
Q Consensus 650 lk~LW~~~~~r~~l~~~a~~~~~~~FvrFvn~liND~t~lLDE~L~~L~~I~~~q~~~~d~~~w~~l~~eer~e~~~~l~ 729 (981)
++.+|+.|.|.+++.++.+.+ -++||||...|+||+||+|||||.+|.++|++|.+++|....+ -..|+-+|.+..++
T Consensus 622 ~~~~yK~Psy~~~L~~~~~tN-~~FFVkfda~mlndlt~lLDEal~~l~E~hniqs~Lad~~s~s-n~~e~~~elq~~la 699 (929)
T COG5113 622 KDFEYKQPSYSEGLSSIKDTN-LPFFVKFDAKMLNDLTRLLDEALKELVEEHNIQSLLADAISNS-NISERIGELQKSLA 699 (929)
T ss_pred HHHHhcCchhhhhhhhhhccC-CchhHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhhccC-chhhHHHHHHHHHH
Confidence 999999999999999988774 8999999999999999999999999999999999999876544 34566678899999
Q ss_pred HhhhhhhhhhhchHHHHHHHHHhHhhhcCCCCchHHHHHHHHHHHHHHHhhcCccccccccCCCcccCCChHHHHHHHHH
Q 002017 730 SQENIIRIDMKLANEDVSMLAFTSEQIVAPFLLPEMIERVASMLNYFLLQLVGPQRKSLTLKDPEKYEFRPKQLLKQIVC 809 (981)
Q Consensus 730 ~~e~~~rs~~~L~~etv~~l~~~T~~i~~~F~~peiv~RlA~MLny~L~~LvGpk~~~LkVknpekY~F~Pk~lL~~i~~ 809 (981)
.++||||++++|++++++||+.++++||++|+.||||+|||+||||||+.||||||.+||||||++|+|+||.||+.+++
T Consensus 700 ~a~rqA~~sc~l~d~~~~lf~~~~~~iP~aF~~~EiV~rla~mLNyNL~~l~GPKC~~LkVkdP~~Y~FnaK~LL~~~~~ 779 (929)
T COG5113 700 FAKRQARNSCLLVDGCFDLFTHILDEIPDAFLVDEIVSRLARMLNYNLKILTGPKCTDLKVKDPEQYGFNAKNLLRRMVM 779 (929)
T ss_pred HHHHhhcchheecccHHHHHHHHhhccchhhhhHHHHHHHHHHHhCcchhccCCCccceeecChhhcCCCHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhccCCCCchhhHhhhhcCCCCcHHHHHHHHHHHHhhcC-ChHHHHHHHHHHHHHHHHHHHHHhHhhhcCCCCCCCC
Q 002017 810 IYVHLARGDTQNLFPAAISSDGRSYNEQLFSAAADVLWKIGE-DGRIIQEFIELGAKAKAAASEAMDAEAALGDIPDEFL 888 (981)
Q Consensus 810 iYlnL~~~~~~~~F~~ava~D~Rsy~~~lf~~a~~il~~~~~-~~~~i~~~~~l~~~v~~~~~~~~~~e~~~~~iP~ef~ 888 (981)
+|+||+. +++||.|||.|||||+.++|.+|.+||.++.+ ++.+|+++.+|+.++++....+..+|+|+||+||||+
T Consensus 780 VYinl~~---es~FveaVA~D~rsf~~~~F~rA~~I~~~k~L~s~~~IE~l~~f~nr~E~~r~~ea~EeED~GDvPDeFl 856 (929)
T COG5113 780 VYINLRS---ESKFVEAVASDKRSFDIDFFRRALRICENKYLISESQIEELRSFINRLEKVRVIEAVEEEDMGDVPDEFL 856 (929)
T ss_pred Hhhhhcc---hHHHHHHHHcccccccHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHHHhhhhhhccCCchhhh
Confidence 9999985 45899999999999999999999999999988 9999999999999999988777778889999999999
Q ss_pred CCCccccccCccccCCCCeeecHHHHHHHHhcCCCCCCCCCCCCCCCccccHHHHHHHHHHHHHcCCCcC
Q 002017 889 DPIQYTLMKDPVILPSSRITVDRPVIQRHLLSDATDPFNRSHLTADMLIPNTELKAKIEEFIKSQGLKRH 958 (981)
Q Consensus 889 cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL~~~~l~pn~~Lk~~I~~~~~~~~~~~~ 958 (981)
||+|+++|+|||+||.||.++||+||..||+++++|||||.|||.+|++||.+||++|..|.+.++.+..
T Consensus 857 DPLmftimkdPV~Lp~S~i~IDRSTikahllsd~tDPFNRmPLtlddVtpn~eLrekIn~f~k~k~~KH~ 926 (929)
T COG5113 857 DPLMFTIMKDPVKLPTSRITIDRSTIKAHLLSDGTDPFNRMPLTLDDVTPNAELREKINRFYKCKGQKHG 926 (929)
T ss_pred CchhhhcccCCeecccccccccHHHHHHHHhcCCCCccccCCCchhhcCCCHHHHHHHHHHHhccccccC
Confidence 9999999999999999999999999999999999999999999999999999999999999999887553
No 2
>KOG2042 consensus Ubiquitin fusion degradation protein-2 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=4.7e-145 Score=1294.17 Aligned_cols=812 Identities=39% Similarity=0.614 Sum_probs=690.4
Q ss_pred hhhHHHHhhcCCccccChhhhhHHHHHHHhCCCCCCCChhhHHHHHHHHHHHHHHhhcCCCCccchhHHHHHHHHHHHHH
Q 002017 41 ELTAAELLSEGKDMRLSRDLMERVLVDRLSGNFPAAEPPFLYLINCYRRAHDELKKIGNMKDKNLRSELEAVVKQAKKMI 120 (981)
Q Consensus 41 ~~l~~el~~e~~~~~l~~d~ld~~l~erl~~~~~~~~~~~~YL~~c~~R~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~ 120 (981)
..+..++..+|.+.+++.+ |...+.-..+.+ ....++.|+..||.++.+..++....++ + +. .+.
T Consensus 53 ~~~~~~~~~~g~~~~~~~~--~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~p~----------~-~~-~~~ 117 (943)
T KOG2042|consen 53 ELFSSDLPADGLSHRFNEA--ESDTLALCTEND-ALNILFIYLYRCKSELSQYKRKECRKPT----------L-EQ-NLK 117 (943)
T ss_pred HhccccccccCCccccchh--hhHHHHhhccch-HHHHHHHHHHHHHHHHHHHhHHHhcCcc----------h-hh-chh
Confidence 3333344444555555444 444444444433 3467789999999998766664422111 1 11 456
Q ss_pred HhhhHHhhcCCcccCCCCCCcccccccCCCCC-CCCchhHHHhhcCCCCCCCCCCCCCCCCCChHHHHHHHHhhccCChH
Q 002017 121 VSYCRIHLANPDFFGSNNDNNYEINNSNNKSS-ISPLLPFIFAEVGGGIDGFGNSTSSGSQCPPGFLKEFFEEADFDTLD 199 (981)
Q Consensus 121 vsy~~~~l~~Pd~F~~~~~~~~~~~~~~~~~~-~~~ll~~ll~~~~~~~~~~~~s~~~~~~~~~~Fl~eli~r~~~d~l~ 199 (981)
++++.++...++.+..+... +. ...+ .+-++.++.. .|...|..|+.++...++.|.++
T Consensus 118 ~~~~~~~~~~~~~l~~~~~~----~~--~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~~~~~~~~d~l~ 177 (943)
T KOG2042|consen 118 LAGSSFVMITLGVLAPQLRL----QP--ASLQDISGLLELMNS--------------EGFARPLLFLLEVTEHFDLDALD 177 (943)
T ss_pred hccchheeeehhhccchhhh----hh--hhhhhHHHHHHHhhh--------------hhcccchhHHHHHhhhhhhHHHH
Confidence 66666666666665532200 00 0000 0112222221 23235678999999999999999
Q ss_pred HHHHHHHHHHHHHh--hccccccccchHHHHHHHhhCChhHHHhhhcCCCCCCCccCCCchhhhhccccccccccCCCCC
Q 002017 200 PILKGLYENLRGSV--LNVSALGNFQQPLRALLYLVSFPVGVKSLVNHQWWIPKSVYLNGRVIEMTSILGPFFHVSALPD 277 (981)
Q Consensus 200 ~vf~~~~~~l~~~~--~~~s~~~~~~~~l~~L~~L~~~k~ia~~l~~~~~f~p~~~~~~G~~~E~~SlLGp~f~lS~l~~ 277 (981)
.+|.|+++.+...+ .+.+....+..++.++..+++.||+|.+++++|+|.|++ +|++++..|+|||||++|+++.
T Consensus 178 ~if~~vl~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~kp~a~l~~~~~~~~p~~---~g~e~~~~s~LGpfls~S~~~~ 254 (943)
T KOG2042|consen 178 AIFNPVLERLESNLDILKLNVLVLENLVLLILLYFVSTKPIADLLVKLPDFLPPP---CGREFELKSFLGPFLSISCLPA 254 (943)
T ss_pred HHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHhcCCCcHHHHHhhccccCCCC---CCcchhhhhhhccceeeeeccc
Confidence 99999997777544 333434457788999999999999999999999999996 7999999999999999999987
Q ss_pred CccccCCChhhhhhcCCCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CchhHHHHHHHHHHHHHhchhhcccc
Q 002017 278 HAIFKSQPDVGQQCFSEASTRRPADLLSSFTTIKTVMRGLYKDLGDVLLALLK-NTDTRENVLEYLAEVINRNSSRAHIQ 356 (981)
Q Consensus 278 ~~~f~~~p~v~~~~F~~~~~~~~~~i~~~~~slr~~l~~~~~~L~~I~~~Llr-~~~sRe~vL~w~a~~l~~N~~R~~~~ 356 (981)
++ .. + |.+...++.........+++..++ ++..+|+|++.+|+ |+++|+++|+|+|.||++|++|+++|
T Consensus 255 ~~------~~--~-y~~~~e~s~~~~~~~~~s~~~~~~-~~~~~~~~v~~ll~~s~etr~~~L~~~a~vi~aN~~R~~~~ 324 (943)
T KOG2042|consen 255 AP------AK--R-YGDFSERSRKNTSEVSSSLLLYHQ-MDRKMLQIVKHLLRLSPETREKTLSYVANVINANDKRASIQ 324 (943)
T ss_pred cc------hh--h-hcccchhhhcchHHHHHHHHHHHH-HHHHHHHHHHHHHhcChhhHHHHHHHHHHHhhccccccccc
Confidence 74 22 3 443333333334444556666666 66999999999999 89999999999999999999999999
Q ss_pred CCCCccCchhhhHHHHHHHHHhhhhhccCCCCCcCcccccccccCCccCCCCcccccCChHHHHHHHhcCCCCCCCCCCC
Q 002017 357 VEPLSCASSGMFVNLSAVMLRLCDPFLDANLTKRDKIDPKYVFYSSRLDLRSLTALHASSEEVSEWINKGNPAKADGSKH 436 (981)
Q Consensus 357 ~d~~~~aSDGFmlNl~~VLlrLc~PF~d~~~~K~dKID~~Y~~~~~rvdi~~eTrl~a~~~e~~~~~~~~~p~~~~~~~~ 436 (981)
+|+..++|||||+|+++||+|||+||+|++..|++||||+||...++.+..++|+++++..++. ||+
T Consensus 325 ~~~~~~~sDgfm~Nl~~Vl~rls~p~~~~~~~~~~~~~p~y~~~~~~~~~~~~t~~~~~~~~t~-~~~------------ 391 (943)
T KOG2042|consen 325 VDPREVASDGFMLNLSAVLSRLSEPFLDPSIKKIDKIDPEYLINISKETRSKETELNADDKETC-FYD------------ 391 (943)
T ss_pred CCHHHhhchHHHHHHHHHHHHhcccccccccccccccChHHhcCccHhhhhhhhhhccchhhhh-ccC------------
Confidence 9999999999999999999999999999999999999999999888888999999999988877 773
Q ss_pred CCcchhhhhhhhhhccCCCCCCCCCCCCCCCCCCCCCCCCCCchhhHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHH
Q 002017 437 FSDGENQLLQSQEATSSSGGASEPSLPAGRPASIGGGKSKYPFICECFFMTARVLNLGLLKAFSDFKHLVQDISRAEDTL 516 (981)
Q Consensus 437 ~~~~e~~~l~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~nFItecFFLT~~~lhlG~~~~~~~~~~l~~~i~~~~~~l 516 (981)
.++++||+|||||||+++||||+.+++..|..+.+.|.+++..+
T Consensus 392 ------------------------------------~~~~~~F~t~cfFltl~~~~l~~~~~~~~~~~i~~~i~~l~~~i 435 (943)
T KOG2042|consen 392 ------------------------------------KPGEPNFPTECFFLTLAALHLGLLPTCSAFSEINRSLPELKPLI 435 (943)
T ss_pred ------------------------------------CCCCCCcchHHHHHHHHHHHhchhHHHHHHHHHHHHhHHHHHHH
Confidence 23588999999999999999999999999999999999999999
Q ss_pred HHHHHhcCCCC-ChHHHHHHHHHHHHHHHHhHHHHHHHHHhhHH------------------------------------
Q 002017 517 ATLKATQGQTP-SSQLNLEITRIEKEIELSSQEKLCYEAQILRD------------------------------------ 559 (981)
Q Consensus 517 ~~~~~~~~~~~-~~~~~~~l~~~~~~l~~l~~~~~~~~~~~L~~------------------------------------ 559 (981)
+..+..+++.. ......++.+++++++.+.+.+.|++++++++
T Consensus 436 ~~lk~~~d~~~~a~~~~~~l~r~e~~lk~~~~~k~~~~~~~~~p~l~~~~~~f~~~~s~~l~~~~~~~~~~~~~~p~~~p 515 (943)
T KOG2042|consen 436 ETLKVIADGYSVANLESADLTRLEKGLKLLSSIKPCLEITLLFPSLLQRCLNFYDFMSEGLLRVVDLEMPDSSTLPLNAP 515 (943)
T ss_pred HHHHHhhhhhhhhhhhhhHHHHHHHHHHHHHhhhhhhhhhhcCcHHHHHhhccHHHHHHHHHHHhhccCCcccCCCCCCc
Confidence 98876665432 33445778999999999999999888755433
Q ss_pred -----------------------------------HHHHHHHHHhcCCCcccCchhhhhHHHHhhhhcCCCCCCcchhHh
Q 002017 560 -----------------------------------DFMNFIIMFMASPKYIRNPYLRSKMVEVLNCWMPRRSGSSSATAT 604 (981)
Q Consensus 560 -----------------------------------~~~~f~i~~l~s~~~ikNP~LraklvevL~~~~p~~~g~~~~~~~ 604 (981)
+++.||+++|++++|+||||||||+||+++ +|...++...+..
T Consensus 516 ~~f~~lPE~~vedi~efllf~~~~~~~~l~~~~~~~~~~f~~~~~~~~~~ikNP~l~aKlvevl~--~~~~~~s~~~v~~ 593 (943)
T KOG2042|consen 516 CRFSALPEFFVEDIEEFLLFARKLGKMALDLQRLADIVTFLTVFMTSSMYIKNPYLRAKLVEVLS--MPKPSLSFNAVSR 593 (943)
T ss_pred cccccCchhhcCCHHHHHHHHHHhchhhhccccchhHHHHHHHhcccHhhhcChHHHHHHHHHHh--ccCcccCchHHHH
Confidence 678899999999999999999999999998 4443444455788
Q ss_pred hhhcccchHHHHHHHHHHHhhhheecCCCccchhhhhhhHHHHHHHHHHcCChhHHHHHHHHHHHhcchhHHHHHHHHHh
Q 002017 605 LFEGHQMSLEYLVRNLLKLYVDIEFTGSHTQFYDKFNIRHNIAELLEYLWQVPSHRNAWRQIAKEEEKGVYLNFLNFLIN 684 (981)
Q Consensus 605 lf~~~~l~~~~L~~aLm~fYidvE~TG~~~qFYdKFn~Ry~I~~Ilk~LW~~~~~r~~l~~~a~~~~~~~FvrFvn~liN 684 (981)
+|+.++.+. |+|+||+||||||+||+++|||||||+||+|+.|++++|.+|.|+..+.+.++++ ++.|+||+|++||
T Consensus 594 v~~~~~~~~--L~~~llr~yv~ie~tg~s~qfydKfnvr~~i~~i~~~mw~~pa~~~~~~~~~~~~-~~~f~rfvn~l~N 670 (943)
T KOG2042|consen 594 VIEAHENGG--LVPCLLRFYVDIESTGQSSQFYDKFNVRRNISEILEYMWQDPAYRGEFMDEAKDA-PPVFVRFVNMLLN 670 (943)
T ss_pred HHHhccccc--cchhhhhheeeeecCCCchhHHHHhHHHhhHHHHHHHHhcCccccchhhhhcccc-chHHHHHHHHHhh
Confidence 898888765 9999999999999999999999999999999999999999999999999999875 8999999999999
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhcchhhhcCCCHHHHHHHHHHHHHhhhhhhhhhhchHHHHHHHHHhHhhhcCCCCchH
Q 002017 685 DSIYLLDESLNKILELKVIEAEMSNTAEWERRPAQERQERTRLFHSQENIIRIDMKLANEDVSMLAFTSEQIVAPFLLPE 764 (981)
Q Consensus 685 D~t~lLDE~L~~L~~I~~~q~~~~d~~~w~~l~~eer~e~~~~l~~~e~~~rs~~~L~~etv~~l~~~T~~i~~~F~~pe 764 (981)
|+||+|||++.+|.+||++|..++|.++|..++.++|+++.+.+++++|+||+|+.++++|++||+++|+++|++|++||
T Consensus 671 d~t~lLDE~l~~L~~i~~iq~~~kn~~q~~~~~~~~~e~~~~~l~s~~r~art~~~la~et~~ll~~~tk~i~~~Fl~~e 750 (943)
T KOG2042|consen 671 DATFLLDESLSELMEIHQIQPSGKNIDQWTKLKREEREAKWGRLASDERQARTGLALANETIDLLHLLTKAIPEPFLLPE 750 (943)
T ss_pred hHHHHHhHHHHHhhhhhhhhhhhhhhhhccCCcHHHHHHHHhccccchhhhcccceeccchhhHHHHHHhhcchhhcchh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhhcCccccccccCCCcccCCChHHHHHHHHHHHHhhccCCCCchhhHhhhhcCCCCcHHHHHHHHH
Q 002017 765 MIERVASMLNYFLLQLVGPQRKSLTLKDPEKYEFRPKQLLKQIVCIYVHLARGDTQNLFPAAISSDGRSYNEQLFSAAAD 844 (981)
Q Consensus 765 iv~RlA~MLny~L~~LvGpk~~~LkVknpekY~F~Pk~lL~~i~~iYlnL~~~~~~~~F~~ava~D~Rsy~~~lf~~a~~ 844 (981)
+|+|+|+||||||.+||||||.+||||||++|+|+||++|++|++||+||++ .+.|+.|||.|||||++++|..|.+
T Consensus 751 lv~rla~MLN~nL~~lvGPK~~~Lkvkdp~~y~fePk~ll~~i~~iYlnl~~---~~~F~~avA~D~RSys~~lF~~a~~ 827 (943)
T KOG2042|consen 751 LVERLAAMLNYNLSQLVGPKCSDLKVKDPEKYGFEPKQLLSQLSDIYLNLSS---EPSFVEAVAKDGRSYSEELFNHAIS 827 (943)
T ss_pred HHHHHHHHHhhhHHHhhCCcccccccCCccccCCChHHHHHHHHHHHHhhcc---chhHHHHHhccccccCHHHHhhhHH
Confidence 9999999999999999999999999999999999999999999999999994 3579999999999999999999999
Q ss_pred HHHhhcC-ChHHHHHHHHHHHHHHHHHHHHHhHhhhcCCCCCCCCCCCccccccCccccCCCCeeecHHHHHHHHhcCCC
Q 002017 845 VLWKIGE-DGRIIQEFIELGAKAKAAASEAMDAEAALGDIPDEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSDAT 923 (981)
Q Consensus 845 il~~~~~-~~~~i~~~~~l~~~v~~~~~~~~~~e~~~~~iP~ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~~~ 923 (981)
+++|.++ +..+|++|.+||+++++......++|++++|+||||+||||+++|+|||++|++|+++||++|.+||+++++
T Consensus 828 ~~~k~~l~~~~~Ie~~s~la~~~~~~~~~~~~eee~l~dvpdef~DPlm~Tlm~dPV~LP~Srv~vDRsti~rhlLs~~t 907 (943)
T KOG2042|consen 828 ILRKRILKSSRQIEEFSELAERVEATASIDAEEEEELGDVPDEFLDPLMSTLMSDPVVLPSSRVTVDRSTIERHLLSDCT 907 (943)
T ss_pred HHHHhhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCchhhhCccccccCCCCccCCcccccccHHHHHHHHhcCCC
Confidence 9977777 777999999999999999999999999999999999999999999999999988899999999999999999
Q ss_pred CCCCCCCCCCCCccccHHHHHHHHHHHHHcCCCc
Q 002017 924 DPFNRSHLTADMLIPNTELKAKIEEFIKSQGLKR 957 (981)
Q Consensus 924 dP~tr~pL~~~~l~pn~~Lk~~I~~~~~~~~~~~ 957 (981)
|||||+|||+++++||.+||++|+.|..+++.++
T Consensus 908 dPFNR~pLt~d~v~pn~eLK~kI~~~~~ek~~~~ 941 (943)
T KOG2042|consen 908 DPFNREPLTEDMVSPNEELKAKIRCWIKEKRNKK 941 (943)
T ss_pred CccccccCchhhcCCCHHHHHHHHHHHHHhhhcc
Confidence 9999999999999999999999999999987754
No 3
>PF10408 Ufd2P_core: Ubiquitin elongating factor core; InterPro: IPR019474 This entry represents the most conserved part of the core region of ubiquitin conjugation factor E4 (or Ub elongating factor, or Ufd2P), running from helix alpha-11 to alpha-38. It consists of 31 helices of variable length connected by loops of variable size forming a compact unit; the helical packing pattern of the compact unit consists of five structural repeats that resemble tandem Armadillo (ARM) repeats. This domain is involved in ubiquitination as it binds Cdc48p and escorts ubiquitinated proteins from Cdc48p to the proteasome for degradation. The core is structurally similar to the nuclear transporter protein importin-alpha. The core is associated with the U-box at the C terminus, (IPR003613 from INTERPRO), which has ligase activity. Ubiquitin conjugation factor E4 is involved in N-terminal ubiquitin fusion degradation proteolytic pathway (UFD pathway). E4 binds to the ubiquitin moieties of preformed conjugates and catalyses ubiquitin chain assembly in conjunction with E1, E2, and E3. E4 appears to influence the formation and topology of the multi-Ub chain as it enhances ubiquitination at 'Lys-48' but not at 'Lys-29' of the N-terminal Ub moiety.; GO: 0034450 ubiquitin-ubiquitin ligase activity, 0006511 ubiquitin-dependent protein catabolic process, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 2KRE_A 3M63_A 2QIZ_A 2QJ0_A 3M62_A.
Probab=100.00 E-value=1.3e-133 Score=1206.29 Aligned_cols=539 Identities=42% Similarity=0.761 Sum_probs=461.6
Q ss_pred cccccccCCCCCCccccCCChhhhhhcCCCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CchhHHHHHHHHHH
Q 002017 266 LGPFFHVSALPDHAIFKSQPDVGQQCFSEASTRRPADLLSSFTTIKTVMRGLYKDLGDVLLALLK-NTDTRENVLEYLAE 344 (981)
Q Consensus 266 LGp~f~lS~l~~~~~f~~~p~v~~~~F~~~~~~~~~~i~~~~~slr~~l~~~~~~L~~I~~~Llr-~~~sRe~vL~w~a~ 344 (981)
|||||++||+|++ .|.++..||.++..++++++++++.+||+.++.+++.||+|+++||| |+++|++||+|||.
T Consensus 1 LGp~l~~S~~~~~-----~~~~~~~~F~~~~~~~~~~~~~~~~~lr~~l~~~~~~l~~i~~~LLr~s~~sR~~~L~w~a~ 75 (629)
T PF10408_consen 1 LGPFLSLSPLPDD-----QPEVAEQFFSNPSKRNQQDVESSISSLRQELQNIQDQLHQIFKSLLRASPESRERVLSWFAQ 75 (629)
T ss_dssp THHHHT--TTS--------HHHHHHHTTT-TT--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
T ss_pred CCCCeecCCCCCC-----ccHHHHHhcCCcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHH
Confidence 8999999999988 47899999999999999999999999999999999999999999999 79999999999999
Q ss_pred HHHhchhhccc--cCCCCccCchhhhHHHHHHHHHhhhhhccCCCCCcCcccccc----ccc--CCccCCCCcccccCCh
Q 002017 345 VINRNSSRAHI--QVEPLSCASSGMFVNLSAVMLRLCDPFLDANLTKRDKIDPKY----VFY--SSRLDLRSLTALHASS 416 (981)
Q Consensus 345 ~l~~N~~R~~~--~~d~~~~aSDGFmlNl~~VLlrLc~PF~d~~~~K~dKID~~Y----~~~--~~rvdi~~eTrl~a~~ 416 (981)
|++.|++|+|| ++++..+||||||+|+++||++||+||+|+.++|++||||+| +.+ ++++|+++||||+++.
T Consensus 76 ~l~~N~~R~k~~~~~~~~~~aSDGFmlNl~~VLl~L~~Pf~~~~~~K~~kID~~Y~~~~~~~~~~~~vd~~~eT~l~~~~ 155 (629)
T PF10408_consen 76 ILNANAKRAKMWLQVDPRTVASDGFMLNLTAVLLRLCQPFMDPSFSKIDKIDPDYCAHPLLRPRNSRVDISEETRLNATE 155 (629)
T ss_dssp HHHT-GGGGSS--S--GGGS--HHHHHHHHHHHHHHHGGGGSTT-TTGGGS-TTT-----TSS--SSS--TT--BSSB-H
T ss_pred HHHhchhhhhhhhccccccCCCcHHHHHHHHHHHHHHHhhhhhhhhhHhhcCcchhhhhhccccccccCcccccccCCCh
Confidence 99999999999 999999999999999999999999999999999999999999 455 7899999999999999
Q ss_pred HHHHHHHhcCCCCCCCCCCCCCcchhhhhhhhhhccCCCCCCCCCCCCCCCCCCCCCCCCCCchhhHHHHHHHHHhhhhH
Q 002017 417 EEVSEWINKGNPAKADGSKHFSDGENQLLQSQEATSSSGGASEPSLPAGRPASIGGGKSKYPFICECFFMTARVLNLGLL 496 (981)
Q Consensus 417 ~e~~~~~~~~~p~~~~~~~~~~~~e~~~l~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~nFItecFFLT~~~lhlG~~ 496 (981)
+++++|++... ..+++||||||||||++++|||+.
T Consensus 156 ~e~~~~~~~~~---------------------------------------------~~~~~nFiTe~FFLT~~a~hlg~~ 190 (629)
T PF10408_consen 156 EESEEWYEDLP---------------------------------------------NPGPPNFITECFFLTLRALHLGLL 190 (629)
T ss_dssp HHHHHHHHHCT---------------------------------------------TSTS--HHHHHHHHHHHHHHHTHH
T ss_pred hHHhhhhcccc---------------------------------------------cCCCCCchHHHHHHHHHHHHHhHH
Confidence 99999997542 233489999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHhHHHHHHHHHhhHH-----------------
Q 002017 497 KAFSDFKHLVQDISRAEDTLATLKATQGQTPSSQLNLEITRIEKEIELSSQEKLCYEAQILRD----------------- 559 (981)
Q Consensus 497 ~~~~~~~~l~~~i~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~l~~l~~~~~~~~~~~L~~----------------- 559 (981)
+++++|+++.|+++++++.++++++. ..+++++++++.+.+.++|++++++++
T Consensus 191 ~~~~~~~~~~r~l~~lq~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~e~~L~~p~~~~~~~~F~~~~~~wL 260 (629)
T PF10408_consen 191 PAIQRYKRLLRELRRLQRELEELEAS----------AQLKRLKEQLDKLMSEKLSLEAVLLDPDFLSRCLQFYNFVAQWL 260 (629)
T ss_dssp HHHHHHHTHHHHHHHHHHHHHHHTT-----------HHHHHHHHHHHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhH----------HHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999988642 567899999999999999999977665
Q ss_pred --------------------------------------------------------------HHHHHHHHHhcCCCcccC
Q 002017 560 --------------------------------------------------------------DFMNFIIMFMASPKYIRN 577 (981)
Q Consensus 560 --------------------------------------------------------------~~~~f~i~~l~s~~~ikN 577 (981)
++++|||+||++|+||+|
T Consensus 261 ~~~~~~~~~~~~~~~~~~Plp~~~p~~f~~lPE~~iedi~d~~~f~~~~~~~~~~l~~~~~~~l~~f~i~fm~s~~~ikN 340 (629)
T PF10408_consen 261 LRLADPSNQYPENKPPKLPLPEEPPPQFAYLPEFFIEDIVDFLLFLRRFNNSPDLLSSQDLDELVTFCITFMGSPEYIKN 340 (629)
T ss_dssp HHHHSTT--TTS-S---S-SS----TTGGGSBTHHHHHHHHHHHHHTTSTT-TTTT-T-THHHHHHHHHHHHH-TTS---
T ss_pred HHHhcccccccccCCcCCCCCCCCChHHHhCCHHHHHHHHHHHHHHHHhcCChhhhhhhhHHHHHHHHHHHhCChhhcCC
Confidence 788999999999999999
Q ss_pred chhhhhHHHHhhhhcCCCC-CCcchhHhhhhcccchHHHHHHHHHHHhhhheecCCCccchhhhhhhHHHHHHHHHHcCC
Q 002017 578 PYLRSKMVEVLNCWMPRRS-GSSSATATLFEGHQMSLEYLVRNLLKLYVDIEFTGSHTQFYDKFNIRHNIAELLEYLWQV 656 (981)
Q Consensus 578 P~LraklvevL~~~~p~~~-g~~~~~~~lf~~~~l~~~~L~~aLm~fYidvE~TG~~~qFYdKFn~Ry~I~~Ilk~LW~~ 656 (981)
||||||+||+|+.++|... +..|.+.++|++||++++||+||||+||||||+||+|+|||||||+||+|++||++||++
T Consensus 341 P~LraklvevL~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~sLm~~yidvE~Tg~~~qfydKFn~R~~i~~il~~lw~~ 420 (629)
T PF10408_consen 341 PHLRAKLVEVLFSLLPPDRDGRRGVLGSLFESHPLAQEHLVPSLMKFYIDVEKTGASTQFYDKFNIRYHISQILKYLWKN 420 (629)
T ss_dssp HHHHHHHHHHHHHCCS--TTS---TTHHHHHH-HHHHCCHHHHHHHHHHHCCCT-SSSSSTCHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHhcCcccccccccHHHHHHcCHHHHHHHHHHHHHHHHHHHhcCCCccchhcccchhhHHHHHHHHcCC
Confidence 9999999999999888766 556778889999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHHHhcchhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhcchhhhcCCCHHHHHHHHHHHHHhhhhhh
Q 002017 657 PSHRNAWRQIAKEEEKGVYLNFLNFLINDSIYLLDESLNKILELKVIEAEMSNTAEWERRPAQERQERTRLFHSQENIIR 736 (981)
Q Consensus 657 ~~~r~~l~~~a~~~~~~~FvrFvn~liND~t~lLDE~L~~L~~I~~~q~~~~d~~~w~~l~~eer~e~~~~l~~~e~~~r 736 (981)
|.||++|+++++++ +++|+|||||||||+||||||||++|++||++|.+++|.++|+++++|+|+++++.++++||+||
T Consensus 421 ~~~r~~~~~~~~~~-~~~F~rFvn~liND~~~llDE~l~~L~~I~~~q~~~~d~~~w~~~~~~~r~~~~~~l~~~e~~~r 499 (629)
T PF10408_consen 421 PEYREQFIKEAKEN-PPLFVRFVNMLINDTTFLLDESLSKLKEIKELQEEMADQSEWNALSQEERQEKESQLEQAERQAR 499 (629)
T ss_dssp HHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSS---------HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccCCCHHHHHHHHHHHHHHHHHHH
Confidence 99999999999885 78999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhchHHHHHHHHHhHhhhcCCCCchHHHHHHHHHHHHHHHhhcCccccccccCCCcccCCChHHHHHHHHHHHHhhcc
Q 002017 737 IDMKLANEDVSMLAFTSEQIVAPFLLPEMIERVASMLNYFLLQLVGPQRKSLTLKDPEKYEFRPKQLLKQIVCIYVHLAR 816 (981)
Q Consensus 737 s~~~L~~etv~~l~~~T~~i~~~F~~peiv~RlA~MLny~L~~LvGpk~~~LkVknpekY~F~Pk~lL~~i~~iYlnL~~ 816 (981)
||++||++|++||.++|+++|+||++||||+|||+||||||++||||||++||||||++|||+||+||.+||+||+||++
T Consensus 500 s~~~l~~~t~~~l~~lt~~~~~~Fl~~elv~RlA~MLn~~L~~L~Gpk~~~LkVk~~~~y~F~P~~ll~~i~~iy~~l~~ 579 (629)
T PF10408_consen 500 SYLQLANETLKMLNYLTSEIPEPFLRPELVDRLAAMLNYNLDQLVGPKCSELKVKNPEKYGFDPKELLSQIVDIYLNLSD 579 (629)
T ss_dssp HHHHHHHHHHHHHHHHHHH-GGGGCSHHHHHHHHHHHHHHHHHHHSHHHHT---SSGGGGT--HHHHHHHHHHHHHHCTT
T ss_pred HHHHHHHHHHHHHHHHHHhCchhhhhHHHHHHHHHHHHHHHHHHcCCchhcccCCChhhcCCcHHHHHHHHHHHHhhcCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999985
Q ss_pred CCCCchhhHhhhhcCCCCcHHHHHHHHHHHHhhcC-ChHHHHHHHHHHHHHHH
Q 002017 817 GDTQNLFPAAISSDGRSYNEQLFSAAADVLWKIGE-DGRIIQEFIELGAKAKA 868 (981)
Q Consensus 817 ~~~~~~F~~ava~D~Rsy~~~lf~~a~~il~~~~~-~~~~i~~~~~l~~~v~~ 868 (981)
. ++|++|||+|||||++++|++|++||+++|+ +++++++|++|+++|++
T Consensus 580 ~---~~F~~ava~D~Rsy~~~lf~~a~~~l~~~~l~~~~~i~~f~~l~~~ve~ 629 (629)
T PF10408_consen 580 S---DKFVQAVANDGRSYSPELFEKAVRILRRIGLKSEDEIEKFEELAKKVEE 629 (629)
T ss_dssp ----HHHHHHHHH-TTT--HHHHHHHHHHHTTSTSSTHHHHHHHHHHCCHHHH
T ss_pred c---hHHHHHHHhCCCCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhC
Confidence 3 4799999999999999999999999999998 99999999999999974
No 4
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=99.83 E-value=3.2e-21 Score=171.00 Aligned_cols=72 Identities=51% Similarity=0.768 Sum_probs=63.4
Q ss_pred CCCCCCCCCccccccCccccCCCCeeecHHHHHHHHhc-CCCCCCCCCCCCCCCccccHHHHHHHHHHHHHcCC
Q 002017 883 IPDEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLS-DATDPFNRSHLTADMLIPNTELKAKIEEFIKSQGL 955 (981)
Q Consensus 883 iP~ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~-~~~dP~tr~pL~~~~l~pn~~Lk~~I~~~~~~~~~ 955 (981)
||++|+||||++||+|||++|+| +||||++|++||.. +.+||+||++++.++|+||..||++|++|+++++.
T Consensus 1 iP~~f~CpIt~~lM~dPVi~~~G-~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~~Lk~~I~~~~~~~~~ 73 (73)
T PF04564_consen 1 IPDEFLCPITGELMRDPVILPSG-HTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNRALKSAIEEWCAENKK 73 (73)
T ss_dssp SSGGGB-TTTSSB-SSEEEETTS-EEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-HHHHHHHHHHHHHCTC
T ss_pred CCcccCCcCcCcHhhCceeCCcC-CEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECHHHHHHHHHHHHHccC
Confidence 79999999999999999999999 99999999999999 67999999999999999999999999999998863
No 5
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=99.58 E-value=1.6e-15 Score=129.78 Aligned_cols=63 Identities=52% Similarity=0.788 Sum_probs=61.3
Q ss_pred CCCCCCccccccCccccCCCCeeecHHHHHHHHhcCCCCCCCCCCCCCCCccccHHHHHHHHHH
Q 002017 886 EFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSDATDPFNRSHLTADMLIPNTELKAKIEEF 949 (981)
Q Consensus 886 ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL~~~~l~pn~~Lk~~I~~~ 949 (981)
+|.|||++++|+|||++|+| |+|+|++|.+|+.++++||+||++++.++++||..||++|++|
T Consensus 1 ~~~Cpi~~~~~~~Pv~~~~G-~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~~~l~~~i~~~ 63 (63)
T smart00504 1 EFLCPISLEVMKDPVILPSG-QTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPNLALKSAIQEW 63 (63)
T ss_pred CcCCcCCCCcCCCCEECCCC-CEEeHHHHHHHHHHCCCCCCCcCCCChhhceeCHHHHHHHHhC
Confidence 68999999999999999998 9999999999999989999999999999999999999999998
No 6
>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]
Probab=99.20 E-value=1.7e-11 Score=129.39 Aligned_cols=77 Identities=40% Similarity=0.567 Sum_probs=72.9
Q ss_pred cCCCCCCCCCCCccccccCccccCCCCeeecHHHHHHHHhcCC-CCCCCCCCCCCCCccccHHHHHHHHHHHHHcCCCc
Q 002017 880 LGDIPDEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSDA-TDPFNRSHLTADMLIPNTELKAKIEEFIKSQGLKR 957 (981)
Q Consensus 880 ~~~iP~ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~~-~dP~tr~pL~~~~l~pn~~Lk~~I~~~~~~~~~~~ 957 (981)
-.|+|+..+|-|+.+||+||||.|+| .||||+.|.+||..-+ .||.||.||+..+++||.+||..|+.|++++..+.
T Consensus 205 ~rEvpd~lcgkIt~el~~~pvi~psg-Ity~ra~I~Ehl~rvghfdpvtr~~Lte~q~ipN~alkevIa~fl~~n~w~~ 282 (284)
T KOG4642|consen 205 KREVPDYLCGKITLELMREPVITPSG-ITYDRADIEEHLQRVGHFDPVTRWPLTEYQLIPNLALKEVIAAFLKENEWAD 282 (284)
T ss_pred cccccchhhhhhhHHhhcCCccCccc-cchhHHHHHHHHHHhccCCchhcccCCHHhhccchHHHHHHHHHHHhccccc
Confidence 47899999999999999999999999 9999999999999965 99999999999999999999999999999987653
No 7
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.28 E-value=1e-06 Score=101.06 Aligned_cols=73 Identities=21% Similarity=0.175 Sum_probs=67.4
Q ss_pred cCCCCCCCCCCCccccccCccccCCCCeeecHHHHHHHHhcCCCCCCCCCCCCCCCccccHHHHHHHHHHHHHc
Q 002017 880 LGDIPDEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSDATDPFNRSHLTADMLIPNTELKAKIEEFIKSQ 953 (981)
Q Consensus 880 ~~~iP~ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL~~~~l~pn~~Lk~~I~~~~~~~ 953 (981)
+.++.+.+.||||.+++.+||++||| |+|++.||.+|+.....||.||.++....+.+|..|.+.|+.|+..+
T Consensus 20 l~~Le~~l~C~IC~d~~~~PvitpCg-H~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N~~L~~iVe~~~~~R 92 (397)
T TIGR00599 20 LYPLDTSLRCHICKDFFDVPVLTSCS-HTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSNWLVSEIVESFKNLR 92 (397)
T ss_pred ccccccccCCCcCchhhhCccCCCCC-CchhHHHHHHHHhCCCCCCCCCCccccccCccchHHHHHHHHHHHhh
Confidence 35677889999999999999999999 99999999999998889999999999999999999999999998643
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.22 E-value=7.5e-07 Score=92.59 Aligned_cols=67 Identities=19% Similarity=0.248 Sum_probs=57.4
Q ss_pred HhhhcCCCCCCCCCCCccccccCccccCCCCeeecHHHHHHHHhc----------------CCCCCCCCCCCCCCCcccc
Q 002017 876 AEAALGDIPDEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLS----------------DATDPFNRSHLTADMLIPN 939 (981)
Q Consensus 876 ~e~~~~~iP~ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~----------------~~~dP~tr~pL~~~~l~pn 939 (981)
.+..+.+..++|.|||+.+.++|||+++|| |+|++.+|.+|+.. ...||.+|.+++...++|.
T Consensus 8 ~~~~~~~~~~~~~CpICld~~~dPVvT~CG-H~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPi 86 (193)
T PLN03208 8 DDTTLVDSGGDFDCNICLDQVRDPVVTLCG-HLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPI 86 (193)
T ss_pred ccceeccCCCccCCccCCCcCCCcEEcCCC-chhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEe
Confidence 344456778899999999999999999988 99999999999852 2589999999999999998
Q ss_pred HHHH
Q 002017 940 TELK 943 (981)
Q Consensus 940 ~~Lk 943 (981)
..-.
T Consensus 87 ygrg 90 (193)
T PLN03208 87 YGRG 90 (193)
T ss_pred eccC
Confidence 6533
No 9
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=98.13 E-value=1.1e-06 Score=74.78 Aligned_cols=47 Identities=17% Similarity=0.171 Sum_probs=33.4
Q ss_pred CCCCCCCCCCccccccCccccCCCCeeecHHHHHHHHhcC--CCCCCCC
Q 002017 882 DIPDEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSD--ATDPFNR 928 (981)
Q Consensus 882 ~iP~ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~--~~dP~tr 928 (981)
.---.+.||||...|+|||....+||+|||++|.+||..+ ..||+.+
T Consensus 7 ~~~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv~G 55 (57)
T PF11789_consen 7 GGTISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPVAG 55 (57)
T ss_dssp SSB--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SCCC
T ss_pred ccEeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCCCC
Confidence 3445689999999999999986666999999999999443 4999865
No 10
>KOG0289 consensus mRNA splicing factor [General function prediction only]
Probab=97.96 E-value=3.4e-06 Score=95.44 Aligned_cols=52 Identities=19% Similarity=0.389 Sum_probs=50.1
Q ss_pred CCCCCccccccCccccCCCCeeecHHHHHHHHhcCCCCCCCCCCCCCCCccc
Q 002017 887 FLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSDATDPFNRSHLTADMLIP 938 (981)
Q Consensus 887 f~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL~~~~l~p 938 (981)
+.|.|++++-++||+.|-||++|||+-|++|+..+++||.|++||++++|+|
T Consensus 1 m~CaISgEvP~~PVvS~~Sg~vfEkrLIEqyI~e~G~DPIt~~pLs~eelV~ 52 (506)
T KOG0289|consen 1 MVCAISGEVPEEPVVSPVSGHVFEKRLIEQYIAETGKDPITNEPLSIEELVE 52 (506)
T ss_pred CeecccCCCCCCccccccccchHHHHHHHHHHHHcCCCCCCCCcCCHHHeee
Confidence 5799999999999999999999999999999999999999999999999985
No 11
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.86 E-value=0.0011 Score=73.78 Aligned_cols=239 Identities=19% Similarity=0.178 Sum_probs=149.8
Q ss_pred cchhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhcchhhhcCCCHHHHHHHHHHHHHhhhhhhhhhhchHHHHHHHH
Q 002017 671 EKGVYLNFLNFLINDSIYLLDESLNKILELKVIEAEMSNTAEWERRPAQERQERTRLFHSQENIIRIDMKLANEDVSMLA 750 (981)
Q Consensus 671 ~~~~FvrFvn~liND~t~lLDE~L~~L~~I~~~q~~~~d~~~w~~l~~eer~e~~~~l~~~e~~~rs~~~L~~etv~~l~ 750 (981)
++++-.-|.|.++|-.+|-+-|-.-.+.||.+.-+.|++.- -|-+ +-+.|-.-+.|+-.-++.|+
T Consensus 185 dgp~a~tFLNsvlnqLnWafsEFi~~vqEiQ~~aqr~E~~~------~e~~---------Qlk~C~~cFeLsvsL~RvLE 249 (489)
T KOG4692|consen 185 DGPLASTFLNSVLNQLNWAFSEFIVSVQEIQEKAQRMENTL------FEPF---------QLKKCCVCFELSVSLARVLE 249 (489)
T ss_pred cCchHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhc------cCHH---------HHhHhhhhHHHHHHHHHHHH
Confidence 46788999999999999999998887777766555444321 0111 12345556677777788888
Q ss_pred HhHhhhcCCCCc------hHHHHHHHHHHHHHHHhhcCcccc-c----cccCCCcccCCChHHHHHHHHHHHHhhccCCC
Q 002017 751 FTSEQIVAPFLL------PEMIERVASMLNYFLLQLVGPQRK-S----LTLKDPEKYEFRPKQLLKQIVCIYVHLARGDT 819 (981)
Q Consensus 751 ~~T~~i~~~F~~------peiv~RlA~MLny~L~~LvGpk~~-~----LkVknpekY~F~Pk~lL~~i~~iYlnL~~~~~ 819 (981)
+.+...|+.|+. ..+.+||+..||..|.....|.-- . +.-..-++..-- -+|..++-|.+||-..+.
T Consensus 250 m~it~~Peifld~trpns~~Ll~ri~qllnqvlsrVt~e~~lf~rvv~~~~~~le~V~hy--pil~a~~GIll~Ll~~~~ 327 (489)
T KOG4692|consen 250 MCITAMPEIFLDGTRPNSRRLLERILQLLNQVLSRVTDEFFLFVRVVRRQGQPLEKVSHY--PILAALVGILLNLLEASE 327 (489)
T ss_pred HHHHhhhHHHhcCCCCcHHHHHHHHHHHHHHHHHhhccccchhHHHHHhhcCChhhhccc--chHHHHHHHHHHHHHhCc
Confidence 888888999975 356899999999999777655432 1 111222333333 378899999999864321
Q ss_pred Cch-hhHh------hhhcCCCCcHHHHHHHHHH----------------------H-HhhcC-ChHHHHHHHHHHHHHHH
Q 002017 820 QNL-FPAA------ISSDGRSYNEQLFSAAADV----------------------L-WKIGE-DGRIIQEFIELGAKAKA 868 (981)
Q Consensus 820 ~~~-F~~a------va~D~Rsy~~~lf~~a~~i----------------------l-~~~~~-~~~~i~~~~~l~~~v~~ 868 (981)
+.+ =-++ +.-|.-+|.---|.-++.- + ++.+- +..++...+.+...+.+
T Consensus 328 ~S~~r~Q~~~~~~~a~l~dP~fq~~~~~ylLg~~~pdpp~p~t~~~p~pd~krfal~~~~~~~s~~e~~~V~r~~~~l~~ 407 (489)
T KOG4692|consen 328 DSKPRQQHDVIGLFASLDDPDFQYYGFQYLLGYNWPDPPDPLTDGCPSPDDKRFALVKKLGQLSNFESHLVNRASSQLPE 407 (489)
T ss_pred ccCcccchhhhhhheeccCcchHHHHHHHHHhcCCCCCCCccccCCCCCCccchHHhhhhhhhhHHHHHHHHHHHhhcch
Confidence 101 1111 1223334433333333321 1 11221 33333333333333222
Q ss_pred HHHHHHhHhhhcCCCC--CCCCCCCccccccCccccCCCCeeecHHHHHHHHhcCCCCCCCCCCCC
Q 002017 869 AASEAMDAEAALGDIP--DEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSDATDPFNRSHLT 932 (981)
Q Consensus 869 ~~~~~~~~e~~~~~iP--~ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL~ 932 (981)
..++..-.+.| |+=+|||++.=--..|+.||| |-=+..+|.+||++...|-||+....
T Consensus 408 -----~~~~~~~~~lp~sEd~lCpICyA~pi~Avf~PC~-H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 408 -----RKEESFNKDLPDSEDNLCPICYAGPINAVFAPCS-HRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred -----hhHHhhcCCCCCcccccCcceecccchhhccCCC-CchHHHHHHHHHhcCCeeeEecceee
Confidence 12333345566 567899999888899999999 99999999999999999999986543
No 12
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.29 E-value=0.00058 Score=74.32 Aligned_cols=100 Identities=23% Similarity=0.271 Sum_probs=74.2
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHhHhhhc-CCCCCC-CCCCCccccccCccccCCCCeeecHHHHHHHHh-cCCCCCCCC
Q 002017 852 DGRIIQEFIELGAKAKAAASEAMDAEAAL-GDIPDE-FLDPIQYTLMKDPVILPSSRITVDRPVIQRHLL-SDATDPFNR 928 (981)
Q Consensus 852 ~~~~i~~~~~l~~~v~~~~~~~~~~e~~~-~~iP~e-f~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~-~~~~dP~tr 928 (981)
...+++.|+...++-+.... ..++.| +..|+- +.||+|..|.++||.+||++|+|+..+|...|+ ++-.||.|-
T Consensus 241 ~qpdvqsWe~Yq~r~~a~~~---~~Dqv~k~~~~~i~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~ 317 (427)
T COG5222 241 AQPDVQSWEKYQQRTKAVAE---IPDQVYKMQPPNISLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCS 317 (427)
T ss_pred eccchHHHHHHHHHHHhhhh---CchhhhccCCCCccccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCcc
Confidence 44567788777665544322 111122 122221 899999999999999999999999999998655 567999986
Q ss_pred C-CCCCCCccccHHHHHHHHHHHHHcC
Q 002017 929 S-HLTADMLIPNTELKAKIEEFIKSQG 954 (981)
Q Consensus 929 ~-pL~~~~l~pn~~Lk~~I~~~~~~~~ 954 (981)
. .+-++-|.|+.+-+..|+.+++.+.
T Consensus 318 rkdvlld~l~pD~dk~~EvE~~lkkq~ 344 (427)
T COG5222 318 RKDVLLDGLTPDIDKKLEVEKALKKQR 344 (427)
T ss_pred cccchhhccCccHHHHHHHHHHHHHHH
Confidence 4 4667889999999999999998544
No 13
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=97.07 E-value=0.00034 Score=55.93 Aligned_cols=32 Identities=34% Similarity=0.481 Sum_probs=28.2
Q ss_pred CCCccccccCccccCCCCeeecHHHHHHHHhcC
Q 002017 889 DPIQYTLMKDPVILPSSRITVDRPVIQRHLLSD 921 (981)
Q Consensus 889 cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~ 921 (981)
|||..++++|||.+++| |+|.++.|.+|..+.
T Consensus 1 CpiC~~~~~~Pv~l~CG-H~FC~~Cl~~~~~~~ 32 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCG-HSFCRSCLERLWKEP 32 (42)
T ss_dssp ETTTTSB-SSEEE-SSS-SEEEHHHHHHHHCCS
T ss_pred CCccchhhCCccccCCc-CHHHHHHHHHHHHcc
Confidence 79999999999999999 999999999988764
No 14
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=97.06 E-value=0.00047 Score=53.93 Aligned_cols=38 Identities=24% Similarity=0.400 Sum_probs=32.2
Q ss_pred CCCccccccCc-cccCCCCeeecHHHHHHHHhcCCCCCCC
Q 002017 889 DPIQYTLMKDP-VILPSSRITVDRPVIQRHLLSDATDPFN 927 (981)
Q Consensus 889 cPI~~~lM~DP-Vilp~g~~t~dR~~I~~~L~~~~~dP~t 927 (981)
|||..+.+.|| |++++| |+|.++.|.+|+..+.+||+.
T Consensus 1 C~iC~~~~~~~~~~~~CG-H~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCG-HSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTS-EEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCcCEECCCC-CchhHHHHHHHHHCcCCCcCC
Confidence 79999999999 567777 999999999999998899973
No 15
>PHA02929 N1R/p28-like protein; Provisional
Probab=97.02 E-value=0.00075 Score=73.15 Aligned_cols=50 Identities=12% Similarity=0.019 Sum_probs=41.8
Q ss_pred CCCCCCCCCCccccccCc--------cccCCCCeeecHHHHHHHHhcCCCCCCCCCCCC
Q 002017 882 DIPDEFLDPIQYTLMKDP--------VILPSSRITVDRPVIQRHLLSDATDPFNRSHLT 932 (981)
Q Consensus 882 ~iP~ef~cPI~~~lM~DP--------Vilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL~ 932 (981)
+..++..|||+.+.+.+| |+++|| |+|++.+|.+|+...++||+||.++.
T Consensus 170 ~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~-H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 170 NRSKDKECAICMEKVYDKEIKNMYFGILSNCN-HVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred cCCCCCCCccCCcccccCccccccceecCCCC-CcccHHHHHHHHhcCCCCCCCCCEee
Confidence 345667899999977664 455666 99999999999999999999999876
No 16
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=96.84 E-value=0.00089 Score=55.14 Aligned_cols=47 Identities=21% Similarity=0.265 Sum_probs=41.6
Q ss_pred CCCCCCCccccccCccccCCCCee-ecHHHHHHHHhcCCCCCCCCCCCC
Q 002017 885 DEFLDPIQYTLMKDPVILPSSRIT-VDRPVIQRHLLSDATDPFNRSHLT 932 (981)
Q Consensus 885 ~ef~cPI~~~lM~DPVilp~g~~t-~dR~~I~~~L~~~~~dP~tr~pL~ 932 (981)
++..|+|..+-..++|++|+| |. +....+.+|+....+||++|++++
T Consensus 1 ~~~~C~iC~~~~~~~~~~pCg-H~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 1 EDEECPICFENPRDVVLLPCG-HLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp -HSB-TTTSSSBSSEEEETTC-EEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred CcCCCccCCccCCceEEeCCC-ChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 457899999999999999999 88 999999999998899999999875
No 17
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=96.83 E-value=0.00076 Score=54.32 Aligned_cols=31 Identities=19% Similarity=0.316 Sum_probs=21.8
Q ss_pred CCCccccccC----ccccCCCCeeecHHHHHHHHhcC
Q 002017 889 DPIQYTLMKD----PVILPSSRITVDRPVIQRHLLSD 921 (981)
Q Consensus 889 cPI~~~lM~D----PVilp~g~~t~dR~~I~~~L~~~ 921 (981)
|||+.+ |.+ ||+||+| |+|.|++|.+++.++
T Consensus 1 CpIc~e-~~~~~n~P~~L~CG-H~~c~~cl~~l~~~~ 35 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCG-HVFCKDCLQKLSKKS 35 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS--EEEHHHHHHHHHH-
T ss_pred CCcccc-ccCCCCCCEEEeCc-cHHHHHHHHHHHhcC
Confidence 899999 999 9999988 999999999999864
No 18
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=96.65 E-value=0.0011 Score=73.44 Aligned_cols=67 Identities=21% Similarity=0.160 Sum_probs=61.4
Q ss_pred CCCCCCCccccccCccccCCCCeeecHHHHHHHHhcCCCCCCCCCCCCCCCccccHHHHHHHHHHHHH
Q 002017 885 DEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSDATDPFNRSHLTADMLIPNTELKAKIEEFIKS 952 (981)
Q Consensus 885 ~ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL~~~~l~pn~~Lk~~I~~~~~~ 952 (981)
+-+.|-||.+-++=|||+||| |||+-=||..||...+.||.|+.+.+..+|.-|.-|-+.|+.|.--
T Consensus 22 ~lLRC~IC~eyf~ip~itpCs-HtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~il~Eiv~S~~~~ 88 (442)
T KOG0287|consen 22 DLLRCGICFEYFNIPMITPCS-HTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNRILDEIVKSLNFA 88 (442)
T ss_pred HHHHHhHHHHHhcCceecccc-chHHHHHHHHHhccCCCCCceecccchhhhhhhhHHHHHHHHHHHH
Confidence 346799999999999999988 9999999999999999999999999999999999999888876533
No 19
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.56 E-value=0.0012 Score=70.28 Aligned_cols=56 Identities=21% Similarity=0.261 Sum_probs=51.7
Q ss_pred CCCCCCCccccccCccccCCCCeeecHHHHHHHHhcC---CCCCCCCCCCCCCCccccHH
Q 002017 885 DEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSD---ATDPFNRSHLTADMLIPNTE 941 (981)
Q Consensus 885 ~ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~---~~dP~tr~pL~~~~l~pn~~ 941 (981)
-.|-|-|+.++=+|||++.|| |-|+=.+|.+||... ..||+|+..++.+.|+|-..
T Consensus 46 ~~FdCNICLd~akdPVvTlCG-HLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYG 104 (230)
T KOG0823|consen 46 GFFDCNICLDLAKDPVVTLCG-HLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYG 104 (230)
T ss_pred CceeeeeeccccCCCEEeecc-cceehHHHHHHHhhcCCCeeCCccccccccceEEeeec
Confidence 368999999999999999999 999999999999985 47899999999999999765
No 20
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=96.54 E-value=0.00075 Score=58.52 Aligned_cols=58 Identities=19% Similarity=0.203 Sum_probs=32.6
Q ss_pred CCCCCccccccCccccCCCCeeecHHHHHHHHhcCCCCCCCCCCCCCCCccccHHHHHHH
Q 002017 887 FLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSDATDPFNRSHLTADMLIPNTELKAKI 946 (981)
Q Consensus 887 f~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL~~~~l~pn~~Lk~~I 946 (981)
..|+++.++|+.||.+-.+.|+|.+.+|.+.+.+ .||+++.|-...|+.-|+.|-+.|
T Consensus 8 LrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD~~~NrqLd~~i 65 (65)
T PF14835_consen 8 LRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGS--ECPVCHTPAWIQDIQINRQLDSMI 65 (65)
T ss_dssp TS-SSS-S--SS-B---SSS--B-TTTGGGGTTT--B-SSS--B-S-SS----HHHHHHH
T ss_pred cCCcHHHHHhcCCceeccCccHHHHHHhHHhcCC--CCCCcCChHHHHHHHhhhhhhccC
Confidence 5699999999999987766699999999887665 499999999999999999998765
No 21
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.50 E-value=0.0025 Score=68.44 Aligned_cols=74 Identities=22% Similarity=0.304 Sum_probs=62.2
Q ss_pred CCCCCCCCCCCccccccCccccCCCCeeecHHHHHHHHhcCCCCCCCCCCCCCCCccccHHHHHHHHHHHHHcCCCc
Q 002017 881 GDIPDEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSDATDPFNRSHLTADMLIPNTELKAKIEEFIKSQGLKR 957 (981)
Q Consensus 881 ~~iP~ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL~~~~l~pn~~Lk~~I~~~~~~~~~~~ 957 (981)
....+++.|||+.+.+++|+++|+| |+|+|.+|.++....-.||.+|. ... .+.+|..|.+.++.+...+....
T Consensus 8 ~~~~~~~~C~iC~~~~~~p~~l~C~-H~~c~~C~~~~~~~~~~Cp~cr~-~~~-~~~~n~~l~~~~~~~~~~~~~~~ 81 (386)
T KOG2177|consen 8 EVLQEELTCPICLEYFREPVLLPCG-HNFCRACLTRSWEGPLSCPVCRP-PSR-NLRPNVLLANLVERLRQLRLSRP 81 (386)
T ss_pred hhccccccChhhHHHhhcCcccccc-chHhHHHHHHhcCCCcCCcccCC-chh-ccCccHHHHHHHHHHHhcCCccc
Confidence 3466789999999999999999999 99999999998873349999996 222 88899999999999887765543
No 22
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=96.39 E-value=0.0024 Score=70.03 Aligned_cols=57 Identities=18% Similarity=0.196 Sum_probs=52.1
Q ss_pred cCCCCCC-CCCCCccccccCccccCCCCeeecHHHHHHHHhcCCCCCCCCCCCCCCCcc
Q 002017 880 LGDIPDE-FLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSDATDPFNRSHLTADMLI 937 (981)
Q Consensus 880 ~~~iP~e-f~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL~~~~l~ 937 (981)
...+|+. +.|-||.+-+.||--+||| |+|+=+||..|..+...||.||++.+..+++
T Consensus 232 ~~~i~~a~~kC~LCLe~~~~pSaTpCG-HiFCWsCI~~w~~ek~eCPlCR~~~~pskvi 289 (293)
T KOG0317|consen 232 LSSIPEATRKCSLCLENRSNPSATPCG-HIFCWSCILEWCSEKAECPLCREKFQPSKVI 289 (293)
T ss_pred CccCCCCCCceEEEecCCCCCCcCcCc-chHHHHHHHHHHccccCCCcccccCCCccee
Confidence 3456666 9999999999999999999 9999999999999999999999999988765
No 23
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=96.08 E-value=0.0035 Score=68.35 Aligned_cols=66 Identities=17% Similarity=0.079 Sum_probs=60.7
Q ss_pred CCCCCccccccCccccCCCCeeecHHHHHHHHhcCCCCCCCCCCCCCCCccccHHHHHHHHHHHHHc
Q 002017 887 FLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSDATDPFNRSHLTADMLIPNTELKAKIEEFIKSQ 953 (981)
Q Consensus 887 f~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL~~~~l~pn~~Lk~~I~~~~~~~ 953 (981)
..|-|+.+-++=||+++|| |+|+--||.+||...+.||.||.+-...-+.-+..++..++.|...+
T Consensus 26 lrC~IC~~~i~ip~~TtCg-HtFCslCIR~hL~~qp~CP~Cr~~~~esrlr~~s~~~ei~es~~~~r 91 (391)
T COG5432 26 LRCRICDCRISIPCETTCG-HTFCSLCIRRHLGTQPFCPVCREDPCESRLRGSSGSREINESHARNR 91 (391)
T ss_pred HHhhhhhheeecceecccc-cchhHHHHHHHhcCCCCCccccccHHhhhcccchhHHHHHHhhhhcc
Confidence 5799999999999999999 99999999999999999999999999888999999998888876543
No 24
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=95.91 E-value=0.0045 Score=49.54 Aligned_cols=39 Identities=26% Similarity=0.335 Sum_probs=33.3
Q ss_pred CCCccccc---cCccccCCCCeeecHHHHHHHHhcCCCCCCCC
Q 002017 889 DPIQYTLM---KDPVILPSSRITVDRPVIQRHLLSDATDPFNR 928 (981)
Q Consensus 889 cPI~~~lM---~DPVilp~g~~t~dR~~I~~~L~~~~~dP~tr 928 (981)
|||..+-| ..++.+++| |+|.++.|.+|+.+..+||++|
T Consensus 3 C~IC~~~~~~~~~~~~l~C~-H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 3 CPICLEEFEDGEKVVKLPCG-HVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp ETTTTCBHHTTSCEEEETTS-EEEEHHHHHHHHHHSSB-TTTH
T ss_pred CcCCChhhcCCCeEEEccCC-CeeCHHHHHHHHHhCCcCCccC
Confidence 78888887 367788976 9999999999999999999976
No 25
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=95.20 E-value=0.031 Score=62.70 Aligned_cols=63 Identities=13% Similarity=0.158 Sum_probs=48.1
Q ss_pred CCCCCCCccc-cccCcc----ccCCCCeeecHHHHHHHHhcC-CCCCCCCCCCCCCC----ccccHHHHHHHHH
Q 002017 885 DEFLDPIQYT-LMKDPV----ILPSSRITVDRPVIQRHLLSD-ATDPFNRSHLTADM----LIPNTELKAKIEE 948 (981)
Q Consensus 885 ~ef~cPI~~~-lM~DPV----ilp~g~~t~dR~~I~~~L~~~-~~dP~tr~pL~~~~----l~pn~~Lk~~I~~ 948 (981)
++..||+|.+ ....|= +.+|| |.||++||.+++.++ +.||.|+.++.... +.++..+.+.|+-
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CG-H~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr~q~F~D~~vekEV~i 74 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCG-HTLCESCVDLLFVRGSGSCPECDTPLRKNNFRVQLFEDPTVEKEVDI 74 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCC-CcccHHHHHHHhcCCCCCCCCCCCccchhhccccccccHHHHHHHHH
Confidence 5689999997 344552 34666 999999999977665 59999999999877 6667666666654
No 26
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=94.87 E-value=0.027 Score=44.13 Aligned_cols=37 Identities=27% Similarity=0.475 Sum_probs=32.6
Q ss_pred CCCccccccCcc-ccCCCCeeecHHHHHHHHhc--CCCCCC
Q 002017 889 DPIQYTLMKDPV-ILPSSRITVDRPVIQRHLLS--DATDPF 926 (981)
Q Consensus 889 cPI~~~lM~DPV-ilp~g~~t~dR~~I~~~L~~--~~~dP~ 926 (981)
|||..+.+.+|+ +++.| |+|.+..|.+|+.+ ...||.
T Consensus 1 C~iC~~~~~~~~~~~~C~-H~fC~~C~~~~~~~~~~~~CP~ 40 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCG-HSFCRDCLRKWLENSGSVKCPL 40 (41)
T ss_dssp ETTTSSBCSSEEEETTTS-EEEEHHHHHHHHHHTSSSBTTT
T ss_pred CCcCCccccCCCEEecCC-CcchHHHHHHHHHhcCCccCCc
Confidence 799999999999 88888 99999999999994 347886
No 27
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.74 E-value=0.02 Score=59.10 Aligned_cols=51 Identities=18% Similarity=0.192 Sum_probs=44.3
Q ss_pred CCCCCccccccC--ccccCCCCeeecHHHHHHHHhcCCCCCCCCCCCCCCCccc
Q 002017 887 FLDPIQYTLMKD--PVILPSSRITVDRPVIQRHLLSDATDPFNRSHLTADMLIP 938 (981)
Q Consensus 887 f~cPI~~~lM~D--PVilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL~~~~l~p 938 (981)
|-|||+.+-... ||-+.|| |+|++.+|+.-+....+||.+|..++..++.+
T Consensus 132 ~~CPiCl~~~sek~~vsTkCG-HvFC~~Cik~alk~~~~CP~C~kkIt~k~~~r 184 (187)
T KOG0320|consen 132 YKCPICLDSVSEKVPVSTKCG-HVFCSQCIKDALKNTNKCPTCRKKITHKQFHR 184 (187)
T ss_pred cCCCceecchhhccccccccc-hhHHHHHHHHHHHhCCCCCCcccccchhhhee
Confidence 899999887754 5567888 99999999999999999999999999877654
No 28
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=94.54 E-value=0.029 Score=65.46 Aligned_cols=71 Identities=18% Similarity=0.277 Sum_probs=60.9
Q ss_pred CCCCCCCCCCCccccccCcccc-CCCCeeecHHHHHHHHhcCCCCCCCCCCCCCCCccc-cHHHHHHHHHHHHH
Q 002017 881 GDIPDEFLDPIQYTLMKDPVIL-PSSRITVDRPVIQRHLLSDATDPFNRSHLTADMLIP-NTELKAKIEEFIKS 952 (981)
Q Consensus 881 ~~iP~ef~cPI~~~lM~DPVil-p~g~~t~dR~~I~~~L~~~~~dP~tr~pL~~~~l~p-n~~Lk~~I~~~~~~ 952 (981)
+.+.+++.|||+..++.|||.. .+| |.|++.+|..|+..++.||-.+.+++..+.+| ...++..|..|-..
T Consensus 16 ~~~~~~l~C~~C~~vl~~p~~~~~cg-h~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~~~~~~~~~~~~l~i~ 88 (391)
T KOG0297|consen 16 RPLDENLLCPICMSVLRDPVQTTTCG-HRFCAGCLLESLSNHQKCPVCRQELTQAEELPVPRALRRELLKLPIR 88 (391)
T ss_pred CCCcccccCccccccccCCCCCCCCC-CcccccccchhhccCcCCcccccccchhhccCchHHHHHHHHhcccc
Confidence 3467779999999999999996 655 99999999999999999999999999888887 55777777776544
No 29
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.48 E-value=0.029 Score=60.26 Aligned_cols=55 Identities=16% Similarity=0.364 Sum_probs=48.3
Q ss_pred CCCCCCCCCccccccCcc----ccCCCCeeecHHHHHHHHhcCCCCCCCCCCCCCCCccc
Q 002017 883 IPDEFLDPIQYTLMKDPV----ILPSSRITVDRPVIQRHLLSDATDPFNRSHLTADMLIP 938 (981)
Q Consensus 883 iP~ef~cPI~~~lM~DPV----ilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL~~~~l~p 938 (981)
....|+||+|.+.+.+-+ +-|+| +++...+.++.+..+..||+|+.||+..++|+
T Consensus 218 ~s~ryiCpvtrd~LtNt~~ca~Lr~sg-~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~ 276 (303)
T KOG3039|consen 218 ASKRYICPVTRDTLTNTTPCAVLRPSG-HVVTKECVEKLIRKDMVDPVTDKPLKDRDIIG 276 (303)
T ss_pred hccceecccchhhhcCccceEEeccCC-cEeeHHHHHHhccccccccCCCCcCcccceEe
Confidence 447899999999887754 34666 99999999999999999999999999999986
No 30
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=94.42 E-value=0.041 Score=59.80 Aligned_cols=70 Identities=24% Similarity=0.239 Sum_probs=55.1
Q ss_pred CCCCCCCCCCCccccccCccccCCCCeeecHHHHHHHHhcC--CCCCCCCCC----CCCCCccccHHHHHHHHHHH
Q 002017 881 GDIPDEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSD--ATDPFNRSH----LTADMLIPNTELKAKIEEFI 950 (981)
Q Consensus 881 ~~iP~ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~--~~dP~tr~p----L~~~~l~pn~~Lk~~I~~~~ 950 (981)
+..-=++.|||+......||+..-+||+|||..|...+-.. -.||.-+-+ +...-+.+..+|+.+|++-.
T Consensus 171 ~~e~fs~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~~~~~~~~~~l~~d~el~~kIr~~q 246 (262)
T KOG2979|consen 171 GQEVFSNRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDEITIRCPVLGCENPYYIQPGHLDEDKELQQKIRQSQ 246 (262)
T ss_pred hhhhhcccCchhhhhhhchhhhcCcCcchhhhhHHHHhccCceeecccccCCccccccccccCchHHHHHHHHHhc
Confidence 33444578999999999999998788999999999999873 489997755 23345677778888887643
No 31
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=94.17 E-value=0.056 Score=41.86 Aligned_cols=44 Identities=27% Similarity=0.369 Sum_probs=37.2
Q ss_pred CCCCccccccCccccCCCCeeecHHHHHHHHhc-CCCCCCCCCCC
Q 002017 888 LDPIQYTLMKDPVILPSSRITVDRPVIQRHLLS-DATDPFNRSHL 931 (981)
Q Consensus 888 ~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~-~~~dP~tr~pL 931 (981)
.|||..+.+.+|+.++..||.|.+..+.+|+.. ...||..|.++
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 388999988999988744499999999999998 56899998764
No 32
>KOG0883 consensus Cyclophilin type, U box-containing peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=94.15 E-value=0.032 Score=63.30 Aligned_cols=52 Identities=21% Similarity=0.209 Sum_probs=49.4
Q ss_pred CCCCCccccccCccccCCCCeeecHHHHHHHHhcCCCCCCCCCCCCCCCcccc
Q 002017 887 FLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSDATDPFNRSHLTADMLIPN 939 (981)
Q Consensus 887 f~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL~~~~l~pn 939 (981)
..|.|+.-.+.|||-+++| .+||=.+|.-||...++.|.|++||...+||+-
T Consensus 41 ~hC~lt~~Pfe~PvC~~dg-~vFd~~~Ivp~lkk~g~nP~tG~kl~~~dLIkL 92 (518)
T KOG0883|consen 41 NHCSLTMLPFEDPVCTVDG-TVFDLTAIVPWLKKHGTNPITGQKLDGKDLIKL 92 (518)
T ss_pred hhceeccccccCcccccCC-cEEeeehhhHHHHHcCCCCCCCCccccccceee
Confidence 4799999999999999999 899999999999999999999999999999963
No 33
>PHA02926 zinc finger-like protein; Provisional
Probab=94.12 E-value=0.042 Score=58.65 Aligned_cols=58 Identities=10% Similarity=0.043 Sum_probs=43.1
Q ss_pred cCCCCCCCCCCCccccccC---------ccccCCCCeeecHHHHHHHHhcC------CCCCCCCCCCCCCCccccH
Q 002017 880 LGDIPDEFLDPIQYTLMKD---------PVILPSSRITVDRPVIQRHLLSD------ATDPFNRSHLTADMLIPNT 940 (981)
Q Consensus 880 ~~~iP~ef~cPI~~~lM~D---------PVilp~g~~t~dR~~I~~~L~~~------~~dP~tr~pL~~~~l~pn~ 940 (981)
.....+|-.|+|+.+..-+ +|+.+|+ |+|+.++|.+|-... ..||+||++++ -++|++
T Consensus 164 ~~~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~Cn-HsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~--~I~pSr 236 (242)
T PHA02926 164 VYRVSKEKECGICYEVVYSKRLENDRYFGLLDSCN-HIFCITCINIWHRTRRETGASDNCPICRTRFR--NITMSK 236 (242)
T ss_pred HHhccCCCCCccCccccccccccccccccccCCCC-chHHHHHHHHHHHhccccCcCCcCCCCcceee--eecccc
Confidence 3456667789999988643 3444555 999999999999863 35999999877 455554
No 34
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=93.70 E-value=0.14 Score=57.93 Aligned_cols=54 Identities=17% Similarity=0.127 Sum_probs=43.3
Q ss_pred CCCCCCCCCcccc-cc------------CccccCCCCeeecHHHHHHHHhcCCCCCCCCCCCCCCCcc
Q 002017 883 IPDEFLDPIQYTL-MK------------DPVILPSSRITVDRPVIQRHLLSDATDPFNRSHLTADMLI 937 (981)
Q Consensus 883 iP~ef~cPI~~~l-M~------------DPVilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL~~~~l~ 937 (981)
.-++=.|.||.+= |. -|=.|||| |++-=+|++.|+.+.++||.||.|+--++=-
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCG-HilHl~CLknW~ERqQTCPICr~p~ifd~~~ 350 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCG-HILHLHCLKNWLERQQTCPICRRPVIFDQSS 350 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCccccccc-ceeeHHHHHHHHHhccCCCcccCccccccCC
Confidence 3455568887755 43 34789999 9999999999999999999999997765544
No 35
>PF04641 Rtf2: Rtf2 RING-finger
Probab=93.59 E-value=0.1 Score=57.66 Aligned_cols=55 Identities=16% Similarity=0.269 Sum_probs=44.9
Q ss_pred CCCCCCCCCCccccccC---cccc-CCCCeeecHHHHHHHHhcCCCCCCCCCCCCCCCccc
Q 002017 882 DIPDEFLDPIQYTLMKD---PVIL-PSSRITVDRPVIQRHLLSDATDPFNRSHLTADMLIP 938 (981)
Q Consensus 882 ~iP~ef~cPI~~~lM~D---PVil-p~g~~t~dR~~I~~~L~~~~~dP~tr~pL~~~~l~p 938 (981)
.-...|+||||+..|.. =|.+ ||| ++|...+|.+-= .+..||.|++|.+.+|+|+
T Consensus 109 ~~~~~~~CPvt~~~~~~~~~fv~l~~cG-~V~s~~alke~k-~~~~Cp~c~~~f~~~DiI~ 167 (260)
T PF04641_consen 109 NSEGRFICPVTGKEFNGKHKFVYLRPCG-CVFSEKALKELK-KSKKCPVCGKPFTEEDIIP 167 (260)
T ss_pred cCCceeECCCCCcccCCceeEEEEcCCC-CEeeHHHHHhhc-ccccccccCCccccCCEEE
Confidence 35678999999999943 3444 666 999999999982 3669999999999999884
No 36
>PF06416 DUF1076: Protein of unknown function (DUF1076); InterPro: IPR010489 This entry is represented by Bacteriophage 2851, Orf74 (EP2851_74). The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; PDB: 2KKX_A 2KKY_A.
Probab=93.15 E-value=0.041 Score=52.66 Aligned_cols=56 Identities=20% Similarity=0.368 Sum_probs=35.7
Q ss_pred CCCCCCCCCccccccCccccCCCC-----eeecHHHHHHHHhcCCCCCCCCCCCCCCCccc
Q 002017 883 IPDEFLDPIQYTLMKDPVILPSSR-----ITVDRPVIQRHLLSDATDPFNRSHLTADMLIP 938 (981)
Q Consensus 883 iP~ef~cPI~~~lM~DPVilp~g~-----~t~dR~~I~~~L~~~~~dP~tr~pL~~~~l~p 938 (981)
..+...||||.++=+.=|....+. .-||..++.+.+..+...|++|+|++.+|++.
T Consensus 37 ~ee~L~CPITL~iPe~GVFvkNs~~S~VC~LyD~~Al~~Lv~~~~~HPLSREpit~sMIv~ 97 (113)
T PF06416_consen 37 PEEHLTCPITLCIPENGVFVKNSSGSDVCSLYDKEALSRLVREGAPHPLSREPITPSMIVS 97 (113)
T ss_dssp -CHHH-BTTTTC--SCEEEEECTTTSSEEEEEEHHHHHHHHHCT---TTT-----TTTEE-
T ss_pred CHHHcCCCeEEeecCCceEEecCCCCccceecCHHHHHHHHHcCCCCCCccCCCChhhEec
Confidence 344468999999999998776442 35999999999999999999999999999764
No 37
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=92.87 E-value=0.1 Score=38.88 Aligned_cols=38 Identities=37% Similarity=0.527 Sum_probs=32.9
Q ss_pred CCCccccccCccccCCCCeeecHHHHHHHHh-cCCCCCCC
Q 002017 889 DPIQYTLMKDPVILPSSRITVDRPVIQRHLL-SDATDPFN 927 (981)
Q Consensus 889 cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~-~~~~dP~t 927 (981)
|||..+..++|+++|.| |.|....+..|+. ...+||+.
T Consensus 1 C~iC~~~~~~~~~~~C~-H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCG-HTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCC-ChHHHHHHHHHHHhCcCCCCCC
Confidence 68888889999999988 9999999999998 44578863
No 38
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=92.69 E-value=0.13 Score=46.07 Aligned_cols=39 Identities=23% Similarity=0.299 Sum_probs=31.6
Q ss_pred CCCccccccCc------------cc-cCCCCeeecHHHHHHHHhcCCCCCCCC
Q 002017 889 DPIQYTLMKDP------------VI-LPSSRITVDRPVIQRHLLSDATDPFNR 928 (981)
Q Consensus 889 cPI~~~lM~DP------------Vi-lp~g~~t~dR~~I~~~L~~~~~dP~tr 928 (981)
|+|+.+-+.|| |. .++| |.|-..+|.+||....+||++|
T Consensus 22 C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~-H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 22 CAICREPLEDPCPECQAPQDECPIVWGPCG-HIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp ETTTTSBTTSTTCCHHHCTTTS-EEEETTS-EEEEHHHHHHHHTTSSB-TTSS
T ss_pred ccccChhhhChhhhhcCCccccceEecccC-CCEEHHHHHHHHhcCCcCCCCC
Confidence 99999888544 23 3555 9999999999999999999987
No 39
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=92.30 E-value=0.075 Score=59.62 Aligned_cols=68 Identities=10% Similarity=0.060 Sum_probs=55.0
Q ss_pred hcCCCCCCCCCCCccccccCccccCCCCeeecHHHHHHHHhcCCCCCCCCCCCCCC----CccccHHHHHHH
Q 002017 879 ALGDIPDEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSDATDPFNRSHLTAD----MLIPNTELKAKI 946 (981)
Q Consensus 879 ~~~~iP~ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL~~~----~l~pn~~Lk~~I 946 (981)
.+.++-+...|+|+...|.|+-++..+-|||+|++|.+||....+||.|+..+-.. .+.++..|...+
T Consensus 8 k~~~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~pl~ni~~DrtlqdiV 79 (331)
T KOG2660|consen 8 KLTELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTHPLLNIRSDRTLQDIV 79 (331)
T ss_pred hhhhcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCccccccCCcchHHHHHH
Confidence 34567788899999999999999988889999999999999999999999666543 355555554443
No 40
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.72 E-value=0.099 Score=57.09 Aligned_cols=54 Identities=11% Similarity=0.038 Sum_probs=46.6
Q ss_pred CCC-CCCCCCCccccccCccccCCCCeeecHHHHHH-HHhcCC-CCCCCCCCCCCCCc
Q 002017 882 DIP-DEFLDPIQYTLMKDPVILPSSRITVDRPVIQR-HLLSDA-TDPFNRSHLTADML 936 (981)
Q Consensus 882 ~iP-~ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~-~L~~~~-~dP~tr~pL~~~~l 936 (981)
-+| .+|.|+|+.+.|.+|+.+||| |+|+=.+|.. |=.... .||.||+.....++
T Consensus 210 fip~~d~kC~lC~e~~~~ps~t~Cg-HlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 210 FIPLADYKCFLCLEEPEVPSCTPCG-HLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred cccccccceeeeecccCCccccccc-chhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 355 479999999999999999999 9999999999 877764 79999998776554
No 41
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.70 E-value=0.13 Score=59.94 Aligned_cols=72 Identities=21% Similarity=0.255 Sum_probs=60.6
Q ss_pred cCCCCCCCCCCCccccccCccccCCCCeeecHHHHHHHHhcCCCCCCCCCCCCC----CCc-cccHHHHHHHHHHHHH
Q 002017 880 LGDIPDEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSDATDPFNRSHLTA----DML-IPNTELKAKIEEFIKS 952 (981)
Q Consensus 880 ~~~iP~ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL~~----~~l-~pn~~Lk~~I~~~~~~ 952 (981)
-.+++.+|.|-++..++-+||.+|+| |++++.+|.+-+.....||.+|.++.. +.. .+|..+++.|..|+..
T Consensus 78 ~~~~~sef~c~vc~~~l~~pv~tpcg-hs~c~~Cl~r~ld~~~~cp~Cr~~l~e~~~~~~~~~~~r~~~~li~~F~~~ 154 (398)
T KOG4159|consen 78 PEEIRSEFECCVCSRALYPPVVTPCG-HSFCLECLDRSLDQETECPLCRDELVELPALEQALSLNRLLCKLITKFLEG 154 (398)
T ss_pred CccccchhhhhhhHhhcCCCcccccc-ccccHHHHHHHhccCCCCcccccccccchHHHHHHHHHHHHHHHHHHhhhh
Confidence 45679999999999999999999999 999999999987777899999988772 222 2488888888888754
No 42
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=91.09 E-value=0.17 Score=54.65 Aligned_cols=39 Identities=26% Similarity=0.311 Sum_probs=34.3
Q ss_pred CCCCCCCCCCccccccCccccCCCCeeecHHHHHHHHhcC
Q 002017 882 DIPDEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSD 921 (981)
Q Consensus 882 ~iP~ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~ 921 (981)
.|-+.=+|.|+.....|||+.|+| +.|||.+|.++++..
T Consensus 39 siK~FdcCsLtLqPc~dPvit~~G-ylfdrEaILe~ilaq 77 (303)
T KOG3039|consen 39 SIKPFDCCSLTLQPCRDPVITPDG-YLFDREAILEYILAQ 77 (303)
T ss_pred ccCCcceeeeecccccCCccCCCC-eeeeHHHHHHHHHHH
Confidence 355555999999999999999999 999999999988754
No 43
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.46 E-value=0.11 Score=63.14 Aligned_cols=49 Identities=18% Similarity=0.156 Sum_probs=43.5
Q ss_pred CCCCCCCCCccccccC-----ccccCCCCeeecHHHHHHHHhcCCCCCCCCCCCC
Q 002017 883 IPDEFLDPIQYTLMKD-----PVILPSSRITVDRPVIQRHLLSDATDPFNRSHLT 932 (981)
Q Consensus 883 iP~ef~cPI~~~lM~D-----PVilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL~ 932 (981)
...+=.|+||.+.|.. |=.+||| |++-.+++.+|+...++||+||..+-
T Consensus 288 ~~~~~~C~IC~e~l~~~~~~~~~rL~C~-Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 288 ALSDELCIICLEELHSGHNITPKRLPCG-HIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred hhcCCeeeeechhhccccccccceeecc-cchHHHHHHHHHHHhCcCCcchhhhh
Confidence 4446689999999999 7899999 99999999999999999999999433
No 44
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.34 E-value=0.048 Score=61.53 Aligned_cols=71 Identities=20% Similarity=0.150 Sum_probs=56.7
Q ss_pred hhhcCCCCCCCCCCCccccccCccccCCCCeeecHHHHHHHHhcCC-CCCCCCCCCCC-CCccccHHHHHHHH
Q 002017 877 EAALGDIPDEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSDA-TDPFNRSHLTA-DMLIPNTELKAKIE 947 (981)
Q Consensus 877 e~~~~~iP~ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~~-~dP~tr~pL~~-~~l~pn~~Lk~~I~ 947 (981)
+.++..+--+|.||||..|.+--.+++-|.|-|++.||..-+++.+ .||.||+.|.. ..|.+++..-+.|.
T Consensus 34 ~~~l~~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~Dp~fdaLis 106 (381)
T KOG0311|consen 34 MVDLAMFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRIDPNFDALIS 106 (381)
T ss_pred eecHHHhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCCCccHHHHHH
Confidence 3455667778999999999999999998889999999999988865 99999998764 45666554444443
No 45
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=90.21 E-value=0.14 Score=57.28 Aligned_cols=55 Identities=22% Similarity=0.263 Sum_probs=48.5
Q ss_pred CCCCCCCCCccccccCccccCCCCeeecHHHHHHHHhcCCCCCCCCCCCCCCCcc
Q 002017 883 IPDEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSDATDPFNRSHLTADMLI 937 (981)
Q Consensus 883 iP~ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL~~~~l~ 937 (981)
.|+.=.||+|..--.+|-++..||.++|=.||..|+.+.++||+|+-|...++++
T Consensus 297 ~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v~~l~ 351 (357)
T KOG0826|consen 297 PPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASVDHLI 351 (357)
T ss_pred CCccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCcchHHHHH
Confidence 4566689999988888888887779999999999999999999999999877654
No 46
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.65 E-value=0.26 Score=58.23 Aligned_cols=71 Identities=20% Similarity=0.173 Sum_probs=55.8
Q ss_pred CCCCCCCCCccccccCccccCCCCeeecHHHHHHHHhcC-----CCCCCCCCCCCCCCccccH----HHHHHHHHHHHHc
Q 002017 883 IPDEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSD-----ATDPFNRSHLTADMLIPNT----ELKAKIEEFIKSQ 953 (981)
Q Consensus 883 iP~ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~-----~~dP~tr~pL~~~~l~pn~----~Lk~~I~~~~~~~ 953 (981)
++.+.-||||..--.=||++-|| |+||=.||.+++... ..||.||.-++..+|.|-. .-++.++.....+
T Consensus 183 ~~t~~~CPICL~~~~~p~~t~CG-HiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e~~qkke~l~~~~~~n 261 (513)
T KOG2164|consen 183 GSTDMQCPICLEPPSVPVRTNCG-HIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIEDDQKKEELKLHQDPN 261 (513)
T ss_pred cCcCCcCCcccCCCCcccccccC-ceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeeccccccHHHHHHhccc
Confidence 44478899999999999999988 999999999966543 5999999999998887643 3444455555555
Q ss_pred C
Q 002017 954 G 954 (981)
Q Consensus 954 ~ 954 (981)
+
T Consensus 262 g 262 (513)
T KOG2164|consen 262 G 262 (513)
T ss_pred C
Confidence 4
No 47
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=87.42 E-value=0.3 Score=60.15 Aligned_cols=57 Identities=14% Similarity=0.060 Sum_probs=50.0
Q ss_pred CCCCCCCCCCCccccccCccccCCCCeeecHHHHHHHHhcC-CCCCCCCCCCCCCCccc
Q 002017 881 GDIPDEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSD-ATDPFNRSHLTADMLIP 938 (981)
Q Consensus 881 ~~iP~ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~-~~dP~tr~pL~~~~l~p 938 (981)
.+.-.-..||.|.+=.+|-||+.|| |.||-.||..-+... .+||-|+.+....|+.|
T Consensus 638 k~yK~~LkCs~Cn~R~Kd~vI~kC~-H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~ 695 (698)
T KOG0978|consen 638 KEYKELLKCSVCNTRWKDAVITKCG-HVFCEECVQTRYETRQRKCPKCNAAFGANDVHR 695 (698)
T ss_pred HHHHhceeCCCccCchhhHHHHhcc-hHHHHHHHHHHHHHhcCCCCCCCCCCCcccccc
Confidence 3455567899999999999999999 999999999977764 69999999999988876
No 48
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=87.19 E-value=0.8 Score=49.85 Aligned_cols=123 Identities=15% Similarity=0.112 Sum_probs=75.9
Q ss_pred hhHhhhhc--CCCCcHHHHHHHHHHHHhhcC--ChHHHHHHHHHHHHHHHHHHHHH-hHhhh----cCC-CCCCCCCCCc
Q 002017 823 FPAAISSD--GRSYNEQLFSAAADVLWKIGE--DGRIIQEFIELGAKAKAAASEAM-DAEAA----LGD-IPDEFLDPIQ 892 (981)
Q Consensus 823 F~~ava~D--~Rsy~~~lf~~a~~il~~~~~--~~~~i~~~~~l~~~v~~~~~~~~-~~e~~----~~~-iP~ef~cPI~ 892 (981)
.-+-|+.+ ||-|+.+-.-. .+|.+..+ +.+.|..+..+++ ++-... .-+.| +.| --..|+|||+
T Consensus 44 L~~Piv~c~lGrLYNKe~vi~--~LL~Ks~~pksaShIKslKDvve----Lklt~n~~~~gD~~~~~~D~~~a~fiCPvt 117 (293)
T KOG3113|consen 44 LRRPIVACGLGRLYNKESVIE--FLLDKSSLPKSASHIKSLKDVVE----LKLTLNPAFEGDKGNKHDDTQRARFICPVT 117 (293)
T ss_pred cccceeeehhhccccHHHHHH--HHHhcccCCcchhhhcchhhHhh----eecccCcccccccCccccccccceeecccc
Confidence 44545444 68888875322 25666555 5666655444442 111100 01111 111 2456999999
Q ss_pred cccccCc----cccCCCCeeecHHHHHHHHhcCCCCCCCCCCCCCCCccc---cH----HHHHHHHHHHHHcC
Q 002017 893 YTLMKDP----VILPSSRITVDRPVIQRHLLSDATDPFNRSHLTADMLIP---NT----ELKAKIEEFIKSQG 954 (981)
Q Consensus 893 ~~lM~DP----Vilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL~~~~l~p---n~----~Lk~~I~~~~~~~~ 954 (981)
+-.|.+- ++-+|| ++|.-+++.+. ...+||.|+++...+|+|+ |. -||.+.++-..+.+
T Consensus 118 gleMng~~~F~~l~~CG-cV~SerAlKei--kas~C~~C~a~y~~~dvIvlNg~~E~~dllk~rme~~kak~k 187 (293)
T KOG3113|consen 118 GLEMNGKYRFCALRCCG-CVFSERALKEI--KASVCHVCGAAYQEDDVIVLNGTEEDVDLLKTRMEERKAKAK 187 (293)
T ss_pred cceecceEEEEEEeccc-eeccHHHHHHh--hhccccccCCcccccCeEeeCCCHHHHHHHHHHHHHHHHHHH
Confidence 9999775 455666 99999999887 3569999999999999874 32 35666666554433
No 49
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=84.96 E-value=0.69 Score=37.15 Aligned_cols=40 Identities=10% Similarity=0.105 Sum_probs=32.0
Q ss_pred CCCccccc---cCccccCCCCeeecHHHHHHHHhcCCCCCCCCC
Q 002017 889 DPIQYTLM---KDPVILPSSRITVDRPVIQRHLLSDATDPFNRS 929 (981)
Q Consensus 889 cPI~~~lM---~DPVilp~g~~t~dR~~I~~~L~~~~~dP~tr~ 929 (981)
||+....+ .-|+++++| |+|..+.|.++......||+.|+
T Consensus 2 C~~C~~~~~~~~~~~l~~Cg-H~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 2 CNICFEKYSEERRPRLTSCG-HIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CcCcCccccCCCCeEEcccC-CHHHHHHHHhhcCCCCCCcCCCC
Confidence 66666666 357788888 99999999999844569999875
No 50
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=80.05 E-value=1.6 Score=36.48 Aligned_cols=44 Identities=11% Similarity=0.112 Sum_probs=28.9
Q ss_pred CCCCCccccccCccccCCCCee--ecHHHHHHHHhcCC--CCCCCCCC
Q 002017 887 FLDPIQYTLMKDPVILPSSRIT--VDRPVIQRHLLSDA--TDPFNRSH 930 (981)
Q Consensus 887 f~cPI~~~lM~DPVilp~g~~t--~dR~~I~~~L~~~~--~dP~tr~p 930 (981)
+.|||+++.|+-||....+.|. ||-.+....-.+.+ .||++++|
T Consensus 3 L~CPls~~~i~~P~Rg~~C~H~~CFDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIPVRGKNCKHLQCFDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSEEEETT--SS--EEHHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeCccCCcCcccceECHHHHHHHhhccCCeECcCCcCc
Confidence 5799999999999998877665 99877777666554 79999875
No 51
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.03 E-value=1.3 Score=51.29 Aligned_cols=43 Identities=16% Similarity=0.340 Sum_probs=36.4
Q ss_pred CCCCCccccccC---ccccCCCCeeecHHHHHHHHhcCC---CCCCCCCC
Q 002017 887 FLDPIQYTLMKD---PVILPSSRITVDRPVIQRHLLSDA---TDPFNRSH 930 (981)
Q Consensus 887 f~cPI~~~lM~D---PVilp~g~~t~dR~~I~~~L~~~~---~dP~tr~p 930 (981)
|.|||..+-=.| |+.|+|| |++.|.+|.+--.++. +||+|-..
T Consensus 335 F~CPVlKeqtsdeNPPm~L~CG-HVISkdAlnrLS~ng~~sfKCPYCP~e 383 (394)
T KOG2817|consen 335 FICPVLKEQTSDENPPMMLICG-HVISKDALNRLSKNGSQSFKCPYCPVE 383 (394)
T ss_pred eecccchhhccCCCCCeeeecc-ceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence 799999988765 8899999 9999999999887763 79987643
No 52
>PF04641 Rtf2: Rtf2 RING-finger
Probab=77.64 E-value=2.6 Score=46.67 Aligned_cols=39 Identities=13% Similarity=0.129 Sum_probs=33.3
Q ss_pred CCCCCCCccccccCccccCCCCeeecHHHHHHHHhcCCC
Q 002017 885 DEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSDAT 923 (981)
Q Consensus 885 ~ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~~~ 923 (981)
..+.|+|+++.+++||+...-|+.|++.+|..||+....
T Consensus 33 ~w~~CaLS~~pL~~PiV~d~~G~LynKeaile~Ll~~~~ 71 (260)
T PF04641_consen 33 RWTHCALSQQPLEDPIVSDRLGRLYNKEAILEFLLDKKK 71 (260)
T ss_pred CcCcccCcCCccCCCeeeCCCCeeEcHHHHHHHHHhcCc
Confidence 356999999999999976544499999999999998753
No 53
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=76.51 E-value=1.3 Score=51.12 Aligned_cols=37 Identities=22% Similarity=0.430 Sum_probs=32.9
Q ss_pred CCCCCCCCccccccCccccCCCCeeecHHHHHHHHhcC
Q 002017 884 PDEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSD 921 (981)
Q Consensus 884 P~ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~ 921 (981)
.+|+.|||+...++||+||||| |..+|.+-..-+-+.
T Consensus 2 eeelkc~vc~~f~~epiil~c~-h~lc~~ca~~~~~~t 38 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREPIILPCS-HNLCQACARNILVQT 38 (699)
T ss_pred cccccCceehhhccCceEeecc-cHHHHHHHHhhcccC
Confidence 4688999999999999999999 999999988766654
No 54
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.12 E-value=2.4 Score=47.36 Aligned_cols=44 Identities=18% Similarity=0.233 Sum_probs=33.3
Q ss_pred CCCCccccc--cCc-cccCCCCeeecHHHHHHHHhcC-CCCCCCCCCCC
Q 002017 888 LDPIQYTLM--KDP-VILPSSRITVDRPVIQRHLLSD-ATDPFNRSHLT 932 (981)
Q Consensus 888 ~cPI~~~lM--~DP-Vilp~g~~t~dR~~I~~~L~~~-~~dP~tr~pL~ 932 (981)
-|.||..=+ .|- |++||. |.|-++||.+|+... ..||.||.++.
T Consensus 325 eCaICms~fiK~d~~~vlPC~-H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 325 ECAICMSNFIKNDRLRVLPCD-HRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred eEEEEhhhhcccceEEEeccC-ceechhHHHHHHhhhcccCCccCCCCC
Confidence 366664322 233 468877 999999999999965 59999999875
No 55
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=72.93 E-value=3.3 Score=38.47 Aligned_cols=46 Identities=15% Similarity=0.091 Sum_probs=34.5
Q ss_pred CCCCccccccC-ccccCCCCeeecHHHHHHHHhcC---CCCCCCCCCCCC
Q 002017 888 LDPIQYTLMKD-PVILPSSRITVDRPVIQRHLLSD---ATDPFNRSHLTA 933 (981)
Q Consensus 888 ~cPI~~~lM~D-PVilp~g~~t~dR~~I~~~L~~~---~~dP~tr~pL~~ 933 (981)
.||.+.-.=.| |++.-..+|.|-..+|.+||.+. ++||.+|++...
T Consensus 34 ~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 34 CCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 35544444344 77766666999999999999973 799999998654
No 56
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=70.11 E-value=2.7 Score=49.91 Aligned_cols=54 Identities=19% Similarity=0.092 Sum_probs=46.5
Q ss_pred CCCCCCCccccccCccccCCCCeeecHHHHHHHHhc----C-CCCCCCCCCCCCCCcccc
Q 002017 885 DEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLS----D-ATDPFNRSHLTADMLIPN 939 (981)
Q Consensus 885 ~ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~----~-~~dP~tr~pL~~~~l~pn 939 (981)
.+-.|-|+.+.-+||+...|- |+|||-||.++..+ . -+||.|-.+|+++.-.|.
T Consensus 535 ~~~~C~lc~d~aed~i~s~Ch-H~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~a 593 (791)
T KOG1002|consen 535 GEVECGLCHDPAEDYIESSCH-HKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEPA 593 (791)
T ss_pred CceeecccCChhhhhHhhhhh-HHHHHHHHHHHHHhhhcccCCCCccccccccccccchh
Confidence 357899999999999999988 99999999888776 2 499999999999865553
No 57
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.73 E-value=2.8 Score=46.92 Aligned_cols=46 Identities=20% Similarity=0.011 Sum_probs=41.3
Q ss_pred CCCCccccccCccccCCCCeeecHHHHHHHHhcC-CCCCCCCCCCCCC
Q 002017 888 LDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSD-ATDPFNRSHLTAD 934 (981)
Q Consensus 888 ~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~-~~dP~tr~pL~~~ 934 (981)
.|||+..-|.-||.++++ |.|+--+|+--...+ .+||++|.|++.+
T Consensus 9 eC~IC~nt~n~Pv~l~C~-HkFCyiCiKGsy~ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 9 ECLICYNTGNCPVNLYCF-HKFCYICIKGSYKNDKKTCAVCRFPIDST 55 (324)
T ss_pred cceeeeccCCcCcccccc-chhhhhhhcchhhcCCCCCceecCCCCcc
Confidence 499999999999999988 999999999966666 5899999999864
No 58
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=66.54 E-value=2.7 Score=47.01 Aligned_cols=59 Identities=10% Similarity=-0.017 Sum_probs=48.5
Q ss_pred CCCCCccccccCccccCCCCeeecHHHHHHHHhcCCCCCCCCCCCCCCCccccHHHHHHHH
Q 002017 887 FLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSDATDPFNRSHLTADMLIPNTELKAKIE 947 (981)
Q Consensus 887 f~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL~~~~l~pn~~Lk~~I~ 947 (981)
|-|-|+..-+.+||++.|| |+|+..+-.+++..+..|++|.+...- -.-+..+|.....
T Consensus 242 f~c~icr~~f~~pVvt~c~-h~fc~~ca~~~~qk~~~c~vC~~~t~g-~~~~akeL~~~L~ 300 (313)
T KOG1813|consen 242 FKCFICRKYFYRPVVTKCG-HYFCEVCALKPYQKGEKCYVCSQQTHG-SFNVAKELLVSLK 300 (313)
T ss_pred ccccccccccccchhhcCC-ceeehhhhccccccCCcceeccccccc-ccchHHHHHHHHH
Confidence 6799999999999999999 999999999999999999999987543 3445555554443
No 59
>KOG0396 consensus Uncharacterized conserved protein [Function unknown]
Probab=63.53 E-value=3.4 Score=47.47 Aligned_cols=49 Identities=20% Similarity=0.309 Sum_probs=41.6
Q ss_pred CCCCCccccccC---ccccCCCCeeecHHHHHHHHhcCC-CCCCCCCCCCCCCc
Q 002017 887 FLDPIQYTLMKD---PVILPSSRITVDRPVIQRHLLSDA-TDPFNRSHLTADML 936 (981)
Q Consensus 887 f~cPI~~~lM~D---PVilp~g~~t~dR~~I~~~L~~~~-~dP~tr~pL~~~~l 936 (981)
..|-|++++|.| |++.|.| ++|--.+|++|=..++ .||.++..+...++
T Consensus 331 Lvc~isge~md~~N~P~lfpnG-~Vyg~~~L~s~~~~~~i~dP~~~k~f~~~~l 383 (389)
T KOG0396|consen 331 LVCSISGELMDDDNPPHLFPNG-YVYGTKALESLNEDDGIGDPRTKKVFRYSEL 383 (389)
T ss_pred HHhhccccccCCCCCcccccCc-eeehhHHHHhhcccCCCcCCCCCccccHHHH
Confidence 458899999976 9999999 9999999999988885 99999887765443
No 60
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=62.92 E-value=5.1 Score=45.11 Aligned_cols=43 Identities=19% Similarity=0.331 Sum_probs=36.0
Q ss_pred CCCCCccccccC---ccccCCCCeeecHHHHHHHHhcC---CCCCCCCCC
Q 002017 887 FLDPIQYTLMKD---PVILPSSRITVDRPVIQRHLLSD---ATDPFNRSH 930 (981)
Q Consensus 887 f~cPI~~~lM~D---PVilp~g~~t~dR~~I~~~L~~~---~~dP~tr~p 930 (981)
|+||...++-.| ||++.|| |++-+.++.+.-.++ -.||+|-.-
T Consensus 337 FiCPVlKe~~t~ENpP~ml~Cg-HVIskeal~~LS~nG~~~FKCPYCP~~ 385 (396)
T COG5109 337 FICPVLKELCTDENPPVMLECG-HVISKEALSVLSQNGVLSFKCPYCPEM 385 (396)
T ss_pred eeccccHhhhcccCCCeeeecc-ceeeHHHHHHHhhcCcEEeeCCCCCcc
Confidence 899999988866 8999999 999999998876665 388887643
No 61
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=56.95 E-value=7.1 Score=45.03 Aligned_cols=45 Identities=18% Similarity=0.096 Sum_probs=38.6
Q ss_pred CCCCCccccccC--c-cccCCCCeeecHHHHHHHHhcCC-CCCCCCCCCC
Q 002017 887 FLDPIQYTLMKD--P-VILPSSRITVDRPVIQRHLLSDA-TDPFNRSHLT 932 (981)
Q Consensus 887 f~cPI~~~lM~D--P-Vilp~g~~t~dR~~I~~~L~~~~-~dP~tr~pL~ 932 (981)
+.|.||.+-+++ = ++|||+ |.|-..||..||.... .||.|++...
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~-H~FH~~CIDpWL~~~r~~CPvCK~di~ 278 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCS-HKFHVNCIDPWLTQTRTFCPVCKRDIR 278 (348)
T ss_pred ceEEEeecccccCCeeeEecCC-CchhhccchhhHhhcCccCCCCCCcCC
Confidence 799999998864 3 489999 9999999999999986 5999997543
No 62
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=52.01 E-value=14 Score=40.21 Aligned_cols=67 Identities=15% Similarity=0.125 Sum_probs=51.6
Q ss_pred CCCCCccccccCccccCCCCeeecHHHHHHHHhcC--CCCCC--CCCCCCCCCccccH--HHHHHHHHHHHHc
Q 002017 887 FLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSD--ATDPF--NRSHLTADMLIPNT--ELKAKIEEFIKSQ 953 (981)
Q Consensus 887 f~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~--~~dP~--tr~pL~~~~l~pn~--~Lk~~I~~~~~~~ 953 (981)
-.||||.....-|.+...++|.|||..|...|... ..||. |-+.+..+.++-++ ++|.+|..-+...
T Consensus 190 nrCpitl~p~~~pils~kcnh~~e~D~I~~~lq~~~trvcp~~~Csq~~~~~~~v~d~IlE~R~~~~~ir~sq 262 (275)
T COG5627 190 NRCPITLNPDFYPILSSKCNHKPEMDLINKKLQVECTRVCPRLICSQKEVVDPYVCDHILEKREAMKYIRNSQ 262 (275)
T ss_pred ccCCcccCcchhHHHHhhhcccccHHHHHHHhcCCceeecchhhcchheeccchhhhHHHHHHHHHHHHHhhh
Confidence 46999999999999988777999999999999854 57887 55777777777655 5555565544443
No 63
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=50.43 E-value=6.1 Score=45.70 Aligned_cols=53 Identities=25% Similarity=0.208 Sum_probs=44.6
Q ss_pred hcCCCCCCC-CCCCccccccCccccCCCCeeecHHHHHHHHhcC--CCCCCCCCCCC
Q 002017 879 ALGDIPDEF-LDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSD--ATDPFNRSHLT 932 (981)
Q Consensus 879 ~~~~iP~ef-~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~--~~dP~tr~pL~ 932 (981)
.+.+.-..| +|-||.+==+|=-|-||| |-.+-+|+..|-.++ ++|||||-.++
T Consensus 361 LYceMgsTFeLCKICaendKdvkIEPCG-HLlCt~CLa~WQ~sd~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 361 LYCEMGSTFELCKICAENDKDVKIEPCG-HLLCTSCLAAWQDSDEGQTCPFCRCEIK 416 (563)
T ss_pred HHHHccchHHHHHHhhccCCCccccccc-chHHHHHHHhhcccCCCCCCCceeeEec
Confidence 455566666 899999999998899999 999999999999876 49999995554
No 64
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=45.18 E-value=24 Score=45.06 Aligned_cols=45 Identities=18% Similarity=0.265 Sum_probs=36.7
Q ss_pred CCCCcccccc-----Ccc-ccCCCCeeecHHHHHHHHhcC--CCCCCCCCCCC
Q 002017 888 LDPIQYTLMK-----DPV-ILPSSRITVDRPVIQRHLLSD--ATDPFNRSHLT 932 (981)
Q Consensus 888 ~cPI~~~lM~-----DPV-ilp~g~~t~dR~~I~~~L~~~--~~dP~tr~pL~ 932 (981)
.||||+.+.. =|- ..|+|++-|--+|+-+|+.+. .+||.||..+|
T Consensus 1471 ECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1471 ECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred hhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 3999998874 344 457788999999999999996 49999997665
No 65
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=44.39 E-value=12 Score=39.60 Aligned_cols=44 Identities=14% Similarity=0.011 Sum_probs=39.8
Q ss_pred CCCCCccccccCccccCCCCeeecHHHHHHHHhcCCCCCCCCCCC
Q 002017 887 FLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSDATDPFNRSHL 931 (981)
Q Consensus 887 f~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL 931 (981)
|+|-|+..=++.||++.|| |.|+-.+-.+-.....+|-.|+...
T Consensus 197 F~C~iCKkdy~spvvt~CG-H~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 197 FLCGICKKDYESPVVTECG-HSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred eeehhchhhccchhhhhcc-hhHHHHHHHHHhccCCcceecchhh
Confidence 9999999999999999999 9999999888888888999888653
No 66
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.23 E-value=17 Score=42.03 Aligned_cols=49 Identities=18% Similarity=0.181 Sum_probs=41.4
Q ss_pred CCCCCCCCccccccCcc-------ccCCCCeeecHHHHHHHH--hc-----CCCCCCCCCCCC
Q 002017 884 PDEFLDPIQYTLMKDPV-------ILPSSRITVDRPVIQRHL--LS-----DATDPFNRSHLT 932 (981)
Q Consensus 884 P~ef~cPI~~~lM~DPV-------ilp~g~~t~dR~~I~~~L--~~-----~~~dP~tr~pL~ 932 (981)
-.+..|-|+.+.-.+++ |+|.+.|+|+-.+|..|= .. ...|||||.+.+
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 45788999998888888 788888999999999998 44 368999998766
No 67
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=39.77 E-value=17 Score=33.34 Aligned_cols=35 Identities=20% Similarity=0.275 Sum_probs=28.5
Q ss_pred ccccCCCCeeecHHHHHHHHhcCCCCCCCCCCCCC
Q 002017 899 PVILPSSRITVDRPVIQRHLLSDATDPFNRSHLTA 933 (981)
Q Consensus 899 PVilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL~~ 933 (981)
||.--.++|.|--.+|.+||.+.+.||+.|++-..
T Consensus 48 ~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~ 82 (88)
T COG5194 48 PVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVL 82 (88)
T ss_pred eEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEE
Confidence 44444457999999999999999999999997543
No 68
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=37.61 E-value=17 Score=43.25 Aligned_cols=33 Identities=15% Similarity=0.190 Sum_probs=28.4
Q ss_pred ccccCCCCeeecHHHHHHHHhcCC-CCCCCCCCCC
Q 002017 899 PVILPSSRITVDRPVIQRHLLSDA-TDPFNRSHLT 932 (981)
Q Consensus 899 PVilp~g~~t~dR~~I~~~L~~~~-~dP~tr~pL~ 932 (981)
=.++||- |+|-|+|+++|...-. .||.||.||.
T Consensus 601 Ym~tPC~-HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 601 YMLTPCH-HIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred ccccchH-HHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 4467877 9999999999999655 9999999986
No 69
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=32.85 E-value=25 Score=44.34 Aligned_cols=122 Identities=14% Similarity=0.067 Sum_probs=75.0
Q ss_pred HHHHHHHHhhccCCCCchhhHhhhhcCCCCcHHHHHHHHHHHHhhcC-ChHHHHHH-----HHHHHHHHHHHHHHHhHhh
Q 002017 805 KQIVCIYVHLARGDTQNLFPAAISSDGRSYNEQLFSAAADVLWKIGE-DGRIIQEF-----IELGAKAKAAASEAMDAEA 878 (981)
Q Consensus 805 ~~i~~iYlnL~~~~~~~~F~~ava~D~Rsy~~~lf~~a~~il~~~~~-~~~~i~~~-----~~l~~~v~~~~~~~~~~e~ 878 (981)
....+.|-++.... ...|-..+..+...++...+....-+++..-- +...+... ...+..+... . -...
T Consensus 377 ~~e~~~y~~l~~~~-~~~~~~~~~~~~~~~~Y~~~l~~lLrlrq~c~h~~lv~~~~~~~~~~~~~~~~~~~--~--i~~l 451 (674)
T KOG1001|consen 377 KSERSAYKALKANS-RNQFSNYANEGTVSSTYAFFLKNLLRLRQACDHSLLVMYEMDSLGDSGSAAALIIR--L--IVDL 451 (674)
T ss_pred HhHHHHHHHHhhhh-hhHHHHHhhhchhhhhHHHHHHHHHHHHHHccchHhhhhhhhccccccccchHHHH--H--HHHH
Confidence 45566777776533 23577777777777777777777655554332 22222211 1111111110 0 0011
Q ss_pred hcCCCCCCCCCCCccccccCccccCCCCeeecHHHHHHHHhcC--CCCCCCCCCCCCCCccc
Q 002017 879 ALGDIPDEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSD--ATDPFNRSHLTADMLIP 938 (981)
Q Consensus 879 ~~~~iP~ef~cPI~~~lM~DPVilp~g~~t~dR~~I~~~L~~~--~~dP~tr~pL~~~~l~p 938 (981)
. .. +.|+|+.+ -.+||+++|| |.++++++..-+... ..||.||..+....+..
T Consensus 452 ~-~~----~~c~ic~~-~~~~~it~c~-h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s 506 (674)
T KOG1001|consen 452 S-VS----HWCHICCD-LDSFFITRCG-HDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLS 506 (674)
T ss_pred h-hc----cccccccc-cccceeeccc-chHHHHHHHhccccccCCCCcHHHHHHHHHHHhh
Confidence 1 11 88999999 9999999999 999999999977664 47999998777655543
No 70
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=28.84 E-value=35 Score=40.01 Aligned_cols=59 Identities=15% Similarity=0.130 Sum_probs=48.1
Q ss_pred CCCCCccccccCcc-----ccCCCCeeecHHHHHHHHhcC--CCCCCCCCCCCCCCccccHHHHHHH
Q 002017 887 FLDPIQYTLMKDPV-----ILPSSRITVDRPVIQRHLLSD--ATDPFNRSHLTADMLIPNTELKAKI 946 (981)
Q Consensus 887 f~cPI~~~lM~DPV-----ilp~g~~t~dR~~I~~~L~~~--~~dP~tr~pL~~~~l~pn~~Lk~~I 946 (981)
-.|||+.+-..-|+ ++.|| |-|--++|++||-+. ..||.+...-+..++.|-..||..-
T Consensus 5 ~tcpiclds~~~~g~hr~vsl~cg-hlFgs~cie~wl~k~~~~~cp~c~~katkr~i~~e~alR~qa 70 (463)
T KOG1645|consen 5 TTCPICLDSYTTAGNHRIVSLQCG-HLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIRPEYALRVQA 70 (463)
T ss_pred ccCceeeeeeeecCceEEeeeccc-ccccHHHHHHHHhhhhhhhCcccCChhHHHHHHHHHHHHHHH
Confidence 47999998888775 44555 999999999999753 4999999998888898888777544
No 71
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=28.55 E-value=11 Score=33.55 Aligned_cols=49 Identities=22% Similarity=0.269 Sum_probs=25.0
Q ss_pred CCCCCCcccccc-C---cccc---CCCCeeecHHHHHHHHhcC-----------CCCCCCCCCCCCC
Q 002017 886 EFLDPIQYTLMK-D---PVIL---PSSRITVDRPVIQRHLLSD-----------ATDPFNRSHLTAD 934 (981)
Q Consensus 886 ef~cPI~~~lM~-D---PVil---p~g~~t~dR~~I~~~L~~~-----------~~dP~tr~pL~~~ 934 (981)
+.-|+|++.... + |++. +..+.+|=..++.+||++. |+||+++++++..
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~ 68 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS 68 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence 346899987654 2 5543 2556899999999999961 4699999988753
No 72
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=28.44 E-value=12 Score=41.37 Aligned_cols=54 Identities=9% Similarity=0.217 Sum_probs=39.7
Q ss_pred cCccccCCCCeeecHHHHHHHHhcC--CCCCCCCCCCCCCCccccH-----HHHHHHHHHHH
Q 002017 897 KDPVILPSSRITVDRPVIQRHLLSD--ATDPFNRSHLTADMLIPNT-----ELKAKIEEFIK 951 (981)
Q Consensus 897 ~DPVilp~g~~t~dR~~I~~~L~~~--~~dP~tr~pL~~~~l~pn~-----~Lk~~I~~~~~ 951 (981)
++--.|.|+ |+|-.-||+-|-.-+ ++||+|.+......+..|+ -+--++-+|++
T Consensus 245 enty~LsCn-HvFHEfCIrGWcivGKkqtCPYCKekVdl~rmfsnpWekph~~yg~LldwlR 305 (328)
T KOG1734|consen 245 ENTYKLSCN-HVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMFSNPWEKPHVWYGQLLDWLR 305 (328)
T ss_pred hhheeeecc-cchHHHhhhhheeecCCCCCchHHHHhhHhhhccCccccchhHHHHHHHHHH
Confidence 344467777 999999999997754 7999999998877776664 34445555554
No 73
>PF09454 Vps23_core: Vps23 core domain; InterPro: IPR017916 The Endosomal Sorting Complex Required for Transport (ESCRT) complexes form the machinery driving protein sorting from endosomes to lysosomes. ESCRT complexes are central to receptor down-regulation, lysosome biogenesis, and budding of HIV. Yeast ESCRT-I consists of three protein subunits, VPS23, VPS28, and VPS37. In humans, ESCRT-I comprises TSG101, VPS28, and one of four potential human VPS37 homologues. The main role of ESCRT-I is to recognise ubiquitinated cargo via the UEV domain of the VPS23/TSG101 subunit. The assembly of the ESCRT-I complex is directed by the C-terminal steadiness box (SB) of VPS23, the N-terminal half of VPS28, and the C-terminal half of VPS37. The structure is primarily composed of three long, parallel helical hairpins, each corresponding to a different subunit. The additional domains and motifs extending beyond the core serve as gripping tools for ESCRT-I critical functions [, ]. This entry represents the Steadiness box domain.; PDB: 2CAZ_A 2F66_D 2F6M_A 2P22_A.
Probab=27.60 E-value=1.9e+02 Score=25.69 Aligned_cols=30 Identities=30% Similarity=0.597 Sum_probs=21.4
Q ss_pred ChhHHHHHHHHHHHhcchhHHHHHHHHHhhhHHHHHHHHHH
Q 002017 656 VPSHRNAWRQIAKEEEKGVYLNFLNFLINDSIYLLDESLNK 696 (981)
Q Consensus 656 ~~~~r~~l~~~a~~~~~~~FvrFvn~liND~t~lLDE~L~~ 696 (981)
.|.|++-+.-.|++ .-|.|++|.|+++|.+
T Consensus 8 ~~l~~Ql~el~Aed-----------~AieDtiy~L~~al~~ 37 (65)
T PF09454_consen 8 DPLSNQLYELVAED-----------HAIEDTIYYLDRALQR 37 (65)
T ss_dssp SHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHT
T ss_pred CHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHc
Confidence 45566655555544 3689999999999964
No 74
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=26.45 E-value=42 Score=33.84 Aligned_cols=46 Identities=17% Similarity=0.160 Sum_probs=35.3
Q ss_pred CCCCCCccccccC--cc-ccCCCCe-----eecHHHHHHHHhcCCCCCCCCCCC
Q 002017 886 EFLDPIQYTLMKD--PV-ILPSSRI-----TVDRPVIQRHLLSDATDPFNRSHL 931 (981)
Q Consensus 886 ef~cPI~~~lM~D--PV-ilp~g~~-----t~dR~~I~~~L~~~~~dP~tr~pL 931 (981)
...|.|+.+-..+ =| .+++||. .+..+++.+|=.....|||+|..-
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~rDPfnR~I~ 79 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRERNRDPFNRNIK 79 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhccCCCcccceE
Confidence 4569999987776 55 4566642 488999999977778999999753
No 75
>PF11672 DUF3268: Protein of unknown function (DUF3268); InterPro: IPR021686 This entry is represented by Listeria phage P100, Gp150. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=26.43 E-value=1e+02 Score=29.73 Aligned_cols=41 Identities=15% Similarity=0.173 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHHHHHhc-CchhHHHHHHHHHHHHHhchhhc
Q 002017 313 VMRGLYKDLGDVLLALLK-NTDTRENVLEYLAEVINRNSSRA 353 (981)
Q Consensus 313 ~l~~~~~~L~~I~~~Llr-~~~sRe~vL~w~a~~l~~N~~R~ 353 (981)
.|...+...|..|+.|-+ +.-+|.+.-.|+|..+.++....
T Consensus 58 ~lR~~R~~ah~~fd~lw~~~~~~R~~aY~wLA~~lgi~~~~c 99 (102)
T PF11672_consen 58 ELRRARKAAHRAFDPLWQSGHMSRSDAYRWLAKKLGIPVEEC 99 (102)
T ss_pred HHHHHHHHHHHHHHHHHHhCcccHHHHHHHHHHHcCCChHhc
Confidence 355678888999999999 45789999999999998876654
No 76
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=23.09 E-value=48 Score=28.57 Aligned_cols=39 Identities=13% Similarity=0.101 Sum_probs=29.5
Q ss_pred ccccCccccCCCCeeecHHHHHHHHhcCCCCCCCCCCCCCCC
Q 002017 894 TLMKDPVILPSSRITVDRPVIQRHLLSDATDPFNRSHLTADM 935 (981)
Q Consensus 894 ~lM~DPVilp~g~~t~dR~~I~~~L~~~~~dP~tr~pL~~~~ 935 (981)
..=...+++|+| |.+.+.+.--+ +-+-|||++.|+..++
T Consensus 15 ~~~~~~~~~pCg-H~I~~~~f~~~--rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 15 FVGTKGTVLPCG-HLICDNCFPGE--RYNGCPFCGTPFEFDD 53 (55)
T ss_pred cccccccccccc-ceeeccccChh--hccCCCCCCCcccCCC
Confidence 334568899999 99998875533 3468999999988654
No 77
>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana.
Probab=22.83 E-value=9.1e+02 Score=25.81 Aligned_cols=107 Identities=19% Similarity=0.217 Sum_probs=69.0
Q ss_pred hHHHHhhh--hcCCCCCCcchhHhhhhcccchHHHHHHHHHHHhhh-heecCCCccchhhhhhhHHHHHHHHHHcCChhH
Q 002017 583 KMVEVLNC--WMPRRSGSSSATATLFEGHQMSLEYLVRNLLKLYVD-IEFTGSHTQFYDKFNIRHNIAELLEYLWQVPSH 659 (981)
Q Consensus 583 klvevL~~--~~p~~~g~~~~~~~lf~~~~l~~~~L~~aLm~fYid-vE~TG~~~qFYdKFn~Ry~I~~Ilk~LW~~~~~ 659 (981)
+.+|.... .+|++.+ ...+.+..+..++-+.-++|-.|++ +|.+- ..+.-| . ...|.. +
T Consensus 13 ~~~E~mevfk~vPQ~PH----F~pL~~~~e~~REg~A~Glm~~f~~l~e~v~-~l~idd-~------~~~f~~------~ 74 (190)
T PF05266_consen 13 KTIESMEVFKKVPQSPH----FSPLQEFKEELREGMAVGLMVTFANLAEKVK-KLQIDD-S------RSSFES------L 74 (190)
T ss_pred HHHHHHHHHHcCCCCCC----ChhhhcCcHHhhhHHHHHHHHHHHHHHHHHH-HcccCC-c------HHHHHH------H
Confidence 44666643 5887655 6677888888999999999999987 45542 111111 0 011122 2
Q ss_pred HHHHHHHHHHhcchhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhcch
Q 002017 660 RNAWRQIAKEEEKGVYLNFLNFLINDSIYLLDESLNKILELKVIEAEMSNT 710 (981)
Q Consensus 660 r~~l~~~a~~~~~~~FvrFvn~liND~t~lLDE~L~~L~~I~~~q~~~~d~ 710 (981)
.+.|..+-+ .+|=|+|...=||-..-+-|+.-..+.+.+.++.++...
T Consensus 75 ~~tl~~LE~---~GFnV~~l~~RL~kLL~lk~~~~~~~e~~k~le~~~~~~ 122 (190)
T PF05266_consen 75 MKTLSELEE---HGFNVKFLRSRLNKLLSLKDDQEKLLEERKKLEKKIEEK 122 (190)
T ss_pred HHHHHHHHH---cCCccHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 244444332 378888888888888888888888787888887777543
Done!