Query 002420
Match_columns 925
No_of_seqs 321 out of 973
Neff 5.6
Searched_HMMs 46136
Date Thu Mar 28 23:36:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002420.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002420hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5183 SSM4 Protein involved 100.0 2.7E-72 5.8E-77 639.2 28.2 384 521-919 588-1007(1175)
2 PHA02862 5L protein; Provision 99.7 1.7E-17 3.7E-22 160.2 4.8 64 69-142 2-65 (156)
3 PHA02825 LAP/PHD finger-like p 99.6 4.4E-16 9.4E-21 153.5 4.3 63 64-129 3-65 (162)
4 smart00744 RINGv The RING-vari 99.5 1.9E-15 4E-20 123.4 2.9 49 71-119 1-49 (49)
5 PF12906 RINGv: RING-variant d 99.5 8E-15 1.7E-19 118.7 0.8 47 72-118 1-47 (47)
6 KOG3053 Uncharacterized conser 99.4 3.4E-13 7.5E-18 141.1 5.2 61 64-124 15-83 (293)
7 KOG1609 Protein involved in mR 99.0 1.4E-10 3E-15 127.9 4.2 68 64-131 73-142 (323)
8 PF12861 zf-Apc11: Anaphase-pr 97.7 4.2E-05 9.1E-10 69.5 4.5 53 69-125 21-84 (85)
9 KOG4628 Predicted E3 ubiquitin 97.6 3E-05 6.5E-10 86.9 2.8 48 70-123 230-278 (348)
10 KOG1493 Anaphase-promoting com 97.4 0.00011 2.3E-09 65.0 3.1 52 71-125 22-83 (84)
11 PF13639 zf-RING_2: Ring finge 97.4 4.6E-05 1E-09 60.6 0.8 43 70-119 1-44 (44)
12 COG5243 HRD1 HRD ubiquitin lig 97.1 0.00045 9.8E-09 76.8 4.3 54 64-124 282-346 (491)
13 PHA02929 N1R/p28-like protein; 97.0 0.00053 1.2E-08 73.8 4.2 51 67-124 172-228 (238)
14 PF12678 zf-rbx1: RING-H2 zinc 97.0 0.00037 8E-09 61.9 2.5 44 69-119 19-73 (73)
15 PF11793 FANCL_C: FANCL C-term 97.0 0.00027 5.9E-09 62.3 1.2 57 69-125 2-68 (70)
16 COG5219 Uncharacterized conser 96.9 0.00019 4.2E-09 86.8 -0.5 60 64-124 1464-1524(1525)
17 COG5540 RING-finger-containing 96.8 0.00079 1.7E-08 73.3 3.1 52 64-122 318-371 (374)
18 KOG0823 Predicted E3 ubiquitin 96.2 0.0061 1.3E-07 64.8 5.3 59 65-130 43-105 (230)
19 PLN03208 E3 ubiquitin-protein 96.2 0.0043 9.2E-08 64.7 3.9 56 67-129 16-88 (193)
20 PHA02926 zinc finger-like prot 96.0 0.0057 1.2E-07 64.7 3.8 55 65-124 166-231 (242)
21 COG5194 APC11 Component of SCF 95.9 0.0054 1.2E-07 54.9 2.4 29 95-125 55-83 (88)
22 PF13920 zf-C3HC4_3: Zinc fing 95.7 0.0059 1.3E-07 49.9 2.0 46 69-123 2-48 (50)
23 KOG0802 E3 ubiquitin ligase [P 95.6 0.0062 1.3E-07 73.3 2.6 55 65-126 287-344 (543)
24 cd00162 RING RING-finger (Real 95.6 0.0098 2.1E-07 45.8 2.7 43 71-121 1-44 (45)
25 KOG0828 Predicted E3 ubiquitin 95.4 0.0094 2E-07 68.8 2.7 50 67-122 569-633 (636)
26 smart00184 RING Ring finger. E 94.8 0.023 5E-07 42.1 2.5 39 72-118 1-39 (39)
27 PF00097 zf-C3HC4: Zinc finger 94.1 0.03 6.6E-07 43.5 1.8 40 72-118 1-41 (41)
28 KOG0317 Predicted E3 ubiquitin 93.5 0.08 1.7E-06 58.1 4.5 51 65-124 235-285 (293)
29 KOG0827 Predicted E3 ubiquitin 93.4 0.052 1.1E-06 61.4 2.7 46 69-119 4-52 (465)
30 smart00504 Ubox Modified RING 92.8 0.13 2.8E-06 43.5 3.7 46 70-124 2-47 (63)
31 KOG0804 Cytoplasmic Zn-finger 92.1 0.05 1.1E-06 62.6 0.5 51 65-122 171-221 (493)
32 PF13923 zf-C3HC4_2: Zinc fing 91.5 0.13 2.8E-06 39.9 2.0 38 72-118 1-39 (39)
33 KOG0825 PHD Zn-finger protein 91.4 0.16 3.5E-06 61.7 3.7 28 96-125 146-173 (1134)
34 TIGR00599 rad18 DNA repair pro 91.1 0.15 3.3E-06 59.0 3.0 50 66-124 23-72 (397)
35 KOG4265 Predicted E3 ubiquitin 90.1 0.2 4.4E-06 56.5 2.8 47 65-123 286-336 (349)
36 KOG1734 Predicted RING-contain 89.8 0.32 6.9E-06 53.0 3.9 61 65-128 220-286 (328)
37 PF14570 zf-RING_4: RING/Ubox 89.6 0.22 4.9E-06 41.0 1.9 46 72-123 1-48 (48)
38 PF14634 zf-RING_5: zinc-RING 88.7 0.3 6.5E-06 39.0 2.1 43 71-120 1-44 (44)
39 COG5236 Uncharacterized conser 88.3 0.77 1.7E-05 51.5 5.6 53 64-123 56-108 (493)
40 KOG1645 RING-finger-containing 86.3 0.42 9.2E-06 54.7 2.2 52 68-123 3-56 (463)
41 COG5175 MOT2 Transcriptional r 85.1 0.66 1.4E-05 51.9 2.9 53 66-124 11-65 (480)
42 KOG0320 Predicted E3 ubiquitin 83.2 2.3 5.1E-05 44.1 5.7 50 65-121 127-176 (187)
43 KOG3268 Predicted E3 ubiquitin 81.1 1.4 2.9E-05 45.5 3.1 60 65-124 161-229 (234)
44 KOG2930 SCF ubiquitin ligase, 80.5 0.99 2.1E-05 42.7 1.8 28 96-125 83-110 (114)
45 KOG1428 Inhibitor of type V ad 79.2 1.3 2.8E-05 57.1 2.7 54 66-123 3483-3544(3738)
46 TIGR00570 cdk7 CDK-activating 77.5 2.4 5.1E-05 47.7 3.9 51 69-125 3-56 (309)
47 KOG1973 Chromatin remodeling p 76.6 3.1 6.7E-05 46.2 4.5 42 79-121 226-268 (274)
48 KOG2164 Predicted E3 ubiquitin 75.3 4.1 8.8E-05 48.4 5.2 57 69-132 186-248 (513)
49 KOG0802 E3 ubiquitin ligase [P 74.8 2.4 5.3E-05 51.3 3.4 51 63-126 473-523 (543)
50 PF05883 Baculo_RING: Baculovi 73.9 1 2.2E-05 44.7 -0.1 40 69-108 26-67 (134)
51 KOG1785 Tyrosine kinase negati 73.8 1.4 3.1E-05 50.3 1.0 52 67-125 367-418 (563)
52 PLN02189 cellulose synthase 73.7 2.2 4.7E-05 54.7 2.7 52 68-123 33-87 (1040)
53 KOG1952 Transcription factor N 72.3 3.1 6.7E-05 51.8 3.4 57 66-125 188-249 (950)
54 PF15227 zf-C3HC4_4: zinc fing 69.6 2.9 6.3E-05 33.3 1.6 40 72-118 1-42 (42)
55 PF07800 DUF1644: Protein of u 68.7 6.3 0.00014 40.3 4.2 40 68-109 1-48 (162)
56 PLN02638 cellulose synthase A 68.5 3.6 7.8E-05 52.9 2.9 51 68-124 16-71 (1079)
57 PF13445 zf-RING_UBOX: RING-ty 67.9 3.1 6.6E-05 33.6 1.4 40 72-116 1-43 (43)
58 PF10272 Tmpp129: Putative tra 67.8 3.8 8.2E-05 47.1 2.7 36 87-125 307-353 (358)
59 PLN02436 cellulose synthase A 67.7 3.5 7.6E-05 52.9 2.6 53 68-124 35-90 (1094)
60 PLN02195 cellulose synthase A 67.7 4.1 8.9E-05 52.0 3.2 52 66-123 3-59 (977)
61 KOG0956 PHD finger protein AF1 67.6 2.9 6.2E-05 50.9 1.7 59 70-129 6-79 (900)
62 PF05290 Baculo_IE-1: Baculovi 67.5 3.7 8E-05 40.8 2.2 56 68-125 79-134 (140)
63 KOG0287 Postreplication repair 67.1 4.4 9.6E-05 45.7 3.0 47 68-123 22-68 (442)
64 PF04564 U-box: U-box domain; 65.4 3.1 6.7E-05 36.9 1.1 49 69-125 4-52 (73)
65 COG5432 RAD18 RING-finger-cont 63.8 3.4 7.3E-05 45.7 1.3 48 68-124 24-71 (391)
66 PLN02400 cellulose synthase 59.9 5.1 0.00011 51.6 2.1 50 68-123 35-89 (1085)
67 KOG4445 Uncharacterized conser 56.4 4.9 0.00011 44.7 1.0 53 68-125 114-188 (368)
68 KOG0956 PHD finger protein AF1 55.7 5.3 0.00012 48.7 1.1 57 68-124 116-183 (900)
69 KOG4692 Predicted E3 ubiquitin 55.6 8 0.00017 43.9 2.4 49 66-123 419-467 (489)
70 KOG1002 Nucleotide excision re 55.1 5.5 0.00012 47.2 1.1 55 64-125 531-588 (791)
71 COG5574 PEX10 RING-finger-cont 53.9 10 0.00022 41.8 2.8 49 69-125 215-264 (271)
72 KOG2177 Predicted E3 ubiquitin 51.6 6.6 0.00014 41.6 1.0 48 64-120 8-55 (386)
73 PF08746 zf-RING-like: RING-li 51.5 9.6 0.00021 30.7 1.7 22 97-118 22-43 (43)
74 PLN02915 cellulose synthase A 49.8 13 0.00029 47.9 3.3 50 68-123 14-68 (1044)
75 KOG0824 Predicted E3 ubiquitin 49.7 11 0.00024 42.2 2.3 44 69-123 7-53 (324)
76 PF14569 zf-UDP: Zinc-binding 44.8 22 0.00047 32.4 3.0 56 67-125 7-64 (80)
77 COG5034 TNG2 Chromatin remodel 44.1 13 0.00028 40.8 1.7 26 95-120 244-269 (271)
78 KOG1962 B-cell receptor-associ 42.2 2.4E+02 0.0052 30.6 10.7 78 534-623 5-83 (216)
79 KOG4172 Predicted E3 ubiquitin 41.7 14 0.00031 31.4 1.3 42 70-122 8-53 (62)
80 KOG3005 GIY-YIG type nuclease 40.0 25 0.00054 39.0 3.1 56 69-124 182-244 (276)
81 PF10367 Vps39_2: Vacuolar sor 39.3 12 0.00026 34.7 0.5 34 67-105 76-109 (109)
82 KOG0826 Predicted E3 ubiquitin 37.6 34 0.00073 38.9 3.7 69 47-123 276-346 (357)
83 smart00249 PHD PHD zinc finger 37.2 11 0.00023 29.2 -0.2 30 71-104 1-30 (47)
84 KOG1039 Predicted E3 ubiquitin 37.0 22 0.00047 41.0 2.2 53 67-124 159-222 (344)
85 PF13430 DUF4112: Domain of un 35.8 48 0.001 31.8 4.0 52 854-924 38-90 (106)
86 PF11789 zf-Nse: Zinc-finger o 35.2 18 0.00039 30.9 0.9 45 67-117 9-53 (57)
87 KOG2660 Locus-specific chromos 34.6 22 0.00048 40.3 1.8 52 65-124 11-62 (331)
88 KOG2034 Vacuolar sorting prote 33.7 17 0.00036 46.0 0.7 39 65-109 813-852 (911)
89 KOG0801 Predicted E3 ubiquitin 32.6 25 0.00054 36.1 1.6 26 67-92 175-201 (205)
90 PF02891 zf-MIZ: MIZ/SP-RING z 31.2 24 0.00051 29.3 1.0 35 84-121 11-50 (50)
91 PF05529 Bap31: B-cell recepto 30.9 4.2E+02 0.0091 27.6 10.5 16 534-549 8-23 (192)
92 PF04515 Choline_transpo: Plas 30.6 5E+02 0.011 29.1 11.8 56 589-644 109-167 (334)
93 KOG3970 Predicted E3 ubiquitin 27.3 52 0.0011 35.5 3.0 51 67-122 48-104 (299)
94 KOG3899 Uncharacterized conser 26.2 59 0.0013 36.4 3.2 36 88-126 322-368 (381)
95 KOG1941 Acetylcholine receptor 24.2 26 0.00056 40.6 0.1 50 65-119 361-412 (518)
96 PF04641 Rtf2: Rtf2 RING-finge 24.0 63 0.0014 35.6 3.0 58 66-131 110-169 (260)
97 KOG3488 Dolichol phosphate-man 23.7 3.3E+02 0.0073 24.5 6.7 54 171-227 21-74 (81)
98 KOG1362 Choline transporter-li 21.8 1.4E+03 0.031 28.5 14.0 72 578-656 318-392 (577)
99 KOG4159 Predicted E3 ubiquitin 21.8 44 0.00094 39.3 1.3 50 65-123 80-129 (398)
100 KOG0955 PHD finger protein BR1 21.7 30 0.00065 45.1 -0.1 36 66-104 216-252 (1051)
101 PF10329 DUF2417: Region of un 20.8 4.5E+02 0.0097 28.9 8.5 37 613-654 19-55 (232)
102 PF00628 PHD: PHD-finger; Int 20.6 35 0.00077 27.6 0.2 46 71-120 1-50 (51)
103 PF04810 zf-Sec23_Sec24: Sec23 20.3 14 0.00029 29.2 -2.3 37 88-126 2-38 (40)
No 1
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=100.00 E-value=2.7e-72 Score=639.18 Aligned_cols=384 Identities=20% Similarity=0.226 Sum_probs=280.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHhhhhhhcccc-hHHHHHHhhcCchhHHHHHHHHHHHHHHHHHHHHH
Q 002420 521 FLAAMRHLMTMIKVAFLLVIELGVFPLMCGWWLDVCTIRMFGKS-MSERVQFFSVSPLASSLVHWVVGIVYMLQISIFVS 599 (925)
Q Consensus 521 ~~~~l~~~~~~~KV~~i~~iEl~vFPl~cG~~LD~c~lplf~~t-~~~r~~~~~~~p~~s~f~hW~vGt~yM~~fA~fv~ 599 (925)
.++.+++..+..|+.+++.||+.+||+.||.+||+|..--+.++ -..-.....-+|..|+|+.|.+|++||++||.|++
T Consensus 588 ~f~~l~~~~c~~K~~i~f~ieL~~fpi~~g~~l~~cl~~~~~~s~~~~L~~V~~~~p~~s~fi~w~Ig~~fm~~fa~yi~ 667 (1175)
T COG5183 588 IFDKLMLMWCANKNKIFFRIELKAFPIRRGTELEICLYFNTHPSSDFALFYVPKLFPLRSSFIIWSIGLCFMGLFAGYIV 667 (1175)
T ss_pred HHHHHHHHhhhhhccEEEEEEeeeccccchhhhhHHHhcccCccchhhhhhhhhhccchHHHHHHHHHHHHHHHHHHHHH
Confidence 35889999999999999999999999999999999987333322 22223456779999999999999999999999999
Q ss_pred HHHh-hccCceEeeecCCCCCCCchhHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccceeecCCC
Q 002420 600 LLRG-VLRNGVLYFLRDPADPNYNPFRDLIDDPVHKHARRVLLSVAVYGSLIVMLVFLPVKLAMRMATSIFPLDISVSDP 678 (925)
Q Consensus 600 ~~R~-IlRpGVL~FiRdp~DP~f~pi~d~l~~p~~~qlrri~~S~~vy~~~iv~~v~~pv~~~~~~~p~~lPl~~~~~~P 678 (925)
|.|+ |.|||||+|||||+|||+||+||+|++|+..||+|+.+|++.|+++|+.|++.-.- .+..+.-.+|..+....-
T Consensus 668 m~Rk~i~Rpgvl~fiRdp~DPn~~~l~dvL~~pml~qL~rl~~s~i~ya~fiI~g~gs~~~-mLkS~g~~~p~~~~~~~i 746 (1175)
T COG5183 668 MARKIIERPGVLAFIRDPGDPNIKILHDVLLYPMLAQLFRLSWSVIHYAMFIIRGEGSFPF-MLKSAGELCPHGIVNVYI 746 (1175)
T ss_pred HHHHhhcccceEEEEcCCCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchHH-HHHhccccccccceeeee
Confidence 9999 99999999999999999999999999999999999999999999999999975222 223344456665544333
Q ss_pred CcccchhHHHHHHHHHHHHhhcchhHHHHHHHHHH---HHHhhhhccCccccCC--CCCCCCCCC---------------
Q 002420 679 FTEIPADMLLFQICIPFAIEHFKLRTTIKSLLRYW---FTAVGWALGLTDFLLP--RPEDNGGQE--------------- 738 (925)
Q Consensus 679 ~~e~p~dLL~~~~~~p~~l~~~~~~~~~k~~~~~W---~~~~~~~L~Ls~fllg--~~~e~g~~~--------------- 738 (925)
..+-|.|||.+...+-...+.+||-. .+|| ++.++|.||||||+.| -++|||.-.
T Consensus 747 ~Fntv~~ll~~~~~I~lS~~~~kple-----~ryWkT~~~lf~r~lrlSS~V~g~~~s~eegyy~n~f~~~ir~l~tKPk 821 (1175)
T COG5183 747 NFNTVYPLLGSLMVIVLSNDGTKPLE-----MRYWKTPLRLFLRFLRLSSIVEGILSSSEEGYYRNLFRALIRELFTKPK 821 (1175)
T ss_pred ecccHHHHHHHHHHhhhccCCccHHH-----HHHHHhHHHHHHHHHhhhHhhcccccCCcccccHHHHHHHHHHHhcCCc
Confidence 34567788887766655555555433 2477 4569999999999999 466777321
Q ss_pred ---CCcccccccchhhhccCCcccccCCCCcc------cccCccccccccccccCCCCCCCCCCCCCCCCCCCCcchHHH
Q 002420 739 ---NGNIDIRRDRNIEIRRDGLQVIPLGPDRA------LIGMPAVDDINRGALVSGNSNVSEEYDGDEQSDSDRYGFVLR 809 (925)
Q Consensus 739 ---~~~~~~~~~~~~~~~~dg~~~~~p~~d~~------~~~~~~~~d~~~~~~a~~~~~~~e~~~~~~~~~~~~~~F~~R 809 (925)
+++.-.++++...+++||-+-+.|..|-+ |....++++ ...-.+++.+.|+ +++.....-|.+|+.|
T Consensus 822 ~~Eqae~G~k~~a~~~fV~dg~~m~~ps~d~v~~~~g~m~Vpvt~~g---yeif~ekkk~~Eq-n~~y~i~YvP~~FykR 897 (1175)
T COG5183 822 TLEQAELGCKINAFISFVFDGWYMYNPSTDLVGLSNGEMAVPVTVVG---YEIFVEKKKGDEQ-NDIYSIKYVPPGFYKR 897 (1175)
T ss_pred chhhhhhhhhhhhheeeecceEEEEcchhhhcccccceEEEEEEecc---hhhhhhhcccccc-ccceEEEecCccHHHH
Confidence 11111133344568899999999987743 333333322 2112333332221 1111112235689999
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhccCCccCCCCccchHHHHHHHHHHHHHHHhhhHhhh-----hhccch
Q 002420 810 IVLLLVIAWMTLLVINSALIVVPISLGRALFNAIPLLPITHGVKCNDLYAFIIGSYVIWTAVAGARYSI-----EHVRTK 884 (925)
Q Consensus 810 i~~ll~l~wl~~~~~~~~~~~vPl~iGR~l~~~~~~~~~~~~~~~~DlYa~~iG~yv~w~~~~~~~~~~-----~~~~~~ 884 (925)
+..++.++|..++..-..++++|..+||.+.+.. .+| +.-||+||+.+|.|++=..-....-++ ++.|.-
T Consensus 898 ll~ll~lvw~~~~~i~~~vtFi~~aL~~~v~s~~-F~~----VVK~~~YsY~~~yY~l~F~~~~~HA~Ve~ve~D~~Rdi 972 (1175)
T COG5183 898 LLDLLYLVWRRVVNIDEEVTFISQALINFVCSFG-FLP----VVKLLLYSYLNIYYVLHFTTLDEHAVVEEVEHDIERDI 972 (1175)
T ss_pred HHHHHHHHHHHHHHhhhhheehHHHHHHHHHHhc-ccH----HHHHHHHHHHhhheEEeechhHhhHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999998864 222 456899999999999744322222111 223444
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002420 885 RAAILFKQIWKWCGIVVKSSALLSIWVRVILVIIL 919 (925)
Q Consensus 885 r~~~~~~~i~~w~~~~~K~~~~~~i~~~viPlL~g 919 (925)
-.++..+-++.-..+++|+.++.++-+.+.|++.|
T Consensus 973 ~N~iN~~I~M~~~~M~vKY~LmvFi~I~I~~i~~~ 1007 (1175)
T COG5183 973 NNAINQGIFMAIFSMLVKYNLMVFIAIMIAVIRTM 1007 (1175)
T ss_pred HHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44455444556678999999999988889999888
No 2
>PHA02862 5L protein; Provisional
Probab=99.68 E-value=1.7e-17 Score=160.17 Aligned_cols=64 Identities=28% Similarity=0.804 Sum_probs=56.5
Q ss_pred CCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCCCcccccccceeecccccCCCCCCccHHHHH
Q 002420 69 EEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFSFSPVYAENAPARLPFQEFI 142 (925)
Q Consensus 69 ~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~~~iy~~~~p~~lp~~~~i 142 (925)
.++||||+++++++ .+||+|+||.|||||+||++|+++|++.+||+||++|.+++.|. |+++|.
T Consensus 2 ~diCWIC~~~~~e~---~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~~yK-------pf~kW~ 65 (156)
T PHA02862 2 SDICWICNDVCDER---NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKKTYV-------SFKKWN 65 (156)
T ss_pred CCEEEEecCcCCCC---cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEEccc-------cHHHhh
Confidence 47899999876433 59999999999999999999999999999999999999998885 566664
No 3
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=99.60 E-value=4.4e-16 Score=153.50 Aligned_cols=63 Identities=27% Similarity=0.759 Sum_probs=55.4
Q ss_pred ccccCCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCCCcccccccceeeccccc
Q 002420 64 EEEEEEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFSFSPVYA 129 (925)
Q Consensus 64 ~~~~~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~~~iy~ 129 (925)
+..+.++.||||+++++ +..+||+|+||.+|||++||++|++++++..||+|+++|.+...|.
T Consensus 3 ~~s~~~~~CRIC~~~~~---~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~~~~k 65 (162)
T PHA02825 3 DVSLMDKCCWICKDEYD---VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIKKNYK 65 (162)
T ss_pred CcCCCCCeeEecCCCCC---CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEEEecC
Confidence 44567899999997753 4568999999999999999999999999999999999999987664
No 4
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=99.55 E-value=1.9e-15 Score=123.41 Aligned_cols=49 Identities=53% Similarity=1.325 Sum_probs=46.1
Q ss_pred cceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCCCcccccc
Q 002420 71 VCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCK 119 (925)
Q Consensus 71 ~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk 119 (925)
+||||++++++++++++||+|+|+++|||++||++|+..+++.+||+|+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 5999999667788999999999999999999999999999999999996
No 5
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=99.47 E-value=8e-15 Score=118.71 Aligned_cols=47 Identities=47% Similarity=1.220 Sum_probs=39.0
Q ss_pred ceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCCCccccc
Q 002420 72 CRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVC 118 (925)
Q Consensus 72 CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelC 118 (925)
||||+++++++++|++||+|+||++|||++||++|+..+++.+||+|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 99999988777799999999999999999999999999999999998
No 6
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.37 E-value=3.4e-13 Score=141.06 Aligned_cols=61 Identities=30% Similarity=0.806 Sum_probs=51.1
Q ss_pred ccccCCCcceEeCCCCCCC--CCcccccCCCCCcceecHHHHHHHHHccC------CCcccccccceee
Q 002420 64 EEEEEEEVCRICRNPGDPE--NPLRYPCACSGSIKFVHQDCLLQWLNHSN------ARQCEVCKHAFSF 124 (925)
Q Consensus 64 ~~~~~~~~CrIC~~~~~~~--~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~------~~~CelCk~~f~~ 124 (925)
++.+.++.||||+..+++. ..+++||+|+|+.|||||.||.+|+.+++ +..|+.|+++|.+
T Consensus 15 ~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYii 83 (293)
T KOG3053|consen 15 DNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYII 83 (293)
T ss_pred CccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence 4556789999999755432 24789999999999999999999998763 5789999999986
No 7
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=99.03 E-value=1.4e-10 Score=127.92 Aligned_cols=68 Identities=32% Similarity=0.761 Sum_probs=57.9
Q ss_pred ccccCCCcceEeCCCCCCCC--CcccccCCCCCcceecHHHHHHHHHccCCCcccccccceeecccccCC
Q 002420 64 EEEEEEEVCRICRNPGDPEN--PLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFSFSPVYAEN 131 (925)
Q Consensus 64 ~~~~~~~~CrIC~~~~~~~~--~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~~~iy~~~ 131 (925)
+..+++..||||+++.+..+ ++..||.|+|+.+++|+.|+++|+..+++..||+|++.|+....+.+.
T Consensus 73 ~~~~~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~~~~~~~ 142 (323)
T KOG1609|consen 73 ESPSSGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINVGTKLKP 142 (323)
T ss_pred cCCCCCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceecceeecc
Confidence 34444689999998766544 799999999999999999999999999999999999999987655433
No 8
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=97.69 E-value=4.2e-05 Score=69.47 Aligned_cols=53 Identities=38% Similarity=0.861 Sum_probs=39.6
Q ss_pred CCcceEeCCCCCCCC----------CcccccCCCCCcceecHHHHHHHHHcc-CCCcccccccceeec
Q 002420 69 EEVCRICRNPGDPEN----------PLRYPCACSGSIKFVHQDCLLQWLNHS-NARQCEVCKHAFSFS 125 (925)
Q Consensus 69 ~~~CrIC~~~~~~~~----------~l~~PC~C~Gs~~~vH~~CL~~Wl~~s-~~~~CelCk~~f~~~ 125 (925)
++.|-||+...+..- |++ -+.|+ |.+|..|+.+|++.. .+.+||+||++|+++
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv-~g~C~---H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLV-WGKCS---HNFHMHCILKWLSTQSSKGQCPMCRQPWKFK 84 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCcee-eccCc---cHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence 678999998655221 221 13454 779999999999874 578999999999885
No 9
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.61 E-value=3e-05 Score=86.86 Aligned_cols=48 Identities=29% Similarity=0.765 Sum_probs=40.9
Q ss_pred CcceEeCCCCCCCCCc-ccccCCCCCcceecHHHHHHHHHccCCCccccccccee
Q 002420 70 EVCRICRNPGDPENPL-RYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFS 123 (925)
Q Consensus 70 ~~CrIC~~~~~~~~~l-~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~ 123 (925)
+.|-||+++...++.+ +-||+ |.+|..|+..|+... +..||+||+.-.
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~-----H~FH~~CIDpWL~~~-r~~CPvCK~di~ 278 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCS-----HKFHVNCIDPWLTQT-RTFCPVCKRDIR 278 (348)
T ss_pred ceEEEeecccccCCeeeEecCC-----CchhhccchhhHhhc-CccCCCCCCcCC
Confidence 8999999999888877 47987 569999999999866 457999999654
No 10
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=97.42 E-value=0.00011 Score=65.00 Aligned_cols=52 Identities=37% Similarity=0.901 Sum_probs=39.8
Q ss_pred cceEeCCCCCCCCCcccccCCCC---------CcceecHHHHHHHHHcc-CCCcccccccceeec
Q 002420 71 VCRICRNPGDPENPLRYPCACSG---------SIKFVHQDCLLQWLNHS-NARQCEVCKHAFSFS 125 (925)
Q Consensus 71 ~CrIC~~~~~~~~~l~~PC~C~G---------s~~~vH~~CL~~Wl~~s-~~~~CelCk~~f~~~ 125 (925)
+|-|||.+.+..-|- |+=+| +.+.+|..|+.+|+..+ ++.+||+|+++|++.
T Consensus 22 ~CGiCRm~Fdg~Cp~---Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~~ 83 (84)
T KOG1493|consen 22 TCGICRMPFDGCCPD---CKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQFK 83 (84)
T ss_pred ccceEecccCCcCCC---CcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEec
Confidence 999999876643332 33333 24789999999999875 578999999999874
No 11
>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=97.41 E-value=4.6e-05 Score=60.63 Aligned_cols=43 Identities=28% Similarity=0.865 Sum_probs=31.5
Q ss_pred CcceEeCCCCCCCC-CcccccCCCCCcceecHHHHHHHHHccCCCcccccc
Q 002420 70 EVCRICRNPGDPEN-PLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCK 119 (925)
Q Consensus 70 ~~CrIC~~~~~~~~-~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk 119 (925)
+.|.||+++.++++ ....| | .|.+|.+|+.+|++.+ .+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~--C---~H~fh~~Ci~~~~~~~--~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLP--C---GHVFHRSCIKEWLKRN--NSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEET--T---SEEEEHHHHHHHHHHS--SB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEcc--C---CCeeCHHHHHHHHHhC--CcCCccC
Confidence 57999998765433 33445 4 3899999999999875 5999996
No 12
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=97.09 E-value=0.00045 Score=76.81 Aligned_cols=54 Identities=30% Similarity=0.890 Sum_probs=39.9
Q ss_pred ccccCCCcceEeCCC-CCCC-C---------CcccccCCCCCcceecHHHHHHHHHccCCCcccccccceee
Q 002420 64 EEEEEEEVCRICRNP-GDPE-N---------PLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFSF 124 (925)
Q Consensus 64 ~~~~~~~~CrIC~~~-~~~~-~---------~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~ 124 (925)
+-..+...|-||++| -+++ + |-.-||. |..|-+||+.|++++ .+||+||.+..+
T Consensus 282 ql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCG-----HilHl~CLknW~ERq--QTCPICr~p~if 346 (491)
T COG5243 282 QLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCG-----HILHLHCLKNWLERQ--QTCPICRRPVIF 346 (491)
T ss_pred hhcCCCCeEEEecccccCCCCccCcccccCCccccccc-----ceeeHHHHHHHHHhc--cCCCcccCcccc
Confidence 345567999999987 2332 2 2234664 789999999999876 699999987655
No 13
>PHA02929 N1R/p28-like protein; Provisional
Probab=97.04 E-value=0.00053 Score=73.82 Aligned_cols=51 Identities=20% Similarity=0.550 Sum_probs=37.2
Q ss_pred cCCCcceEeCCCCCCCC------CcccccCCCCCcceecHHHHHHHHHccCCCcccccccceee
Q 002420 67 EEEEVCRICRNPGDPEN------PLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFSF 124 (925)
Q Consensus 67 ~~~~~CrIC~~~~~~~~------~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~ 124 (925)
+++..|.||+++..... ....+|. |.+|.+|+.+|++. +.+||+|+.++..
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~-----H~FC~~CI~~Wl~~--~~tCPlCR~~~~~ 228 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCN-----HVFCIECIDIWKKE--KNTCPVCRTPFIS 228 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCC-----CcccHHHHHHHHhc--CCCCCCCCCEeeE
Confidence 45689999998643211 1233443 88999999999975 4699999999875
No 14
>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=97.03 E-value=0.00037 Score=61.86 Aligned_cols=44 Identities=34% Similarity=0.896 Sum_probs=29.5
Q ss_pred CCcceEeCCCCCCC----------CCc-ccccCCCCCcceecHHHHHHHHHccCCCcccccc
Q 002420 69 EEVCRICRNPGDPE----------NPL-RYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCK 119 (925)
Q Consensus 69 ~~~CrIC~~~~~~~----------~~l-~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk 119 (925)
++.|-||+++.++. .++ ..+ +.|.+|..||.+|++.++ +||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-----C~H~FH~~Ci~~Wl~~~~--~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGP-----CGHIFHFHCISQWLKQNN--TCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEET-----TSEEEEHHHHHHHHTTSS--B-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecc-----cCCCEEHHHHHHHHhcCC--cCCCCC
Confidence 34599999865211 111 123 348999999999997664 999997
No 15
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=96.98 E-value=0.00027 Score=62.29 Aligned_cols=57 Identities=25% Similarity=0.410 Sum_probs=26.2
Q ss_pred CCcceEeCCCCC-CCCCcccccCCCCCcceecHHHHHHHHHccC---------CCcccccccceeec
Q 002420 69 EEVCRICRNPGD-PENPLRYPCACSGSIKFVHQDCLLQWLNHSN---------ARQCEVCKHAFSFS 125 (925)
Q Consensus 69 ~~~CrIC~~~~~-~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~---------~~~CelCk~~f~~~ 125 (925)
+..|.||++... .++....-|.-..+.+.+|..||.+|+.... ...||.|+.+.+.+
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 467999997643 2222223354334447799999999997532 13699999988753
No 16
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.91 E-value=0.00019 Score=86.78 Aligned_cols=60 Identities=27% Similarity=0.621 Sum_probs=46.9
Q ss_pred ccccCCCcceEeCCCCC-CCCCcccccCCCCCcceecHHHHHHHHHccCCCcccccccceee
Q 002420 64 EEEEEEEVCRICRNPGD-PENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFSF 124 (925)
Q Consensus 64 ~~~~~~~~CrIC~~~~~-~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~ 124 (925)
+.-++...|.||++--+ -++.+. --+|..|.+-+|-.||.+|+++|+...||+|+.++.+
T Consensus 1464 ~~fsG~eECaICYsvL~~vdr~lP-skrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219 1464 EKFSGHEECAICYSVLDMVDRSLP-SKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred hhcCCcchhhHHHHHHHHHhccCC-ccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence 45567789999997543 233442 2467777788999999999999999999999988754
No 17
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.81 E-value=0.00079 Score=73.34 Aligned_cols=52 Identities=29% Similarity=0.606 Sum_probs=40.6
Q ss_pred ccccCCCcceEeCCCCCCCCC-cccccCCCCCcceecHHHHHHHHH-ccCCCcccccccce
Q 002420 64 EEEEEEEVCRICRNPGDPENP-LRYPCACSGSIKFVHQDCLLQWLN-HSNARQCEVCKHAF 122 (925)
Q Consensus 64 ~~~~~~~~CrIC~~~~~~~~~-l~~PC~C~Gs~~~vH~~CL~~Wl~-~s~~~~CelCk~~f 122 (925)
.+.+.+-.|.||++.....+. ...||+ |-+|..|+.+|+. ++ .+||+|+++.
T Consensus 318 ~ea~~GveCaICms~fiK~d~~~vlPC~-----H~FH~~Cv~kW~~~y~--~~CPvCrt~i 371 (374)
T COG5540 318 VEADKGVECAICMSNFIKNDRLRVLPCD-----HRFHVGCVDKWLLGYS--NKCPVCRTAI 371 (374)
T ss_pred HhcCCCceEEEEhhhhcccceEEEeccC-----ceechhHHHHHHhhhc--ccCCccCCCC
Confidence 355667899999987655444 468987 5699999999998 54 5899999854
No 18
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.24 E-value=0.0061 Score=64.79 Aligned_cols=59 Identities=31% Similarity=0.729 Sum_probs=46.5
Q ss_pred cccCCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHcc-CCCcccccccceeec---ccccC
Q 002420 65 EEEEEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHS-NARQCEVCKHAFSFS---PVYAE 130 (925)
Q Consensus 65 ~~~~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s-~~~~CelCk~~f~~~---~iy~~ 130 (925)
.+...-.|-||++.. ++|.+++|. |.+==.||.||+..+ +++.||+||.+...+ |+|--
T Consensus 43 ~~~~~FdCNICLd~a--kdPVvTlCG-----HLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGr 105 (230)
T KOG0823|consen 43 RDGGFFDCNICLDLA--KDPVVTLCG-----HLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGR 105 (230)
T ss_pred CCCCceeeeeecccc--CCCEEeecc-----cceehHHHHHHHhhcCCCeeCCccccccccceEEeeecc
Confidence 345567899999754 579999986 667779999999876 567889999998764 67754
No 19
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=96.21 E-value=0.0043 Score=64.71 Aligned_cols=56 Identities=27% Similarity=0.640 Sum_probs=41.7
Q ss_pred cCCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHcc--------------CCCcccccccceee---ccccc
Q 002420 67 EEEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHS--------------NARQCEVCKHAFSF---SPVYA 129 (925)
Q Consensus 67 ~~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s--------------~~~~CelCk~~f~~---~~iy~ 129 (925)
+++-.|.||++.. .+|.+.+|. |.++..|+.+|+..+ ++..||+||+.+.. .|+|.
T Consensus 16 ~~~~~CpICld~~--~dPVvT~CG-----H~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiyg 88 (193)
T PLN03208 16 GGDFDCNICLDQV--RDPVVTLCG-----HLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYG 88 (193)
T ss_pred CCccCCccCCCcC--CCcEEcCCC-----chhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeec
Confidence 3457899999754 457777764 779999999998632 35689999998754 35663
No 20
>PHA02926 zinc finger-like protein; Provisional
Probab=96.00 E-value=0.0057 Score=64.66 Aligned_cols=55 Identities=20% Similarity=0.491 Sum_probs=39.4
Q ss_pred cccCCCcceEeCCCCC-C----C--CCcccccCCCCCcceecHHHHHHHHHccC----CCcccccccceee
Q 002420 65 EEEEEEVCRICRNPGD-P----E--NPLRYPCACSGSIKFVHQDCLLQWLNHSN----ARQCEVCKHAFSF 124 (925)
Q Consensus 65 ~~~~~~~CrIC~~~~~-~----~--~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~----~~~CelCk~~f~~ 124 (925)
..+.++.|-||++.-. . + -.+..+|. |.+...|+.+|.+.+. ...||+|+.+|.+
T Consensus 166 ~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~Cn-----HsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 166 RVSKEKECGICYEVVYSKRLENDRYFGLLDSCN-----HIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred hccCCCCCccCccccccccccccccccccCCCC-----chHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 4456799999997531 1 1 12344554 7799999999998642 4679999999876
No 21
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=95.87 E-value=0.0054 Score=54.91 Aligned_cols=29 Identities=17% Similarity=0.641 Sum_probs=25.4
Q ss_pred cceecHHHHHHHHHccCCCcccccccceeec
Q 002420 95 IKFVHQDCLLQWLNHSNARQCEVCKHAFSFS 125 (925)
Q Consensus 95 ~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~~ 125 (925)
-|.+|-.|+.+||+. +..||+|+++|++.
T Consensus 55 nHaFH~HCI~rWL~T--k~~CPld~q~w~~~ 83 (88)
T COG5194 55 NHAFHDHCIYRWLDT--KGVCPLDRQTWVLA 83 (88)
T ss_pred chHHHHHHHHHHHhh--CCCCCCCCceeEEe
Confidence 377999999999987 46999999999873
No 22
>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=95.72 E-value=0.0059 Score=49.93 Aligned_cols=46 Identities=22% Similarity=0.722 Sum_probs=35.9
Q ss_pred CCcceEeCCCCCCCCCcccccCCCCCcce-ecHHHHHHHHHccCCCccccccccee
Q 002420 69 EEVCRICRNPGDPENPLRYPCACSGSIKF-VHQDCLLQWLNHSNARQCEVCKHAFS 123 (925)
Q Consensus 69 ~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~-vH~~CL~~Wl~~s~~~~CelCk~~f~ 123 (925)
+..|.||++.. .+....||. |. +...|..+|++ ++..||+|+.++.
T Consensus 2 ~~~C~iC~~~~--~~~~~~pCg-----H~~~C~~C~~~~~~--~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENP--RDVVLLPCG-----HLCFCEECAERLLK--RKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSB--SSEEEETTC-----EEEEEHHHHHHHHH--TTSBBTTTTBB-S
T ss_pred cCCCccCCccC--CceEEeCCC-----ChHHHHHHhHHhcc--cCCCCCcCChhhc
Confidence 47899999753 456788986 66 99999999998 6689999998763
No 23
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.63 E-value=0.0062 Score=73.26 Aligned_cols=55 Identities=27% Similarity=0.686 Sum_probs=40.8
Q ss_pred cccCCCcceEeCCCCCCC-C--CcccccCCCCCcceecHHHHHHHHHccCCCcccccccceeecc
Q 002420 65 EEEEEEVCRICRNPGDPE-N--PLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFSFSP 126 (925)
Q Consensus 65 ~~~~~~~CrIC~~~~~~~-~--~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~~~ 126 (925)
.....+.|.||+++...+ + +-+.||. |.+|..||++|++. +.+||.||..+.-.+
T Consensus 287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~-----Hifh~~CL~~W~er--~qtCP~CR~~~~~~~ 344 (543)
T KOG0802|consen 287 LALSDELCIICLEELHSGHNITPKRLPCG-----HIFHDSCLRSWFER--QQTCPTCRTVLYDYV 344 (543)
T ss_pred hhhcCCeeeeechhhccccccccceeecc-----cchHHHHHHHHHHH--hCcCCcchhhhhccc
Confidence 445679999999875432 2 3455664 78999999999987 579999999544333
No 24
>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=95.59 E-value=0.0098 Score=45.84 Aligned_cols=43 Identities=26% Similarity=0.811 Sum_probs=31.5
Q ss_pred cceEeCCCCCCCCCc-ccccCCCCCcceecHHHHHHHHHccCCCcccccccc
Q 002420 71 VCRICRNPGDPENPL-RYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHA 121 (925)
Q Consensus 71 ~CrIC~~~~~~~~~l-~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~ 121 (925)
.|.||++.. .++. ..||. |.+|.+|+.+|++. +...|++|+..
T Consensus 1 ~C~iC~~~~--~~~~~~~~C~-----H~~c~~C~~~~~~~-~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEF--REPVVLLPCG-----HVFCRSCIDKWLKS-GKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhh--hCceEecCCC-----ChhcHHHHHHHHHh-CcCCCCCCCCc
Confidence 488998764 2233 33454 66999999999986 56789999975
No 25
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.37 E-value=0.0094 Score=68.75 Aligned_cols=50 Identities=34% Similarity=0.814 Sum_probs=36.3
Q ss_pred cCCCcceEeCCCCC------C---------CCCcccccCCCCCcceecHHHHHHHHHccCCCcccccccce
Q 002420 67 EEEEVCRICRNPGD------P---------ENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAF 122 (925)
Q Consensus 67 ~~~~~CrIC~~~~~------~---------~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f 122 (925)
+....|-||...-+ + .+.+.+||+ |.+|..||++|++.. |..||+|+.+.
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~-----HifH~~CL~~WMd~y-kl~CPvCR~pL 633 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCH-----HIFHRQCLLQWMDTY-KLICPVCRCPL 633 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchH-----HHHHHHHHHHHHhhh-cccCCccCCCC
Confidence 45688999987422 1 123456776 789999999999843 37999999753
No 26
>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=94.77 E-value=0.023 Score=42.10 Aligned_cols=39 Identities=31% Similarity=0.960 Sum_probs=29.7
Q ss_pred ceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCCCccccc
Q 002420 72 CRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVC 118 (925)
Q Consensus 72 CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelC 118 (925)
|.||++. ..++...||. |.+|..|+.+|++ .++..||+|
T Consensus 1 C~iC~~~--~~~~~~~~C~-----H~~c~~C~~~~~~-~~~~~CP~C 39 (39)
T smart00184 1 CPICLEE--LKDPVVLPCG-----HTFCRSCIRKWLK-SGNNTCPIC 39 (39)
T ss_pred CCcCccC--CCCcEEecCC-----ChHHHHHHHHHHH-hCcCCCCCC
Confidence 7889876 2456667765 5599999999998 455689987
No 27
>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=94.08 E-value=0.03 Score=43.55 Aligned_cols=40 Identities=38% Similarity=1.035 Sum_probs=31.9
Q ss_pred ceEeCCCCCCCCCc-ccccCCCCCcceecHHHHHHHHHccCCCccccc
Q 002420 72 CRICRNPGDPENPL-RYPCACSGSIKFVHQDCLLQWLNHSNARQCEVC 118 (925)
Q Consensus 72 CrIC~~~~~~~~~l-~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelC 118 (925)
|.||++..+ ++. ..||. |.++.+|+.+|++.++...||+|
T Consensus 1 C~iC~~~~~--~~~~~~~C~-----H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFE--DPVILLPCG-----HSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCS--SEEEETTTS-----EEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCcccc--CCCEEecCC-----CcchHHHHHHHHHhcCCccCCcC
Confidence 788987543 334 56765 77999999999998888899998
No 28
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=93.52 E-value=0.08 Score=58.09 Aligned_cols=51 Identities=25% Similarity=0.731 Sum_probs=39.3
Q ss_pred cccCCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCCCcccccccceee
Q 002420 65 EEEEEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFSF 124 (925)
Q Consensus 65 ~~~~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~ 124 (925)
..+....|-+|++. .++|--.||. |.+=-.|++.|.+.+ ..||+|+.+++-
T Consensus 235 i~~a~~kC~LCLe~--~~~pSaTpCG-----HiFCWsCI~~w~~ek--~eCPlCR~~~~p 285 (293)
T KOG0317|consen 235 IPEATRKCSLCLEN--RSNPSATPCG-----HIFCWSCILEWCSEK--AECPLCREKFQP 285 (293)
T ss_pred CCCCCCceEEEecC--CCCCCcCcCc-----chHHHHHHHHHHccc--cCCCcccccCCC
Confidence 34455899999965 3466667775 778889999999765 569999998853
No 29
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.36 E-value=0.052 Score=61.41 Aligned_cols=46 Identities=35% Similarity=0.893 Sum_probs=31.8
Q ss_pred CCcceEeCCCCCC-CCCcccccC-CCCCcceecHHHHHHHHHccCC-Ccccccc
Q 002420 69 EEVCRICRNPGDP-ENPLRYPCA-CSGSIKFVHQDCLLQWLNHSNA-RQCEVCK 119 (925)
Q Consensus 69 ~~~CrIC~~~~~~-~~~l~~PC~-C~Gs~~~vH~~CL~~Wl~~s~~-~~CelCk 119 (925)
...|.|| ....+ ++.+ .|=. | -|.+|..||.||+..... +.||+|+
T Consensus 4 ~A~C~Ic-~d~~p~~~~l-~~i~~c---Ghifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 4 MAECHIC-IDGRPNDHEL-GPIGTC---GHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred cceeeEe-ccCCcccccc-ccccch---hhHHHHHHHHHHHccCCccCCCCcee
Confidence 4689999 43332 2233 2222 3 377999999999997644 7999999
No 30
>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=92.76 E-value=0.13 Score=43.49 Aligned_cols=46 Identities=15% Similarity=0.310 Sum_probs=36.3
Q ss_pred CcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCCCcccccccceee
Q 002420 70 EVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFSF 124 (925)
Q Consensus 70 ~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~ 124 (925)
-.|.||.+.- ++|...||. +.+-++|+.+|++. +..||+|+.++..
T Consensus 2 ~~Cpi~~~~~--~~Pv~~~~G-----~v~~~~~i~~~~~~--~~~cP~~~~~~~~ 47 (63)
T smart00504 2 FLCPISLEVM--KDPVILPSG-----QTYERRAIEKWLLS--HGTDPVTGQPLTH 47 (63)
T ss_pred cCCcCCCCcC--CCCEECCCC-----CEEeHHHHHHHHHH--CCCCCCCcCCCCh
Confidence 4699998754 357777763 77999999999976 5689999998754
No 31
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=92.12 E-value=0.05 Score=62.62 Aligned_cols=51 Identities=24% Similarity=0.571 Sum_probs=37.4
Q ss_pred cccCCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCCCcccccccce
Q 002420 65 EEEEEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAF 122 (925)
Q Consensus 65 ~~~~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f 122 (925)
...|-++|.+|++.-+++-..+.|=.|. |-+|..|+++|=. .+||+|++--
T Consensus 171 ~~tELPTCpVCLERMD~s~~gi~t~~c~---Hsfh~~cl~~w~~----~scpvcR~~q 221 (493)
T KOG0804|consen 171 GLTELPTCPVCLERMDSSTTGILTILCN---HSFHCSCLMKWWD----SSCPVCRYCQ 221 (493)
T ss_pred CcccCCCcchhHhhcCccccceeeeecc---cccchHHHhhccc----CcChhhhhhc
Confidence 3346799999998766554444455554 5599999999975 4899999844
No 32
>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=91.47 E-value=0.13 Score=39.94 Aligned_cols=38 Identities=29% Similarity=0.864 Sum_probs=27.5
Q ss_pred ceEeCCCCCCCCC-cccccCCCCCcceecHHHHHHHHHccCCCccccc
Q 002420 72 CRICRNPGDPENP-LRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVC 118 (925)
Q Consensus 72 CrIC~~~~~~~~~-l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelC 118 (925)
|.||++.. .+| ...||. |.+.++|+++|++. +..||+|
T Consensus 1 C~iC~~~~--~~~~~~~~CG-----H~fC~~C~~~~~~~--~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDEL--RDPVVVTPCG-----HSFCKECIEKYLEK--NPKCPVC 39 (39)
T ss_dssp ETTTTSB---SSEEEECTTS-----EEEEHHHHHHHHHC--TSB-TTT
T ss_pred CCCCCCcc--cCcCEECCCC-----CchhHHHHHHHHHC--cCCCcCC
Confidence 77897643 335 345654 88999999999987 3799988
No 33
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=91.43 E-value=0.16 Score=61.69 Aligned_cols=28 Identities=21% Similarity=0.572 Sum_probs=23.6
Q ss_pred ceecHHHHHHHHHccCCCcccccccceeec
Q 002420 96 KFVHQDCLLQWLNHSNARQCEVCKHAFSFS 125 (925)
Q Consensus 96 ~~vH~~CL~~Wl~~s~~~~CelCk~~f~~~ 125 (925)
||+|.+|+..|-+. ..+|++|+.+|.-.
T Consensus 146 H~FC~~Ci~sWsR~--aqTCPiDR~EF~~v 173 (1134)
T KOG0825|consen 146 HYFCEECVGSWSRC--AQTCPVDRGEFGEV 173 (1134)
T ss_pred cccHHHHhhhhhhh--cccCchhhhhhhee
Confidence 78999999999854 46999999999643
No 34
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=91.08 E-value=0.15 Score=59.04 Aligned_cols=50 Identities=18% Similarity=0.457 Sum_probs=38.6
Q ss_pred ccCCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCCCcccccccceee
Q 002420 66 EEEEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFSF 124 (925)
Q Consensus 66 ~~~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~ 124 (925)
-+..-.|.||++.. .+|.+.||. |.+...|+.+|+... ..||+|+..+.-
T Consensus 23 Le~~l~C~IC~d~~--~~PvitpCg-----H~FCs~CI~~~l~~~--~~CP~Cr~~~~~ 72 (397)
T TIGR00599 23 LDTSLRCHICKDFF--DVPVLTSCS-----HTFCSLCIRRCLSNQ--PKCPLCRAEDQE 72 (397)
T ss_pred cccccCCCcCchhh--hCccCCCCC-----CchhHHHHHHHHhCC--CCCCCCCCcccc
Confidence 34567999998754 356667765 679999999999764 489999998753
No 35
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.07 E-value=0.2 Score=56.50 Aligned_cols=47 Identities=23% Similarity=0.624 Sum_probs=31.7
Q ss_pred cccCCCcceEeCCCCCCCCCcc----cccCCCCCcceecHHHHHHHHHccCCCccccccccee
Q 002420 65 EEEEEEVCRICRNPGDPENPLR----YPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFS 123 (925)
Q Consensus 65 ~~~~~~~CrIC~~~~~~~~~l~----~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~ 123 (925)
+.++.+.|=||+++.- +.++ |-|.|+ +|-+.-. -.+..||+||+.+.
T Consensus 286 ~~~~gkeCVIClse~r--dt~vLPCRHLCLCs--------~Ca~~Lr--~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 286 ESESGKECVICLSESR--DTVVLPCRHLCLCS--------GCAKSLR--YQTNNCPICRQPIE 336 (349)
T ss_pred cccCCCeeEEEecCCc--ceEEecchhhehhH--------hHHHHHH--HhhcCCCccccchH
Confidence 5567899999997643 3444 445677 5655544 22358999999875
No 36
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.83 E-value=0.32 Score=52.97 Aligned_cols=61 Identities=21% Similarity=0.612 Sum_probs=42.4
Q ss_pred cccCCCcceEeCCCCC---CCCCc---ccccCCCCCcceecHHHHHHHHHccCCCcccccccceeecccc
Q 002420 65 EEEEEEVCRICRNPGD---PENPL---RYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFSFSPVY 128 (925)
Q Consensus 65 ~~~~~~~CrIC~~~~~---~~~~l---~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~~~iy 128 (925)
..-+..+|.||-..-+ +++-+ .+-=.|. |-+|+.|+.-|---.|+.+||-||.+...+...
T Consensus 220 khl~d~vCaVCg~~~~~s~~eegvienty~LsCn---HvFHEfCIrGWcivGKkqtCPYCKekVdl~rmf 286 (328)
T KOG1734|consen 220 KHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCN---HVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMF 286 (328)
T ss_pred CCCCcchhHhhcchheeecchhhhhhhheeeecc---cchHHHhhhhheeecCCCCCchHHHHhhHhhhc
Confidence 3345689999975422 11111 1233443 679999999999999999999999988765443
No 37
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=89.56 E-value=0.22 Score=40.98 Aligned_cols=46 Identities=24% Similarity=0.691 Sum_probs=23.0
Q ss_pred ceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHcc--CCCccccccccee
Q 002420 72 CRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHS--NARQCEVCKHAFS 123 (925)
Q Consensus 72 CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s--~~~~CelCk~~f~ 123 (925)
|.+|.++.+..+.-+.||.|. +|-|+.=|.... ....||-||.+|+
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cg------f~IC~~C~~~i~~~~~g~CPgCr~~Y~ 48 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECG------FQICRFCYHDILENEGGRCPGCREPYK 48 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----------HHHHHHHTTSS-SB-TTT--B--
T ss_pred CCCcccccccCCCccccCcCC------CcHHHHHHHHHHhccCCCCCCCCCCCC
Confidence 667877665556667899995 667777777655 3789999999984
No 38
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=88.70 E-value=0.3 Score=38.97 Aligned_cols=43 Identities=21% Similarity=0.607 Sum_probs=33.9
Q ss_pred cceEeCCCCC-CCCCcccccCCCCCcceecHHHHHHHHHccCCCccccccc
Q 002420 71 VCRICRNPGD-PENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKH 120 (925)
Q Consensus 71 ~CrIC~~~~~-~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~ 120 (925)
.|-||++..+ ...+.+.+|. |.+.+.|+.+.. .+...||+|++
T Consensus 1 ~C~~C~~~~~~~~~~~l~~Cg-----H~~C~~C~~~~~--~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCG-----HIFCEKCLKKLK--GKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccC-----CHHHHHHHHhhc--CCCCCCcCCCC
Confidence 3889998773 3346677775 789999999999 66789999985
No 39
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=88.27 E-value=0.77 Score=51.50 Aligned_cols=53 Identities=23% Similarity=0.612 Sum_probs=35.3
Q ss_pred ccccCCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCCCccccccccee
Q 002420 64 EEEEEEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFS 123 (925)
Q Consensus 64 ~~~~~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~ 123 (925)
|.+|++..|-||-...+- .-+.||.-+ .-+.|-.+-..--+++.|++||++..
T Consensus 56 dtDEen~~C~ICA~~~TY--s~~~PC~H~-----~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 56 DTDEENMNCQICAGSTTY--SARYPCGHQ-----ICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred ccccccceeEEecCCceE--EEeccCCch-----HHHHHHHHHHHHHhccCCCccccccc
Confidence 445667899999754332 235788743 33456666555557789999999864
No 40
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.29 E-value=0.42 Score=54.73 Aligned_cols=52 Identities=21% Similarity=0.556 Sum_probs=38.6
Q ss_pred CCCcceEeCCCCC-CCCC-cccccCCCCCcceecHHHHHHHHHccCCCccccccccee
Q 002420 68 EEEVCRICRNPGD-PENP-LRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFS 123 (925)
Q Consensus 68 ~~~~CrIC~~~~~-~~~~-l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~ 123 (925)
.+.+|.||+++.+ +.+. +.+| .|. +.+-.+|+++|+..+.+..|++|+.+-.
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl-~cg---hlFgs~cie~wl~k~~~~~cp~c~~kat 56 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSL-QCG---HLFGSQCIEKWLGKKTKMQCPLCSGKAT 56 (463)
T ss_pred ccccCceeeeeeeecCceEEeee-ccc---ccccHHHHHHHHhhhhhhhCcccCChhH
Confidence 4679999998764 3333 4443 443 7799999999997666899999997643
No 41
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=85.07 E-value=0.66 Score=51.88 Aligned_cols=53 Identities=28% Similarity=0.685 Sum_probs=39.0
Q ss_pred ccCCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHcc--CCCcccccccceee
Q 002420 66 EEEEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHS--NARQCEVCKHAFSF 124 (925)
Q Consensus 66 ~~~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s--~~~~CelCk~~f~~ 124 (925)
|+|++.|..|.++-+-.+.-+.||.|. -|-|=--|-..+ -+..||-|+..|.=
T Consensus 11 edeed~cplcie~mditdknf~pc~cg------y~ic~fc~~~irq~lngrcpacrr~y~d 65 (480)
T COG5175 11 EDEEDYCPLCIEPMDITDKNFFPCPCG------YQICQFCYNNIRQNLNGRCPACRRKYDD 65 (480)
T ss_pred ccccccCcccccccccccCCcccCCcc------cHHHHHHHHHHHhhccCCChHhhhhccc
Confidence 345677999999888777788999995 244555565443 35799999998864
No 42
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.17 E-value=2.3 Score=44.07 Aligned_cols=50 Identities=22% Similarity=0.555 Sum_probs=35.7
Q ss_pred cccCCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCCCcccccccc
Q 002420 65 EEEEEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHA 121 (925)
Q Consensus 65 ~~~~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~ 121 (925)
-.++---|.||++..++..|.- -+| .|.+-..|++.=+ ++...||+|+.+
T Consensus 127 ~~~~~~~CPiCl~~~sek~~vs--TkC---GHvFC~~Cik~al--k~~~~CP~C~kk 176 (187)
T KOG0320|consen 127 RKEGTYKCPICLDSVSEKVPVS--TKC---GHVFCSQCIKDAL--KNTNKCPTCRKK 176 (187)
T ss_pred ccccccCCCceecchhhccccc--ccc---chhHHHHHHHHHH--HhCCCCCCcccc
Confidence 3444577999998765544432 344 3778889999888 456799999974
No 43
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.09 E-value=1.4 Score=45.54 Aligned_cols=60 Identities=25% Similarity=0.449 Sum_probs=38.0
Q ss_pred cccCCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHc---cC------CCcccccccceee
Q 002420 65 EEEEEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNH---SN------ARQCEVCKHAFSF 124 (925)
Q Consensus 65 ~~~~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~---s~------~~~CelCk~~f~~ 124 (925)
.+++...|-||+.-.-++..--.-|.=..+-|-+||-||..|++. ++ -..||-|..+..+
T Consensus 161 kdd~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 161 KDDELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred cchhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 345567799998532111111133655555677999999999974 22 2579999877654
No 44
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=80.54 E-value=0.99 Score=42.75 Aligned_cols=28 Identities=21% Similarity=0.643 Sum_probs=24.5
Q ss_pred ceecHHHHHHHHHccCCCcccccccceeec
Q 002420 96 KFVHQDCLLQWLNHSNARQCEVCKHAFSFS 125 (925)
Q Consensus 96 ~~vH~~CL~~Wl~~s~~~~CelCk~~f~~~ 125 (925)
|-+|..|+.+|++.+ ..||||..+..+.
T Consensus 83 HaFH~hCisrWlktr--~vCPLdn~eW~~q 110 (114)
T KOG2930|consen 83 HAFHFHCISRWLKTR--NVCPLDNKEWVFQ 110 (114)
T ss_pred hHHHHHHHHHHHhhc--CcCCCcCcceeEe
Confidence 779999999999765 6999999998774
No 45
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=79.17 E-value=1.3 Score=57.15 Aligned_cols=54 Identities=19% Similarity=0.469 Sum_probs=41.9
Q ss_pred ccCCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHcc--------CCCccccccccee
Q 002420 66 EEEEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHS--------NARQCEVCKHAFS 123 (925)
Q Consensus 66 ~~~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s--------~~~~CelCk~~f~ 123 (925)
.+..++|.||+.|.-+ -.||.--|+.|.+|-.|..+=++.+ +-.+||+||.+..
T Consensus 3483 QD~DDmCmICFTE~L~----AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALS----AAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred cccCceEEEEehhhhC----CCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 3456899999976432 3588888999999999998766654 4689999998764
No 46
>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=77.53 E-value=2.4 Score=47.74 Aligned_cols=51 Identities=14% Similarity=0.406 Sum_probs=35.5
Q ss_pred CCcceEeCCCCC--CCC-CcccccCCCCCcceecHHHHHHHHHccCCCcccccccceeec
Q 002420 69 EEVCRICRNPGD--PEN-PLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFSFS 125 (925)
Q Consensus 69 ~~~CrIC~~~~~--~~~-~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~~ 125 (925)
+..|.+|.+..- ++- -++++|. |-+=..|+.+.+.. +...||.|+..++-.
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CG-----H~~C~sCv~~l~~~-~~~~CP~C~~~lrk~ 56 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCG-----HTLCESCVDLLFVR-GSGSCPECDTPLRKN 56 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCC-----CcccHHHHHHHhcC-CCCCCCCCCCccchh
Confidence 368999997532 222 2466664 55778999997643 556999999887653
No 47
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=76.58 E-value=3.1 Score=46.22 Aligned_cols=42 Identities=17% Similarity=0.272 Sum_probs=30.8
Q ss_pred CCCCCCcccccCCCCCc-ceecHHHHHHHHHccCCCcccccccc
Q 002420 79 GDPENPLRYPCACSGSI-KFVHQDCLLQWLNHSNARQCEVCKHA 121 (925)
Q Consensus 79 ~~~~~~l~~PC~C~Gs~-~~vH~~CL~~Wl~~s~~~~CelCk~~ 121 (925)
....+.++. |.|.+|- .|+|-.|+=-=..-+++++|+-|+..
T Consensus 226 qvsyg~Mi~-CDn~~C~~eWFH~~CVGL~~~PkgkWyC~~C~~~ 268 (274)
T KOG1973|consen 226 QVSYGKMIG-CDNPGCPIEWFHFTCVGLKTKPKGKWYCPRCKAE 268 (274)
T ss_pred ccccccccc-cCCCCCCcceEEEeccccccCCCCcccchhhhhh
Confidence 444456665 9999998 99999995322233578999999864
No 48
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=75.27 E-value=4.1 Score=48.36 Aligned_cols=57 Identities=28% Similarity=0.659 Sum_probs=41.1
Q ss_pred CCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHcc---CCCcccccccceee---cccccCCC
Q 002420 69 EEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHS---NARQCEVCKHAFSF---SPVYAENA 132 (925)
Q Consensus 69 ~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s---~~~~CelCk~~f~~---~~iy~~~~ 132 (925)
...|.||+++.. -|..+- |.|.+=-.||.+.++.+ +...||+|+..+.. .|++-+++
T Consensus 186 ~~~CPICL~~~~--~p~~t~-----CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e~~ 248 (513)
T KOG2164|consen 186 DMQCPICLEPPS--VPVRTN-----CGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIEDD 248 (513)
T ss_pred CCcCCcccCCCC--cccccc-----cCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeeccc
Confidence 688999996532 222222 45888889999988776 46889999998776 46666665
No 49
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.78 E-value=2.4 Score=51.34 Aligned_cols=51 Identities=27% Similarity=0.626 Sum_probs=37.3
Q ss_pred cccccCCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCCCcccccccceeecc
Q 002420 63 EEEEEEEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFSFSP 126 (925)
Q Consensus 63 ~~~~~~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~~~ 126 (925)
++..+.++.|++|+.+- . --+.||. |..|+.+|+..+ ..||+|+.......
T Consensus 473 ~~l~~~~~~~~~~~~~~-~--~~~~~~~--------~~~~l~~~~~~~--~~~pl~~~~~~~~~ 523 (543)
T KOG0802|consen 473 SQLREPNDVCAICYQEM-S--ARITPCS--------HALCLRKWLYVQ--EVCPLCHTYMKEDD 523 (543)
T ss_pred hhhhcccCcchHHHHHH-H--hcccccc--------chhHHHhhhhhc--cccCCCchhhhccc
Confidence 46667889999998654 1 1223444 999999999654 68999998776643
No 50
>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=73.92 E-value=1 Score=44.75 Aligned_cols=40 Identities=20% Similarity=0.382 Sum_probs=27.5
Q ss_pred CCcceEeCCCCCC-CCCcccccCCCCCc-ceecHHHHHHHHH
Q 002420 69 EEVCRICRNPGDP-ENPLRYPCACSGSI-KFVHQDCLLQWLN 108 (925)
Q Consensus 69 ~~~CrIC~~~~~~-~~~l~~PC~C~Gs~-~~vH~~CL~~Wl~ 108 (925)
.-.|+||++.-.. ++-..-+|..+--+ |.+|.+|+++|-+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence 5789999986554 34444555544332 6799999999953
No 51
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=73.77 E-value=1.4 Score=50.33 Aligned_cols=52 Identities=21% Similarity=0.654 Sum_probs=38.5
Q ss_pred cCCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCCCcccccccceeec
Q 002420 67 EEEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFSFS 125 (925)
Q Consensus 67 ~~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~~ 125 (925)
..-..|.||-+.. .+--+-||. |..-..||-.|..++....||.|+.+.+=+
T Consensus 367 sTFeLCKICaend--KdvkIEPCG-----HLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt 418 (563)
T KOG1785|consen 367 STFELCKICAEND--KDVKIEPCG-----HLLCTSCLAAWQDSDEGQTCPFCRCEIKGT 418 (563)
T ss_pred chHHHHHHhhccC--CCccccccc-----chHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence 3447899996532 234467885 445559999999888788999999988654
No 52
>PLN02189 cellulose synthase
Probab=73.73 E-value=2.2 Score=54.66 Aligned_cols=52 Identities=23% Similarity=0.549 Sum_probs=35.0
Q ss_pred CCCcceEeCCCC--CCCCCcccccC-CCCCcceecHHHHHHHHHccCCCccccccccee
Q 002420 68 EEEVCRICRNPG--DPENPLRYPCA-CSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFS 123 (925)
Q Consensus 68 ~~~~CrIC~~~~--~~~~~l~~PC~-C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~ 123 (925)
...+|+||-++- +.++..+-.|+ |. --|=+.|.+.= ...++..||.||++|+
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~---fpvCr~Cyeye-r~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECG---FPVCRPCYEYE-RREGTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCC---Cccccchhhhh-hhcCCccCcccCCchh
Confidence 457999998752 23445555665 53 22666898433 3356789999999998
No 53
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=72.29 E-value=3.1 Score=51.83 Aligned_cols=57 Identities=19% Similarity=0.561 Sum_probs=44.6
Q ss_pred ccCCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHcc-----CCCcccccccceeec
Q 002420 66 EEEEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHS-----NARQCEVCKHAFSFS 125 (925)
Q Consensus 66 ~~~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s-----~~~~CelCk~~f~~~ 125 (925)
..+.-.|.||.+.-....+. =.|+.+.+.+|-.|+.+|-..+ +.+.||-|.+.++-.
T Consensus 188 ~~~~yeCmIC~e~I~~t~~~---WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~~~ 249 (950)
T KOG1952|consen 188 SNRKYECMICTERIKRTAPV---WSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSKTV 249 (950)
T ss_pred hcCceEEEEeeeeccccCCc---eecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhccC
Confidence 34557899999876655554 3577888999999999999765 468999999887743
No 54
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=69.62 E-value=2.9 Score=33.30 Aligned_cols=40 Identities=25% Similarity=0.690 Sum_probs=27.4
Q ss_pred ceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCC--Cccccc
Q 002420 72 CRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNA--RQCEVC 118 (925)
Q Consensus 72 CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~--~~CelC 118 (925)
|.||++-- .+|...+|. |-+=+.||.+|.+.++. ..||+|
T Consensus 1 CpiC~~~~--~~Pv~l~CG-----H~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLF--KDPVSLPCG-----HSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB---SSEEE-SSS-----SEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhh--CCccccCCc-----CHHHHHHHHHHHHccCCcCCCCcCC
Confidence 77888654 357777775 56889999999987755 489988
No 55
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=68.71 E-value=6.3 Score=40.30 Aligned_cols=40 Identities=28% Similarity=0.557 Sum_probs=27.2
Q ss_pred CCCcceEeCCCCC--------CCCCcccccCCCCCcceecHHHHHHHHHc
Q 002420 68 EEEVCRICRNPGD--------PENPLRYPCACSGSIKFVHQDCLLQWLNH 109 (925)
Q Consensus 68 ~~~~CrIC~~~~~--------~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~ 109 (925)
|+..|.||++--+ +-+.--.|-.|..| |-|..||+|.-+.
T Consensus 1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts--~rhSNCLdqfkka 48 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTS--YRHSNCLDQFKKA 48 (162)
T ss_pred CCccCceeccCCCceEEEEeccccCCccccccCCc--cchhHHHHHHHHH
Confidence 3578999987432 11223356667755 7899999999864
No 56
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=68.49 E-value=3.6 Score=52.95 Aligned_cols=51 Identities=22% Similarity=0.432 Sum_probs=32.1
Q ss_pred CCCcceEeCCCC--CC-CCCcc--cccCCCCCcceecHHHHHHHHHccCCCcccccccceee
Q 002420 68 EEEVCRICRNPG--DP-ENPLR--YPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFSF 124 (925)
Q Consensus 68 ~~~~CrIC~~~~--~~-~~~l~--~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~ 124 (925)
...+|+||-++- +. +++.+ +-| --=|=+.|.+-=.+ .++..||.||++|+-
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC-----~FPVCrpCYEYEr~-eG~q~CPqCktrYkr 71 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVC-----AFPVCRPCYEYERK-DGNQSCPQCKTKYKR 71 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccC-----CCccccchhhhhhh-cCCccCCccCCchhh
Confidence 457999998652 23 33442 455 12244588743333 467899999999984
No 57
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=67.86 E-value=3.1 Score=33.56 Aligned_cols=40 Identities=35% Similarity=0.796 Sum_probs=21.8
Q ss_pred ceEeCCCCCCCC-CcccccCCCCCcceecHHHHHHHHHcc--CCCccc
Q 002420 72 CRICRNPGDPEN-PLRYPCACSGSIKFVHQDCLLQWLNHS--NARQCE 116 (925)
Q Consensus 72 CrIC~~~~~~~~-~l~~PC~C~Gs~~~vH~~CL~~Wl~~s--~~~~Ce 116 (925)
|-||++..++++ |...||. |-+=++||+++.+.+ ++-+||
T Consensus 1 CpIc~e~~~~~n~P~~L~CG-----H~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKEFSTEENPPMVLPCG-----HVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT----TTSS-EEE-SSS------EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCccccccCCCCCCEEEeCc-----cHHHHHHHHHHHhcCCCCeeeCc
Confidence 778887434444 5677865 569999999999976 466665
No 58
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=67.76 E-value=3.8 Score=47.14 Aligned_cols=36 Identities=19% Similarity=0.652 Sum_probs=27.4
Q ss_pred cccCCCCCcceecHHHHHHHHHcc-----------CCCcccccccceeec
Q 002420 87 YPCACSGSIKFVHQDCLLQWLNHS-----------NARQCEVCKHAFSFS 125 (925)
Q Consensus 87 ~PC~C~Gs~~~vH~~CL~~Wl~~s-----------~~~~CelCk~~f~~~ 125 (925)
.+|.|+- .-=-+|+-||+.++ ++-.||.|+.+|=+.
T Consensus 307 ~~C~CRP---mWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCil 353 (358)
T PF10272_consen 307 QQCYCRP---MWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCIL 353 (358)
T ss_pred ccccccc---hHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceee
Confidence 4677763 23468999999754 578999999999664
No 59
>PLN02436 cellulose synthase A
Probab=67.75 E-value=3.5 Score=52.95 Aligned_cols=53 Identities=19% Similarity=0.453 Sum_probs=34.8
Q ss_pred CCCcceEeCCCC--CCCCCcccccC-CCCCcceecHHHHHHHHHccCCCcccccccceee
Q 002420 68 EEEVCRICRNPG--DPENPLRYPCA-CSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFSF 124 (925)
Q Consensus 68 ~~~~CrIC~~~~--~~~~~l~~PC~-C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~ 124 (925)
...+|+||-++- +.+++++-.|+ |. --|-+.|.+. -...++..||.||++|+-
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~---fpvCr~Cyey-er~eg~~~Cpqckt~Y~r 90 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECA---FPVCRPCYEY-ERREGNQACPQCKTRYKR 90 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCC---Cccccchhhh-hhhcCCccCcccCCchhh
Confidence 456999998652 34445554555 42 2266689843 334567899999999983
No 60
>PLN02195 cellulose synthase A
Probab=67.68 E-value=4.1 Score=51.98 Aligned_cols=52 Identities=17% Similarity=0.417 Sum_probs=33.2
Q ss_pred ccCCCcceEeCCCC--CC-CCCcc--cccCCCCCcceecHHHHHHHHHccCCCccccccccee
Q 002420 66 EEEEEVCRICRNPG--DP-ENPLR--YPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFS 123 (925)
Q Consensus 66 ~~~~~~CrIC~~~~--~~-~~~l~--~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~ 123 (925)
|....+|+||-++- +. +++.+ +-| ---|-+.|.+-=.+ .++..||.||++|+
T Consensus 3 ~~~~~~c~~cgd~~~~~~~g~~fvaC~eC-----~~pvCrpCyeyer~-eg~q~CpqCkt~Yk 59 (977)
T PLN02195 3 ESGAPICATCGEEVGVDSNGEAFVACHEC-----SYPLCKACLEYEIK-EGRKVCLRCGGPYD 59 (977)
T ss_pred cCCCccceecccccCcCCCCCeEEEeccC-----CCccccchhhhhhh-cCCccCCccCCccc
Confidence 45678999997642 22 34442 444 22255588743333 46789999999998
No 61
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=67.57 E-value=2.9 Score=50.92 Aligned_cols=59 Identities=29% Similarity=0.547 Sum_probs=42.8
Q ss_pred CcceEeCCCC-CCCCCcccccCCCCCcceecHHHH-------HHHHHcc-------CCCcccccccceeeccccc
Q 002420 70 EVCRICRNPG-DPENPLRYPCACSGSIKFVHQDCL-------LQWLNHS-------NARQCEVCKHAFSFSPVYA 129 (925)
Q Consensus 70 ~~CrIC~~~~-~~~~~l~~PC~C~Gs~~~vH~~CL-------~~Wl~~s-------~~~~CelCk~~f~~~~iy~ 129 (925)
.=|-+|-+|- =.||||++ |.=.+|---|||.|- =.|+-.+ -..+||+|-+++--.+..+
T Consensus 6 GGCCVCSDErGWaeNPLVY-CDG~nCsVAVHQaCYGIvqVPtGpWfCrKCesqeraarvrCeLCP~kdGALKkTD 79 (900)
T KOG0956|consen 6 GGCCVCSDERGWAENPLVY-CDGHNCSVAVHQACYGIVQVPTGPWFCRKCESQERAARVRCELCPHKDGALKKTD 79 (900)
T ss_pred cceeeecCcCCCccCceee-ecCCCceeeeehhcceeEecCCCchhhhhhhhhhhhccceeecccCcccceeccc
Confidence 3488997653 36899986 777777788999995 4688543 2589999999876544443
No 62
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=67.54 E-value=3.7 Score=40.79 Aligned_cols=56 Identities=25% Similarity=0.467 Sum_probs=39.8
Q ss_pred CCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCCCcccccccceeec
Q 002420 68 EEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFSFS 125 (925)
Q Consensus 68 ~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~~ 125 (925)
.--.|-||++... |+....|=.|=|. +.----|..-|--.+-...||+||+.|+-+
T Consensus 79 ~lYeCnIC~etS~-ee~FLKPneCCgY-~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 79 KLYECNICKETSA-EERFLKPNECCGY-SICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred CceeccCcccccc-hhhcCCcccccch-HHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 4567999987655 4457788888773 223334466777767789999999999753
No 63
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=67.12 E-value=4.4 Score=45.70 Aligned_cols=47 Identities=23% Similarity=0.503 Sum_probs=36.8
Q ss_pred CCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCCCccccccccee
Q 002420 68 EEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFS 123 (925)
Q Consensus 68 ~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~ 123 (925)
.--.|-||++-.. -|++.||. |-+-.-|+...++. +..||.|..+|+
T Consensus 22 ~lLRC~IC~eyf~--ip~itpCs-----HtfCSlCIR~~L~~--~p~CP~C~~~~~ 68 (442)
T KOG0287|consen 22 DLLRCGICFEYFN--IPMITPCS-----HTFCSLCIRKFLSY--KPQCPTCCVTVT 68 (442)
T ss_pred HHHHHhHHHHHhc--Cceecccc-----chHHHHHHHHHhcc--CCCCCceecccc
Confidence 4478999986543 48999976 34778899999955 579999999885
No 64
>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=65.44 E-value=3.1 Score=36.88 Aligned_cols=49 Identities=20% Similarity=0.378 Sum_probs=32.9
Q ss_pred CCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCCCcccccccceeec
Q 002420 69 EEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFSFS 125 (925)
Q Consensus 69 ~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~~ 125 (925)
+-.|-||.+-- .+|.+.||. +.+-+.|+++|++. +...||+|+.....+
T Consensus 4 ~f~CpIt~~lM--~dPVi~~~G-----~tyer~~I~~~l~~-~~~~~P~t~~~l~~~ 52 (73)
T PF04564_consen 4 EFLCPITGELM--RDPVILPSG-----HTYERSAIERWLEQ-NGGTDPFTRQPLSES 52 (73)
T ss_dssp GGB-TTTSSB---SSEEEETTS-----EEEEHHHHHHHHCT-TSSB-TTT-SB-SGG
T ss_pred ccCCcCcCcHh--hCceeCCcC-----CEEcHHHHHHHHHc-CCCCCCCCCCcCCcc
Confidence 35688887543 357777754 56999999999986 467999999877643
No 65
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=63.78 E-value=3.4 Score=45.69 Aligned_cols=48 Identities=23% Similarity=0.419 Sum_probs=35.7
Q ss_pred CCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCCCcccccccceee
Q 002420 68 EEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFSF 124 (925)
Q Consensus 68 ~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~ 124 (925)
....||||.+-- .-|...||. |-+-.-|+.+-+. .+..||+|+.++..
T Consensus 24 s~lrC~IC~~~i--~ip~~TtCg-----HtFCslCIR~hL~--~qp~CP~Cr~~~~e 71 (391)
T COG5432 24 SMLRCRICDCRI--SIPCETTCG-----HTFCSLCIRRHLG--TQPFCPVCREDPCE 71 (391)
T ss_pred hHHHhhhhhhee--ecceecccc-----cchhHHHHHHHhc--CCCCCccccccHHh
Confidence 457899997643 235666765 4477899998885 45799999998865
No 66
>PLN02400 cellulose synthase
Probab=59.91 E-value=5.1 Score=51.64 Aligned_cols=50 Identities=20% Similarity=0.450 Sum_probs=30.4
Q ss_pred CCCcceEeCCCC--CC-CCCcc--cccCCCCCcceecHHHHHHHHHccCCCccccccccee
Q 002420 68 EEEVCRICRNPG--DP-ENPLR--YPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFS 123 (925)
Q Consensus 68 ~~~~CrIC~~~~--~~-~~~l~--~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~ 123 (925)
...+|+||-++- +. +++.+ +-|. --|=+.|.+-=. ..++..||.||++|+
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCa-----FPVCRpCYEYER-keGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECA-----FPVCRPCYEYER-KDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCC-----Cccccchhheec-ccCCccCcccCCccc
Confidence 457999998652 22 33442 4551 113447763222 235789999999998
No 67
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=56.41 E-value=4.9 Score=44.72 Aligned_cols=53 Identities=21% Similarity=0.481 Sum_probs=36.0
Q ss_pred CCCcceEeCCCCCCCC-CcccccCCCCCcceecHHHHHHHHHcc---------------------CCCcccccccceeec
Q 002420 68 EEEVCRICRNPGDPEN-PLRYPCACSGSIKFVHQDCLLQWLNHS---------------------NARQCEVCKHAFSFS 125 (925)
Q Consensus 68 ~~~~CrIC~~~~~~~~-~l~~PC~C~Gs~~~vH~~CL~~Wl~~s---------------------~~~~CelCk~~f~~~ 125 (925)
....|-||+-...++. -.+.+|- ||.|..||.+.+.+- -+..|++|+.+....
T Consensus 114 p~gqCvICLygfa~~~~ft~T~C~-----Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e 188 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTACD-----HYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE 188 (368)
T ss_pred CCCceEEEEEeecCCCceeeehhH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence 4577888885433332 2346664 999999998877531 135699999987763
No 68
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=55.65 E-value=5.3 Score=48.73 Aligned_cols=57 Identities=28% Similarity=0.533 Sum_probs=41.6
Q ss_pred CCCcceEeCCCCCCCCC---cccccCCCCCcceecHHHHHHHH---H-----ccCCCcccccccceee
Q 002420 68 EEEVCRICRNPGDPENP---LRYPCACSGSIKFVHQDCLLQWL---N-----HSNARQCEVCKHAFSF 124 (925)
Q Consensus 68 ~~~~CrIC~~~~~~~~~---l~~PC~C~Gs~~~vH~~CL~~Wl---~-----~s~~~~CelCk~~f~~ 124 (925)
..+.|-||.+++.+.+- --+-|+=.||.+-+|..|-++== + ..+-++|--|||.|.-
T Consensus 116 fnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~HfsK 183 (900)
T KOG0956|consen 116 FNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHFSK 183 (900)
T ss_pred hcceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHHHHHH
Confidence 45899999877654332 23678888899999999976521 1 1256899999999865
No 69
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=55.60 E-value=8 Score=43.93 Aligned_cols=49 Identities=29% Similarity=0.687 Sum_probs=35.5
Q ss_pred ccCCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCCCccccccccee
Q 002420 66 EEEEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFS 123 (925)
Q Consensus 66 ~~~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~ 123 (925)
+.|++.|.||+.. +-+..+.||+-+.+ ..|+.|=+-. .+.|=.||+...
T Consensus 419 ~sEd~lCpICyA~--pi~Avf~PC~H~SC-----~~CI~qHlmN--~k~CFfCktTv~ 467 (489)
T KOG4692|consen 419 DSEDNLCPICYAG--PINAVFAPCSHRSC-----YGCITQHLMN--CKRCFFCKTTVI 467 (489)
T ss_pred CcccccCcceecc--cchhhccCCCCchH-----HHHHHHHHhc--CCeeeEecceee
Confidence 3567899999853 23567899985533 4788777754 468999998776
No 70
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=55.11 E-value=5.5 Score=47.21 Aligned_cols=55 Identities=24% Similarity=0.647 Sum_probs=42.6
Q ss_pred ccccCCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHc---cCCCcccccccceeec
Q 002420 64 EEEEEEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNH---SNARQCEVCKHAFSFS 125 (925)
Q Consensus 64 ~~~~~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~---s~~~~CelCk~~f~~~ 125 (925)
++..++.+|.+|+++. +++..+.|+-+ +-+.|+.+.+.. +++.+||.|.-...+.
T Consensus 531 ~enk~~~~C~lc~d~a--ed~i~s~ChH~-----FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 531 DENKGEVECGLCHDPA--EDYIESSCHHK-----FCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred ccccCceeecccCChh--hhhHhhhhhHH-----HHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 5666789999999764 45777777744 778999999864 4569999999888764
No 71
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=53.88 E-value=10 Score=41.78 Aligned_cols=49 Identities=22% Similarity=0.547 Sum_probs=35.1
Q ss_pred CCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHH-HHHccCCCcccccccceeec
Q 002420 69 EEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQ-WLNHSNARQCEVCKHAFSFS 125 (925)
Q Consensus 69 ~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~-Wl~~s~~~~CelCk~~f~~~ 125 (925)
...|-||.+.. +.|. |+++.|.+--.||.. |-+. +...|++|+..-..+
T Consensus 215 d~kC~lC~e~~--~~ps-----~t~CgHlFC~~Cl~~~~t~~-k~~~CplCRak~~pk 264 (271)
T COG5574 215 DYKCFLCLEEP--EVPS-----CTPCGHLFCLSCLLISWTKK-KYEFCPLCRAKVYPK 264 (271)
T ss_pred ccceeeeeccc--CCcc-----cccccchhhHHHHHHHHHhh-ccccCchhhhhccch
Confidence 46799998653 4555 444558888999999 8753 456799999876543
No 72
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.57 E-value=6.6 Score=41.61 Aligned_cols=48 Identities=29% Similarity=0.582 Sum_probs=36.4
Q ss_pred ccccCCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCCCccccccc
Q 002420 64 EEEEEEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKH 120 (925)
Q Consensus 64 ~~~~~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~ 120 (925)
+..+++-.|.||++.... |.+.||. |.+=..|+.++.. ....||.|+.
T Consensus 8 ~~~~~~~~C~iC~~~~~~--p~~l~C~-----H~~c~~C~~~~~~--~~~~Cp~cr~ 55 (386)
T KOG2177|consen 8 EVLQEELTCPICLEYFRE--PVLLPCG-----HNFCRACLTRSWE--GPLSCPVCRP 55 (386)
T ss_pred hhccccccChhhHHHhhc--Ccccccc-----chHhHHHHHHhcC--CCcCCcccCC
Confidence 345678999999976543 3556665 5577899999998 6689999993
No 73
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=51.51 E-value=9.6 Score=30.65 Aligned_cols=22 Identities=27% Similarity=0.860 Sum_probs=16.1
Q ss_pred eecHHHHHHHHHccCCCccccc
Q 002420 97 FVHQDCLLQWLNHSNARQCEVC 118 (925)
Q Consensus 97 ~vH~~CL~~Wl~~s~~~~CelC 118 (925)
-+|..|+.+++++.+...||.|
T Consensus 22 r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 22 RLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp EE-HHHHHHHTTT-SS-B-TTT
T ss_pred hHHHHHHHHHHhcCCCCCCcCC
Confidence 3999999999998877799987
No 74
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=49.75 E-value=13 Score=47.89 Aligned_cols=50 Identities=18% Similarity=0.462 Sum_probs=31.8
Q ss_pred CCCcceEeCCCC--CC-CCCcc--cccCCCCCcceecHHHHHHHHHccCCCccccccccee
Q 002420 68 EEEVCRICRNPG--DP-ENPLR--YPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFS 123 (925)
Q Consensus 68 ~~~~CrIC~~~~--~~-~~~l~--~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~ 123 (925)
...+|.||-++- +. +++.+ +-|. --|-+.|.+-=. ..++..|+.||++|+
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~-----fpvCr~cyeye~-~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCG-----FPVCKPCYEYER-SEGNQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCC-----Cccccchhhhhh-hcCCccCCccCCchh
Confidence 568999997642 22 33442 4551 224458874333 346789999999998
No 75
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.71 E-value=11 Score=42.21 Aligned_cols=44 Identities=27% Similarity=0.802 Sum_probs=27.5
Q ss_pred CCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHc---cCCCccccccccee
Q 002420 69 EEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNH---SNARQCEVCKHAFS 123 (925)
Q Consensus 69 ~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~---s~~~~CelCk~~f~ 123 (925)
.++|-||++... .|...+| .|.-|-.- ++. .++..|.+|+.++.
T Consensus 7 ~~eC~IC~nt~n--~Pv~l~C--------~HkFCyiC-iKGsy~ndk~~CavCR~pid 53 (324)
T KOG0824|consen 7 KKECLICYNTGN--CPVNLYC--------FHKFCYIC-IKGSYKNDKKTCAVCRFPID 53 (324)
T ss_pred CCcceeeeccCC--cCccccc--------cchhhhhh-hcchhhcCCCCCceecCCCC
Confidence 478999997542 3444555 45555322 221 24678999999875
No 76
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=44.76 E-value=22 Score=32.39 Aligned_cols=56 Identities=16% Similarity=0.349 Sum_probs=21.6
Q ss_pred cCCCcceEeCCCC--CCCCCcccccCCCCCcceecHHHHHHHHHccCCCcccccccceeec
Q 002420 67 EEEEVCRICRNPG--DPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFSFS 125 (925)
Q Consensus 67 ~~~~~CrIC~~~~--~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~~ 125 (925)
-...+|.||-++- +.++.++--| ..+---+-+.|.+-=.+. ++..|+.||++|.-.
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC--~eC~fPvCr~CyEYErke-g~q~CpqCkt~ykr~ 64 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVAC--HECAFPVCRPCYEYERKE-GNQVCPQCKTRYKRH 64 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S---SSS-----HHHHHHHHHT-S-SB-TTT--B----
T ss_pred cCCcccccccCccccCCCCCEEEEE--cccCCccchhHHHHHhhc-CcccccccCCCcccc
Confidence 3568999997642 2223343222 233233778998766654 567999999999753
No 77
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=44.13 E-value=13 Score=40.76 Aligned_cols=26 Identities=19% Similarity=0.383 Sum_probs=16.4
Q ss_pred cceecHHHHHHHHHccCCCccccccc
Q 002420 95 IKFVHQDCLLQWLNHSNARQCEVCKH 120 (925)
Q Consensus 95 ~~~vH~~CL~~Wl~~s~~~~CelCk~ 120 (925)
..|+|-+|+--==--+++++||-||.
T Consensus 244 rEWFH~~CVGLk~pPKG~WYC~eCk~ 269 (271)
T COG5034 244 REWFHLECVGLKEPPKGKWYCPECKK 269 (271)
T ss_pred hhheeccccccCCCCCCcEeCHHhHh
Confidence 35778888321001247899999986
No 78
>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]
Probab=42.19 E-value=2.4e+02 Score=30.63 Aligned_cols=78 Identities=17% Similarity=0.276 Sum_probs=47.5
Q ss_pred HHHHHHHHHhhhhhHhHHHHHhhhhhhcccchHHHH-HHhhcCchhHHHHHHHHHHHHHHHHHHHHHHHHhhccCceEee
Q 002420 534 VAFLLVIELGVFPLMCGWWLDVCTIRMFGKSMSERV-QFFSVSPLASSLVHWVVGIVYMLQISIFVSLLRGVLRNGVLYF 612 (925)
Q Consensus 534 V~~i~~iEl~vFPl~cG~~LD~c~lplf~~t~~~r~-~~~~~~p~~s~f~hW~vGt~yM~~fA~fv~~~R~IlRpGVL~F 612 (925)
|+.++.+||++|=++| +|+ ......++ ......+....+.|-+.+|+.+ .+-+|+--+|+|-.-+-.+
T Consensus 5 vf~iL~~Eial~~iL~--------Lpi-p~r~~~~~~~~~~~~~~~~~~~~~i~~~~~v-illlfiDsvr~i~~~~~~~- 73 (216)
T KOG1962|consen 5 VFTILYAEIALFLILL--------LPI-PPRRRRKIFKDRLKSGLAPQVLKTIATTMIV-ILLLFIDSVRRIQKYVSEY- 73 (216)
T ss_pred HHHHHHHHHHHHHHHH--------cCC-CHHHHHHHHHHHHHHhhhhHHHHHHHHHHHH-HHHHHHHHHHHHHHhhhhh-
Confidence 7889999999987776 676 32222222 2223344555666666666555 5567788888877444333
Q ss_pred ecCCCCCCCch
Q 002420 613 LRDPADPNYNP 623 (925)
Q Consensus 613 iRdp~DP~f~p 623 (925)
..-..|+-+|
T Consensus 74 -~~~~n~~~~~ 83 (216)
T KOG1962|consen 74 -GSMANPTDQP 83 (216)
T ss_pred -hcccCCccch
Confidence 5555565566
No 79
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.67 E-value=14 Score=31.43 Aligned_cols=42 Identities=21% Similarity=0.558 Sum_probs=25.5
Q ss_pred CcceEeCCCCCCCCCcc----cccCCCCCcceecHHHHHHHHHccCCCcccccccce
Q 002420 70 EVCRICRNPGDPENPLR----YPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAF 122 (925)
Q Consensus 70 ~~CrIC~~~~~~~~~l~----~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f 122 (925)
+.|.||++..- +... +-|.|- +|-.+-.+. .+-+||+|+.+.
T Consensus 8 dECTICye~pv--dsVlYtCGHMCmCy--------~Cg~rl~~~-~~g~CPiCRapi 53 (62)
T KOG4172|consen 8 DECTICYEHPV--DSVLYTCGHMCMCY--------ACGLRLKKA-LHGCCPICRAPI 53 (62)
T ss_pred cceeeeccCcc--hHHHHHcchHHhHH--------HHHHHHHHc-cCCcCcchhhHH
Confidence 78999986432 2222 346664 674443332 567999999643
No 80
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=40.04 E-value=25 Score=38.95 Aligned_cols=56 Identities=20% Similarity=0.345 Sum_probs=41.0
Q ss_pred CCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHH-cc------CCCcccccccceee
Q 002420 69 EEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLN-HS------NARQCEVCKHAFSF 124 (925)
Q Consensus 69 ~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~-~s------~~~~CelCk~~f~~ 124 (925)
...|.+|.++-++.++.+.-|.=+++-...|-.||-.-+. .. -.-.|+.|+..+..
T Consensus 182 ~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~~w 244 (276)
T KOG3005|consen 182 NVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFLSW 244 (276)
T ss_pred chhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhceeeH
Confidence 3689999877655556667788778888899999988332 21 25789999985543
No 81
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=39.28 E-value=12 Score=34.72 Aligned_cols=34 Identities=26% Similarity=0.699 Sum_probs=22.9
Q ss_pred cCCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHH
Q 002420 67 EEEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQ 105 (925)
Q Consensus 67 ~~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~ 105 (925)
+++..|.+|...-..+.=.+.||. +.+|..|..+
T Consensus 76 ~~~~~C~vC~k~l~~~~f~~~p~~-----~v~H~~C~~r 109 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNSVFVVFPCG-----HVVHYSCIKR 109 (109)
T ss_pred CCCCCccCcCCcCCCceEEEeCCC-----eEEecccccC
Confidence 456789999875443322356764 6799999753
No 82
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=37.58 E-value=34 Score=38.93 Aligned_cols=69 Identities=19% Similarity=0.235 Sum_probs=47.9
Q ss_pred CCCccccCCCCCC--CcccccccCCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCCCccccccccee
Q 002420 47 AEDDREKTSSTGF--DIEEEEEEEEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFS 123 (925)
Q Consensus 47 ~~~~~~~~~~~~~--~~~~~~~~~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~ 123 (925)
.-|.+.+.++-.+ ++.|+.+.+...|.+|+. ...+||-|.-|..-+--.|..+.++ +..+||+=+++-.
T Consensus 276 ~l~~p~PpPPh~~~~se~e~l~~~~~~CpvClk------~r~Nptvl~vSGyVfCY~Ci~~Yv~--~~~~CPVT~~p~~ 346 (357)
T KOG0826|consen 276 TLDPPIPPPPHKQYNSESELLPPDREVCPVCLK------KRQNPTVLEVSGYVFCYPCIFSYVV--NYGHCPVTGYPAS 346 (357)
T ss_pred CCCCCCCcCChhhcccccccCCCccccChhHHh------ccCCCceEEecceEEeHHHHHHHHH--hcCCCCccCCcch
Confidence 3444555555222 222455556789999974 3557999998877889999999997 5579999877543
No 83
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=37.02 E-value=22 Score=40.97 Aligned_cols=53 Identities=21% Similarity=0.578 Sum_probs=34.9
Q ss_pred cCCCcceEeCCCCCCCC------CcccccCCCCCcceecHHHHHHHHHccC-----CCcccccccceee
Q 002420 67 EEEEVCRICRNPGDPEN------PLRYPCACSGSIKFVHQDCLLQWLNHSN-----ARQCEVCKHAFSF 124 (925)
Q Consensus 67 ~~~~~CrIC~~~~~~~~------~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~-----~~~CelCk~~f~~ 124 (925)
..++.|-||.+...... -...+|+ |.+=..|..+|.+..+ .+.||.|+..=++
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~-----H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~ 222 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCN-----HSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF 222 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcc-----hhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence 34789999987532111 0113454 4466789999997655 6899999986443
No 85
>PF13430 DUF4112: Domain of unknown function (DUF4112)
Probab=35.79 E-value=48 Score=31.84 Aligned_cols=52 Identities=17% Similarity=0.303 Sum_probs=32.0
Q ss_pred cchHHHHHHHHHHHHHHHhhhHhhhhhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hhhhh
Q 002420 854 CNDLYAFIIGSYVIWTAVAGARYSIEHVRTKRAAILFKQIWKWCGIVVKSSALLSIWVRVILVIIL-LKDFI 924 (925)
Q Consensus 854 ~~DlYa~~iG~yv~w~~~~~~~~~~~~~~~~r~~~~~~~i~~w~~~~~K~~~~~~i~~~viPlL~g-l~~~~ 924 (925)
+-|++++.+++|++|.+.+.. +|..-..-++. =++.=..++.||+ +| +||+.
T Consensus 38 vGD~~~~~~s~~iv~~a~~~g------~p~~l~~~M~~------------Ni~iD~~iG~IP~-vGd~~D~~ 90 (106)
T PF13430_consen 38 VGDIISALLSLYIVYEARRLG------LPKWLLARMLF------------NILIDFLIGLIPV-VGDIFDFF 90 (106)
T ss_pred HhHHHHHHHHHHHHHHHHHcC------CCHHHHHHHHH------------HHHHHHHhCcccc-hhHHHHHH
Confidence 459999999999999775431 12211111111 1233455688999 88 99874
No 86
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=35.17 E-value=18 Score=30.88 Aligned_cols=45 Identities=18% Similarity=0.423 Sum_probs=28.4
Q ss_pred cCCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCCCcccc
Q 002420 67 EEEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEV 117 (925)
Q Consensus 67 ~~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~Cel 117 (925)
.-...|.|... ++..|-+.+-+.|-+-++.+++|++.++...||+
T Consensus 9 ~~~~~CPiT~~------~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQ------PFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSS------B-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCC------hhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 34467887764 3445555555568899999999997778899999
No 87
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=34.61 E-value=22 Score=40.29 Aligned_cols=52 Identities=17% Similarity=0.475 Sum_probs=37.1
Q ss_pred cccCCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCCCcccccccceee
Q 002420 65 EEEEEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFSF 124 (925)
Q Consensus 65 ~~~~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~ 124 (925)
+.....+|++|..-- -+-.-+.-|.|+ +=..||.+-+.. ..+||.|+....-
T Consensus 11 ~~n~~itC~LC~GYl-iDATTI~eCLHT-----FCkSCivk~l~~--~~~CP~C~i~ih~ 62 (331)
T KOG2660|consen 11 ELNPHITCRLCGGYL-IDATTITECLHT-----FCKSCIVKYLEE--SKYCPTCDIVIHK 62 (331)
T ss_pred hcccceehhhcccee-ecchhHHHHHHH-----HHHHHHHHHHHH--hccCCccceeccC
Confidence 345678999996422 122345667766 778999999988 5799999976653
No 88
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.70 E-value=17 Score=46.01 Aligned_cols=39 Identities=28% Similarity=0.675 Sum_probs=27.2
Q ss_pred cccCCCcceEeCCCCCCCCC-cccccCCCCCcceecHHHHHHHHHc
Q 002420 65 EEEEEEVCRICRNPGDPENP-LRYPCACSGSIKFVHQDCLLQWLNH 109 (925)
Q Consensus 65 ~~~~~~~CrIC~~~~~~~~~-l~~PC~C~Gs~~~vH~~CL~~Wl~~ 109 (925)
.-+..+.|.+|-..-- ..| .+.||. |.+|.+||.+=...
T Consensus 813 v~ep~d~C~~C~~~ll-~~pF~vf~Cg-----H~FH~~Cl~~~v~~ 852 (911)
T KOG2034|consen 813 VLEPQDSCDHCGRPLL-IKPFYVFPCG-----HCFHRDCLIRHVLS 852 (911)
T ss_pred EecCccchHHhcchhh-cCcceeeecc-----chHHHHHHHHHHHc
Confidence 3466799999965433 234 357886 66999999887643
No 89
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.62 E-value=25 Score=36.12 Aligned_cols=26 Identities=27% Similarity=0.796 Sum_probs=19.8
Q ss_pred cCCCcceEeCCCCCCCCCc-ccccCCC
Q 002420 67 EEEEVCRICRNPGDPENPL-RYPCACS 92 (925)
Q Consensus 67 ~~~~~CrIC~~~~~~~~~l-~~PC~C~ 92 (925)
++...|-||+++-++++.+ ..||.|-
T Consensus 175 ddkGECvICLEdL~~GdtIARLPCLCI 201 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAGDTIARLPCLCI 201 (205)
T ss_pred ccCCcEEEEhhhccCCCceeccceEEE
Confidence 4557899999887766554 6799994
No 90
>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=31.18 E-value=24 Score=29.30 Aligned_cols=35 Identities=23% Similarity=0.607 Sum_probs=15.3
Q ss_pred CcccccCCCCCcceecHHH--HHHHHHc---cCCCcccccccc
Q 002420 84 PLRYPCACSGSIKFVHQDC--LLQWLNH---SNARQCEVCKHA 121 (925)
Q Consensus 84 ~l~~PC~C~Gs~~~vH~~C--L~~Wl~~---s~~~~CelCk~~ 121 (925)
.+..|++=+.+ .|.+| |+.|++. ++++.||+|+++
T Consensus 11 ~i~~P~Rg~~C---~H~~CFDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 11 RIRIPVRGKNC---KHLQCFDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp B-SSEEEETT-----SS--EEHHHHHHHHHHS---B-TTT---
T ss_pred EEEeCccCCcC---cccceECHHHHHHHhhccCCeECcCCcCc
Confidence 45566664444 67788 5677764 467999999863
No 91
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=30.87 E-value=4.2e+02 Score=27.61 Aligned_cols=16 Identities=38% Similarity=0.393 Sum_probs=12.8
Q ss_pred HHHHHHHHHhhhhhHh
Q 002420 534 VAFLLVIELGVFPLMC 549 (925)
Q Consensus 534 V~~i~~iEl~vFPl~c 549 (925)
|+.++.+||+++=++|
T Consensus 8 vf~~L~~Ei~~~~lL~ 23 (192)
T PF05529_consen 8 VFGLLYAEIAVLLLLV 23 (192)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5788889999887665
No 92
>PF04515 Choline_transpo: Plasma-membrane choline transporter; InterPro: IPR007603 This entry represents a family of proteins probably involved in transport through the plasma membrane [].
Probab=30.57 E-value=5e+02 Score=29.09 Aligned_cols=56 Identities=11% Similarity=0.191 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHHHHhhccCceE--eeecCCC-CCCCchhHHhhhchHHHHHHHHHHHHH
Q 002420 589 VYMLQISIFVSLLRGVLRNGVL--YFLRDPA-DPNYNPFRDLIDDPVHKHARRVLLSVA 644 (925)
Q Consensus 589 ~yM~~fA~fv~~~R~IlRpGVL--~FiRdp~-DP~f~pi~d~l~~p~~~qlrri~~S~~ 644 (925)
..++|...++.-+.++.=-|+. ||..+.+ |..-+|+...+.+-+..|+.-++++.+
T Consensus 109 f~~~W~~~~i~~~~~~~vag~v~~WYF~~~~~~~~~~~~~~s~~~~~~~~~GSi~~gSl 167 (334)
T PF04515_consen 109 FSFFWTSQFILNVQQFTVAGVVAQWYFSRDKPNMPKSPVLRSLKRALTYHFGSICFGSL 167 (334)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhheecCCcccccchHHHHHHHHHHHHhHHHHHHHHH
Confidence 3456677777778888778874 5544444 667789999999999999977754443
No 93
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=27.34 E-value=52 Score=35.54 Aligned_cols=51 Identities=24% Similarity=0.584 Sum_probs=36.5
Q ss_pred cCCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHcc------CCCcccccccce
Q 002420 67 EEEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHS------NARQCEVCKHAF 122 (925)
Q Consensus 67 ~~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s------~~~~CelCk~~f 122 (925)
+...-||.|-..-.+++...--| .+.+|=+||.+|-..- ...+||-|..+.
T Consensus 48 DY~pNC~LC~t~La~gdt~RLvC-----yhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei 104 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTTRLVC-----YHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI 104 (299)
T ss_pred CCCCCCceeCCccccCcceeehh-----hhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence 34578999976555444443334 4889999999999642 357999999864
No 94
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=26.23 E-value=59 Score=36.43 Aligned_cols=36 Identities=25% Similarity=0.646 Sum_probs=26.7
Q ss_pred ccCCCCCcceecHHHHHHHHHcc-----------CCCcccccccceeecc
Q 002420 88 PCACSGSIKFVHQDCLLQWLNHS-----------NARQCEVCKHAFSFSP 126 (925)
Q Consensus 88 PC~C~Gs~~~vH~~CL~~Wl~~s-----------~~~~CelCk~~f~~~~ 126 (925)
-|.|+ -.--.+||.||+..+ ++-+||.|+..|-+..
T Consensus 322 nc~cr---p~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~d 368 (381)
T KOG3899|consen 322 NCICR---PLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRD 368 (381)
T ss_pred ccccc---cHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEee
Confidence 34555 335679999999632 5789999999998753
No 95
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=24.24 E-value=26 Score=40.56 Aligned_cols=50 Identities=30% Similarity=0.673 Sum_probs=37.4
Q ss_pred cccCCCcceEeCCCC-CCCCCc-ccccCCCCCcceecHHHHHHHHHccCCCcccccc
Q 002420 65 EEEEEEVCRICRNPG-DPENPL-RYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCK 119 (925)
Q Consensus 65 ~~~~~~~CrIC~~~~-~~~~~l-~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk 119 (925)
+++-+-.|-.|-+.. ..++.| --||. |.+|..|+.+.+......+||-|+
T Consensus 361 ~~e~~L~Cg~CGe~~Glk~e~LqALpCs-----HIfH~rCl~e~L~~n~~rsCP~Cr 412 (518)
T KOG1941|consen 361 VEETELYCGLCGESIGLKNERLQALPCS-----HIFHLRCLQEILENNGTRSCPNCR 412 (518)
T ss_pred HHHHhhhhhhhhhhhcCCcccccccchh-----HHHHHHHHHHHHHhCCCCCCccHH
Confidence 445567899996532 222223 35776 889999999999988999999999
No 96
>PF04641 Rtf2: Rtf2 RING-finger
Probab=24.04 E-value=63 Score=35.60 Aligned_cols=58 Identities=19% Similarity=0.497 Sum_probs=39.4
Q ss_pred ccCCCcceEeCCCCCCCCCc--ccccCCCCCcceecHHHHHHHHHccCCCcccccccceeecccccCC
Q 002420 66 EEEEEVCRICRNPGDPENPL--RYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFSFSPVYAEN 131 (925)
Q Consensus 66 ~~~~~~CrIC~~~~~~~~~l--~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~~~iy~~~ 131 (925)
.+..-+|.|+..+-....+. +.||.|- +-+.|+.+= . +...|++|+.+|.-..+..-|
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V-----~s~~alke~-k--~~~~Cp~c~~~f~~~DiI~Ln 169 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCV-----FSEKALKEL-K--KSKKCPVCGKPFTEEDIIPLN 169 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCE-----eeHHHHHhh-c--ccccccccCCccccCCEEEec
Confidence 34556788887655443343 4789885 778888776 2 356799999999866554444
No 97
>KOG3488 consensus Dolichol phosphate-mannose regulatory protein (DPM2) [Posttranslational modification, protein turnover, chaperones]
Probab=23.66 E-value=3.3e+02 Score=24.54 Aligned_cols=54 Identities=22% Similarity=0.416 Sum_probs=31.8
Q ss_pred HHHHHHHHHhhhhhchhhHHHhhhhcchhhHHHhhhccchhhHHHHHHHHHHHHHHH
Q 002420 171 PFITFWIWRLAFVRSFGEAQRLFLSHISTTVILTDCLHGFLLSASIVFIFLGATSLR 227 (925)
Q Consensus 171 p~~~~~i~~~~f~~s~~~~~~l~~~~~s~~~il~d~l~G~~~~~~iv~~fi~~~~Lr 227 (925)
-|-+.|+--+.|+.|..-.++.|+++-..-.|- ..-|. ...|.+..|++++-++
T Consensus 21 tYYT~WViilPFvDs~hiihKyFLpr~yAi~iP--vaagl-~ll~lig~Fis~vMlK 74 (81)
T KOG3488|consen 21 TYYTIWVIILPFVDSMHIIHKYFLPREYAITIP--VAAGL-FLLCLIGTFISLVMLK 74 (81)
T ss_pred HHHHHHHhhhcccchhHHHHHHhcChhHHhhhH--HHHHH-HHHHHHHHHHHHHhhh
Confidence 344445545568888777788887664322222 23343 3456678888887654
No 98
>KOG1362 consensus Choline transporter-like protein [Lipid transport and metabolism]
Probab=21.81 E-value=1.4e+03 Score=28.45 Aligned_cols=72 Identities=29% Similarity=0.430 Sum_probs=53.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhhccCceE---eeecCCCCCCCchhHHhhhchHHHHHHHHHHHHHHHHHHHHHHH
Q 002420 578 ASSLVHWVVGIVYMLQISIFVSLLRGVLRNGVL---YFLRDPADPNYNPFRDLIDDPVHKHARRVLLSVAVYGSLIVMLV 654 (925)
Q Consensus 578 ~s~f~hW~vGt~yM~~fA~fv~~~R~IlRpGVL---~FiRdp~DP~f~pi~d~l~~p~~~qlrri~~S~~vy~~~iv~~v 654 (925)
.+++.-=++|. ++|-+-|+.-+..+.=-|+. ||=|+=+|.-..|+.+.+.+-+..|+.-+++ |++++..+
T Consensus 318 ~~~~~~~vv~~--l~Wt~~fi~a~q~~vISgava~~Yf~~~~~~iP~~p~~~al~ra~~yhlGSi~~-----GSliv~iV 390 (577)
T KOG1362|consen 318 RILFWLLVVGS--LIWTSEFILALQQVVISGAVASWYFARDKQDIPSSPLFSALRRALRYHLGSICF-----GSLLVALV 390 (577)
T ss_pred hhHhHHHHHHH--HHHHHHHHHHHHHHhhhhhhheeeEecCCCCCCCchHHHHHHHHHHHhccchhh-----hhhHHHHH
Confidence 33444444554 99999999999998888874 4666667999999999999999999877755 45555554
Q ss_pred HH
Q 002420 655 FL 656 (925)
Q Consensus 655 ~~ 656 (925)
=.
T Consensus 391 ~i 392 (577)
T KOG1362|consen 391 RI 392 (577)
T ss_pred HH
Confidence 43
No 99
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.80 E-value=44 Score=39.30 Aligned_cols=50 Identities=26% Similarity=0.550 Sum_probs=34.7
Q ss_pred cccCCCcceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHHccCCCccccccccee
Q 002420 65 EEEEEEVCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFS 123 (925)
Q Consensus 65 ~~~~~~~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~ 123 (925)
+.-.+-.|-||...- .+|...||.=+-| ..|+++=+ +....||+|+.++.
T Consensus 80 ~~~sef~c~vc~~~l--~~pv~tpcghs~c-----~~Cl~r~l--d~~~~cp~Cr~~l~ 129 (398)
T KOG4159|consen 80 EIRSEFECCVCSRAL--YPPVVTPCGHSFC-----LECLDRSL--DQETECPLCRDELV 129 (398)
T ss_pred cccchhhhhhhHhhc--CCCcccccccccc-----HHHHHHHh--ccCCCCcccccccc
Confidence 335567899996432 3577788876655 34777733 36689999999885
No 100
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=21.67 E-value=30 Score=45.11 Aligned_cols=36 Identities=36% Similarity=0.608 Sum_probs=26.2
Q ss_pred ccCCCcceEeCCCCCC-CCCcccccCCCCCcceecHHHHH
Q 002420 66 EEEEEVCRICRNPGDP-ENPLRYPCACSGSIKFVHQDCLL 104 (925)
Q Consensus 66 ~~~~~~CrIC~~~~~~-~~~l~~PC~C~Gs~~~vH~~CL~ 104 (925)
.++...|-||.+.+.. .+.. =-|.||-.+|||+|.-
T Consensus 216 ~~~D~~C~iC~~~~~~n~n~i---vfCD~Cnl~VHq~Cyg 252 (1051)
T KOG0955|consen 216 LEEDAVCCICLDGECQNSNVI---VFCDGCNLAVHQECYG 252 (1051)
T ss_pred cCCCccceeecccccCCCceE---EEcCCCcchhhhhccC
Confidence 3567899999865432 3444 3488888999999976
No 101
>PF10329 DUF2417: Region of unknown function (DUF2417); InterPro: IPR019431 This entry represents a family of fungal proteins with no known function. In some cases these proteins also contain an alpha/beta hydrolase fold (IPR000073 from INTERPRO).
Probab=20.76 E-value=4.5e+02 Score=28.91 Aligned_cols=37 Identities=19% Similarity=0.289 Sum_probs=23.1
Q ss_pred ecCCCCCCCchhHHhhhchHHHHHHHHHHHHHHHHHHHHHHH
Q 002420 613 LRDPADPNYNPFRDLIDDPVHKHARRVLLSVAVYGSLIVMLV 654 (925)
Q Consensus 613 iRdp~DP~f~pi~d~l~~p~~~qlrri~~S~~vy~~~iv~~v 654 (925)
.-+||||..+|.+=-- .|..|.+..++++-.+|...+
T Consensus 19 ~l~pddp~vspynl~~-----ir~~r~i~~~~l~i~~iw~v~ 55 (232)
T PF10329_consen 19 YLSPDDPAVSPYNLWR-----IRNLRWILNIFLAINFIWWVL 55 (232)
T ss_pred CCCCCCcccCchHHHH-----HHHHHHHHHHHHHHHHHHHHH
Confidence 3589999999973211 456666666666655554433
No 102
>PF00628 PHD: PHD-finger; InterPro: IPR019787 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 the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=20.58 E-value=35 Score=27.56 Aligned_cols=46 Identities=22% Similarity=0.570 Sum_probs=29.8
Q ss_pred cceEeCCCCCCCCCcccccCCCCCcceecHHHHHHHHH----ccCCCccccccc
Q 002420 71 VCRICRNPGDPENPLRYPCACSGSIKFVHQDCLLQWLN----HSNARQCEVCKH 120 (925)
Q Consensus 71 ~CrIC~~~~~~~~~l~~PC~C~Gs~~~vH~~CL~~Wl~----~s~~~~CelCk~ 120 (925)
.|.||... +.++.++ .|.+...++|..|+.-=.+ .++...|+.|+.
T Consensus 1 ~C~vC~~~-~~~~~~i---~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQS-DDDGDMI---QCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSS-CTTSSEE---EBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCc-CCCCCeE---EcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 48889873 3344554 3557789999999743322 123788888863
No 103
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 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. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=20.26 E-value=14 Score=29.25 Aligned_cols=37 Identities=19% Similarity=0.545 Sum_probs=17.1
Q ss_pred ccCCCCCcceecHHHHHHHHHccCCCcccccccceeecc
Q 002420 88 PCACSGSIKFVHQDCLLQWLNHSNARQCEVCKHAFSFSP 126 (925)
Q Consensus 88 PC~C~Gs~~~vH~~CL~~Wl~~s~~~~CelCk~~f~~~~ 126 (925)
|-+|+.+..|+-..| +|-..+++..|++|++.-.+.+
T Consensus 2 p~rC~~C~aylNp~~--~~~~~~~~w~C~~C~~~N~lp~ 38 (40)
T PF04810_consen 2 PVRCRRCRAYLNPFC--QFDDGGKTWICNFCGTKNPLPP 38 (40)
T ss_dssp S-B-TTT--BS-TTS--EEETTTTEEEETTT--EEE--G
T ss_pred ccccCCCCCEECCcc--eEcCCCCEEECcCCCCcCCCCC
Confidence 445555555554333 3333456899999999766544
Done!