Query 036958
Match_columns 312
No_of_seqs 175 out of 801
Neff 3.2
Searched_HMMs 46136
Date Fri Mar 29 07:07:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036958.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036958hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0823 Predicted E3 ubiquitin 99.8 3.5E-21 7.7E-26 176.7 4.5 110 85-200 43-170 (230)
2 PLN03208 E3 ubiquitin-protein 99.3 1.1E-12 2.5E-17 118.3 4.0 72 81-157 10-109 (193)
3 smart00504 Ubox Modified RING 98.5 3.2E-08 6.9E-13 71.2 0.0 46 89-135 1-58 (63)
4 KOG0320 Predicted E3 ubiquitin 98.4 1.3E-07 2.8E-12 85.5 2.0 47 85-132 127-187 (187)
5 PF15227 zf-C3HC4_4: zinc fing 98.1 5E-07 1.1E-11 63.2 -0.3 20 92-112 1-21 (42)
6 PF04564 U-box: U-box domain; 98.1 4.2E-07 9E-12 69.3 -1.1 48 88-136 3-63 (73)
7 TIGR00599 rad18 DNA repair pro 98.1 1.1E-06 2.3E-11 87.0 0.9 48 87-135 24-83 (397)
8 KOG2164 Predicted E3 ubiquitin 98.0 2.3E-06 5E-11 86.9 1.2 48 89-137 186-250 (513)
9 KOG0317 Predicted E3 ubiquitin 97.9 5.4E-06 1.2E-10 79.5 2.4 47 82-129 232-290 (293)
10 KOG2177 Predicted E3 ubiquitin 97.7 7.4E-06 1.6E-10 68.3 -0.2 46 86-134 10-67 (386)
11 COG5574 PEX10 RING-finger-cont 97.5 5.5E-05 1.2E-09 72.0 2.8 40 87-127 213-266 (271)
12 PF13920 zf-C3HC4_3: Zinc fing 97.5 1.9E-05 4.1E-10 55.8 -0.5 34 89-123 2-48 (50)
13 PF13923 zf-C3HC4_2: Zinc fing 97.5 2.7E-05 5.8E-10 52.7 0.0 21 92-112 1-22 (39)
14 KOG0287 Postreplication repair 97.5 1.8E-05 3.9E-10 78.2 -1.2 46 88-134 22-79 (442)
15 PF14835 zf-RING_6: zf-RING of 97.4 3.3E-05 7.2E-10 60.0 -0.0 45 89-133 7-61 (65)
16 PHA02929 N1R/p28-like protein; 97.1 0.00023 5E-09 66.5 2.0 35 88-123 173-227 (238)
17 COG5432 RAD18 RING-finger-cont 97.0 0.00013 2.7E-09 71.2 -0.3 45 88-133 24-80 (391)
18 cd00162 RING RING-finger (Real 96.9 0.00033 7.2E-09 45.4 0.9 31 91-121 1-44 (45)
19 PF14634 zf-RING_5: zinc-RING 96.9 0.00031 6.8E-09 48.8 0.4 29 91-120 1-44 (44)
20 KOG0978 E3 ubiquitin ligase in 96.8 0.00027 5.8E-09 74.6 -0.5 43 88-131 642-697 (698)
21 PF00097 zf-C3HC4: Zinc finger 96.7 0.00039 8.5E-09 46.7 0.2 20 92-112 1-22 (41)
22 PF13639 zf-RING_2: Ring finge 96.6 0.00031 6.7E-09 48.3 -1.1 28 91-119 2-44 (44)
23 smart00184 RING Ring finger. E 96.0 0.0021 4.6E-08 40.1 0.5 20 92-112 1-21 (39)
24 KOG1813 Predicted E3 ubiquitin 95.9 0.0038 8.3E-08 60.7 1.7 75 47-122 175-285 (313)
25 PHA02926 zinc finger-like prot 95.8 0.0039 8.4E-08 58.8 1.5 36 87-123 168-230 (242)
26 PF13445 zf-RING_UBOX: RING-ty 95.8 0.00097 2.1E-08 47.5 -1.9 20 92-113 1-25 (43)
27 KOG4159 Predicted E3 ubiquitin 95.8 0.0032 7E-08 62.8 0.8 67 56-123 48-129 (398)
28 COG5152 Uncharacterized conser 95.0 0.0065 1.4E-07 57.0 0.0 33 88-121 195-239 (259)
29 TIGR00570 cdk7 CDK-activating 94.8 0.017 3.7E-07 56.3 2.3 42 88-130 2-61 (309)
30 PF11789 zf-Nse: Zinc-finger o 94.6 0.0058 1.2E-07 45.7 -1.1 27 86-112 8-35 (57)
31 KOG0297 TNF receptor-associate 93.9 0.041 9E-07 54.2 2.9 43 86-129 18-73 (391)
32 COG5222 Uncharacterized conser 93.3 0.038 8.1E-07 54.7 1.4 45 89-134 274-333 (427)
33 KOG0824 Predicted E3 ubiquitin 93.2 0.042 9.1E-07 53.9 1.6 37 88-125 6-55 (324)
34 KOG0311 Predicted E3 ubiquitin 93.0 0.009 2E-07 59.4 -3.3 37 87-123 41-90 (381)
35 KOG4275 Predicted E3 ubiquitin 92.7 0.014 3.1E-07 57.1 -2.4 40 83-123 294-342 (350)
36 KOG4367 Predicted Zn-finger pr 90.8 0.047 1E-06 56.3 -1.2 26 87-113 2-28 (699)
37 KOG0802 E3 ubiquitin ligase [P 90.6 0.094 2E-06 53.4 0.6 35 88-123 290-341 (543)
38 KOG2879 Predicted E3 ubiquitin 90.3 0.2 4.3E-06 48.8 2.5 44 80-123 230-287 (298)
39 KOG4172 Predicted E3 ubiquitin 89.9 0.051 1.1E-06 42.0 -1.4 33 90-123 8-54 (62)
40 KOG4265 Predicted E3 ubiquitin 89.7 0.16 3.5E-06 50.4 1.5 37 87-124 288-337 (349)
41 KOG4628 Predicted E3 ubiquitin 89.4 0.23 5.1E-06 49.2 2.3 35 90-124 230-279 (348)
42 PF04641 Rtf2: Rtf2 RING-finge 88.6 0.24 5.3E-06 46.0 1.7 51 85-135 109-173 (260)
43 PF05290 Baculo_IE-1: Baculovi 87.6 0.27 5.8E-06 43.5 1.3 38 86-125 77-134 (140)
44 PF07800 DUF1644: Protein of u 87.2 0.22 4.8E-06 44.9 0.6 21 88-109 1-21 (162)
45 PF12678 zf-rbx1: RING-H2 zinc 86.4 0.13 2.7E-06 39.6 -1.2 29 91-119 21-73 (73)
46 KOG4739 Uncharacterized protei 86.2 0.4 8.7E-06 45.3 1.7 43 88-130 2-55 (233)
47 KOG1571 Predicted E3 ubiquitin 85.8 0.23 5E-06 49.5 -0.1 35 88-123 304-347 (355)
48 COG5540 RING-finger-containing 84.8 0.39 8.5E-06 47.7 0.9 34 90-123 324-372 (374)
49 KOG1002 Nucleotide excision re 82.5 0.4 8.7E-06 50.7 -0.0 40 88-128 535-591 (791)
50 COG5243 HRD1 HRD ubiquitin lig 81.5 0.9 1.9E-05 46.4 2.0 36 86-122 284-344 (491)
51 KOG3002 Zn finger protein [Gen 81.4 0.63 1.4E-05 45.1 0.8 39 83-123 42-91 (299)
52 COG5242 TFB4 RNA polymerase II 80.2 0.91 2E-05 43.8 1.5 26 89-123 260-285 (296)
53 KOG1645 RING-finger-containing 79.1 0.45 9.7E-06 48.6 -1.0 46 90-135 5-68 (463)
54 KOG1001 Helicase-like transcri 78.0 0.45 9.8E-06 50.6 -1.4 35 90-126 455-503 (674)
55 KOG2487 RNA polymerase II tran 76.0 0.96 2.1E-05 44.3 0.3 25 90-123 274-298 (314)
56 KOG4362 Transcriptional regula 75.8 0.72 1.6E-05 49.4 -0.6 38 88-126 20-72 (684)
57 KOG1785 Tyrosine kinase negati 75.4 1.6 3.5E-05 45.0 1.8 44 87-131 367-424 (563)
58 KOG2660 Locus-specific chromos 74.6 0.84 1.8E-05 45.2 -0.4 39 87-125 13-63 (331)
59 PF14447 Prok-RING_4: Prokaryo 72.8 2.9 6.3E-05 31.9 2.2 38 88-126 6-53 (55)
60 TIGR00627 tfb4 transcription f 72.4 2.4 5.3E-05 40.8 2.1 12 90-101 256-267 (279)
61 PF09538 FYDLN_acid: Protein o 72.0 2.3 5E-05 35.7 1.6 12 114-125 28-39 (108)
62 PLN02400 cellulose synthase 69.6 4.4 9.5E-05 45.7 3.5 39 86-124 33-90 (1085)
63 KOG0826 Predicted E3 ubiquitin 67.8 1.4 3E-05 44.1 -0.7 56 76-131 287-354 (357)
64 KOG3039 Uncharacterized conser 67.7 2.8 6.1E-05 40.9 1.4 47 87-133 219-280 (303)
65 COG5175 MOT2 Transcriptional r 63.7 3.3 7.1E-05 42.1 1.1 44 83-128 9-69 (480)
66 KOG3362 Predicted BBOX Zn-fing 63.0 2.2 4.7E-05 38.4 -0.3 23 88-112 117-140 (156)
67 TIGR02300 FYDLN_acid conserved 61.3 5 0.00011 35.3 1.6 10 115-124 29-38 (129)
68 PF11793 FANCL_C: FANCL C-term 58.6 4 8.6E-05 31.4 0.5 12 89-100 2-13 (70)
69 KOG0804 Cytoplasmic Zn-finger 56.1 3.8 8.3E-05 42.5 0.1 37 87-123 173-222 (493)
70 KOG1039 Predicted E3 ubiquitin 56.0 6.8 0.00015 39.0 1.7 36 87-123 159-221 (344)
71 KOG4185 Predicted E3 ubiquitin 55.6 6.5 0.00014 36.5 1.5 34 88-122 2-54 (296)
72 KOG2462 C2H2-type Zn-finger pr 54.8 6.2 0.00013 38.6 1.2 9 114-122 217-225 (279)
73 PF12861 zf-Apc11: Anaphase-pr 54.7 6 0.00013 32.5 1.0 23 102-124 46-83 (85)
74 PF09538 FYDLN_acid: Protein o 53.6 7.4 0.00016 32.8 1.4 26 87-112 7-37 (108)
75 KOG4692 Predicted E3 ubiquitin 53.3 6.1 0.00013 40.4 1.0 50 73-123 406-467 (489)
76 KOG1734 Predicted RING-contain 49.2 4.5 9.8E-05 39.9 -0.6 42 88-130 223-288 (328)
77 PF02891 zf-MIZ: MIZ/SP-RING z 48.9 5.8 0.00013 28.8 0.0 32 89-120 2-49 (50)
78 PF14446 Prok-RING_1: Prokaryo 48.6 7.4 0.00016 29.6 0.5 25 89-122 5-31 (54)
79 smart00154 ZnF_AN1 AN1-like Zi 48.0 11 0.00024 26.3 1.3 21 92-112 1-23 (39)
80 COG5236 Uncharacterized conser 47.5 8.8 0.00019 39.2 1.1 39 83-122 55-107 (493)
81 smart00064 FYVE Protein presen 45.1 14 0.00031 27.1 1.6 30 86-115 7-40 (68)
82 PLN02638 cellulose synthase A 44.2 9.4 0.0002 43.2 0.7 36 88-123 16-70 (1079)
83 KOG0825 PHD Zn-finger protein 42.7 4.9 0.00011 44.5 -1.6 37 90-126 124-174 (1134)
84 KOG3039 Uncharacterized conser 42.3 15 0.00033 36.0 1.7 28 87-115 41-69 (303)
85 PLN02436 cellulose synthase A 41.9 12 0.00027 42.4 1.2 41 86-126 33-92 (1094)
86 COG5219 Uncharacterized conser 40.4 8.1 0.00017 43.9 -0.5 59 61-123 1445-1523(1525)
87 PF03850 Tfb4: Transcription f 39.2 15 0.00033 35.1 1.3 14 89-102 253-266 (276)
88 KOG3113 Uncharacterized conser 38.8 15 0.00033 35.9 1.2 47 86-133 108-168 (293)
89 PF06221 zf-C2HC5: Putative zi 38.6 16 0.00035 27.9 1.1 20 104-123 20-46 (57)
90 TIGR01206 lysW lysine biosynth 38.0 14 0.00031 27.8 0.7 37 89-129 2-39 (54)
91 cd00729 rubredoxin_SM Rubredox 37.5 24 0.00051 23.9 1.6 24 89-121 2-27 (34)
92 PLN02195 cellulose synthase A 37.5 14 0.00031 41.5 0.8 33 91-123 8-59 (977)
93 KOG1100 Predicted E3 ubiquitin 36.9 15 0.00033 33.8 0.8 31 92-123 161-200 (207)
94 KOG3161 Predicted E3 ubiquitin 36.4 8.4 0.00018 41.9 -1.0 31 88-120 10-54 (861)
95 PF14569 zf-UDP: Zinc-binding 34.9 23 0.0005 29.0 1.5 38 87-124 7-63 (80)
96 PF10571 UPF0547: Uncharacteri 34.8 23 0.0005 23.0 1.2 6 92-97 3-8 (26)
97 PF07975 C1_4: TFIIH C1-like d 34.0 23 0.0005 26.5 1.2 17 103-119 22-50 (51)
98 TIGR02300 FYDLN_acid conserved 33.9 23 0.00049 31.3 1.3 26 87-112 7-37 (129)
99 KOG2169 Zn-finger transcriptio 33.2 28 0.0006 37.0 2.1 47 82-128 299-361 (636)
100 PRK00420 hypothetical protein; 31.6 24 0.00052 30.2 1.1 10 114-123 42-51 (112)
101 PF01428 zf-AN1: AN1-like Zinc 31.5 12 0.00025 26.2 -0.7 21 92-112 1-24 (43)
102 COG0267 RpmG Ribosomal protein 31.2 18 0.0004 27.1 0.3 11 113-123 35-45 (50)
103 KOG0828 Predicted E3 ubiquitin 30.6 21 0.00045 38.0 0.7 36 86-122 568-633 (636)
104 TIGR00622 ssl1 transcription f 30.2 52 0.0011 28.3 2.9 15 105-119 84-110 (112)
105 PF02148 zf-UBP: Zn-finger in 30.0 11 0.00025 27.9 -1.0 21 92-112 1-22 (63)
106 COG0068 HypF Hydrogenase matur 29.7 14 0.0003 40.4 -0.7 27 86-112 98-134 (750)
107 PLN02189 cellulose synthase 28.9 27 0.00058 39.6 1.2 40 86-125 31-89 (1040)
108 PLN02915 cellulose synthase A 28.8 31 0.00066 39.2 1.6 39 85-123 11-68 (1044)
109 smart00744 RINGv The RING-vari 28.8 33 0.00073 24.7 1.3 17 92-109 2-20 (49)
110 PF05605 zf-Di19: Drought indu 28.7 10 0.00022 27.3 -1.4 13 88-100 1-13 (54)
111 PRK12496 hypothetical protein; 28.4 32 0.0007 30.5 1.4 27 90-125 128-156 (164)
112 KOG3576 Ovo and related transc 28.3 20 0.00044 34.5 0.1 40 61-100 86-128 (267)
113 COG1592 Rubrerythrin [Energy p 28.1 46 0.00099 30.2 2.3 25 89-121 134-158 (166)
114 KOG0827 Predicted E3 ubiquitin 28.1 26 0.00056 36.3 0.8 39 90-128 5-61 (465)
115 cd00065 FYVE FYVE domain; Zinc 27.9 33 0.00071 24.2 1.1 25 91-115 4-32 (57)
116 COG1545 Predicted nucleic-acid 27.9 27 0.00059 30.2 0.8 18 105-122 32-53 (140)
117 PRK00504 rpmG 50S ribosomal pr 27.6 30 0.00065 25.8 0.9 10 113-122 35-44 (50)
118 COG2956 Predicted N-acetylgluc 27.3 28 0.00061 35.5 0.9 28 103-133 355-386 (389)
119 KOG1814 Predicted E3 ubiquitin 26.8 20 0.00044 37.0 -0.1 27 86-112 181-210 (445)
120 KOG2817 Predicted E3 ubiquitin 26.8 30 0.00064 35.4 1.0 38 85-123 330-385 (394)
121 TIGR01023 rpmG_bact ribosomal 26.7 32 0.0007 25.8 1.0 10 113-122 39-48 (54)
122 KOG1074 Transcriptional repres 26.6 52 0.0011 37.0 2.8 37 76-112 592-644 (958)
123 TIGR00627 tfb4 transcription f 26.6 36 0.00079 32.9 1.5 26 97-122 250-279 (279)
124 KOG2462 C2H2-type Zn-finger pr 26.2 37 0.00081 33.3 1.5 13 86-98 127-139 (279)
125 PF09845 DUF2072: Zn-ribbon co 25.8 34 0.00073 30.2 1.1 18 103-120 2-27 (131)
126 TIGR02098 MJ0042_CXXC MJ0042 f 25.8 27 0.00057 23.3 0.3 8 114-121 27-34 (38)
127 PF13894 zf-C2H2_4: C2H2-type 24.6 35 0.00077 19.3 0.7 11 90-100 1-11 (24)
128 KOG1986 Vesicle coat complex C 24.2 39 0.00085 37.0 1.4 34 98-134 49-94 (745)
129 PF08882 Acetone_carb_G: Aceto 24.1 38 0.00081 29.3 1.0 20 114-133 76-95 (112)
130 PF04423 Rad50_zn_hook: Rad50 23.7 28 0.00061 25.1 0.2 12 114-125 22-33 (54)
131 PRK00595 rpmG 50S ribosomal pr 23.6 33 0.00073 25.6 0.5 10 113-122 38-47 (53)
132 COG3357 Predicted transcriptio 23.4 38 0.00082 28.7 0.8 9 114-122 78-86 (97)
133 PF00096 zf-C2H2: Zinc finger, 23.1 30 0.00065 20.3 0.2 11 90-100 1-11 (23)
134 PF15616 TerY-C: TerY-C metal 22.5 27 0.00059 30.6 -0.2 33 90-124 78-117 (131)
135 PF10272 Tmpp129: Putative tra 22.3 51 0.0011 33.2 1.7 15 114-128 342-356 (358)
136 PF01363 FYVE: FYVE zinc finge 21.9 21 0.00046 26.3 -0.8 30 86-115 6-39 (69)
137 KOG4642 Chaperone-dependent E3 20.0 26 0.00057 34.4 -0.8 51 83-134 205-268 (284)
No 1
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.82 E-value=3.5e-21 Score=176.72 Aligned_cols=110 Identities=32% Similarity=0.511 Sum_probs=79.5
Q ss_pred CCCCeeeeccccccccCCCCCCCCC-CCC--------------ccCcccccccccCCcccccccCCCccccccccCCCCC
Q 036958 85 NDGSFFDSNICLDLARDTPPPPPCD-LLC--------------KAIPSVRGWVTVKNVTPMYGCENSTRESEKDLSLKIP 149 (312)
Q Consensus 85 ~~~e~f~CpICLDvfrDPVv~T~CG-lFC--------------k~CPvCR~~vs~~~L~Pnygl~ns~~e~~k~~~~~IP 149 (312)
.++.+|+|+||||.++|||+ |.|| +|| +.|||||..++.+.|+|+||++....+..+. ..||
T Consensus 43 ~~~~~FdCNICLd~akdPVv-TlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG~~~~~~~~~--~~vP 119 (230)
T KOG0823|consen 43 RDGGFFDCNICLDLAKDPVV-TLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRGSKKPSDPRK--KDVP 119 (230)
T ss_pred CCCCceeeeeeccccCCCEE-eecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccCCCCCCCccc--ccCC
Confidence 68899999999999999999 9999 999 4699999999999999999999864433221 1299
Q ss_pred CCCCCCccCCccccCCCCCCCCCcch---hhhhhhhhhhhhhhcccccccCCCC
Q 036958 150 LRPQGWRRFGLAHHLTPPRDGSSARE---TGERANSLINRILTSWGICGEQNTD 200 (312)
Q Consensus 150 pRP~~~Rr~~l~~~l~~~~d~~g~~~---~~er~~s~~~R~lt~rg~r~~qnp~ 200 (312)
+||+++|...++..+..-.. .|-+. +..+..+ ++|++++|++.++.|.
T Consensus 120 ~RP~~~R~e~~~p~~~~~~~-~g~r~~g~~~~~~~~--~~f~~s~~i~~~~~~v 170 (230)
T KOG0823|consen 120 PRPAGQRYESKRPTPQNRGN-HGFRFFGFRLGEESS--NRFMYSFGIGLFGDPV 170 (230)
T ss_pred CCCCCccccccCCCCccccc-cccccccccccccCC--cceeEEeecccCCCce
Confidence 99999996544433221110 01111 1111112 8899999999888333
No 2
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.31 E-value=1.1e-12 Score=118.34 Aligned_cols=72 Identities=31% Similarity=0.528 Sum_probs=60.8
Q ss_pred cCCCCCCCeeeeccccccccCCCCCCCCC-CCC--------c-------------------cCcccccccccCCcccccc
Q 036958 81 KGNGNDGSFFDSNICLDLARDTPPPPPCD-LLC--------K-------------------AIPSVRGWVTVKNVTPMYG 132 (312)
Q Consensus 81 k~~~~~~e~f~CpICLDvfrDPVv~T~CG-lFC--------k-------------------~CPvCR~~vs~~~L~Pnyg 132 (312)
+.....++.|+|+||++.+++||+ |.|| +|| . .||+||..++..+++|+|+
T Consensus 10 ~~~~~~~~~~~CpICld~~~dPVv-T~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiyg 88 (193)
T PLN03208 10 TTLVDSGGDFDCNICLDQVRDPVV-TLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYG 88 (193)
T ss_pred ceeccCCCccCCccCCCcCCCcEE-cCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeec
Confidence 334445568999999999999999 9999 999 0 4999999999999999999
Q ss_pred cCCCccccccccCCCCCCCCCCCcc
Q 036958 133 CENSTRESEKDLSLKIPLRPQGWRR 157 (312)
Q Consensus 133 l~ns~~e~~k~~~~~IPpRP~~~Rr 157 (312)
++... ...+.+||+||.+++.
T Consensus 89 rg~~~----~~~~~~iP~rp~~~~~ 109 (193)
T PLN03208 89 RGQKA----PQSGSNVPSRPSGPVY 109 (193)
T ss_pred cCCCC----CCCCCCCCcCCCCCcc
Confidence 98753 3357899999999863
No 3
>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=98.46 E-value=3.2e-08 Score=71.17 Aligned_cols=46 Identities=17% Similarity=0.170 Sum_probs=41.0
Q ss_pred eeeeccccccccCCCCCCCCC-CCC-----------ccCcccccccccCCcccccccCC
Q 036958 89 FFDSNICLDLARDTPPPPPCD-LLC-----------KAIPSVRGWVTVKNVTPMYGCEN 135 (312)
Q Consensus 89 ~f~CpICLDvfrDPVv~T~CG-lFC-----------k~CPvCR~~vs~~~L~Pnygl~n 135 (312)
+|.|+||++++++||+ ++|| .|| ..||+|+..++.+.++|++.+.+
T Consensus 1 ~~~Cpi~~~~~~~Pv~-~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~~~l~~ 58 (63)
T smart00504 1 EFLCPISLEVMKDPVI-LPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPNLALKS 58 (63)
T ss_pred CcCCcCCCCcCCCCEE-CCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeCHHHHH
Confidence 4789999999999999 9999 999 36999999999899999877654
No 4
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.38 E-value=1.3e-07 Score=85.50 Aligned_cols=47 Identities=23% Similarity=0.523 Sum_probs=39.7
Q ss_pred CCCCeeeeccccccccC--CCCCCCCC-CCC-----------ccCcccccccccCCcccccc
Q 036958 85 NDGSFFDSNICLDLARD--TPPPPPCD-LLC-----------KAIPSVRGWVTVKNVTPMYG 132 (312)
Q Consensus 85 ~~~e~f~CpICLDvfrD--PVv~T~CG-lFC-----------k~CPvCR~~vs~~~L~Pnyg 132 (312)
.....|.|||||+-+.. ||. |.|| +|| ..||+|+++++.+.++++|.
T Consensus 127 ~~~~~~~CPiCl~~~sek~~vs-TkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~~rI~L 187 (187)
T KOG0320|consen 127 RKEGTYKCPICLDSVSEKVPVS-TKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQFHRIYL 187 (187)
T ss_pred ccccccCCCceecchhhccccc-cccchhHHHHHHHHHHHhCCCCCCcccccchhhheeccC
Confidence 34456999999998754 777 9999 999 36999999999999999883
No 5
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.11 E-value=5e-07 Score=63.20 Aligned_cols=20 Identities=45% Similarity=0.991 Sum_probs=17.8
Q ss_pred eccccccccCCCCCCCCC-CCC
Q 036958 92 SNICLDLARDTPPPPPCD-LLC 112 (312)
Q Consensus 92 CpICLDvfrDPVv~T~CG-lFC 112 (312)
|+||+++|++||+ +.|| +||
T Consensus 1 CpiC~~~~~~Pv~-l~CGH~FC 21 (42)
T PF15227_consen 1 CPICLDLFKDPVS-LPCGHSFC 21 (42)
T ss_dssp ETTTTSB-SSEEE--SSSSEEE
T ss_pred CCccchhhCCccc-cCCcCHHH
Confidence 8999999999999 9999 999
No 6
>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=98.09 E-value=4.2e-07 Score=69.33 Aligned_cols=48 Identities=19% Similarity=0.142 Sum_probs=37.4
Q ss_pred CeeeeccccccccCCCCCCCCC-CCC------------ccCcccccccccCCcccccccCCC
Q 036958 88 SFFDSNICLDLARDTPPPPPCD-LLC------------KAIPSVRGWVTVKNVTPMYGCENS 136 (312)
Q Consensus 88 e~f~CpICLDvfrDPVv~T~CG-lFC------------k~CPvCR~~vs~~~L~Pnygl~ns 136 (312)
+.|.|+||.++++|||+ ++|| .|+ ..||+|++.++...++||+.+.+.
T Consensus 3 ~~f~CpIt~~lM~dPVi-~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~~Lk~~ 63 (73)
T PF04564_consen 3 DEFLCPITGELMRDPVI-LPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNRALKSA 63 (73)
T ss_dssp GGGB-TTTSSB-SSEEE-ETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-HHHHHH
T ss_pred cccCCcCcCcHhhCcee-CCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECHHHHHH
Confidence 57999999999999999 9999 999 359999999999999999887543
No 7
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.06 E-value=1.1e-06 Score=86.97 Aligned_cols=48 Identities=15% Similarity=0.266 Sum_probs=42.5
Q ss_pred CCeeeeccccccccCCCCCCCCC-CCC-----------ccCcccccccccCCcccccccCC
Q 036958 87 GSFFDSNICLDLARDTPPPPPCD-LLC-----------KAIPSVRGWVTVKNVTPMYGCEN 135 (312)
Q Consensus 87 ~e~f~CpICLDvfrDPVv~T~CG-lFC-----------k~CPvCR~~vs~~~L~Pnygl~n 135 (312)
...|.|+||+++|.+||+ ++|| .|| ..||+|+..+....+.+|+.+.+
T Consensus 24 e~~l~C~IC~d~~~~Pvi-tpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N~~L~~ 83 (397)
T TIGR00599 24 DTSLRCHICKDFFDVPVL-TSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSNWLVSE 83 (397)
T ss_pred ccccCCCcCchhhhCccC-CCCCCchhHHHHHHHHhCCCCCCCCCCccccccCccchHHHH
Confidence 357899999999999999 9999 999 25999999998888888888754
No 8
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.96 E-value=2.3e-06 Score=86.87 Aligned_cols=48 Identities=21% Similarity=0.478 Sum_probs=43.8
Q ss_pred eeeeccccccccCCCCCCCCC-CCC----------------ccCcccccccccCCcccccccCCCc
Q 036958 89 FFDSNICLDLARDTPPPPPCD-LLC----------------KAIPSVRGWVTVKNVTPMYGCENST 137 (312)
Q Consensus 89 ~f~CpICLDvfrDPVv~T~CG-lFC----------------k~CPvCR~~vs~~~L~Pnygl~ns~ 137 (312)
...|||||+.+.-|+. |.|| .|| +.||+|+..+..+.|.|++....-.
T Consensus 186 ~~~CPICL~~~~~p~~-t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e~~qk 250 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVR-TNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIEDDQK 250 (513)
T ss_pred CCcCCcccCCCCcccc-cccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeeccccc
Confidence 8899999999999999 9999 999 3699999999999999999886543
No 9
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.90 E-value=5.4e-06 Score=79.48 Aligned_cols=47 Identities=17% Similarity=0.348 Sum_probs=39.1
Q ss_pred CCCCCCCeeeeccccccccCCCCCCCCC-CCC-----------ccCcccccccccCCccc
Q 036958 82 GNGNDGSFFDSNICLDLARDTPPPPPCD-LLC-----------KAIPSVRGWVTVKNVTP 129 (312)
Q Consensus 82 ~~~~~~e~f~CpICLDvfrDPVv~T~CG-lFC-----------k~CPvCR~~vs~~~L~P 129 (312)
........++|.||++..++|-. |+|| +|| .+||+||.+++..+++-
T Consensus 232 ~~~i~~a~~kC~LCLe~~~~pSa-TpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskvi~ 290 (293)
T KOG0317|consen 232 LSSIPEATRKCSLCLENRSNPSA-TPCGHIFCWSCILEWCSEKAECPLCREKFQPSKVIC 290 (293)
T ss_pred CccCCCCCCceEEEecCCCCCCc-CcCcchHHHHHHHHHHccccCCCcccccCCCcceee
Confidence 34445567999999999999976 9999 999 37999999998877653
No 10
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=7.4e-06 Score=68.30 Aligned_cols=46 Identities=24% Similarity=0.380 Sum_probs=35.6
Q ss_pred CCCeeeeccccccccCCCCCCCCC-CCC-----------ccCcccccccccCCcccccccC
Q 036958 86 DGSFFDSNICLDLARDTPPPPPCD-LLC-----------KAIPSVRGWVTVKNVTPMYGCE 134 (312)
Q Consensus 86 ~~e~f~CpICLDvfrDPVv~T~CG-lFC-----------k~CPvCR~~vs~~~L~Pnygl~ 134 (312)
..+.+.|+||+++|++|++ ++|| +|| ..||+||. ... .+.+|+.+.
T Consensus 10 ~~~~~~C~iC~~~~~~p~~-l~C~H~~c~~C~~~~~~~~~~Cp~cr~-~~~-~~~~n~~l~ 67 (386)
T KOG2177|consen 10 LQEELTCPICLEYFREPVL-LPCGHNFCRACLTRSWEGPLSCPVCRP-PSR-NLRPNVLLA 67 (386)
T ss_pred ccccccChhhHHHhhcCcc-ccccchHhHHHHHHhcCCCcCCcccCC-chh-ccCccHHHH
Confidence 4578999999999999988 9999 999 36999995 222 444555443
No 11
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.52 E-value=5.5e-05 Score=72.01 Aligned_cols=40 Identities=28% Similarity=0.477 Sum_probs=35.2
Q ss_pred CCeeeeccccccccCCCCCCCCC-CCC-------------ccCcccccccccCCc
Q 036958 87 GSFFDSNICLDLARDTPPPPPCD-LLC-------------KAIPSVRGWVTVKNV 127 (312)
Q Consensus 87 ~e~f~CpICLDvfrDPVv~T~CG-lFC-------------k~CPvCR~~vs~~~L 127 (312)
...|+|.||++....|+- +.|| +|| ..||+||+.+..+.+
T Consensus 213 ~~d~kC~lC~e~~~~ps~-t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 213 LADYKCFLCLEEPEVPSC-TPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred ccccceeeeecccCCccc-ccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 458999999999999987 9999 999 249999999887766
No 12
>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=97.49 E-value=1.9e-05 Score=55.81 Aligned_cols=34 Identities=32% Similarity=0.588 Sum_probs=28.8
Q ss_pred eeeeccccccccCCCCCCCCC-C-CC-----------ccCcccccccc
Q 036958 89 FFDSNICLDLARDTPPPPPCD-L-LC-----------KAIPSVRGWVT 123 (312)
Q Consensus 89 ~f~CpICLDvfrDPVv~T~CG-l-FC-----------k~CPvCR~~vs 123 (312)
++.|.||++.+.+++. ++|| . || +.||+||+.+.
T Consensus 2 ~~~C~iC~~~~~~~~~-~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDVVL-LPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSEEE-ETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCceEE-eCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 5789999999999999 9999 7 99 47999999875
No 13
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=97.46 E-value=2.7e-05 Score=52.68 Aligned_cols=21 Identities=43% Similarity=0.860 Sum_probs=18.1
Q ss_pred eccccccccCCCCCCCCC-CCC
Q 036958 92 SNICLDLARDTPPPPPCD-LLC 112 (312)
Q Consensus 92 CpICLDvfrDPVv~T~CG-lFC 112 (312)
|+||++.+.+|++.++|| +||
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC 22 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFC 22 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEE
T ss_pred CCCCCCcccCcCEECCCCCchh
Confidence 899999999995449999 999
No 14
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=97.46 E-value=1.8e-05 Score=78.17 Aligned_cols=46 Identities=17% Similarity=0.320 Sum_probs=40.9
Q ss_pred CeeeeccccccccCCCCCCCCC-CCC-----------ccCcccccccccCCcccccccC
Q 036958 88 SFFDSNICLDLARDTPPPPPCD-LLC-----------KAIPSVRGWVTVKNVTPMYGCE 134 (312)
Q Consensus 88 e~f~CpICLDvfrDPVv~T~CG-lFC-----------k~CPvCR~~vs~~~L~Pnygl~ 134 (312)
+.+.|-||.++|+.|++ |+|| .|| ..||.|+.+++...|+-++-+.
T Consensus 22 ~lLRC~IC~eyf~ip~i-tpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~il~ 79 (442)
T KOG0287|consen 22 DLLRCGICFEYFNIPMI-TPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNRILD 79 (442)
T ss_pred HHHHHhHHHHHhcCcee-ccccchHHHHHHHHHhccCCCCCceecccchhhhhhhhHHH
Confidence 57899999999999999 9999 999 4799999999988888777664
No 15
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.41 E-value=3.3e-05 Score=60.04 Aligned_cols=45 Identities=13% Similarity=0.383 Sum_probs=21.3
Q ss_pred eeeeccccccccCCCCCCCCC-CCC---------ccCcccccccccCCccccccc
Q 036958 89 FFDSNICLDLARDTPPPPPCD-LLC---------KAIPSVRGWVTVKNVTPMYGC 133 (312)
Q Consensus 89 ~f~CpICLDvfrDPVv~T~CG-lFC---------k~CPvCR~~vs~~~L~Pnygl 133 (312)
.+.|++|.+++++||.=..|. +|| ..||+|..+.....+.-|..+
T Consensus 7 lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~Paw~qD~~~NrqL 61 (65)
T PF14835_consen 7 LLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGSECPVCHTPAWIQDIQINRQL 61 (65)
T ss_dssp TTS-SSS-S--SS-B---SSS--B-TTTGGGGTTTB-SSS--B-S-SS----HHH
T ss_pred hcCCcHHHHHhcCCceeccCccHHHHHHhHHhcCCCCCCcCChHHHHHHHhhhhh
Confidence 468999999999998439999 999 369999988877777766544
No 16
>PHA02929 N1R/p28-like protein; Provisional
Probab=97.11 E-value=0.00023 Score=66.47 Aligned_cols=35 Identities=20% Similarity=0.433 Sum_probs=29.0
Q ss_pred CeeeeccccccccCC--------CCCCCCC-CCC-----------ccCcccccccc
Q 036958 88 SFFDSNICLDLARDT--------PPPPPCD-LLC-----------KAIPSVRGWVT 123 (312)
Q Consensus 88 e~f~CpICLDvfrDP--------Vv~T~CG-lFC-----------k~CPvCR~~vs 123 (312)
...+|+||++.+.++ ++ ++|| .|| ..||+||..+.
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl-~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGIL-SNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCccCCcccccCccccccceec-CCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 467999999987653 56 8999 999 36999999875
No 17
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.05 E-value=0.00013 Score=71.24 Aligned_cols=45 Identities=18% Similarity=0.214 Sum_probs=39.0
Q ss_pred CeeeeccccccccCCCCCCCCC-CCC-----------ccCcccccccccCCccccccc
Q 036958 88 SFFDSNICLDLARDTPPPPPCD-LLC-----------KAIPSVRGWVTVKNVTPMYGC 133 (312)
Q Consensus 88 e~f~CpICLDvfrDPVv~T~CG-lFC-----------k~CPvCR~~vs~~~L~Pnygl 133 (312)
..+.|-||-++++.|+. |.|| .|| ..||+|+.......+.-+++.
T Consensus 24 s~lrC~IC~~~i~ip~~-TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esrlr~~s~~ 80 (391)
T COG5432 24 SMLRCRICDCRISIPCE-TTCGHTFCSLCIRRHLGTQPFCPVCREDPCESRLRGSSGS 80 (391)
T ss_pred hHHHhhhhhheeeccee-cccccchhHHHHHHHhcCCCCCccccccHHhhhcccchhH
Confidence 56799999999999999 9999 999 479999999887766666655
No 18
>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=96.92 E-value=0.00033 Score=45.45 Aligned_cols=31 Identities=29% Similarity=0.615 Sum_probs=25.5
Q ss_pred eeccccccccCCCCCCCCC-CCC------------ccCcccccc
Q 036958 91 DSNICLDLARDTPPPPPCD-LLC------------KAIPSVRGW 121 (312)
Q Consensus 91 ~CpICLDvfrDPVv~T~CG-lFC------------k~CPvCR~~ 121 (312)
+|+||++.+.+++..++|| .|| ..||+|+..
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCc
Confidence 5999999998888845599 999 259999865
No 19
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=96.86 E-value=0.00031 Score=48.81 Aligned_cols=29 Identities=31% Similarity=0.701 Sum_probs=24.4
Q ss_pred eeccccccc---cCCCCCCCCC-CCC-------c----cCccccc
Q 036958 91 DSNICLDLA---RDTPPPPPCD-LLC-------K----AIPSVRG 120 (312)
Q Consensus 91 ~CpICLDvf---rDPVv~T~CG-lFC-------k----~CPvCR~ 120 (312)
.|+||++.| ..|++ +.|| .|| . .||+|++
T Consensus 1 ~C~~C~~~~~~~~~~~l-~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRL-TSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEE-cccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 499999988 45788 9999 999 2 6999974
No 20
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=96.79 E-value=0.00027 Score=74.58 Aligned_cols=43 Identities=14% Similarity=0.406 Sum_probs=39.8
Q ss_pred CeeeeccccccccCCCCCCCCC-CCC------------ccCcccccccccCCccccc
Q 036958 88 SFFDSNICLDLARDTPPPPPCD-LLC------------KAIPSVRGWVTVKNVTPMY 131 (312)
Q Consensus 88 e~f~CpICLDvfrDPVv~T~CG-lFC------------k~CPvCR~~vs~~~L~Pny 131 (312)
..++|++|..-++|-|+ +.|| +|| ..||.|...|....|+|+|
T Consensus 642 ~~LkCs~Cn~R~Kd~vI-~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~I~ 697 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDAVI-TKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHRIH 697 (698)
T ss_pred hceeCCCccCchhhHHH-HhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccccC
Confidence 46799999999999999 9999 999 3699999999999999987
No 21
>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=96.74 E-value=0.00039 Score=46.67 Aligned_cols=20 Identities=35% Similarity=0.770 Sum_probs=19.4
Q ss_pred eccccccccCCC-CCCCCC-CCC
Q 036958 92 SNICLDLARDTP-PPPPCD-LLC 112 (312)
Q Consensus 92 CpICLDvfrDPV-v~T~CG-lFC 112 (312)
|+||++.+.+|+ + ++|| .||
T Consensus 1 C~iC~~~~~~~~~~-~~C~H~fC 22 (41)
T PF00097_consen 1 CPICLEPFEDPVIL-LPCGHSFC 22 (41)
T ss_dssp ETTTSSBCSSEEEE-TTTSEEEE
T ss_pred CCcCCccccCCCEE-ecCCCcch
Confidence 899999999999 7 9999 999
No 22
>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=96.61 E-value=0.00031 Score=48.32 Aligned_cols=28 Identities=25% Similarity=0.584 Sum_probs=22.1
Q ss_pred eecccccccc---CCCCCCCCC-CCC-----------ccCcccc
Q 036958 91 DSNICLDLAR---DTPPPPPCD-LLC-----------KAIPSVR 119 (312)
Q Consensus 91 ~CpICLDvfr---DPVv~T~CG-lFC-----------k~CPvCR 119 (312)
+|+||++.+. .++. ++|| .|| ..||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~-l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVK-LPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEE-ETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEE-ccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 5999999873 4555 9999 999 4799996
No 23
>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=96.03 E-value=0.0021 Score=40.13 Aligned_cols=20 Identities=35% Similarity=0.840 Sum_probs=19.0
Q ss_pred eccccccccCCCCCCCCC-CCC
Q 036958 92 SNICLDLARDTPPPPPCD-LLC 112 (312)
Q Consensus 92 CpICLDvfrDPVv~T~CG-lFC 112 (312)
|+||++..+.++. ++|| .||
T Consensus 1 C~iC~~~~~~~~~-~~C~H~~c 21 (39)
T smart00184 1 CPICLEELKDPVV-LPCGHTFC 21 (39)
T ss_pred CCcCccCCCCcEE-ecCCChHH
Confidence 8999999999999 9999 999
No 24
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.88 E-value=0.0038 Score=60.68 Aligned_cols=75 Identities=19% Similarity=0.243 Sum_probs=49.3
Q ss_pred HHhhhhhccccccccccC-----------Cccccccc---c----------CCccccccCCCCCCCeeeeccccccccCC
Q 036958 47 VFAAEEKSNEAPKTCENN-----------NGFLEDEV---S----------DKKDDDEKGNGNDGSFFDSNICLDLARDT 102 (312)
Q Consensus 47 ~~a~eer~~e~~k~c~n~-----------~~~l~d~~---s----------~kk~d~ek~~~~~~e~f~CpICLDvfrDP 102 (312)
++-+-+|.+=.+-+|+.- ..||-+.. . ++...-.+......-.|.|-||...|.+|
T Consensus 175 ~~r~~~~~d~qpDicKdykeTgycg~gdSckFlh~r~DyK~GWqi~~e~d~~ke~~~~~~~D~~~~Pf~c~icr~~f~~p 254 (313)
T KOG1813|consen 175 HTRAGERIDYQPDICKDYKETGYCGYGDSCKFLHDRSDYKAGWQIEFEWDSAKEKKRVKIEDIELLPFKCFICRKYFYRP 254 (313)
T ss_pred hhcccceeecCchhhhhhHhhCcccccchhhhhhhhhhccccceeehhhhccccccceecCCcccCCccccccccccccc
Confidence 366777887777777642 23443332 1 12112223333344578999999999999
Q ss_pred CCCCCCC-CCC-----------ccCccccccc
Q 036958 103 PPPPPCD-LLC-----------KAIPSVRGWV 122 (312)
Q Consensus 103 Vv~T~CG-lFC-----------k~CPvCR~~v 122 (312)
|+ +.|| .|| ..|.+|.+..
T Consensus 255 Vv-t~c~h~fc~~ca~~~~qk~~~c~vC~~~t 285 (313)
T KOG1813|consen 255 VV-TKCGHYFCEVCALKPYQKGEKCYVCSQQT 285 (313)
T ss_pred hh-hcCCceeehhhhccccccCCcceeccccc
Confidence 99 9999 999 2599997754
No 25
>PHA02926 zinc finger-like protein; Provisional
Probab=95.84 E-value=0.0039 Score=58.84 Aligned_cols=36 Identities=17% Similarity=0.428 Sum_probs=28.3
Q ss_pred CCeeeeccccccccC---------CCCCCCCC-CCC-----------------ccCcccccccc
Q 036958 87 GSFFDSNICLDLARD---------TPPPPPCD-LLC-----------------KAIPSVRGWVT 123 (312)
Q Consensus 87 ~e~f~CpICLDvfrD---------PVv~T~CG-lFC-----------------k~CPvCR~~vs 123 (312)
..+.+|.||++..-+ ++. .+|+ .|| ..||+||..+.
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL-~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLL-DSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred cCCCCCccCcccccccccccccccccc-CCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 346899999997532 577 8999 999 13999999876
No 26
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=95.84 E-value=0.00097 Score=47.48 Aligned_cols=20 Identities=30% Similarity=0.735 Sum_probs=13.0
Q ss_pred eccccccccC----CCCCCCCC-CCCc
Q 036958 92 SNICLDLARD----TPPPPPCD-LLCK 113 (312)
Q Consensus 92 CpICLDvfrD----PVv~T~CG-lFCk 113 (312)
|+||.+ |.+ |++ ++|| .||+
T Consensus 1 CpIc~e-~~~~~n~P~~-L~CGH~~c~ 25 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMV-LPCGHVFCK 25 (43)
T ss_dssp -TTT-----TTSS-EEE--SSS-EEEH
T ss_pred CCcccc-ccCCCCCCEE-EeCccHHHH
Confidence 899999 888 999 9999 9994
No 27
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.78 E-value=0.0032 Score=62.81 Aligned_cols=67 Identities=19% Similarity=0.287 Sum_probs=43.7
Q ss_pred ccccccccCCccccccccCCc---cccccCCCCCCCeeeeccccccccCCCCCCCCC-CCC-----------ccCccccc
Q 036958 56 EAPKTCENNNGFLEDEVSDKK---DDDEKGNGNDGSFFDSNICLDLARDTPPPPPCD-LLC-----------KAIPSVRG 120 (312)
Q Consensus 56 e~~k~c~n~~~~l~d~~s~kk---~d~ek~~~~~~e~f~CpICLDvfrDPVv~T~CG-lFC-----------k~CPvCR~ 120 (312)
.+++.|+|...-.+-...... -....+....-.+|.|.||+..+..||+ ++|| .|| ..||.||.
T Consensus 48 ~~p~~~~~~~~~~~~~e~~~~~~~~~~~s~~~~~~sef~c~vc~~~l~~pv~-tpcghs~c~~Cl~r~ld~~~~cp~Cr~ 126 (398)
T KOG4159|consen 48 GVPNRCINEDPGKSSEETMADSTPKALLSGPEEIRSEFECCVCSRALYPPVV-TPCGHSFCLECLDRSLDQETECPLCRD 126 (398)
T ss_pred cCCHHHHhcccchhhhhhhhhhhhhhhhccCccccchhhhhhhHhhcCCCcc-ccccccccHHHHHHHhccCCCCccccc
Confidence 667777765433221111111 0112233334679999999999999999 9999 999 35888887
Q ss_pred ccc
Q 036958 121 WVT 123 (312)
Q Consensus 121 ~vs 123 (312)
.+.
T Consensus 127 ~l~ 129 (398)
T KOG4159|consen 127 ELV 129 (398)
T ss_pred ccc
Confidence 664
No 28
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=95.00 E-value=0.0065 Score=56.99 Aligned_cols=33 Identities=15% Similarity=0.171 Sum_probs=29.3
Q ss_pred CeeeeccccccccCCCCCCCCC-CCC-----------ccCcccccc
Q 036958 88 SFFDSNICLDLARDTPPPPPCD-LLC-----------KAIPSVRGW 121 (312)
Q Consensus 88 e~f~CpICLDvfrDPVv~T~CG-lFC-----------k~CPvCR~~ 121 (312)
-.|.|-||..-|+.||+ |.|| .|| ..|-+|.+.
T Consensus 195 IPF~C~iCKkdy~spvv-t~CGH~FC~~Cai~~y~kg~~C~~Cgk~ 239 (259)
T COG5152 195 IPFLCGICKKDYESPVV-TECGHSFCSLCAIRKYQKGDECGVCGKA 239 (259)
T ss_pred Cceeehhchhhccchhh-hhcchhHHHHHHHHHhccCCcceecchh
Confidence 48999999999999999 9999 999 369899764
No 29
>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=94.81 E-value=0.017 Score=56.26 Aligned_cols=42 Identities=17% Similarity=0.192 Sum_probs=31.1
Q ss_pred Ceeeecccccc-ccCC----CCCCCCC-CCC------------ccCcccccccccCCcccc
Q 036958 88 SFFDSNICLDL-ARDT----PPPPPCD-LLC------------KAIPSVRGWVTVKNVTPM 130 (312)
Q Consensus 88 e~f~CpICLDv-frDP----Vv~T~CG-lFC------------k~CPvCR~~vs~~~L~Pn 130 (312)
+...||||..- +-.| .+ ..|| .|| ..||+|+..+....+.+.
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i-~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr~q 61 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMV-NVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFRVQ 61 (309)
T ss_pred CCCCCCcCCCCCccCccccccc-CCCCCcccHHHHHHHhcCCCCCCCCCCCccchhhcccc
Confidence 34689999983 4445 33 4799 999 369999999988776553
No 30
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=94.62 E-value=0.0058 Score=45.70 Aligned_cols=27 Identities=15% Similarity=0.140 Sum_probs=19.9
Q ss_pred CCCeeeeccccccccCCCCCCCCC-CCC
Q 036958 86 DGSFFDSNICLDLARDTPPPPPCD-LLC 112 (312)
Q Consensus 86 ~~e~f~CpICLDvfrDPVv~T~CG-lFC 112 (312)
..-.+.|||.+..|++||....|| .|.
T Consensus 8 ~~~~~~CPiT~~~~~~PV~s~~C~H~fe 35 (57)
T PF11789_consen 8 GTISLKCPITLQPFEDPVKSKKCGHTFE 35 (57)
T ss_dssp SB--SB-TTTSSB-SSEEEESSS--EEE
T ss_pred cEeccCCCCcCChhhCCcCcCCCCCeec
Confidence 345789999999999999978999 999
No 31
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=93.94 E-value=0.041 Score=54.25 Aligned_cols=43 Identities=23% Similarity=0.421 Sum_probs=35.9
Q ss_pred CCCeeeeccccccccCCCCCC-CCC-CCC-----------ccCcccccccccCCccc
Q 036958 86 DGSFFDSNICLDLARDTPPPP-PCD-LLC-----------KAIPSVRGWVTVKNVTP 129 (312)
Q Consensus 86 ~~e~f~CpICLDvfrDPVv~T-~CG-lFC-----------k~CPvCR~~vs~~~L~P 129 (312)
-.+.+.|+||..++++|+. + .|| .|| ..||+|+.........|
T Consensus 18 ~~~~l~C~~C~~vl~~p~~-~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~ 73 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQ-TTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEELP 73 (391)
T ss_pred CcccccCccccccccCCCC-CCCCCCcccccccchhhccCcCCcccccccchhhccC
Confidence 3567999999999999999 6 999 999 36999988877665554
No 32
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.34 E-value=0.038 Score=54.72 Aligned_cols=45 Identities=20% Similarity=0.331 Sum_probs=37.1
Q ss_pred eeeeccccccccCCCCCC-CCC-CCC------------ccCccccc-ccccCCcccccccC
Q 036958 89 FFDSNICLDLARDTPPPP-PCD-LLC------------KAIPSVRG-WVTVKNVTPMYGCE 134 (312)
Q Consensus 89 ~f~CpICLDvfrDPVv~T-~CG-lFC------------k~CPvCR~-~vs~~~L~Pnygl~ 134 (312)
.+.|+.|..+++.|+- | .|| .|| ..||.|.. .+-.+.|.|-|...
T Consensus 274 ~LkCplc~~Llrnp~k-T~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld~l~pD~dk~ 333 (427)
T COG5222 274 SLKCPLCHCLLRNPMK-TPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDGLTPDIDKK 333 (427)
T ss_pred cccCcchhhhhhCccc-CccccchHHHHHHhhhhhhccccCCCcccccchhhccCccHHHH
Confidence 3999999999999999 8 788 999 46999975 46677788877653
No 33
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.22 E-value=0.042 Score=53.87 Aligned_cols=37 Identities=16% Similarity=0.150 Sum_probs=32.1
Q ss_pred CeeeeccccccccCCCCCCCCC-CCC------------ccCcccccccccC
Q 036958 88 SFFDSNICLDLARDTPPPPPCD-LLC------------KAIPSVRGWVTVK 125 (312)
Q Consensus 88 e~f~CpICLDvfrDPVv~T~CG-lFC------------k~CPvCR~~vs~~ 125 (312)
-.-+|.||+.-.--||. +.|+ .|| +.|++||.+|...
T Consensus 6 ~~~eC~IC~nt~n~Pv~-l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 6 KKKECLICYNTGNCPVN-LYCFHKFCYICIKGSYKNDKKTCAVCRFPIDST 55 (324)
T ss_pred cCCcceeeeccCCcCcc-ccccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence 34589999999999999 9999 999 3599999999654
No 34
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.03 E-value=0.009 Score=59.41 Aligned_cols=37 Identities=24% Similarity=0.415 Sum_probs=31.6
Q ss_pred CCeeeeccccccccCCCCCCCCC-CCC------------ccCcccccccc
Q 036958 87 GSFFDSNICLDLARDTPPPPPCD-LLC------------KAIPSVRGWVT 123 (312)
Q Consensus 87 ~e~f~CpICLDvfrDPVv~T~CG-lFC------------k~CPvCR~~vs 123 (312)
...|.|+|||++++..++-..|+ -|| +.||.||+.+.
T Consensus 41 ~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~ 90 (381)
T KOG0311|consen 41 DIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLV 90 (381)
T ss_pred hhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcc
Confidence 35789999999999888746799 999 58999998764
No 35
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.71 E-value=0.014 Score=57.12 Aligned_cols=40 Identities=23% Similarity=0.424 Sum_probs=32.8
Q ss_pred CCCCCCeeeeccccccccCCCCCCCCC--CCC-------ccCcccccccc
Q 036958 83 NGNDGSFFDSNICLDLARDTPPPPPCD--LLC-------KAIPSVRGWVT 123 (312)
Q Consensus 83 ~~~~~e~f~CpICLDvfrDPVv~T~CG--lFC-------k~CPvCR~~vs 123 (312)
+...+...-|.||+|..+|=|. +.|| .-| .+||+||+.+.
T Consensus 294 ~~s~~~~~LC~ICmDaP~DCvf-LeCGHmVtCt~CGkrm~eCPICRqyi~ 342 (350)
T KOG4275|consen 294 SRSLATRRLCAICMDAPRDCVF-LECGHMVTCTKCGKRMNECPICRQYIV 342 (350)
T ss_pred ccchhHHHHHHHHhcCCcceEE-eecCcEEeehhhccccccCchHHHHHH
Confidence 3334447789999999999998 9999 778 47999998764
No 36
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=90.82 E-value=0.047 Score=56.31 Aligned_cols=26 Identities=23% Similarity=0.530 Sum_probs=24.0
Q ss_pred CCeeeeccccccccCCCCCCCCC-CCCc
Q 036958 87 GSFFDSNICLDLARDTPPPPPCD-LLCK 113 (312)
Q Consensus 87 ~e~f~CpICLDvfrDPVv~T~CG-lFCk 113 (312)
+++++|+||..+|++|++ ++|| +.|.
T Consensus 2 eeelkc~vc~~f~~epii-l~c~h~lc~ 28 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREPII-LPCSHNLCQ 28 (699)
T ss_pred cccccCceehhhccCceE-eecccHHHH
Confidence 468999999999999999 9999 9994
No 37
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.56 E-value=0.094 Score=53.42 Aligned_cols=35 Identities=23% Similarity=0.348 Sum_probs=29.6
Q ss_pred CeeeeccccccccC-----CCCCCCCC-CCC-----------ccCcccccccc
Q 036958 88 SFFDSNICLDLARD-----TPPPPPCD-LLC-----------KAIPSVRGWVT 123 (312)
Q Consensus 88 e~f~CpICLDvfrD-----PVv~T~CG-lFC-----------k~CPvCR~~vs 123 (312)
..-.|.||.|.+.. |.. ++|| .|| ..||.||..+.
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~r-L~C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKR-LPCGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred cCCeeeeechhhccccccccce-eecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 45689999998887 788 9999 999 46999998553
No 38
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.35 E-value=0.2 Score=48.83 Aligned_cols=44 Identities=14% Similarity=0.163 Sum_probs=35.3
Q ss_pred ccCCCCCCCeeeeccccccccCCCCCCCCC-CCC-------------ccCcccccccc
Q 036958 80 EKGNGNDGSFFDSNICLDLARDTPPPPPCD-LLC-------------KAIPSVRGWVT 123 (312)
Q Consensus 80 ek~~~~~~e~f~CpICLDvfrDPVv~T~CG-lFC-------------k~CPvCR~~vs 123 (312)
.+.+.......+|++|.+....|.+..+|| +|| -.||.|...+.
T Consensus 230 ~~sss~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 230 KFSSSTGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred CcccccccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 455566667899999999999999956699 999 26999977553
No 39
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.90 E-value=0.051 Score=42.01 Aligned_cols=33 Identities=21% Similarity=0.449 Sum_probs=28.3
Q ss_pred eeeccccccccCCCCCCCCC--CCC------------ccCcccccccc
Q 036958 90 FDSNICLDLARDTPPPPPCD--LLC------------KAIPSVRGWVT 123 (312)
Q Consensus 90 f~CpICLDvfrDPVv~T~CG--lFC------------k~CPvCR~~vs 123 (312)
-+|.||.+-.-|-|. -.|| -.| ..||+||+++.
T Consensus 8 dECTICye~pvdsVl-YtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHPVDSVL-YTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cceeeeccCcchHHH-HHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 689999999999999 9999 445 36999999774
No 40
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.74 E-value=0.16 Score=50.40 Aligned_cols=37 Identities=35% Similarity=0.502 Sum_probs=31.5
Q ss_pred CCeeeeccccccccCCCCCCCCC--CCC-----------ccCccccccccc
Q 036958 87 GSFFDSNICLDLARDTPPPPPCD--LLC-----------KAIPSVRGWVTV 124 (312)
Q Consensus 87 ~e~f~CpICLDvfrDPVv~T~CG--lFC-----------k~CPvCR~~vs~ 124 (312)
++.-+|=||+.-.+|-++ ++|- -.| ..||+||+.+..
T Consensus 288 ~~gkeCVIClse~rdt~v-LPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVV-LPCRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCCcceEE-ecchhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 557899999999999999 9999 555 359999998763
No 41
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.41 E-value=0.23 Score=49.22 Aligned_cols=35 Identities=23% Similarity=0.402 Sum_probs=26.6
Q ss_pred eeecccccccc--CCCCCCCCC-CC---C---------ccCccccccccc
Q 036958 90 FDSNICLDLAR--DTPPPPPCD-LL---C---------KAIPSVRGWVTV 124 (312)
Q Consensus 90 f~CpICLDvfr--DPVv~T~CG-lF---C---------k~CPvCR~~vs~ 124 (312)
+.|-||+|-|+ |=+..++|. .| | +.||+||+.+..
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT 279 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence 79999999876 344449999 66 4 359999996543
No 42
>PF04641 Rtf2: Rtf2 RING-finger
Probab=88.64 E-value=0.24 Score=46.05 Aligned_cols=51 Identities=18% Similarity=0.180 Sum_probs=40.1
Q ss_pred CCCCeeeeccccccccC--CCCC-CCCC-CCC-------c---cCcccccccccCCcccccccCC
Q 036958 85 NDGSFFDSNICLDLARD--TPPP-PPCD-LLC-------K---AIPSVRGWVTVKNVTPMYGCEN 135 (312)
Q Consensus 85 ~~~e~f~CpICLDvfrD--PVv~-T~CG-lFC-------k---~CPvCR~~vs~~~L~Pnygl~n 135 (312)
.....|.|||+...|.. +.++ -+|| .|+ + .||+|-.+|....|+++.....
T Consensus 109 ~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k~~~~Cp~c~~~f~~~DiI~Lnp~~e 173 (260)
T PF04641_consen 109 NSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELKKSKKCPVCGKPFTEEDIIPLNPPEE 173 (260)
T ss_pred cCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhcccccccccCCccccCCEEEecCCcc
Confidence 45679999999988742 2332 5999 999 3 6999999999999998776654
No 43
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=87.61 E-value=0.27 Score=43.52 Aligned_cols=38 Identities=18% Similarity=0.467 Sum_probs=28.7
Q ss_pred CCCeeeeccccccc-----cCCCCCCCCC-CCC--------------ccCcccccccccC
Q 036958 86 DGSFFDSNICLDLA-----RDTPPPPPCD-LLC--------------KAIPSVRGWVTVK 125 (312)
Q Consensus 86 ~~e~f~CpICLDvf-----rDPVv~T~CG-lFC--------------k~CPvCR~~vs~~ 125 (312)
+..-++|+||.|.. -.|- -.|| ..| ..||+|+..|...
T Consensus 77 d~~lYeCnIC~etS~ee~FLKPn--eCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 77 DPKLYECNICKETSAEERFLKPN--ECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred CCCceeccCcccccchhhcCCcc--cccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 33789999999864 4464 4699 888 4699999887643
No 44
>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=87.24 E-value=0.22 Score=44.95 Aligned_cols=21 Identities=14% Similarity=0.336 Sum_probs=17.8
Q ss_pred CeeeeccccccccCCCCCCCCC
Q 036958 88 SFFDSNICLDLARDTPPPPPCD 109 (312)
Q Consensus 88 e~f~CpICLDvfrDPVv~T~CG 109 (312)
+...||||+|...+.|. +-|.
T Consensus 1 ed~~CpICme~PHNAVL-LlCS 21 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVL-LLCS 21 (162)
T ss_pred CCccCceeccCCCceEE-EEec
Confidence 35689999999999999 7665
No 45
>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=86.43 E-value=0.13 Score=39.65 Aligned_cols=29 Identities=24% Similarity=0.477 Sum_probs=19.8
Q ss_pred eeccccccccCCC------------CCCCCC-CCC-----------ccCcccc
Q 036958 91 DSNICLDLARDTP------------PPPPCD-LLC-----------KAIPSVR 119 (312)
Q Consensus 91 ~CpICLDvfrDPV------------v~T~CG-lFC-----------k~CPvCR 119 (312)
.|.||++.+.+|. .-..|| .|- ..||+||
T Consensus 21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 4999999985442 213688 776 4699996
No 46
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=86.17 E-value=0.4 Score=45.35 Aligned_cols=43 Identities=16% Similarity=0.439 Sum_probs=31.8
Q ss_pred Ceeeeccccccc-cCCCCCCCCC-CCC---------ccCcccccccccCCcccc
Q 036958 88 SFFDSNICLDLA-RDTPPPPPCD-LLC---------KAIPSVRGWVTVKNVTPM 130 (312)
Q Consensus 88 e~f~CpICLDvf-rDPVv~T~CG-lFC---------k~CPvCR~~vs~~~L~Pn 130 (312)
+...|+.|.... .+|.--|.|+ +|| ..||.|++.+....|.++
T Consensus 2 ~~VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~~~C~lCkk~ir~i~l~~s 55 (233)
T KOG4739|consen 2 DFVHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSPDVCPLCKKSIRIIQLNRS 55 (233)
T ss_pred ceEEeccccccCCCCceeeeechhhhhhhhcccCCccccccccceeeeeecccc
Confidence 467899888653 5666559999 999 279999998765555544
No 47
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.78 E-value=0.23 Score=49.48 Aligned_cols=35 Identities=23% Similarity=0.417 Sum_probs=29.4
Q ss_pred CeeeeccccccccCCCCCCCCC-CCC--------ccCcccccccc
Q 036958 88 SFFDSNICLDLARDTPPPPPCD-LLC--------KAIPSVRGWVT 123 (312)
Q Consensus 88 e~f~CpICLDvfrDPVv~T~CG-lFC--------k~CPvCR~~vs 123 (312)
..-.|-||++-+++-+. .+|| .-| .+||+||+.+.
T Consensus 304 ~p~lcVVcl~e~~~~~f-vpcGh~ccct~cs~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKSAVF-VPCGHVCCCTLCSKHLPQCPVCRQRIR 347 (355)
T ss_pred CCCceEEecCCccceee-ecCCcEEEchHHHhhCCCCchhHHHHH
Confidence 46789999999999887 9999 544 47999999775
No 48
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.76 E-value=0.39 Score=47.68 Aligned_cols=34 Identities=24% Similarity=0.416 Sum_probs=25.7
Q ss_pred eeecccccccc--CCCCCCCCC-CCC------------ccCcccccccc
Q 036958 90 FDSNICLDLAR--DTPPPPPCD-LLC------------KAIPSVRGWVT 123 (312)
Q Consensus 90 f~CpICLDvfr--DPVv~T~CG-lFC------------k~CPvCR~~vs 123 (312)
.+|.||+.-|. |-++.++|. .|= ..||+||..+.
T Consensus 324 veCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 324 VECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred ceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence 89999998653 334449999 884 47999998764
No 49
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=82.50 E-value=0.4 Score=50.67 Aligned_cols=40 Identities=18% Similarity=0.339 Sum_probs=34.1
Q ss_pred CeeeeccccccccCCCCCCCCC-CCC----------------ccCcccccccccCCcc
Q 036958 88 SFFDSNICLDLARDTPPPPPCD-LLC----------------KAIPSVRGWVTVKNVT 128 (312)
Q Consensus 88 e~f~CpICLDvfrDPVv~T~CG-lFC----------------k~CPvCR~~vs~~~L~ 128 (312)
+...|.+|-|.++|+++ +.|. .|| -.||+|...++.+.-.
T Consensus 535 ~~~~C~lc~d~aed~i~-s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse 591 (791)
T KOG1002|consen 535 GEVECGLCHDPAEDYIE-SSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSE 591 (791)
T ss_pred CceeecccCChhhhhHh-hhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccccc
Confidence 56799999999999999 9999 999 2599998888766333
No 50
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=81.47 E-value=0.9 Score=46.36 Aligned_cols=36 Identities=31% Similarity=0.518 Sum_probs=27.3
Q ss_pred CCCeeeecccccc-ccCC------------CCCCCCC-CC---C--------ccCccccccc
Q 036958 86 DGSFFDSNICLDL-ARDT------------PPPPPCD-LL---C--------KAIPSVRGWV 122 (312)
Q Consensus 86 ~~e~f~CpICLDv-frDP------------Vv~T~CG-lF---C--------k~CPvCR~~v 122 (312)
..+.-.|.||+|- +.-| .- ++|| .| | +.||+||.++
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKr-LpCGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKR-LPCGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCccc-ccccceeeHHHHHHHHHhccCCCcccCcc
Confidence 3456789999986 5444 78 9999 55 5 4699999975
No 51
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=81.35 E-value=0.63 Score=45.14 Aligned_cols=39 Identities=23% Similarity=0.393 Sum_probs=31.5
Q ss_pred CCCCCCeeeeccccccccCCCCCCCCC---CCC--------ccCcccccccc
Q 036958 83 NGNDGSFFDSNICLDLARDTPPPPPCD---LLC--------KAIPSVRGWVT 123 (312)
Q Consensus 83 ~~~~~e~f~CpICLDvfrDPVv~T~CG---lFC--------k~CPvCR~~vs 123 (312)
.....+.++||||.+.+.-|+ ..|. +-| ..||.|+..+.
T Consensus 42 ~~~~~~lleCPvC~~~l~~Pi--~QC~nGHlaCssC~~~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 42 TLLDLDLLDCPVCFNPLSPPI--FQCDNGHLACSSCRTKVSNKCPTCRLPIG 91 (299)
T ss_pred cccchhhccCchhhccCcccc--eecCCCcEehhhhhhhhcccCCccccccc
Confidence 344667899999999999996 5884 777 46999998875
No 52
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=80.24 E-value=0.91 Score=43.76 Aligned_cols=26 Identities=15% Similarity=0.278 Sum_probs=22.5
Q ss_pred eeeeccccccccCCCCCCCCCCCCccCcccccccc
Q 036958 89 FFDSNICLDLARDTPPPPPCDLLCKAIPSVRGWVT 123 (312)
Q Consensus 89 ~f~CpICLDvfrDPVv~T~CGlFCk~CPvCR~~vs 123 (312)
-|-|+||+.+|..|+. .||.|+.+|.
T Consensus 260 GfvCsVCLsvfc~p~~---------~C~~C~skF~ 285 (296)
T COG5242 260 GFVCSVCLSVFCRPVP---------VCKKCKSKFS 285 (296)
T ss_pred eeehhhhheeecCCcC---------cCcccccccc
Confidence 3679999999999988 8999999885
No 53
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.15 E-value=0.45 Score=48.64 Aligned_cols=46 Identities=24% Similarity=0.370 Sum_probs=37.9
Q ss_pred eeeccccccccCCC----CCCCCC-CCC-------------ccCcccccccccCCcccccccCC
Q 036958 90 FDSNICLDLARDTP----PPPPCD-LLC-------------KAIPSVRGWVTVKNVTPMYGCEN 135 (312)
Q Consensus 90 f~CpICLDvfrDPV----v~T~CG-lFC-------------k~CPvCR~~vs~~~L~Pnygl~n 135 (312)
.+||||+|-+.-|+ +.+.|| +|= +.||.|..+-+++.|.|.|.+..
T Consensus 5 ~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i~~e~alR~ 68 (463)
T KOG1645|consen 5 TTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIRPEYALRV 68 (463)
T ss_pred ccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHHHHHHHHHH
Confidence 57999999876653 237899 886 47999999999999999999854
No 54
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=78.02 E-value=0.45 Score=50.57 Aligned_cols=35 Identities=23% Similarity=0.346 Sum_probs=29.5
Q ss_pred eeeccccccccCCCCCCCCC-CCC-------------ccCcccccccccCC
Q 036958 90 FDSNICLDLARDTPPPPPCD-LLC-------------KAIPSVRGWVTVKN 126 (312)
Q Consensus 90 f~CpICLDvfrDPVv~T~CG-lFC-------------k~CPvCR~~vs~~~ 126 (312)
+.|.||++ ...++. +.|| .|| ..||.|+..+....
T Consensus 455 ~~c~ic~~-~~~~~i-t~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~ 503 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFI-TRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK 503 (674)
T ss_pred cccccccc-ccccee-ecccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence 99999999 777888 9999 999 25999998776543
No 55
>KOG2487 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription; Replication, recombination and repair]
Probab=76.02 E-value=0.96 Score=44.35 Aligned_cols=25 Identities=16% Similarity=0.335 Sum_probs=19.1
Q ss_pred eeeccccccccCCCCCCCCCCCCccCcccccccc
Q 036958 90 FDSNICLDLARDTPPPPPCDLLCKAIPSVRGWVT 123 (312)
Q Consensus 90 f~CpICLDvfrDPVv~T~CGlFCk~CPvCR~~vs 123 (312)
|-|+|||.+|..++. .|+.|+..|+
T Consensus 274 ~VCSVCLSVfC~~~P---------iC~~C~s~F~ 298 (314)
T KOG2487|consen 274 FVCSVCLSVFCRFVP---------ICKTCKSKFS 298 (314)
T ss_pred eehHHHHHHhhCCCC---------ccchhhhhcc
Confidence 567777777776665 7999999885
No 56
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=75.78 E-value=0.72 Score=49.44 Aligned_cols=38 Identities=16% Similarity=0.427 Sum_probs=31.5
Q ss_pred CeeeeccccccccCCCCCCCCC-CCC--------------ccCcccccccccCC
Q 036958 88 SFFDSNICLDLARDTPPPPPCD-LLC--------------KAIPSVRGWVTVKN 126 (312)
Q Consensus 88 e~f~CpICLDvfrDPVv~T~CG-lFC--------------k~CPvCR~~vs~~~ 126 (312)
-.++|+||+..+.+|+. +.|- .|| ++||+|+..+.+..
T Consensus 20 k~lEc~ic~~~~~~p~~-~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s 72 (684)
T KOG4362|consen 20 KILECPICLEHVKEPSL-LKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRS 72 (684)
T ss_pred hhccCCceeEEeeccch-hhhhHHHHhhhhhceeeccCccccchhhhhhhhhhh
Confidence 35799999999999999 9999 888 47999996665443
No 57
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=75.38 E-value=1.6 Score=44.97 Aligned_cols=44 Identities=25% Similarity=0.443 Sum_probs=34.3
Q ss_pred CCeeeeccccccccCCCCCCCCC-CCC-------------ccCcccccccccCCccccc
Q 036958 87 GSFFDSNICLDLARDTPPPPPCD-LLC-------------KAIPSVRGWVTVKNVTPMY 131 (312)
Q Consensus 87 ~e~f~CpICLDvfrDPVv~T~CG-lFC-------------k~CPvCR~~vs~~~L~Pny 131 (312)
..+--|-||-+-=+|-.+ -+|| +.| ..||.||.++.-..-+.++
T Consensus 367 sTFeLCKICaendKdvkI-EPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~viid 424 (563)
T KOG1785|consen 367 STFELCKICAENDKDVKI-EPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPVIID 424 (563)
T ss_pred chHHHHHHhhccCCCccc-ccccchHHHHHHHhhcccCCCCCCCceeeEeccccceeee
Confidence 345579999999999888 9999 999 3599999988654433333
No 58
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=74.61 E-value=0.84 Score=45.25 Aligned_cols=39 Identities=15% Similarity=0.288 Sum_probs=33.6
Q ss_pred CCeeeeccccccccCCCCCCCCC-CCC-----------ccCcccccccccC
Q 036958 87 GSFFDSNICLDLARDTPPPPPCD-LLC-----------KAIPSVRGWVTVK 125 (312)
Q Consensus 87 ~e~f~CpICLDvfrDPVv~T~CG-lFC-----------k~CPvCR~~vs~~ 125 (312)
+....|.+|..+|.|+-+.+.|- .|| +.||.|...+...
T Consensus 13 n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKT 63 (331)
T ss_pred ccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence 45779999999999999889999 999 5799998777554
No 59
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=72.79 E-value=2.9 Score=31.94 Aligned_cols=38 Identities=16% Similarity=0.268 Sum_probs=30.3
Q ss_pred CeeeeccccccccCCCCCCCCC-CCC---------ccCcccccccccCC
Q 036958 88 SFFDSNICLDLARDTPPPPPCD-LLC---------KAIPSVRGWVTVKN 126 (312)
Q Consensus 88 e~f~CpICLDvfrDPVv~T~CG-lFC---------k~CPvCR~~vs~~~ 126 (312)
....|-.|...-...++ ++|| +.| .-||.|...+...+
T Consensus 6 ~~~~~~~~~~~~~~~~~-~pCgH~I~~~~f~~~rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 6 PEQPCVFCGFVGTKGTV-LPCGHLICDNCFPGERYNGCPFCGTPFEFDD 53 (55)
T ss_pred cceeEEEcccccccccc-ccccceeeccccChhhccCCCCCCCcccCCC
Confidence 34567788888888888 9999 999 35999999886543
No 60
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=72.36 E-value=2.4 Score=40.75 Aligned_cols=12 Identities=25% Similarity=0.653 Sum_probs=6.4
Q ss_pred eeeccccccccC
Q 036958 90 FDSNICLDLARD 101 (312)
Q Consensus 90 f~CpICLDvfrD 101 (312)
|-|++|+-+|.+
T Consensus 256 yvCs~Clsi~C~ 267 (279)
T TIGR00627 256 FVCSVCLSVLCQ 267 (279)
T ss_pred EECCCccCCcCC
Confidence 555555555543
No 61
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=72.00 E-value=2.3 Score=35.75 Aligned_cols=12 Identities=8% Similarity=0.000 Sum_probs=8.6
Q ss_pred cCcccccccccC
Q 036958 114 AIPSVRGWVTVK 125 (312)
Q Consensus 114 ~CPvCR~~vs~~ 125 (312)
.||.|...+...
T Consensus 28 vCP~CG~~~~~~ 39 (108)
T PF09538_consen 28 VCPKCGTEFPPE 39 (108)
T ss_pred cCCCCCCccCcc
Confidence 399998777654
No 62
>PLN02400 cellulose synthase
Probab=69.65 E-value=4.4 Score=45.71 Aligned_cols=39 Identities=18% Similarity=0.216 Sum_probs=27.7
Q ss_pred CCCeeeecccccccc-----CC-CCCCCCC-CCC------------ccCccccccccc
Q 036958 86 DGSFFDSNICLDLAR-----DT-PPPPPCD-LLC------------KAIPSVRGWVTV 124 (312)
Q Consensus 86 ~~e~f~CpICLDvfr-----DP-Vv~T~CG-lFC------------k~CPvCR~~vs~ 124 (312)
..+--.|.||.|-.- +| |.|-.|+ -.| +.||.||..+..
T Consensus 33 ~~~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYkR 90 (1085)
T PLN02400 33 NLNGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYRR 90 (1085)
T ss_pred ccCCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCcccc
Confidence 334458999997421 11 6788899 888 469999988763
No 63
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=67.78 E-value=1.4 Score=44.10 Aligned_cols=56 Identities=11% Similarity=0.145 Sum_probs=40.4
Q ss_pred ccccccCCCCCCCeeeeccccccccCCCCCCCCC-CCC-----------ccCcccccccccCCccccc
Q 036958 76 KDDDEKGNGNDGSFFDSNICLDLARDTPPPPPCD-LLC-----------KAIPSVRGWVTVKNVTPMY 131 (312)
Q Consensus 76 k~d~ek~~~~~~e~f~CpICLDvfrDPVv~T~CG-lFC-----------k~CPvCR~~vs~~~L~Pny 131 (312)
++...+..-.....-.|+||+.--.+|-++.-=| .|| +.|||-..+....+++.+|
T Consensus 287 ~~~~se~e~l~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v~~l~rl~ 354 (357)
T KOG0826|consen 287 KQYNSESELLPPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASVDHLIRLF 354 (357)
T ss_pred hhcccccccCCCccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCcchHHHHHHHh
Confidence 4444555555667779999999988888867779 999 4699966665555555544
No 64
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=67.69 E-value=2.8 Score=40.85 Aligned_cols=47 Identities=11% Similarity=0.126 Sum_probs=38.3
Q ss_pred CCeeeeccccccccCCCCC---CCCC-CCC-----------ccCcccccccccCCccccccc
Q 036958 87 GSFFDSNICLDLARDTPPP---PPCD-LLC-----------KAIPSVRGWVTVKNVTPMYGC 133 (312)
Q Consensus 87 ~e~f~CpICLDvfrDPVv~---T~CG-lFC-----------k~CPvCR~~vs~~~L~Pnygl 133 (312)
...|-||||.+.+.+.+.| -+|| .|| ..||+|-.++..++|++.-.-
T Consensus 219 s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~LqrG 280 (303)
T KOG3039|consen 219 SKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIGLQRG 280 (303)
T ss_pred ccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEeeecc
Confidence 3789999999998876544 5899 999 369999999999999886433
No 65
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=63.73 E-value=3.3 Score=42.07 Aligned_cols=44 Identities=27% Similarity=0.538 Sum_probs=29.0
Q ss_pred CCCCCCeeeecccccccc--C--CCCCCCCC-CCC------------ccCcccccccccCCcc
Q 036958 83 NGNDGSFFDSNICLDLAR--D--TPPPPPCD-LLC------------KAIPSVRGWVTVKNVT 128 (312)
Q Consensus 83 ~~~~~e~f~CpICLDvfr--D--PVv~T~CG-lFC------------k~CPvCR~~vs~~~L~ 128 (312)
+..+++.+ ||+|.+-+- | =.- -+|| -.| ..||-||+.+...++.
T Consensus 9 ~sedeed~-cplcie~mditdknf~p-c~cgy~ic~fc~~~irq~lngrcpacrr~y~denv~ 69 (480)
T COG5175 9 NSEDEEDY-CPLCIEPMDITDKNFFP-CPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENVR 69 (480)
T ss_pred cccccccc-CcccccccccccCCccc-CCcccHHHHHHHHHHHhhccCCChHhhhhcccccee
Confidence 34455666 999998532 1 122 5788 544 3699999988766544
No 66
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=63.03 E-value=2.2 Score=38.44 Aligned_cols=23 Identities=13% Similarity=0.111 Sum_probs=19.0
Q ss_pred CeeeeccccccccCCCCCCCCC-CCC
Q 036958 88 SFFDSNICLDLARDTPPPPPCD-LLC 112 (312)
Q Consensus 88 e~f~CpICLDvfrDPVv~T~CG-lFC 112 (312)
-.--|.||. +-.+..|+.|| .||
T Consensus 117 ~r~fCaVCG--~~S~ysC~~CG~kyC 140 (156)
T KOG3362|consen 117 LRKFCAVCG--YDSKYSCVNCGTKYC 140 (156)
T ss_pred cchhhhhcC--CCchhHHHhcCCcee
Confidence 344699999 56678899999 999
No 67
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=61.34 E-value=5 Score=35.29 Aligned_cols=10 Identities=10% Similarity=-0.071 Sum_probs=6.8
Q ss_pred Cccccccccc
Q 036958 115 IPSVRGWVTV 124 (312)
Q Consensus 115 CPvCR~~vs~ 124 (312)
||.|...+..
T Consensus 29 cP~cg~~~~~ 38 (129)
T TIGR02300 29 SPYTGEQFPP 38 (129)
T ss_pred CCCcCCccCc
Confidence 8888766543
No 68
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=58.61 E-value=4 Score=31.37 Aligned_cols=12 Identities=17% Similarity=0.404 Sum_probs=5.0
Q ss_pred eeeecccccccc
Q 036958 89 FFDSNICLDLAR 100 (312)
Q Consensus 89 ~f~CpICLDvfr 100 (312)
+.+|.||..+..
T Consensus 2 ~~~C~IC~~~~~ 13 (70)
T PF11793_consen 2 ELECGICYSYRL 13 (70)
T ss_dssp --S-SSS--SS-
T ss_pred CCCCCcCCcEec
Confidence 568999998754
No 69
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=56.13 E-value=3.8 Score=42.49 Aligned_cols=37 Identities=16% Similarity=0.371 Sum_probs=25.8
Q ss_pred CCeeeeccccccccCCC---CCCCCC-CC-C--------ccCcccccccc
Q 036958 87 GSFFDSNICLDLARDTP---PPPPCD-LL-C--------KAIPSVRGWVT 123 (312)
Q Consensus 87 ~e~f~CpICLDvfrDPV---v~T~CG-lF-C--------k~CPvCR~~vs 123 (312)
-+.-+|||||+-+-+-+ +-+.|- .| | ..|||||--.+
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDSSCPVCRYCQS 222 (493)
T ss_pred ccCCCcchhHhhcCccccceeeeecccccchHHHhhcccCcChhhhhhcC
Confidence 35669999999876554 337788 55 3 36999986443
No 70
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=55.97 E-value=6.8 Score=39.01 Aligned_cols=36 Identities=25% Similarity=0.513 Sum_probs=28.0
Q ss_pred CCeeeeccccccccCCC--------CCCCCC-CCC------------------ccCcccccccc
Q 036958 87 GSFFDSNICLDLARDTP--------PPPPCD-LLC------------------KAIPSVRGWVT 123 (312)
Q Consensus 87 ~e~f~CpICLDvfrDPV--------v~T~CG-lFC------------------k~CPvCR~~vs 123 (312)
..+..|-||++...+.+ + .+|- .|| +.||.||....
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgil-pnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGIL-PNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred cccccceehhhhccccchhhhhcccC-CCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 55889999999866655 4 6799 999 36999987553
No 71
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=55.61 E-value=6.5 Score=36.46 Aligned_cols=34 Identities=24% Similarity=0.335 Sum_probs=27.6
Q ss_pred Ceeeecccccccc------CCCCCCCCC-CCC------------ccCccccccc
Q 036958 88 SFFDSNICLDLAR------DTPPPPPCD-LLC------------KAIPSVRGWV 122 (312)
Q Consensus 88 e~f~CpICLDvfr------DPVv~T~CG-lFC------------k~CPvCR~~v 122 (312)
..+.|.||-+-|. -|-+ +.|| .|| ..||.||...
T Consensus 2 ~~~~c~~c~~~~s~~~~~~~p~~-l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 2 SFPECEICNEDYSSEDGDHIPRV-LKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CCCceeecCccccccCcccCCcc-cccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 4678999998654 5888 9999 999 2599999873
No 72
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=54.82 E-value=6.2 Score=38.55 Aligned_cols=9 Identities=11% Similarity=0.069 Sum_probs=5.0
Q ss_pred cCccccccc
Q 036958 114 AIPSVRGWV 122 (312)
Q Consensus 114 ~CPvCR~~v 122 (312)
.||.|.+.|
T Consensus 217 ~C~hC~kAF 225 (279)
T KOG2462|consen 217 SCPHCGKAF 225 (279)
T ss_pred cCCcccchh
Confidence 366665555
No 73
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=54.72 E-value=6 Score=32.45 Aligned_cols=23 Identities=13% Similarity=-0.018 Sum_probs=15.8
Q ss_pred CCCCCCCC-CCC--------------ccCccccccccc
Q 036958 102 TPPPPPCD-LLC--------------KAIPSVRGWVTV 124 (312)
Q Consensus 102 PVv~T~CG-lFC--------------k~CPvCR~~vs~ 124 (312)
|++.-.|+ .|= ..||.||+.+..
T Consensus 46 plv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 46 PLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred ceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 44435677 775 369999987653
No 74
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=53.65 E-value=7.4 Score=32.78 Aligned_cols=26 Identities=23% Similarity=0.312 Sum_probs=17.2
Q ss_pred CCeeeeccccc----cccCCCCCCCCC-CCC
Q 036958 87 GSFFDSNICLD----LARDTPPPPPCD-LLC 112 (312)
Q Consensus 87 ~e~f~CpICLD----vfrDPVv~T~CG-lFC 112 (312)
|....|+-|.. +-++|++|..|| .|=
T Consensus 7 GtKR~Cp~CG~kFYDLnk~PivCP~CG~~~~ 37 (108)
T PF09538_consen 7 GTKRTCPSCGAKFYDLNKDPIVCPKCGTEFP 37 (108)
T ss_pred CCcccCCCCcchhccCCCCCccCCCCCCccC
Confidence 45667777764 346777777777 664
No 75
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=53.26 E-value=6.1 Score=40.40 Aligned_cols=50 Identities=18% Similarity=0.197 Sum_probs=38.2
Q ss_pred cCCccccccCCCCCCCeeeeccccccccCCCCCCCCC-CCC-----------ccCcccccccc
Q 036958 73 SDKKDDDEKGNGNDGSFFDSNICLDLARDTPPPPPCD-LLC-----------KAIPSVRGWVT 123 (312)
Q Consensus 73 s~kk~d~ek~~~~~~e~f~CpICLDvfrDPVv~T~CG-lFC-----------k~CPvCR~~vs 123 (312)
..+|...-.....+.++-.|+||.--.-..|. ++|+ .-| |.|=.|+.++.
T Consensus 406 ~~~~~~~~~~~lp~sEd~lCpICyA~pi~Avf-~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 406 PERKEESFNKDLPDSEDNLCPICYAGPINAVF-APCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred chhhHHhhcCCCCCcccccCcceecccchhhc-cCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 34444444556667788899999998888888 9999 888 56888887765
No 76
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.20 E-value=4.5 Score=39.89 Aligned_cols=42 Identities=17% Similarity=0.279 Sum_probs=28.8
Q ss_pred CeeeeccccccccCCC----------CCCCCC-C---CC----------ccCcccccccccCCcccc
Q 036958 88 SFFDSNICLDLARDTP----------PPPPCD-L---LC----------KAIPSVRGWVTVKNVTPM 130 (312)
Q Consensus 88 e~f~CpICLDvfrDPV----------v~T~CG-l---FC----------k~CPvCR~~vs~~~L~Pn 130 (312)
+.--|.||..-+-.-+ . +.|+ . || +.||.||+++..+.+..|
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~-LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmfsn 288 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYK-LSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMFSN 288 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhhee-eecccchHHHhhhhheeecCCCCCchHHHHhhHhhhccC
Confidence 4456888886554333 5 6788 4 56 369999999987665544
No 77
>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=48.90 E-value=5.8 Score=28.83 Aligned_cols=32 Identities=16% Similarity=0.231 Sum_probs=19.0
Q ss_pred eeeeccccccccCCCCCCCCC-CCC---------------ccCccccc
Q 036958 89 FFDSNICLDLARDTPPPPPCD-LLC---------------KAIPSVRG 120 (312)
Q Consensus 89 ~f~CpICLDvfrDPVv~T~CG-lFC---------------k~CPvCR~ 120 (312)
.+.|||....++.|+--..|. +-| -.||+|.+
T Consensus 2 sL~CPls~~~i~~P~Rg~~C~H~~CFDl~~fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 2 SLRCPLSFQRIRIPVRGKNCKHLQCFDLESFLESNQRTPKWKCPICNK 49 (50)
T ss_dssp ESB-TTTSSB-SSEEEETT--SS--EEHHHHHHHHHHS---B-TTT--
T ss_pred eeeCCCCCCEEEeCccCCcCcccceECHHHHHHHhhccCCeECcCCcC
Confidence 468999999999999878888 888 25999975
No 78
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=48.57 E-value=7.4 Score=29.61 Aligned_cols=25 Identities=12% Similarity=-0.004 Sum_probs=19.0
Q ss_pred eeeeccccccc--cCCCCCCCCCCCCccCccccccc
Q 036958 89 FFDSNICLDLA--RDTPPPPPCDLLCKAIPSVRGWV 122 (312)
Q Consensus 89 ~f~CpICLDvf--rDPVv~T~CGlFCk~CPvCR~~v 122 (312)
.-.|++|.+.| .+.+| .||.|.+++
T Consensus 5 ~~~C~~Cg~~~~~~dDiV---------vCp~Cgapy 31 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIV---------VCPECGAPY 31 (54)
T ss_pred CccChhhCCcccCCCCEE---------ECCCCCCcc
Confidence 45799999998 67777 677776655
No 79
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=47.98 E-value=11 Score=26.32 Aligned_cols=21 Identities=19% Similarity=0.376 Sum_probs=15.9
Q ss_pred eccccccccC-CCCCCCCC-CCC
Q 036958 92 SNICLDLARD-TPPPPPCD-LLC 112 (312)
Q Consensus 92 CpICLDvfrD-PVv~T~CG-lFC 112 (312)
|.+|...--- |+.|..|+ .||
T Consensus 1 C~~C~~~~~l~~f~C~~C~~~FC 23 (39)
T smart00154 1 CHFCRKKVGLTGFKCRHCGNLFC 23 (39)
T ss_pred CcccCCcccccCeECCccCCccc
Confidence 5677765444 88888899 999
No 80
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=47.54 E-value=8.8 Score=39.24 Aligned_cols=39 Identities=23% Similarity=0.475 Sum_probs=31.7
Q ss_pred CCCCCCeeeeccccccccCCCCCCCCC-CCC-------------ccCccccccc
Q 036958 83 NGNDGSFFDSNICLDLARDTPPPPPCD-LLC-------------KAIPSVRGWV 122 (312)
Q Consensus 83 ~~~~~e~f~CpICLDvfrDPVv~T~CG-lFC-------------k~CPvCR~~v 122 (312)
...+++.-.|.||-.-..---+ ++|+ ..| +.||.||.+-
T Consensus 55 ddtDEen~~C~ICA~~~TYs~~-~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 55 DDTDEENMNCQICAGSTTYSAR-YPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred cccccccceeEEecCCceEEEe-ccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 3456678899999998777778 9999 999 5799999653
No 81
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=44.16 E-value=9.4 Score=43.21 Aligned_cols=36 Identities=17% Similarity=0.249 Sum_probs=26.6
Q ss_pred Ceeeecccccccc-----CC-CCCCCCC-CCC------------ccCcccccccc
Q 036958 88 SFFDSNICLDLAR-----DT-PPPPPCD-LLC------------KAIPSVRGWVT 123 (312)
Q Consensus 88 e~f~CpICLDvfr-----DP-Vv~T~CG-lFC------------k~CPvCR~~vs 123 (312)
+--.|.||.|-.- +| |.|-.|| -.| +.||.|+..+.
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 3448999998411 11 6788899 888 46999998876
No 83
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=42.74 E-value=4.9 Score=44.52 Aligned_cols=37 Identities=19% Similarity=0.265 Sum_probs=24.7
Q ss_pred eeeccccccccCCCC--CCCCC-CCC-----------ccCcccccccccCC
Q 036958 90 FDSNICLDLARDTPP--PPPCD-LLC-----------KAIPSVRGWVTVKN 126 (312)
Q Consensus 90 f~CpICLDvfrDPVv--~T~CG-lFC-----------k~CPvCR~~vs~~~ 126 (312)
-.|+||+.-+.|-.+ -..|+ .|| ..||+||..|....
T Consensus 124 ~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~ 174 (1134)
T KOG0825|consen 124 NQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVK 174 (1134)
T ss_pred hhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhheee
Confidence 367788765544222 14688 888 46999999886543
No 84
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=42.34 E-value=15 Score=35.99 Aligned_cols=28 Identities=21% Similarity=0.233 Sum_probs=23.9
Q ss_pred CCeeeeccccccccCCCCCCCCC-CCCccC
Q 036958 87 GSFFDSNICLDLARDTPPPPPCD-LLCKAI 115 (312)
Q Consensus 87 ~e~f~CpICLDvfrDPVv~T~CG-lFCk~C 115 (312)
-.+-.|.+||..+++||+ ++=| +||.+|
T Consensus 41 K~FdcCsLtLqPc~dPvi-t~~GylfdrEa 69 (303)
T KOG3039|consen 41 KPFDCCSLTLQPCRDPVI-TPDGYLFDREA 69 (303)
T ss_pred CCcceeeeecccccCCcc-CCCCeeeeHHH
Confidence 356689999999999999 9999 999543
No 85
>PLN02436 cellulose synthase A
Probab=41.93 E-value=12 Score=42.37 Aligned_cols=41 Identities=20% Similarity=0.257 Sum_probs=28.4
Q ss_pred CCCeeeecccccccc-----CC-CCCCCCC-CCC------------ccCcccccccccCC
Q 036958 86 DGSFFDSNICLDLAR-----DT-PPPPPCD-LLC------------KAIPSVRGWVTVKN 126 (312)
Q Consensus 86 ~~e~f~CpICLDvfr-----DP-Vv~T~CG-lFC------------k~CPvCR~~vs~~~ 126 (312)
....-.|.||.|-.- +| |.|-.|| -.| +.||.|+..+...+
T Consensus 33 ~~~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~r~k 92 (1094)
T PLN02436 33 ELSGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYKRIK 92 (1094)
T ss_pred ccCCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhcc
Confidence 344458999998421 12 6678898 777 46999999886433
No 86
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=40.42 E-value=8.1 Score=43.85 Aligned_cols=59 Identities=25% Similarity=0.340 Sum_probs=34.8
Q ss_pred cccCCccccccccCCccccccCCCCCCCeeeecccccccc-----CC-CCCCCCC-CC---C----------ccCccccc
Q 036958 61 CENNNGFLEDEVSDKKDDDEKGNGNDGSFFDSNICLDLAR-----DT-PPPPPCD-LL---C----------KAIPSVRG 120 (312)
Q Consensus 61 c~n~~~~l~d~~s~kk~d~ek~~~~~~e~f~CpICLDvfr-----DP-Vv~T~CG-lF---C----------k~CPvCR~ 120 (312)
-+.|+++++.-..=||--.++=+| .-+|+||..++. -| ..|..|. .| | ..||+||.
T Consensus 1445 ~~~ngs~~D~l~l~kkNi~~~fsG----~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRs 1520 (1525)
T COG5219 1445 IKKNGSFMDLLGLWKKNIDEKFSG----HEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRS 1520 (1525)
T ss_pred HhccchHHHHHHHHHhhhhhhcCC----cchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccc
Confidence 344556666555545433333332 447999998754 23 3456666 66 3 36999997
Q ss_pred ccc
Q 036958 121 WVT 123 (312)
Q Consensus 121 ~vs 123 (312)
+++
T Consensus 1521 eit 1523 (1525)
T COG5219 1521 EIT 1523 (1525)
T ss_pred ccc
Confidence 664
No 87
>PF03850 Tfb4: Transcription factor Tfb4; InterPro: IPR004600 Members of this family are part of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. The core-TFIIH basal transcription factor complex has six subunits, this is the p34 subunit.; GO: 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent, 0000439 core TFIIH complex
Probab=39.21 E-value=15 Score=35.11 Aligned_cols=14 Identities=14% Similarity=0.380 Sum_probs=8.3
Q ss_pred eeeeccccccccCC
Q 036958 89 FFDSNICLDLARDT 102 (312)
Q Consensus 89 ~f~CpICLDvfrDP 102 (312)
-|-|+||+.+|+.+
T Consensus 253 g~vCsvCLsIfc~~ 266 (276)
T PF03850_consen 253 GYVCSVCLSIFCEF 266 (276)
T ss_pred eeEchhhhhhhhCC
Confidence 45666666666554
No 88
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=38.78 E-value=15 Score=35.93 Aligned_cols=47 Identities=11% Similarity=0.000 Sum_probs=35.9
Q ss_pred CCCeeeecccccc----ccCCCCCCCCC-CCC---------ccCcccccccccCCccccccc
Q 036958 86 DGSFFDSNICLDL----ARDTPPPPPCD-LLC---------KAIPSVRGWVTVKNVTPMYGC 133 (312)
Q Consensus 86 ~~e~f~CpICLDv----frDPVv~T~CG-lFC---------k~CPvCR~~vs~~~L~Pnygl 133 (312)
....|.|||-.-. |+--+. -.|| .|= ..|++|.+.+..+.++++-+.
T Consensus 108 ~~a~fiCPvtgleMng~~~F~~l-~~CGcV~SerAlKeikas~C~~C~a~y~~~dvIvlNg~ 168 (293)
T KOG3113|consen 108 QRARFICPVTGLEMNGKYRFCAL-RCCGCVFSERALKEIKASVCHVCGAAYQEDDVIVLNGT 168 (293)
T ss_pred ccceeecccccceecceEEEEEE-eccceeccHHHHHHhhhccccccCCcccccCeEeeCCC
Confidence 3468999998754 444456 7899 888 369999999999888887554
No 89
>PF06221 zf-C2HC5: Putative zinc finger motif, C2HC5-type; InterPro: IPR009349 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 zinc finger appears to be common in activating signal cointegrator 1/thyroid receptor interacting protein 4. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=38.56 E-value=16 Score=27.89 Aligned_cols=20 Identities=15% Similarity=0.298 Sum_probs=15.9
Q ss_pred CCCCCC-CCC------ccCcccccccc
Q 036958 104 PPPPCD-LLC------KAIPSVRGWVT 123 (312)
Q Consensus 104 v~T~CG-lFC------k~CPvCR~~vs 123 (312)
-|+.|| ++| ..||.|...+.
T Consensus 20 NCl~CGkIiC~~Eg~~~pC~fCg~~l~ 46 (57)
T PF06221_consen 20 NCLNCGKIICEQEGPLGPCPFCGTPLL 46 (57)
T ss_pred cccccChhhcccccCcCcCCCCCCccc
Confidence 589999 999 35999986553
No 90
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=38.01 E-value=14 Score=27.77 Aligned_cols=37 Identities=16% Similarity=0.167 Sum_probs=25.6
Q ss_pred eeeeccccccccCCCCCCCCC-CCCccCcccccccccCCccc
Q 036958 89 FFDSNICLDLARDTPPPPPCD-LLCKAIPSVRGWVTVKNVTP 129 (312)
Q Consensus 89 ~f~CpICLDvfrDPVv~T~CG-lFCk~CPvCR~~vs~~~L~P 129 (312)
.|+||.|..-+.-|-. .. | +. .||.|...+....+-|
T Consensus 2 ~~~CP~CG~~iev~~~-~~-GeiV--~Cp~CGaeleVv~~~p 39 (54)
T TIGR01206 2 QFECPDCGAEIELENP-EL-GELV--ICDECGAELEVVSLDP 39 (54)
T ss_pred ccCCCCCCCEEecCCC-cc-CCEE--eCCCCCCEEEEEeCCC
Confidence 4789999987665544 33 6 44 7999998876655555
No 91
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=37.47 E-value=24 Score=23.94 Aligned_cols=24 Identities=13% Similarity=0.229 Sum_probs=15.3
Q ss_pred eeeeccccccccC--CCCCCCCCCCCccCcccccc
Q 036958 89 FFDSNICLDLARD--TPPPPPCDLLCKAIPSVRGW 121 (312)
Q Consensus 89 ~f~CpICLDvfrD--PVv~T~CGlFCk~CPvCR~~ 121 (312)
.+.|.+|..++.. |.. .||+|...
T Consensus 2 ~~~C~~CG~i~~g~~~p~---------~CP~Cg~~ 27 (34)
T cd00729 2 VWVCPVCGYIHEGEEAPE---------KCPICGAP 27 (34)
T ss_pred eEECCCCCCEeECCcCCC---------cCcCCCCc
Confidence 4678888877543 222 58888653
No 92
>PLN02195 cellulose synthase A
Probab=37.47 E-value=14 Score=41.47 Aligned_cols=33 Identities=18% Similarity=0.234 Sum_probs=24.3
Q ss_pred eecccccccc-----CC-CCCCCCC-CCC------------ccCcccccccc
Q 036958 91 DSNICLDLAR-----DT-PPPPPCD-LLC------------KAIPSVRGWVT 123 (312)
Q Consensus 91 ~CpICLDvfr-----DP-Vv~T~CG-lFC------------k~CPvCR~~vs 123 (312)
.|.||.|..- +| |.|-.|| -.| +.||.|+..+.
T Consensus 8 ~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 8 ICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred cceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 6999987321 12 6678888 888 46999998886
No 93
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.86 E-value=15 Score=33.84 Aligned_cols=31 Identities=26% Similarity=0.417 Sum_probs=23.5
Q ss_pred eccccccccCCCCCCCCC--CCC-------ccCcccccccc
Q 036958 92 SNICLDLARDTPPPPPCD--LLC-------KAIPSVRGWVT 123 (312)
Q Consensus 92 CpICLDvfrDPVv~T~CG--lFC-------k~CPvCR~~vs 123 (312)
|-+|.+--.-=++ ++|- .+| +.||+|+....
T Consensus 161 Cr~C~~~~~~Vll-lPCrHl~lC~~C~~~~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGEREATVLL-LPCRHLCLCGICDESLRICPICRSPKT 200 (207)
T ss_pred ceecCcCCceEEe-ecccceEecccccccCccCCCCcChhh
Confidence 8999887666555 8998 777 35999987554
No 94
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.37 E-value=8.4 Score=41.92 Aligned_cols=31 Identities=23% Similarity=0.579 Sum_probs=24.7
Q ss_pred Ceeeeccccccc----cCCCCCCCCC-CCC---------ccCccccc
Q 036958 88 SFFDSNICLDLA----RDTPPPPPCD-LLC---------KAIPSVRG 120 (312)
Q Consensus 88 e~f~CpICLDvf----rDPVv~T~CG-lFC---------k~CPvCR~ 120 (312)
..+.|+||+..| ..||. +.|| ..| ..|| |+.
T Consensus 10 ~~l~c~ic~n~f~~~~~~Pvs-l~cghtic~~c~~~lyn~scp-~~~ 54 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEPVS-LQCGHTICGHCVQLLYNASCP-TKR 54 (861)
T ss_pred HHhhchHHHHHHHHHhcCccc-ccccchHHHHHHHhHhhccCC-CCc
Confidence 567999997754 57999 9999 999 3688 653
No 95
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=34.90 E-value=23 Score=29.03 Aligned_cols=38 Identities=16% Similarity=0.183 Sum_probs=13.2
Q ss_pred CCeeeecccccccc-----CC-CCCCCCC-CCC------------ccCccccccccc
Q 036958 87 GSFFDSNICLDLAR-----DT-PPPPPCD-LLC------------KAIPSVRGWVTV 124 (312)
Q Consensus 87 ~e~f~CpICLDvfr-----DP-Vv~T~CG-lFC------------k~CPvCR~~vs~ 124 (312)
.+.-.|.||.|-.- ++ |.|..|+ -.| +.||.|+..+..
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr 63 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKR 63 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B---
T ss_pred cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCccc
Confidence 34557999997421 22 4567788 788 469999977653
No 96
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=34.75 E-value=23 Score=23.03 Aligned_cols=6 Identities=17% Similarity=0.185 Sum_probs=3.0
Q ss_pred eccccc
Q 036958 92 SNICLD 97 (312)
Q Consensus 92 CpICLD 97 (312)
||-|..
T Consensus 3 CP~C~~ 8 (26)
T PF10571_consen 3 CPECGA 8 (26)
T ss_pred CCCCcC
Confidence 555554
No 97
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=34.01 E-value=23 Score=26.51 Aligned_cols=17 Identities=24% Similarity=0.610 Sum_probs=7.7
Q ss_pred CCCCCCC-CCC-----------ccCcccc
Q 036958 103 PPPPPCD-LLC-----------KAIPSVR 119 (312)
Q Consensus 103 Vv~T~CG-lFC-----------k~CPvCR 119 (312)
..|..|+ .|| ..||=|.
T Consensus 22 y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 22 YRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp E--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred EECCCCCCccccCcChhhhccccCCcCCC
Confidence 4456666 777 4688773
No 98
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=33.91 E-value=23 Score=31.30 Aligned_cols=26 Identities=12% Similarity=-0.097 Sum_probs=19.4
Q ss_pred CCeeeecccccc----ccCCCCCCCCC-CCC
Q 036958 87 GSFFDSNICLDL----ARDTPPPPPCD-LLC 112 (312)
Q Consensus 87 ~e~f~CpICLDv----frDPVv~T~CG-lFC 112 (312)
|.+..|+-|..- -++|++|..|| .|=
T Consensus 7 GtKr~Cp~cg~kFYDLnk~p~vcP~cg~~~~ 37 (129)
T TIGR02300 7 GTKRICPNTGSKFYDLNRRPAVSPYTGEQFP 37 (129)
T ss_pred CccccCCCcCccccccCCCCccCCCcCCccC
Confidence 456788888753 47888888888 764
No 99
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=33.17 E-value=28 Score=37.01 Aligned_cols=47 Identities=9% Similarity=0.075 Sum_probs=36.9
Q ss_pred CCCCCCCeeeeccccccccCCCCCCCCC-CCC---------------ccCcccccccccCCcc
Q 036958 82 GNGNDGSFFDSNICLDLARDTPPPPPCD-LLC---------------KAIPSVRGWVTVKNVT 128 (312)
Q Consensus 82 ~~~~~~e~f~CpICLDvfrDPVv~T~CG-lFC---------------k~CPvCR~~vs~~~L~ 128 (312)
..+...-.+.|+|+.-..+-|+-+..|. +=| ..||||.+.+....++
T Consensus 299 ~tt~~~vSL~CPl~~~Rm~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~e~l~ 361 (636)
T KOG2169|consen 299 ATTSLRVSLNCPLSKMRMSLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPFEGLI 361 (636)
T ss_pred eeccceeEecCCcccceeecCCcccccccceecchhhhHHhccCCCeeeCccCCccccccchh
Confidence 3444455899999999999999889999 888 2699999877655444
No 100
>PRK00420 hypothetical protein; Validated
Probab=31.60 E-value=24 Score=30.16 Aligned_cols=10 Identities=10% Similarity=-0.090 Sum_probs=6.8
Q ss_pred cCcccccccc
Q 036958 114 AIPSVRGWVT 123 (312)
Q Consensus 114 ~CPvCR~~vs 123 (312)
+||.|...+.
T Consensus 42 ~Cp~Cg~~~~ 51 (112)
T PRK00420 42 VCPVHGKVYI 51 (112)
T ss_pred ECCCCCCeee
Confidence 5888876554
No 101
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 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 AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=31.49 E-value=12 Score=26.25 Aligned_cols=21 Identities=14% Similarity=0.259 Sum_probs=11.7
Q ss_pred ecc--ccccccCCCCCCCCC-CCC
Q 036958 92 SNI--CLDLARDTPPPPPCD-LLC 112 (312)
Q Consensus 92 CpI--CLDvfrDPVv~T~CG-lFC 112 (312)
|.+ |.....-|+.|..|+ .||
T Consensus 1 C~~~~C~~~~~~~~~C~~C~~~FC 24 (43)
T PF01428_consen 1 CSFPGCKKKDFLPFKCKHCGKSFC 24 (43)
T ss_dssp -SSTTT--BCTSHEE-TTTS-EE-
T ss_pred CccCcCcCccCCCeECCCCCcccC
Confidence 445 666555788888888 888
No 102
>COG0267 RpmG Ribosomal protein L33 [Translation, ribosomal structure and biogenesis]
Probab=31.22 E-value=18 Score=27.12 Aligned_cols=11 Identities=27% Similarity=0.244 Sum_probs=8.4
Q ss_pred ccCcccccccc
Q 036958 113 KAIPSVRGWVT 123 (312)
Q Consensus 113 k~CPvCR~~vs 123 (312)
++||+|++.+.
T Consensus 35 Kycp~~~khtl 45 (50)
T COG0267 35 KYCPVCRKHTL 45 (50)
T ss_pred ecCcccccEEE
Confidence 57999988653
No 103
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.60 E-value=21 Score=38.03 Aligned_cols=36 Identities=25% Similarity=0.366 Sum_probs=24.1
Q ss_pred CCCeeeecccccc---c--------------cCCCCCCCCC-CCC-----------c-cCccccccc
Q 036958 86 DGSFFDSNICLDL---A--------------RDTPPPPPCD-LLC-----------K-AIPSVRGWV 122 (312)
Q Consensus 86 ~~e~f~CpICLDv---f--------------rDPVv~T~CG-lFC-----------k-~CPvCR~~v 122 (312)
-....+|.||+.- . +.=++ |+|. +|= | .||+||..+
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~-tPC~HifH~~CL~~WMd~ykl~CPvCR~pL 633 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYML-TPCHHIFHRQCLLQWMDTYKLICPVCRCPL 633 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccc-cchHHHHHHHHHHHHHhhhcccCCccCCCC
Confidence 4456789999842 1 12334 7888 774 3 799999865
No 104
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=30.16 E-value=52 Score=28.30 Aligned_cols=15 Identities=20% Similarity=0.629 Sum_probs=10.7
Q ss_pred CCCCC-CCC-----------ccCcccc
Q 036958 105 PPPCD-LLC-----------KAIPSVR 119 (312)
Q Consensus 105 ~T~CG-lFC-----------k~CPvCR 119 (312)
|..|. .|| ..||-|.
T Consensus 84 C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 84 CAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CCCCCCccccccchhhhhhccCCcCCC
Confidence 66666 777 4688885
No 105
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 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 UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=29.98 E-value=11 Score=27.92 Aligned_cols=21 Identities=14% Similarity=0.298 Sum_probs=16.3
Q ss_pred eccccccccCCCCCCCCC-CCC
Q 036958 92 SNICLDLARDTPPPPPCD-LLC 112 (312)
Q Consensus 92 CpICLDvfrDPVv~T~CG-lFC 112 (312)
|.+|...-.+..+|+.|| .+|
T Consensus 1 C~~C~~~~~~lw~CL~Cg~~~C 22 (63)
T PF02148_consen 1 CSVCGSTNSNLWLCLTCGYVGC 22 (63)
T ss_dssp -SSSHTCSSSEEEETTTS-EEE
T ss_pred CCCCCCcCCceEEeCCCCcccc
Confidence 667775556788899999 999
No 106
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=29.74 E-value=14 Score=40.39 Aligned_cols=27 Identities=15% Similarity=0.132 Sum_probs=21.1
Q ss_pred CCCeeeeccccccccCC---------CCCCCCC-CCC
Q 036958 86 DGSFFDSNICLDLARDT---------PPPPPCD-LLC 112 (312)
Q Consensus 86 ~~e~f~CpICLDvfrDP---------Vv~T~CG-lFC 112 (312)
.-+.-.|.-|+.-+-|| ..||.|| .|=
T Consensus 98 ~pD~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfT 134 (750)
T COG0068 98 PPDAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFT 134 (750)
T ss_pred CCchhhhHHHHHHhcCCCCcceeccccccCCCCccee
Confidence 44567899999876666 3599999 998
No 107
>PLN02189 cellulose synthase
Probab=28.88 E-value=27 Score=39.62 Aligned_cols=40 Identities=18% Similarity=0.190 Sum_probs=28.0
Q ss_pred CCCeeeecccccccc-----CC-CCCCCCC-CCC------------ccCcccccccccC
Q 036958 86 DGSFFDSNICLDLAR-----DT-PPPPPCD-LLC------------KAIPSVRGWVTVK 125 (312)
Q Consensus 86 ~~e~f~CpICLDvfr-----DP-Vv~T~CG-lFC------------k~CPvCR~~vs~~ 125 (312)
....-.|.||.|-.- +| |.|-.|| -.| +.||.|+..+...
T Consensus 31 ~~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r~ 89 (1040)
T PLN02189 31 NLDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYKRL 89 (1040)
T ss_pred cccCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhc
Confidence 334458999998522 12 6678898 777 4699999988633
No 108
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=28.80 E-value=31 Score=39.21 Aligned_cols=39 Identities=13% Similarity=0.255 Sum_probs=28.1
Q ss_pred CCCCeeeecccccccc-----CC-CCCCCCC-CCC------------ccCcccccccc
Q 036958 85 NDGSFFDSNICLDLAR-----DT-PPPPPCD-LLC------------KAIPSVRGWVT 123 (312)
Q Consensus 85 ~~~e~f~CpICLDvfr-----DP-Vv~T~CG-lFC------------k~CPvCR~~vs 123 (312)
.....--|.||.|-.- +| |.|-.|| -.| +.||.|+..+.
T Consensus 11 ~~~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 11 QSADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred cCCCcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 3445667999998521 12 6688898 888 46999998876
No 109
>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=28.78 E-value=33 Score=24.73 Aligned_cols=17 Identities=35% Similarity=0.659 Sum_probs=13.0
Q ss_pred eccccc--cccCCCCCCCCC
Q 036958 92 SNICLD--LARDTPPPPPCD 109 (312)
Q Consensus 92 CpICLD--vfrDPVv~T~CG 109 (312)
|-||++ ...+|++ .+|.
T Consensus 2 CrIC~~~~~~~~~l~-~PC~ 20 (49)
T smart00744 2 CRICHDEGDEGDPLV-SPCR 20 (49)
T ss_pred ccCCCCCCCCCCeeE-eccc
Confidence 889997 4567887 7775
No 110
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=28.72 E-value=10 Score=27.32 Aligned_cols=13 Identities=15% Similarity=0.102 Sum_probs=9.6
Q ss_pred Ceeeecccccccc
Q 036958 88 SFFDSNICLDLAR 100 (312)
Q Consensus 88 e~f~CpICLDvfr 100 (312)
+.|.||.|.+.|.
T Consensus 1 ~~f~CP~C~~~~~ 13 (54)
T PF05605_consen 1 DSFTCPYCGKGFS 13 (54)
T ss_pred CCcCCCCCCCccC
Confidence 4688999988544
No 111
>PRK12496 hypothetical protein; Provisional
Probab=28.44 E-value=32 Score=30.45 Aligned_cols=27 Identities=11% Similarity=-0.095 Sum_probs=17.8
Q ss_pred eeeccccccccC--CCCCCCCCCCCccCcccccccccC
Q 036958 90 FDSNICLDLARD--TPPPPPCDLLCKAIPSVRGWVTVK 125 (312)
Q Consensus 90 f~CpICLDvfrD--PVv~T~CGlFCk~CPvCR~~vs~~ 125 (312)
+.|+=|...|.. +.. .||+|..++..+
T Consensus 128 ~~C~gC~~~~~~~~~~~---------~C~~CG~~~~r~ 156 (164)
T PRK12496 128 KVCKGCKKKYPEDYPDD---------VCEICGSPVKRK 156 (164)
T ss_pred EECCCCCccccCCCCCC---------cCCCCCChhhhc
Confidence 668777777742 333 699998776543
No 112
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=28.31 E-value=20 Score=34.45 Aligned_cols=40 Identities=20% Similarity=0.294 Sum_probs=26.4
Q ss_pred cccCCccccc---cccCCccccccCCCCCCCeeeecccccccc
Q 036958 61 CENNNGFLED---EVSDKKDDDEKGNGNDGSFFDSNICLDLAR 100 (312)
Q Consensus 61 c~n~~~~l~d---~~s~kk~d~ek~~~~~~e~f~CpICLDvfr 100 (312)
.++.-|+|-. .++.-+...--+...+.+.|.|-||..-|.
T Consensus 86 ~~~p~g~lass~~~i~~ss~k~t~gsssd~d~ftCrvCgK~F~ 128 (267)
T KOG3576|consen 86 VKNPLGPLASSFESISTSSPKSTIGSSSDQDSFTCRVCGKKFG 128 (267)
T ss_pred CCCCCccchhccccccccCCcccccCCCCCCeeeeehhhhhhh
Confidence 4444455432 224445556667778899999999998775
No 113
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=28.15 E-value=46 Score=30.24 Aligned_cols=25 Identities=12% Similarity=0.190 Sum_probs=17.3
Q ss_pred eeeeccccccccCCCCCCCCCCCCccCcccccc
Q 036958 89 FFDSNICLDLARDTPPPPPCDLLCKAIPSVRGW 121 (312)
Q Consensus 89 ~f~CpICLDvfrDPVv~T~CGlFCk~CPvCR~~ 121 (312)
.+.|++|..+..+.-- ..||+|..+
T Consensus 134 ~~vC~vCGy~~~ge~P--------~~CPiCga~ 158 (166)
T COG1592 134 VWVCPVCGYTHEGEAP--------EVCPICGAP 158 (166)
T ss_pred EEEcCCCCCcccCCCC--------CcCCCCCCh
Confidence 8999999887654211 268888653
No 114
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=28.07 E-value=26 Score=36.27 Aligned_cols=39 Identities=18% Similarity=0.398 Sum_probs=25.2
Q ss_pred eeecccccccc---CCCCCCCCC-CCC--------------ccCcccccccccCCcc
Q 036958 90 FDSNICLDLAR---DTPPPPPCD-LLC--------------KAIPSVRGWVTVKNVT 128 (312)
Q Consensus 90 f~CpICLDvfr---DPVv~T~CG-lFC--------------k~CPvCR~~vs~~~L~ 128 (312)
-.|.||.|.+- +=-..-.|| .|= ..||+|+-.+...++.
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r~~~ 61 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQERHVA 61 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccceeee
Confidence 47999987653 222203499 774 2699999666666555
No 115
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=27.92 E-value=33 Score=24.21 Aligned_cols=25 Identities=20% Similarity=0.397 Sum_probs=16.5
Q ss_pred eeccccc---cccCCCCCCCCC-CCCccC
Q 036958 91 DSNICLD---LARDTPPPPPCD-LLCKAI 115 (312)
Q Consensus 91 ~CpICLD---vfrDPVv~T~CG-lFCk~C 115 (312)
.|.+|.. ++.--..|..|| .||..|
T Consensus 4 ~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C 32 (57)
T cd00065 4 SCMGCGKPFTLTRRRHHCRNCGRIFCSKC 32 (57)
T ss_pred cCcccCccccCCccccccCcCcCCcChHH
Confidence 5777754 344455678899 998654
No 116
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=27.90 E-value=27 Score=30.18 Aligned_cols=18 Identities=11% Similarity=0.139 Sum_probs=10.7
Q ss_pred CCCCC-CCC---ccCccccccc
Q 036958 105 PPPCD-LLC---KAIPSVRGWV 122 (312)
Q Consensus 105 ~T~CG-lFC---k~CPvCR~~v 122 (312)
|-.|| .|. ..||.|....
T Consensus 32 C~~CG~v~~PPr~~Cp~C~~~~ 53 (140)
T COG1545 32 CKKCGRVYFPPRAYCPKCGSET 53 (140)
T ss_pred cCCCCeEEcCCcccCCCCCCCC
Confidence 34444 444 2688887763
No 117
>PRK00504 rpmG 50S ribosomal protein L33; Validated
Probab=27.64 E-value=30 Score=25.75 Aligned_cols=10 Identities=20% Similarity=0.189 Sum_probs=7.8
Q ss_pred ccCccccccc
Q 036958 113 KAIPSVRGWV 122 (312)
Q Consensus 113 k~CPvCR~~v 122 (312)
++||.|++..
T Consensus 35 Kycp~c~kht 44 (50)
T PRK00504 35 KFCPRCNKHT 44 (50)
T ss_pred CcCCCCCCeE
Confidence 5799998754
No 118
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=27.27 E-value=28 Score=35.46 Aligned_cols=28 Identities=36% Similarity=0.592 Sum_probs=18.3
Q ss_pred CCCCCCC----CCCccCcccccccccCCccccccc
Q 036958 103 PPPPPCD----LLCKAIPSVRGWVTVKNVTPMYGC 133 (312)
Q Consensus 103 Vv~T~CG----lFCk~CPvCR~~vs~~~L~Pnygl 133 (312)
..|+.|| .|-..||-|+++-+.+ |+.+.
T Consensus 355 YRC~~CGF~a~~l~W~CPsC~~W~Tik---Pir~~ 386 (389)
T COG2956 355 YRCQNCGFTAHTLYWHCPSCRAWETIK---PIRGL 386 (389)
T ss_pred ceecccCCcceeeeeeCCCcccccccC---Ccccc
Confidence 4466777 3335799999987654 65443
No 119
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=26.83 E-value=20 Score=37.04 Aligned_cols=27 Identities=30% Similarity=0.675 Sum_probs=21.2
Q ss_pred CCCeeeeccccccc--cCCCCCCCCC-CCC
Q 036958 86 DGSFFDSNICLDLA--RDTPPPPPCD-LLC 112 (312)
Q Consensus 86 ~~e~f~CpICLDvf--rDPVv~T~CG-lFC 112 (312)
....|.|.||++.. ++=...++|+ .||
T Consensus 181 ~~slf~C~ICf~e~~G~~c~~~lpC~Hv~C 210 (445)
T KOG1814|consen 181 VNSLFDCCICFEEQMGQHCFKFLPCSHVFC 210 (445)
T ss_pred HhhcccceeeehhhcCcceeeecccchHHH
Confidence 45689999999864 3455569999 999
No 120
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=26.78 E-value=30 Score=35.44 Aligned_cols=38 Identities=13% Similarity=0.020 Sum_probs=28.9
Q ss_pred CCCCeeeeccccccccC---CCCCCCCC-CCC--------------ccCcccccccc
Q 036958 85 NDGSFFDSNICLDLARD---TPPPPPCD-LLC--------------KAIPSVRGWVT 123 (312)
Q Consensus 85 ~~~e~f~CpICLDvfrD---PVv~T~CG-lFC--------------k~CPvCR~~vs 123 (312)
.--+-|.|||=.+.-.+ |+. +.|| ..| -.||+|-....
T Consensus 330 ~fHSvF~CPVlKeqtsdeNPPm~-L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~ 385 (394)
T KOG2817|consen 330 HFHSVFICPVLKEQTSDENPPMM-LICGHVISKDALNRLSKNGSQSFKCPYCPVEQL 385 (394)
T ss_pred cccceeecccchhhccCCCCCee-eeccceecHHHHHHHhhCCCeeeeCCCCCcccC
Confidence 35578999998887553 777 9999 999 15999965443
No 121
>TIGR01023 rpmG_bact ribosomal protein L33, bacterial type. This model describes bacterial ribosomal protein L33 and its chloroplast and mitochondrial equivalents.
Probab=26.72 E-value=32 Score=25.83 Aligned_cols=10 Identities=40% Similarity=0.425 Sum_probs=8.0
Q ss_pred ccCccccccc
Q 036958 113 KAIPSVRGWV 122 (312)
Q Consensus 113 k~CPvCR~~v 122 (312)
++||.|++.+
T Consensus 39 Kycp~~~kht 48 (54)
T TIGR01023 39 KYCPVCRKHV 48 (54)
T ss_pred CcCCCCCCeE
Confidence 5799998754
No 122
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=26.64 E-value=52 Score=36.96 Aligned_cols=37 Identities=14% Similarity=0.107 Sum_probs=25.1
Q ss_pred ccccccCCCCCCCeeeecccccccc---------------CCCCCCCCC-CCC
Q 036958 76 KDDDEKGNGNDGSFFDSNICLDLAR---------------DTPPPPPCD-LLC 112 (312)
Q Consensus 76 k~d~ek~~~~~~e~f~CpICLDvfr---------------DPVv~T~CG-lFC 112 (312)
...+++.....-+.-.|-||+.++. .|.-|--|| -|=
T Consensus 592 ~slv~~~~~~~TdPNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFt 644 (958)
T KOG1074|consen 592 TSLVENSENKRTDPNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFT 644 (958)
T ss_pred cccccccccccCCccceeeeeecccchhhhhhhhhcccCcCccccccccchhc
Confidence 4555566666667778999998764 466666676 665
No 123
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=26.59 E-value=36 Score=32.89 Aligned_cols=26 Identities=15% Similarity=0.144 Sum_probs=19.1
Q ss_pred ccccCCCCCCCCC-CCC---ccCccccccc
Q 036958 97 DLARDTPPPPPCD-LLC---KAIPSVRGWV 122 (312)
Q Consensus 97 DvfrDPVv~T~CG-lFC---k~CPvCR~~v 122 (312)
.+..--.+|..|. .|| ..||+|+..|
T Consensus 250 k~v~~GyvCs~Clsi~C~~p~~C~~Cgt~f 279 (279)
T TIGR00627 250 QLVSIGFVCSVCLSVLCQYTPICKTCKTAF 279 (279)
T ss_pred ccccceEECCCccCCcCCCCCCCCCCCCCC
Confidence 3444457788999 999 5799997654
No 124
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=26.25 E-value=37 Score=33.32 Aligned_cols=13 Identities=8% Similarity=0.102 Sum_probs=8.5
Q ss_pred CCCeeeecccccc
Q 036958 86 DGSFFDSNICLDL 98 (312)
Q Consensus 86 ~~e~f~CpICLDv 98 (312)
....+.|+-|...
T Consensus 127 ~~~r~~c~eCgk~ 139 (279)
T KOG2462|consen 127 KHPRYKCPECGKS 139 (279)
T ss_pred cCCceeccccccc
Confidence 4556777777754
No 125
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=25.84 E-value=34 Score=30.24 Aligned_cols=18 Identities=17% Similarity=0.379 Sum_probs=14.5
Q ss_pred CCCCCCC-CCC-------ccCccccc
Q 036958 103 PPPPPCD-LLC-------KAIPSVRG 120 (312)
Q Consensus 103 Vv~T~CG-lFC-------k~CPvCR~ 120 (312)
-.||.|| .|= +-||.|..
T Consensus 2 H~Ct~Cg~~f~dgs~eil~GCP~CGg 27 (131)
T PF09845_consen 2 HQCTKCGRVFEDGSKEILSGCPECGG 27 (131)
T ss_pred cccCcCCCCcCCCcHHHHccCcccCC
Confidence 3489999 998 35999975
No 126
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=25.82 E-value=27 Score=23.30 Aligned_cols=8 Identities=0% Similarity=-0.338 Sum_probs=3.9
Q ss_pred cCcccccc
Q 036958 114 AIPSVRGW 121 (312)
Q Consensus 114 ~CPvCR~~ 121 (312)
.||.|+..
T Consensus 27 ~C~~C~~~ 34 (38)
T TIGR02098 27 RCGKCGHV 34 (38)
T ss_pred ECCCCCCE
Confidence 35555443
No 127
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=24.55 E-value=35 Score=19.26 Aligned_cols=11 Identities=36% Similarity=0.576 Sum_probs=4.1
Q ss_pred eeecccccccc
Q 036958 90 FDSNICLDLAR 100 (312)
Q Consensus 90 f~CpICLDvfr 100 (312)
|.|++|...|.
T Consensus 1 ~~C~~C~~~~~ 11 (24)
T PF13894_consen 1 FQCPICGKSFR 11 (24)
T ss_dssp EE-SSTS-EES
T ss_pred CCCcCCCCcCC
Confidence 34555544443
No 128
>KOG1986 consensus Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.21 E-value=39 Score=37.03 Aligned_cols=34 Identities=18% Similarity=0.247 Sum_probs=25.2
Q ss_pred cccCCCCCCCCC----CCC--------ccCcccccccccCCcccccccC
Q 036958 98 LARDTPPPPPCD----LLC--------KAIPSVRGWVTVKNVTPMYGCE 134 (312)
Q Consensus 98 vfrDPVv~T~CG----lFC--------k~CPvCR~~vs~~~L~Pnygl~ 134 (312)
+..+|+.|..|| -|| ..||.| +....+.|.|..-
T Consensus 49 ~~y~P~~C~~C~AvlNPyc~vd~~a~~W~CpfC---~qrN~~p~~Y~~i 94 (745)
T KOG1986|consen 49 IQYDPLRCSKCGAVLNPYCSVDFRAKSWICPFC---NQRNPFPPHYSGI 94 (745)
T ss_pred cCCCCchhccchhhcCcceeecccCceEecccc---ccCCCCChhhccc
Confidence 567899999999 478 369999 4455666777664
No 129
>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.
Probab=24.09 E-value=38 Score=29.34 Aligned_cols=20 Identities=20% Similarity=0.192 Sum_probs=13.8
Q ss_pred cCcccccccccCCccccccc
Q 036958 114 AIPSVRGWVTVKNVTPMYGC 133 (312)
Q Consensus 114 ~CPvCR~~vs~~~L~Pnygl 133 (312)
.||.|...+....+.|-|-.
T Consensus 76 yCP~Cgt~levE~~~Pg~P~ 95 (112)
T PF08882_consen 76 YCPGCGTQLEVEAPPPGYPP 95 (112)
T ss_pred ECCCCcceeEEccCCCCCCc
Confidence 59999777776666665543
No 130
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=23.70 E-value=28 Score=25.11 Aligned_cols=12 Identities=8% Similarity=-0.025 Sum_probs=5.6
Q ss_pred cCcccccccccC
Q 036958 114 AIPSVRGWVTVK 125 (312)
Q Consensus 114 ~CPvCR~~vs~~ 125 (312)
.||+|.+.+...
T Consensus 22 ~CPlC~r~l~~e 33 (54)
T PF04423_consen 22 CCPLCGRPLDEE 33 (54)
T ss_dssp E-TTT--EE-HH
T ss_pred cCCCCCCCCCHH
Confidence 488998887643
No 131
>PRK00595 rpmG 50S ribosomal protein L33; Validated
Probab=23.61 E-value=33 Score=25.57 Aligned_cols=10 Identities=40% Similarity=0.395 Sum_probs=7.9
Q ss_pred ccCccccccc
Q 036958 113 KAIPSVRGWV 122 (312)
Q Consensus 113 k~CPvCR~~v 122 (312)
++||.|++.+
T Consensus 38 Kycp~~~kht 47 (53)
T PRK00595 38 KYDPVLRKHV 47 (53)
T ss_pred CcCCCCCCEE
Confidence 5799998754
No 132
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=23.38 E-value=38 Score=28.69 Aligned_cols=9 Identities=11% Similarity=0.084 Sum_probs=7.0
Q ss_pred cCccccccc
Q 036958 114 AIPSVRGWV 122 (312)
Q Consensus 114 ~CPvCR~~v 122 (312)
.||.|+..-
T Consensus 78 RCP~CKSE~ 86 (97)
T COG3357 78 RCPKCKSEW 86 (97)
T ss_pred cCCcchhhc
Confidence 599998743
No 133
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 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 C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=23.13 E-value=30 Score=20.28 Aligned_cols=11 Identities=18% Similarity=0.359 Sum_probs=5.7
Q ss_pred eeecccccccc
Q 036958 90 FDSNICLDLAR 100 (312)
Q Consensus 90 f~CpICLDvfr 100 (312)
|.|++|...|.
T Consensus 1 y~C~~C~~~f~ 11 (23)
T PF00096_consen 1 YKCPICGKSFS 11 (23)
T ss_dssp EEETTTTEEES
T ss_pred CCCCCCCCccC
Confidence 34555555544
No 134
>PF15616 TerY-C: TerY-C metal binding domain
Probab=22.50 E-value=27 Score=30.64 Aligned_cols=33 Identities=15% Similarity=0.124 Sum_probs=25.1
Q ss_pred eeeccccccccCCCCCCCCC-CCC------ccCccccccccc
Q 036958 90 FDSNICLDLARDTPPPPPCD-LLC------KAIPSVRGWVTV 124 (312)
Q Consensus 90 f~CpICLDvfrDPVv~T~CG-lFC------k~CPvCR~~vs~ 124 (312)
--||-|...+-- ++| .|| +|| ..||-|.+....
T Consensus 78 PgCP~CGn~~~f-a~C-~CGkl~Ci~g~~~~~CPwCg~~g~~ 117 (131)
T PF15616_consen 78 PGCPHCGNQYAF-AVC-GCGKLFCIDGEGEVTCPWCGNEGSF 117 (131)
T ss_pred CCCCCCcChhcE-EEe-cCCCEEEeCCCCCEECCCCCCeeee
Confidence 579999987543 354 899 999 369999886643
No 135
>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=22.29 E-value=51 Score=33.17 Aligned_cols=15 Identities=20% Similarity=0.350 Sum_probs=11.9
Q ss_pred cCcccccccccCCcc
Q 036958 114 AIPSVRGWVTVKNVT 128 (312)
Q Consensus 114 ~CPvCR~~vs~~~L~ 128 (312)
.||.||++|...++.
T Consensus 342 ~CPtCRa~FCilDV~ 356 (358)
T PF10272_consen 342 PCPTCRAKFCILDVC 356 (358)
T ss_pred CCCCCcccceeeeee
Confidence 599999999876543
No 136
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 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 FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=21.89 E-value=21 Score=26.30 Aligned_cols=30 Identities=20% Similarity=0.350 Sum_probs=14.5
Q ss_pred CCCeeeeccccccc---cCCCCCCCCC-CCCccC
Q 036958 86 DGSFFDSNICLDLA---RDTPPPPPCD-LLCKAI 115 (312)
Q Consensus 86 ~~e~f~CpICLDvf---rDPVv~T~CG-lFCk~C 115 (312)
+.+.-.|.+|...| +----|-.|| +||..|
T Consensus 6 d~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~C 39 (69)
T PF01363_consen 6 DSEASNCMICGKKFSLFRRRHHCRNCGRVVCSSC 39 (69)
T ss_dssp GGG-SB-TTT--B-BSSS-EEE-TTT--EEECCC
T ss_pred CCCCCcCcCcCCcCCCceeeEccCCCCCEECCch
Confidence 44566799998766 3344577888 888554
No 137
>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]
Probab=20.03 E-value=26 Score=34.37 Aligned_cols=51 Identities=18% Similarity=0.174 Sum_probs=43.4
Q ss_pred CCCCCCeeeeccccccccCCCCCCCCC-CCC------------ccCcccccccccCCcccccccC
Q 036958 83 NGNDGSFFDSNICLDLARDTPPPPPCD-LLC------------KAIPSVRGWVTVKNVTPMYGCE 134 (312)
Q Consensus 83 ~~~~~e~f~CpICLDvfrDPVv~T~CG-lFC------------k~CPvCR~~vs~~~L~Pnygl~ 134 (312)
.....+.++|.|-++++++||. ++=| .|= +.=|+-+.+++...++||+...
T Consensus 205 ~rEvpd~lcgkIt~el~~~pvi-~psgIty~ra~I~Ehl~rvghfdpvtr~~Lte~q~ipN~alk 268 (284)
T KOG4642|consen 205 KREVPDYLCGKITLELMREPVI-TPSGITYDRADIEEHLQRVGHFDPVTRWPLTEYQLIPNLALK 268 (284)
T ss_pred cccccchhhhhhhHHhhcCCcc-CccccchhHHHHHHHHHHhccCCchhcccCCHHhhccchHHH
Confidence 3344567899999999999999 9999 777 4679999999999999999874
Done!