Query 045467
Match_columns 237
No_of_seqs 179 out of 672
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 13:32:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045467.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045467hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PHA02825 LAP/PHD finger-like p 99.8 1.4E-20 3.1E-25 158.8 6.6 146 70-226 4-162 (162)
2 PHA02862 5L protein; Provision 99.7 2.9E-18 6.2E-23 143.1 5.8 66 74-144 2-67 (156)
3 smart00744 RINGv The RING-vari 99.7 2.3E-17 5E-22 114.5 3.3 48 76-123 1-49 (49)
4 PF12906 RINGv: RING-variant d 99.6 5.1E-17 1.1E-21 111.9 1.6 46 77-122 1-47 (47)
5 KOG3053 Uncharacterized conser 99.6 3.2E-16 7E-21 141.1 1.0 142 70-218 16-183 (293)
6 KOG1609 Protein involved in mR 99.5 1.2E-14 2.7E-19 129.8 7.2 65 67-131 71-138 (323)
7 COG5183 SSM4 Protein involved 99.4 1.8E-13 3.8E-18 138.1 3.0 57 71-127 9-66 (1175)
8 PF13639 zf-RING_2: Ring finge 97.8 1.3E-05 2.9E-10 53.3 1.8 42 75-123 1-44 (44)
9 PHA02929 N1R/p28-like protein; 97.2 0.00031 6.8E-09 63.4 3.6 52 72-130 172-230 (238)
10 cd00162 RING RING-finger (Real 97.2 0.00044 9.5E-09 43.9 3.1 44 76-125 1-44 (45)
11 KOG4628 Predicted E3 ubiquitin 97.1 0.0004 8.6E-09 65.8 3.5 47 75-127 230-278 (348)
12 COG5540 RING-finger-containing 96.9 0.00064 1.4E-08 63.7 2.9 48 73-126 322-371 (374)
13 PF12678 zf-rbx1: RING-H2 zinc 96.9 0.00083 1.8E-08 49.8 2.9 44 73-123 18-73 (73)
14 PF00097 zf-C3HC4: Zinc finger 96.7 0.0016 3.5E-08 42.2 2.7 41 77-122 1-41 (41)
15 PF13920 zf-C3HC4_3: Zinc fing 96.6 0.0014 3.1E-08 44.6 2.3 47 74-128 2-49 (50)
16 smart00184 RING Ring finger. E 96.6 0.0022 4.8E-08 39.1 2.8 39 77-122 1-39 (39)
17 PF12861 zf-Apc11: Anaphase-pr 96.5 0.0026 5.7E-08 49.3 3.5 49 74-127 21-82 (85)
18 COG5243 HRD1 HRD ubiquitin lig 96.5 0.003 6.5E-08 60.7 4.6 48 71-125 284-343 (491)
19 PLN03208 E3 ubiquitin-protein 96.2 0.0065 1.4E-07 53.5 4.5 49 73-127 17-79 (193)
20 PHA02926 zinc finger-like prot 96.1 0.0059 1.3E-07 55.1 3.5 55 72-131 168-234 (242)
21 KOG0802 E3 ubiquitin ligase [P 96.0 0.0041 8.9E-08 61.6 2.6 47 73-126 290-340 (543)
22 PF11793 FANCL_C: FANCL C-term 95.8 0.0036 7.7E-08 46.3 0.8 50 74-126 2-65 (70)
23 COG5219 Uncharacterized conser 95.7 0.0035 7.7E-08 66.0 0.7 54 72-127 1467-1523(1525)
24 PF13923 zf-C3HC4_2: Zinc fing 95.7 0.0082 1.8E-07 38.9 2.2 39 77-122 1-39 (39)
25 KOG0828 Predicted E3 ubiquitin 94.3 0.034 7.4E-07 55.3 3.0 50 71-126 568-633 (636)
26 KOG0317 Predicted E3 ubiquitin 94.0 0.072 1.6E-06 49.6 4.4 56 64-127 229-284 (293)
27 smart00504 Ubox Modified RING 93.9 0.072 1.6E-06 37.0 3.4 44 75-126 2-45 (63)
28 KOG1493 Anaphase-promoting com 92.2 0.043 9.3E-07 42.2 0.1 49 76-128 22-82 (84)
29 KOG0823 Predicted E3 ubiquitin 91.8 0.2 4.3E-06 45.4 3.9 52 70-127 43-95 (230)
30 KOG0827 Predicted E3 ubiquitin 91.3 0.14 3E-06 49.7 2.5 45 74-123 4-52 (465)
31 PF14634 zf-RING_5: zinc-RING 90.6 0.24 5.1E-06 32.9 2.4 41 77-124 2-44 (44)
32 TIGR00599 rad18 DNA repair pro 88.0 0.37 8.1E-06 46.7 2.6 48 72-127 24-71 (397)
33 COG5194 APC11 Component of SCF 86.4 0.45 9.8E-06 36.9 1.8 27 100-128 56-82 (88)
34 KOG0804 Cytoplasmic Zn-finger 86.0 0.28 6E-06 48.3 0.5 46 72-126 173-221 (493)
35 PF05883 Baculo_RING: Baculovi 81.0 0.68 1.5E-05 38.8 0.8 39 73-113 25-68 (134)
36 KOG1785 Tyrosine kinase negati 80.1 0.72 1.6E-05 45.3 0.8 51 71-127 366-416 (563)
37 PF15227 zf-C3HC4_4: zinc fing 79.1 1.6 3.5E-05 29.0 2.0 40 77-122 1-42 (42)
38 KOG0825 PHD Zn-finger protein 78.4 0.95 2.1E-05 47.7 1.1 50 75-131 124-175 (1134)
39 PF14570 zf-RING_4: RING/Ubox 77.8 1.6 3.4E-05 30.5 1.7 45 77-127 1-48 (48)
40 PF05290 Baculo_IE-1: Baculovi 75.7 2.4 5.2E-05 35.8 2.6 57 73-130 79-135 (140)
41 KOG4265 Predicted E3 ubiquitin 75.6 2.7 5.9E-05 40.2 3.2 51 71-128 287-337 (349)
42 KOG2930 SCF ubiquitin ligase, 74.8 2.1 4.5E-05 34.8 1.9 25 100-126 83-107 (114)
43 KOG1039 Predicted E3 ubiquitin 74.6 2.5 5.5E-05 40.4 2.7 54 68-126 155-220 (344)
44 KOG4445 Uncharacterized conser 71.7 2.9 6.2E-05 39.8 2.3 57 65-126 106-185 (368)
45 TIGR00570 cdk7 CDK-activating 71.1 4.3 9.3E-05 38.3 3.4 49 73-127 2-54 (309)
46 PF10367 Vps39_2: Vacuolar sor 70.7 1.7 3.8E-05 32.8 0.6 33 72-109 76-109 (109)
47 KOG1734 Predicted RING-contain 67.8 1.7 3.6E-05 40.8 -0.1 49 73-126 223-280 (328)
48 PF13445 zf-RING_UBOX: RING-ty 66.5 7.2 0.00016 26.3 2.8 38 77-119 1-42 (43)
49 PLN02189 cellulose synthase 66.1 4.8 0.0001 43.5 2.9 53 72-129 32-89 (1040)
50 KOG1645 RING-finger-containing 65.0 4.8 0.0001 39.6 2.4 49 73-126 3-55 (463)
51 PF08746 zf-RING-like: RING-li 64.2 3.9 8.4E-05 27.5 1.2 22 101-122 22-43 (43)
52 PLN02436 cellulose synthase A 63.5 5.8 0.00012 43.1 2.9 54 72-130 34-92 (1094)
53 KOG2177 Predicted E3 ubiquitin 62.5 3.7 8E-05 34.4 1.0 45 71-123 10-54 (386)
54 PF04564 U-box: U-box domain; 61.1 6.6 0.00014 28.7 2.0 45 76-127 6-50 (73)
55 PF09574 DUF2374: Protein of 58.0 20 0.00044 24.4 3.8 28 175-202 4-31 (42)
56 COG5236 Uncharacterized conser 56.8 19 0.00041 35.1 4.8 55 69-129 56-110 (493)
57 COG5432 RAD18 RING-finger-cont 55.0 6.1 0.00013 37.5 1.2 48 73-128 24-71 (391)
58 KOG1952 Transcription factor N 53.5 7.2 0.00016 41.5 1.5 57 71-131 188-251 (950)
59 TIGR02808 short_TIGR02808 cons 50.9 29 0.00064 23.6 3.6 28 175-202 4-31 (42)
60 PF02529 PetG: Cytochrome B6-F 50.9 18 0.00039 24.1 2.5 27 187-213 4-30 (37)
61 PF14569 zf-UDP: Zinc-binding 50.4 22 0.00048 27.4 3.4 56 71-130 6-65 (80)
62 COG5336 Uncharacterized protei 48.8 50 0.0011 27.1 5.4 18 188-205 73-90 (116)
63 KOG0802 E3 ubiquitin ligase [P 47.5 13 0.00029 37.0 2.3 44 72-127 477-520 (543)
64 PF07800 DUF1644: Protein of u 47.2 25 0.00054 30.4 3.6 39 74-114 2-49 (162)
65 KOG1941 Acetylcholine receptor 47.0 8.3 0.00018 38.0 0.8 49 73-126 364-415 (518)
66 CHL00008 petG cytochrome b6/f 46.6 33 0.00072 22.8 3.3 28 187-214 4-31 (37)
67 PLN02638 cellulose synthase A 45.3 29 0.00063 38.0 4.5 54 72-130 15-73 (1079)
68 PF10272 Tmpp129: Putative tra 44.0 29 0.00062 33.5 3.9 55 71-128 268-352 (358)
69 PRK00665 petG cytochrome b6-f 40.7 45 0.00099 22.2 3.2 27 187-213 4-30 (37)
70 KOG2164 Predicted E3 ubiquitin 40.4 25 0.00054 35.5 2.9 49 74-128 186-237 (513)
71 PF06305 DUF1049: Protein of u 39.5 86 0.0019 21.9 5.0 13 215-227 50-62 (68)
72 PLN02195 cellulose synthase A 39.0 28 0.00061 37.7 3.2 51 72-127 4-59 (977)
73 KOG0320 Predicted E3 ubiquitin 38.2 47 0.001 29.4 3.9 48 71-125 128-176 (187)
74 PF04341 DUF485: Protein of un 38.0 55 0.0012 25.0 4.0 50 162-211 20-75 (91)
75 PF13829 DUF4191: Domain of un 37.8 1.6E+02 0.0035 26.7 7.5 42 162-205 28-69 (224)
76 KOG0287 Postreplication repair 35.4 15 0.00033 35.6 0.6 47 73-127 22-68 (442)
77 KOG1002 Nucleotide excision re 35.4 22 0.00048 36.4 1.7 51 70-126 532-585 (791)
78 PF10954 DUF2755: Protein of u 35.4 1.6E+02 0.0035 23.4 6.2 33 187-220 68-100 (100)
79 PF01440 Gemini_AL2: Geminivir 34.9 6.9 0.00015 32.8 -1.6 34 87-123 31-64 (134)
80 PF11712 Vma12: Endoplasmic re 33.8 1.1E+02 0.0025 25.0 5.5 42 162-203 83-124 (142)
81 KOG2879 Predicted E3 ubiquitin 33.3 53 0.0012 30.9 3.7 55 68-127 233-287 (298)
82 KOG0824 Predicted E3 ubiquitin 33.0 31 0.00066 32.9 2.1 46 73-127 6-53 (324)
83 PF13894 zf-C2H2_4: C2H2-type 32.6 19 0.00041 19.5 0.5 12 118-129 2-13 (24)
84 KOG4692 Predicted E3 ubiquitin 32.5 37 0.00081 33.2 2.7 51 70-128 418-468 (489)
85 PF06637 PV-1: PV-1 protein (P 32.5 68 0.0015 31.6 4.4 13 191-203 38-50 (442)
86 PF08114 PMP1_2: ATPase proteo 32.4 58 0.0013 22.3 2.8 35 186-221 4-38 (43)
87 KOG0801 Predicted E3 ubiquitin 31.6 25 0.00054 30.9 1.2 24 72-95 175-200 (205)
88 PF11669 WBP-1: WW domain-bind 30.8 89 0.0019 24.7 4.2 8 215-222 42-49 (102)
89 PF09835 DUF2062: Uncharacteri 29.0 86 0.0019 25.6 4.0 29 193-221 126-154 (154)
90 PF06198 DUF999: Protein of un 28.7 92 0.002 25.8 4.0 49 153-202 81-140 (143)
91 KOG1428 Inhibitor of type V ad 27.9 56 0.0012 37.8 3.3 50 72-126 3484-3543(3738)
92 PF06522 B12D: NADH-ubiquinone 27.8 76 0.0016 23.5 3.1 23 187-209 6-28 (73)
93 COG5175 MOT2 Transcriptional r 27.3 48 0.001 32.4 2.4 50 71-127 11-64 (480)
94 PF13937 DUF4212: Domain of un 27.1 1.5E+02 0.0033 22.7 4.7 32 161-194 19-50 (81)
95 PF10571 UPF0547: Uncharacteri 26.9 30 0.00065 21.0 0.7 13 115-127 13-25 (26)
96 PLN02400 cellulose synthase 25.7 48 0.001 36.4 2.3 53 72-129 34-91 (1085)
97 PRK14401 membrane protein; Pro 25.6 1.2E+02 0.0026 26.9 4.4 26 174-199 128-155 (187)
98 CHL00199 infC translation init 25.1 29 0.00063 30.5 0.5 32 12-43 2-33 (182)
99 PF03229 Alpha_GJ: Alphavirus 25.0 1.2E+02 0.0026 25.2 4.0 22 197-221 98-119 (126)
100 PF00096 zf-C2H2: Zinc finger, 24.1 31 0.00068 19.0 0.4 11 118-128 2-12 (23)
101 KOG4172 Predicted E3 ubiquitin 23.9 52 0.0011 24.0 1.5 49 75-129 8-56 (62)
102 COG4890 Predicted outer membra 23.8 1.9E+02 0.0042 19.1 4.0 25 190-214 4-28 (37)
103 COG5574 PEX10 RING-finger-cont 22.5 1.4E+02 0.0031 27.8 4.5 47 72-125 213-260 (271)
104 PLN02915 cellulose synthase A 22.1 93 0.002 34.2 3.6 53 71-128 12-69 (1044)
105 PF13779 DUF4175: Domain of un 21.3 3.2E+02 0.0069 29.3 7.3 45 187-231 28-74 (820)
106 PF11286 DUF3087: Protein of u 20.1 3.8E+02 0.0083 23.3 6.3 14 209-222 76-89 (165)
No 1
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=99.82 E-value=1.4e-20 Score=158.78 Aligned_cols=146 Identities=16% Similarity=0.302 Sum_probs=89.9
Q ss_pred CCCCCCceeEeccCCCccceeccccccCCCccccHHHHHHHHHhcCCcccccCccccccccCCCCCCCccceeeccCCCC
Q 045467 70 TASSHEQCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVAVNVPTPESQPSTNYLVWSIDPTF 149 (237)
Q Consensus 70 ~~s~~~~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~~~v~~p~~~~~~~~~~W~~~~~~ 149 (237)
++..++.||||+++.++ +..||+|+|++++||++||++|+..+++..||+|+++|...+. ++|+ ++|+-.+.
T Consensus 4 ~s~~~~~CRIC~~~~~~--~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~~~--~kpl---~~W~~~~~- 75 (162)
T PHA02825 4 VSLMDKCCWICKDEYDV--VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIKKN--YKKC---TKWRCSFR- 75 (162)
T ss_pred cCCCCCeeEecCCCCCC--ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEEEe--cCCC---ccccccCc-
Confidence 45677999999988653 5689999999999999999999999999999999999976643 3443 45653211
Q ss_pred cccccccccchhHHHHHHHHHHHHHHHHHHHHHhccc-------ccchhhHHHHHHHHHHHHHHHHHHHHH------Hhh
Q 045467 150 RSQDRERGCFSPLWVAFSILIGGLLLDVLISITLGVS-------ALPVNIIIGVIVVLGLGTALRLALEFC------REW 216 (237)
Q Consensus 150 ~~~~r~~~cf~~l~vi~S~L~~~lfld~ll~~~~G~~-------alPf~~iiGllv~~~~gt~vr~~l~~~------~~w 216 (237)
.......++..+++++.++ .++++..-+.+-+... -+-+..-+|.+ +.++-+|+|..+.++ ++.
T Consensus 76 -dc~~~~l~~~llcl~~~~i-~~~l~~~~i~~~~~~~~~~~~~~~~~~~~~~~p~-~v~~~~~~~~~i~~~~y~~~~~~~ 152 (162)
T PHA02825 76 -DCHDSAIVNSLLCLIVGGI-TYLLVSFNIKKLIESEENSDLIKLFLVVAYLLPF-VVTFITVIRICIDLYTYFLATRKR 152 (162)
T ss_pred -chhhHHHHHHHHHHHHhhh-hheeeehhhhhhhhcccccchhheeeeehhcccc-eehhhHHHHHHHHHHHHHHHHhcc
Confidence 1111234556677777777 4444433333333311 11111111111 122235566555444 677
Q ss_pred hhhhHHhhhh
Q 045467 217 SLRRVVQRVE 226 (237)
Q Consensus 217 ~~~~~i~~~~ 226 (237)
++.+.|++++
T Consensus 153 n~~~~~~e~~ 162 (162)
T PHA02825 153 NTIHTVYELE 162 (162)
T ss_pred CceeeeeecC
Confidence 7777776654
No 2
>PHA02862 5L protein; Provisional
Probab=99.73 E-value=2.9e-18 Score=143.11 Aligned_cols=66 Identities=17% Similarity=0.472 Sum_probs=55.2
Q ss_pred CCceeEeccCCCccceeccccccCCCccccHHHHHHHHHhcCCcccccCccccccccCCCCCCCccceeec
Q 045467 74 HEQCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVAVNVPTPESQPSTNYLVWS 144 (237)
Q Consensus 74 ~~~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~~~v~~p~~~~~~~~~~W~ 144 (237)
.++||||+++++++ ..||+|+|++++||++||++|++.+++..||+|+++|...+ .++|+++ |.|.
T Consensus 2 ~diCWIC~~~~~e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~--~yKpf~k-W~~~ 67 (156)
T PHA02862 2 SDICWICNDVCDER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKK--TYVSFKK-WNWC 67 (156)
T ss_pred CCEEEEecCcCCCC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEE--ccccHHH-hhcc
Confidence 47899999987654 58999999999999999999999999999999999997543 5566543 5553
No 3
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=99.68 E-value=2.3e-17 Score=114.49 Aligned_cols=48 Identities=33% Similarity=0.989 Sum_probs=43.8
Q ss_pred ceeEeccC-CCccceeccccccCCCccccHHHHHHHHHhcCCcccccCc
Q 045467 76 QCRVCQQD-KEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQ 123 (237)
Q Consensus 76 ~CRIC~~~-~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk 123 (237)
+||||++. ++++++++||.|+|++++||++||++|+..+++.+||+|+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 59999983 3557789999999999999999999999999999999996
No 4
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=99.64 E-value=5.1e-17 Score=111.86 Aligned_cols=46 Identities=43% Similarity=1.118 Sum_probs=37.8
Q ss_pred eeEeccCCCc-cceeccccccCCCccccHHHHHHHHHhcCCcccccC
Q 045467 77 CRVCQQDKEE-VLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEIC 122 (237)
Q Consensus 77 CRIC~~~~~~-~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiC 122 (237)
||||++++++ ++|+.||.|+|++++||++||++|+..+++.+||+|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 8999999765 469999999999999999999999999999999998
No 5
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.58 E-value=3.2e-16 Score=141.14 Aligned_cols=142 Identities=23% Similarity=0.349 Sum_probs=95.1
Q ss_pred CCCCCCceeEeccCCCcc---ceeccccccCCCccccHHHHHHHHHhcC------CcccccCccccccccCCCCCCCccc
Q 045467 70 TASSHEQCRVCQQDKEEV---LIDLGCQCRGGLAKAHRSCINTWFRTKG------SNKCEICQQVAVNVPTPESQPSTNY 140 (237)
Q Consensus 70 ~~s~~~~CRIC~~~~~~~---~l~~PC~CkGsl~~vH~~CL~~Wl~~s~------~~~CEiCk~~~~~v~~p~~~~~~~~ 140 (237)
+...++.||||+..++++ .++.||.|+|+.|+||+.||.+|+.+|. +..|..|+++|..+.++.- ++
T Consensus 16 ~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv~P~l~-~~--- 91 (293)
T KOG3053|consen 16 NQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIVFPQLG-PF--- 91 (293)
T ss_pred ccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheeeccccC-hH---
Confidence 456789999999998874 4789999999999999999999999884 3599999999988865421 11
Q ss_pred eeeccCCCCccccccccc------chhHHHHHHHHHHHHHH-HHHHHHHhcc----cccchhhHHHHH---HHHHHHHHH
Q 045467 141 LVWSIDPTFRSQDRERGC------FSPLWVAFSILIGGLLL-DVLISITLGV----SALPVNIIIGVI---VVLGLGTAL 206 (237)
Q Consensus 141 ~~W~~~~~~~~~~r~~~c------f~~l~vi~S~L~~~lfl-d~ll~~~~G~----~alPf~~iiGll---v~~~~gt~v 206 (237)
.|-.. .+ .....+.| |...|+.|++++|+++- -++....-|+ .+.|....+|+. +.+.+|-++
T Consensus 92 -~~~Le-~~-d~~i~r~cp~l~~g~~v~~iYWsAVtyGA~T~lQv~G~~~~m~ime~~d~~~lliGlP~ipv~LiL~Rli 168 (293)
T KOG3053|consen 92 -DRVLE-RL-DILIFRLCPFLAAGIFVGSIYWSAVTYGAVTVLQVVGQEHGMQIMESGDPLFLLIGLPSIPVGLILGRLI 168 (293)
T ss_pred -HHHHH-Hh-hhHHhhcChHHHHHHHhheeehhhhhhcceeeeehhhhHHHHHHHhcCCceEEEEcCCcchHHHHHhhhe
Confidence 11110 00 00011111 12467788888888732 2222223343 357777777774 578889999
Q ss_pred H---HHHHHHHhhhh
Q 045467 207 R---LALEFCREWSL 218 (237)
Q Consensus 207 r---~~l~~~~~w~~ 218 (237)
| .+|+++++..+
T Consensus 169 rWeD~vLRl~R~~~s 183 (293)
T KOG3053|consen 169 RWEDAVLRLIRRKYS 183 (293)
T ss_pred eHHHHHHHHHHHhcc
Confidence 8 68888864333
No 6
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=99.53 E-value=1.2e-14 Score=129.82 Aligned_cols=65 Identities=45% Similarity=0.946 Sum_probs=56.2
Q ss_pred cCcCCCCCCceeEeccCCCcc---ceeccccccCCCccccHHHHHHHHHhcCCcccccCccccccccC
Q 045467 67 LSRTASSHEQCRVCQQDKEEV---LIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVAVNVPT 131 (237)
Q Consensus 67 ~~~~~s~~~~CRIC~~~~~~~---~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~~~v~~ 131 (237)
...+.++++.||||+++.++. .++.||.|+|++++||+.|+++|+..|++..||+|++.|.+...
T Consensus 71 ~~~~~~~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~~~ 138 (323)
T KOG1609|consen 71 LEESPSSGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINVGT 138 (323)
T ss_pred cccCCCCCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceecce
Confidence 344555679999999987542 58999999999999999999999999999999999999987643
No 7
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=99.37 E-value=1.8e-13 Score=138.07 Aligned_cols=57 Identities=26% Similarity=0.788 Sum_probs=51.9
Q ss_pred CCCCCceeEeccCC-CccceeccccccCCCccccHHHHHHHHHhcCCcccccCccccc
Q 045467 71 ASSHEQCRVCQQDK-EEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVAV 127 (237)
Q Consensus 71 ~s~~~~CRIC~~~~-~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~~ 127 (237)
+.+.+.||||+.++ +++++-.||+|+||.+|+|++||..|+..+++.+||+||++|+
T Consensus 9 N~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 9 NEDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred CccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 34568999999887 6688999999999999999999999999999999999999874
No 8
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=97.76 E-value=1.3e-05 Score=53.28 Aligned_cols=42 Identities=31% Similarity=0.951 Sum_probs=32.9
Q ss_pred CceeEeccCC--CccceeccccccCCCccccHHHHHHHHHhcCCcccccCc
Q 045467 75 EQCRVCQQDK--EEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQ 123 (237)
Q Consensus 75 ~~CRIC~~~~--~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk 123 (237)
+.|-||+++. ++....+||. +..|.+|+.+|++.++ +|++|+
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~-----H~fh~~Ci~~~~~~~~--~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCG-----HVFHRSCIKEWLKRNN--SCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTS-----EEEEHHHHHHHHHHSS--B-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCC-----CeeCHHHHHHHHHhCC--cCCccC
Confidence 4689999986 3456678875 7899999999998864 899995
No 9
>PHA02929 N1R/p28-like protein; Provisional
Probab=97.19 E-value=0.00031 Score=63.38 Aligned_cols=52 Identities=25% Similarity=0.592 Sum_probs=40.4
Q ss_pred CCCCceeEeccCCCcc-------ceeccccccCCCccccHHHHHHHHHhcCCcccccCcccccccc
Q 045467 72 SSHEQCRVCQQDKEEV-------LIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVAVNVP 130 (237)
Q Consensus 72 s~~~~CRIC~~~~~~~-------~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~~~v~ 130 (237)
+.+..|-||++...+. .+..+|. +..|..|+.+|++.+ .+|++|+..+..+.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~-----H~FC~~CI~~Wl~~~--~tCPlCR~~~~~v~ 230 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCN-----HVFCIECIDIWKKEK--NTCPVCRTPFISVI 230 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCC-----CcccHHHHHHHHhcC--CCCCCCCCEeeEEe
Confidence 4568999999975332 2456787 789999999999764 48999999987664
No 10
>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=97.16 E-value=0.00044 Score=43.92 Aligned_cols=44 Identities=32% Similarity=0.886 Sum_probs=34.5
Q ss_pred ceeEeccCCCccceeccccccCCCccccHHHHHHHHHhcCCcccccCccc
Q 045467 76 QCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQV 125 (237)
Q Consensus 76 ~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~ 125 (237)
.|-||++.........||. ..+|..|+.+|++. ++..|.+|+..
T Consensus 1 ~C~iC~~~~~~~~~~~~C~-----H~~c~~C~~~~~~~-~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEFREPVVLLPCG-----HVFCRSCIDKWLKS-GKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhhhCceEecCCC-----ChhcHHHHHHHHHh-CcCCCCCCCCc
Confidence 4789988875545556687 56899999999987 66689999865
No 11
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.10 E-value=0.0004 Score=65.84 Aligned_cols=47 Identities=30% Similarity=0.742 Sum_probs=38.9
Q ss_pred CceeEeccCCCc--cceeccccccCCCccccHHHHHHHHHhcCCcccccCccccc
Q 045467 75 EQCRVCQQDKEE--VLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVAV 127 (237)
Q Consensus 75 ~~CRIC~~~~~~--~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~~ 127 (237)
..|-||+++.++ ..-++||+ +..|..|++.||... .+.|++||+...
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~-----H~FH~~CIDpWL~~~-r~~CPvCK~di~ 278 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCS-----HKFHVNCIDPWLTQT-RTFCPVCKRDIR 278 (348)
T ss_pred ceEEEeecccccCCeeeEecCC-----CchhhccchhhHhhc-CccCCCCCCcCC
Confidence 499999999743 44469999 789999999999987 456999999654
No 12
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.90 E-value=0.00064 Score=63.71 Aligned_cols=48 Identities=27% Similarity=0.726 Sum_probs=38.4
Q ss_pred CCCceeEeccCC--CccceeccccccCCCccccHHHHHHHHHhcCCcccccCcccc
Q 045467 73 SHEQCRVCQQDK--EEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVA 126 (237)
Q Consensus 73 ~~~~CRIC~~~~--~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~ 126 (237)
.+..|-||+... .+...++||+ +-.|..|+++|+.-- +.+|++|+.+.
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~-----H~FH~~Cv~kW~~~y-~~~CPvCrt~i 371 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCD-----HRFHVGCVDKWLLGY-SNKCPVCRTAI 371 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccC-----ceechhHHHHHHhhh-cccCCccCCCC
Confidence 458999998875 4467789999 689999999999832 23799998764
No 13
>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=96.89 E-value=0.00083 Score=49.85 Aligned_cols=44 Identities=23% Similarity=0.767 Sum_probs=31.5
Q ss_pred CCCceeEeccCCCc------------cceeccccccCCCccccHHHHHHHHHhcCCcccccCc
Q 045467 73 SHEQCRVCQQDKEE------------VLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQ 123 (237)
Q Consensus 73 ~~~~CRIC~~~~~~------------~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk 123 (237)
..+.|-||++...+ .....+|+ +..|..||.+|++.+. +|++|+
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~-----H~FH~~Ci~~Wl~~~~--~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCG-----HIFHFHCISQWLKQNN--TCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTS-----EEEEHHHHHHHHTTSS--B-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccC-----CCEEHHHHHHHHhcCC--cCCCCC
Confidence 34569999877621 22345776 6899999999997755 899995
No 14
>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=96.68 E-value=0.0016 Score=42.21 Aligned_cols=41 Identities=34% Similarity=0.881 Sum_probs=35.6
Q ss_pred eeEeccCCCccceeccccccCCCccccHHHHHHHHHhcCCcccccC
Q 045467 77 CRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEIC 122 (237)
Q Consensus 77 CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiC 122 (237)
|.||++...+.....||. +.++..|+.+|++.++...|++|
T Consensus 1 C~iC~~~~~~~~~~~~C~-----H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCG-----HSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTS-----EEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCCEEecCC-----CcchHHHHHHHHHhcCCccCCcC
Confidence 779988877766578998 67999999999998888889987
No 15
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=96.63 E-value=0.0014 Score=44.63 Aligned_cols=47 Identities=23% Similarity=0.626 Sum_probs=36.0
Q ss_pred CCceeEeccCCCccceeccccccCCCcc-ccHHHHHHHHHhcCCcccccCcccccc
Q 045467 74 HEQCRVCQQDKEEVLIDLGCQCRGGLAK-AHRSCINTWFRTKGSNKCEICQQVAVN 128 (237)
Q Consensus 74 ~~~CRIC~~~~~~~~l~~PC~CkGsl~~-vH~~CL~~Wl~~s~~~~CEiCk~~~~~ 128 (237)
...|.||++...+ .+..||. +. +-..|+.+|++ ....|++|+..+..
T Consensus 2 ~~~C~iC~~~~~~-~~~~pCg-----H~~~C~~C~~~~~~--~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFENPRD-VVLLPCG-----HLCFCEECAERLLK--RKKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSSBSS-EEEETTC-----EEEEEHHHHHHHHH--TTSBBTTTTBB-SE
T ss_pred cCCCccCCccCCc-eEEeCCC-----ChHHHHHHhHHhcc--cCCCCCcCChhhcC
Confidence 3679999887654 5668998 45 89999999999 56689999988754
No 16
>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=96.58 E-value=0.0022 Score=39.14 Aligned_cols=39 Identities=36% Similarity=0.943 Sum_probs=30.2
Q ss_pred eeEeccCCCccceeccccccCCCccccHHHHHHHHHhcCCcccccC
Q 045467 77 CRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEIC 122 (237)
Q Consensus 77 CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiC 122 (237)
|.||++.. ......||. ...|..|+..|++ .+...|++|
T Consensus 1 C~iC~~~~-~~~~~~~C~-----H~~c~~C~~~~~~-~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL-KDPVVLPCG-----HTFCRSCIRKWLK-SGNNTCPIC 39 (39)
T ss_pred CCcCccCC-CCcEEecCC-----ChHHHHHHHHHHH-hCcCCCCCC
Confidence 67887773 455668888 5689999999998 455678877
No 17
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=96.53 E-value=0.0026 Score=49.28 Aligned_cols=49 Identities=22% Similarity=0.606 Sum_probs=34.7
Q ss_pred CCceeEeccCCC-----------ccce-eccccccCCCccccHHHHHHHHHhc-CCcccccCccccc
Q 045467 74 HEQCRVCQQDKE-----------EVLI-DLGCQCRGGLAKAHRSCINTWFRTK-GSNKCEICQQVAV 127 (237)
Q Consensus 74 ~~~CRIC~~~~~-----------~~~l-~~PC~CkGsl~~vH~~CL~~Wl~~s-~~~~CEiCk~~~~ 127 (237)
.+.|-||....+ +-++ ..-|+ +.+|..|+.+|+++. .+..|++|++++.
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~-----H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCS-----HNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCc-----cHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 577888876653 1122 22333 579999999999874 4679999999874
No 18
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=96.52 E-value=0.003 Score=60.74 Aligned_cols=48 Identities=23% Similarity=0.713 Sum_probs=38.6
Q ss_pred CCCCCceeEeccCC-C-c----------cceeccccccCCCccccHHHHHHHHHhcCCcccccCccc
Q 045467 71 ASSHEQCRVCQQDK-E-E----------VLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQV 125 (237)
Q Consensus 71 ~s~~~~CRIC~~~~-~-~----------~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~ 125 (237)
.++...|-||.++. . + .+-..||. +..|-+||+-|+..++ +|+||+.+
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCG-----HilHl~CLknW~ERqQ--TCPICr~p 343 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCG-----HILHLHCLKNWLERQQ--TCPICRRP 343 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCccccccc-----ceeeHHHHHHHHHhcc--CCCcccCc
Confidence 34678999999883 1 1 23468998 7899999999999877 79999987
No 19
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=96.20 E-value=0.0065 Score=53.49 Aligned_cols=49 Identities=18% Similarity=0.504 Sum_probs=38.4
Q ss_pred CCCceeEeccCCCccceeccccccCCCccccHHHHHHHHHhc--------------CCcccccCccccc
Q 045467 73 SHEQCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTK--------------GSNKCEICQQVAV 127 (237)
Q Consensus 73 ~~~~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s--------------~~~~CEiCk~~~~ 127 (237)
+.-.|-||++...+ +.+++|. +.....|+.+|+..+ +...|++|+..+.
T Consensus 17 ~~~~CpICld~~~d-PVvT~CG-----H~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is 79 (193)
T PLN03208 17 GDFDCNICLDQVRD-PVVTLCG-----HLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS 79 (193)
T ss_pred CccCCccCCCcCCC-cEEcCCC-----chhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence 46789999987654 5668987 688999999998642 3458999998763
No 20
>PHA02926 zinc finger-like protein; Provisional
Probab=96.05 E-value=0.0059 Score=55.13 Aligned_cols=55 Identities=27% Similarity=0.618 Sum_probs=42.4
Q ss_pred CCCCceeEeccCC------Cc--cceeccccccCCCccccHHHHHHHHHhc----CCcccccCccccccccC
Q 045467 72 SSHEQCRVCQQDK------EE--VLIDLGCQCRGGLAKAHRSCINTWFRTK----GSNKCEICQQVAVNVPT 131 (237)
Q Consensus 72 s~~~~CRIC~~~~------~~--~~l~~PC~CkGsl~~vH~~CL~~Wl~~s----~~~~CEiCk~~~~~v~~ 131 (237)
+.+..|-||++.- .+ -.+..+|. +.....|+.+|.+.+ ..+.|++|+..|..+.+
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~Cn-----HsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~p 234 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCN-----HIFCITCINIWHRTRRETGASDNCPICRTRFRNITM 234 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCC-----chHHHHHHHHHHHhccccCcCCcCCCCcceeeeecc
Confidence 4668999999863 11 24567888 679999999999875 24679999999987753
No 21
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.01 E-value=0.0041 Score=61.58 Aligned_cols=47 Identities=30% Similarity=0.716 Sum_probs=38.9
Q ss_pred CCCceeEeccCCCcc----ceeccccccCCCccccHHHHHHHHHhcCCcccccCcccc
Q 045467 73 SHEQCRVCQQDKEEV----LIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVA 126 (237)
Q Consensus 73 ~~~~CRIC~~~~~~~----~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~ 126 (237)
....|.||.++.... .-++||. +..|..||.+|++.+. +|++|+..+
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~-----Hifh~~CL~~W~er~q--tCP~CR~~~ 340 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCG-----HIFHDSCLRSWFERQQ--TCPTCRTVL 340 (543)
T ss_pred cCCeeeeechhhccccccccceeecc-----cchHHHHHHHHHHHhC--cCCcchhhh
Confidence 468999999987442 5678998 7999999999999954 799999843
No 22
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=95.77 E-value=0.0036 Score=46.26 Aligned_cols=50 Identities=24% Similarity=0.684 Sum_probs=22.9
Q ss_pred CCceeEeccCCC-c-cceeccc---cccCCCccccHHHHHHHHHhcCC---------cccccCcccc
Q 045467 74 HEQCRVCQQDKE-E-VLIDLGC---QCRGGLAKAHRSCINTWFRTKGS---------NKCEICQQVA 126 (237)
Q Consensus 74 ~~~CRIC~~~~~-~-~~l~~PC---~CkGsl~~vH~~CL~~Wl~~s~~---------~~CEiCk~~~ 126 (237)
+..|.||+.... + .....-| .|+ +..|..||.+||....+ -.|+.|+.+.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~---~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i 65 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCG---KKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPI 65 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT-------B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccC---CHHHHHHHHHHHHHcccCCeeecccccCCcCCCCee
Confidence 467999998643 2 2222334 453 57999999999976422 1699998875
No 23
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.69 E-value=0.0035 Score=66.02 Aligned_cols=54 Identities=24% Similarity=0.682 Sum_probs=38.3
Q ss_pred CCCCceeEeccCCC--ccceecccc-ccCCCccccHHHHHHHHHhcCCcccccCccccc
Q 045467 72 SSHEQCRVCQQDKE--EVLIDLGCQ-CRGGLAKAHRSCINTWFRTKGSNKCEICQQVAV 127 (237)
Q Consensus 72 s~~~~CRIC~~~~~--~~~l~~PC~-CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~~ 127 (237)
+....|-||+.-.. +..+ |=+ |..--...|..||-+|++++++.+|++|+.+++
T Consensus 1467 sG~eECaICYsvL~~vdr~l--PskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSL--PSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccC--CccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 56689999986543 1111 211 211124699999999999999999999998764
No 24
>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=95.67 E-value=0.0082 Score=38.92 Aligned_cols=39 Identities=21% Similarity=0.739 Sum_probs=30.5
Q ss_pred eeEeccCCCccceeccccccCCCccccHHHHHHHHHhcCCcccccC
Q 045467 77 CRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEIC 122 (237)
Q Consensus 77 CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiC 122 (237)
|.||++...+.....+|. +...++|+.+|++. +.+|++|
T Consensus 1 C~iC~~~~~~~~~~~~CG-----H~fC~~C~~~~~~~--~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCG-----HSFCKECIEKYLEK--NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTS-----EEEEHHHHHHHHHC--TSB-TTT
T ss_pred CCCCCCcccCcCEECCCC-----CchhHHHHHHHHHC--cCCCcCC
Confidence 779988777654678998 68999999999988 3689887
No 25
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.25 E-value=0.034 Score=55.28 Aligned_cols=50 Identities=20% Similarity=0.528 Sum_probs=37.9
Q ss_pred CCCCCceeEeccCCC----------------ccceeccccccCCCccccHHHHHHHHHhcCCcccccCcccc
Q 045467 71 ASSHEQCRVCQQDKE----------------EVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVA 126 (237)
Q Consensus 71 ~s~~~~CRIC~~~~~----------------~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~ 126 (237)
-.....|-||...-+ .+.+.+||+ +..|+.||++|....+ ..|++|+...
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~-----HifH~~CL~~WMd~yk-l~CPvCR~pL 633 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCH-----HIFHRQCLLQWMDTYK-LICPVCRCPL 633 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccchH-----HHHHHHHHHHHHhhhc-ccCCccCCCC
Confidence 345578999987632 135678999 7899999999998532 5799998754
No 26
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=94.02 E-value=0.072 Score=49.59 Aligned_cols=56 Identities=21% Similarity=0.532 Sum_probs=42.5
Q ss_pred ccccCcCCCCCCceeEeccCCCccceeccccccCCCccccHHHHHHHHHhcCCcccccCccccc
Q 045467 64 KDILSRTASSHEQCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVAV 127 (237)
Q Consensus 64 ~~~~~~~~s~~~~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~~ 127 (237)
+.+++........|-+|++.-+.... +||. +..=-.|+..|..++.. |++|+..++
T Consensus 229 s~~~~~i~~a~~kC~LCLe~~~~pSa-TpCG-----HiFCWsCI~~w~~ek~e--CPlCR~~~~ 284 (293)
T KOG0317|consen 229 SNSLSSIPEATRKCSLCLENRSNPSA-TPCG-----HIFCWSCILEWCSEKAE--CPLCREKFQ 284 (293)
T ss_pred ccCCccCCCCCCceEEEecCCCCCCc-CcCc-----chHHHHHHHHHHccccC--CCcccccCC
Confidence 33333344455899999988766544 8998 67788999999999874 999998874
No 27
>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=93.92 E-value=0.072 Score=37.00 Aligned_cols=44 Identities=14% Similarity=0.214 Sum_probs=35.4
Q ss_pred CceeEeccCCCccceeccccccCCCccccHHHHHHHHHhcCCcccccCcccc
Q 045467 75 EQCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVA 126 (237)
Q Consensus 75 ~~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~ 126 (237)
-.|.||.+...+ ++..||. +.+-++|+.+|++. +.+|++|+..+
T Consensus 2 ~~Cpi~~~~~~~-Pv~~~~G-----~v~~~~~i~~~~~~--~~~cP~~~~~~ 45 (63)
T smart00504 2 FLCPISLEVMKD-PVILPSG-----QTYERRAIEKWLLS--HGTDPVTGQPL 45 (63)
T ss_pred cCCcCCCCcCCC-CEECCCC-----CEEeHHHHHHHHHH--CCCCCCCcCCC
Confidence 368899887665 5667875 67899999999987 45799999876
No 28
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=92.20 E-value=0.043 Score=42.17 Aligned_cols=49 Identities=29% Similarity=0.687 Sum_probs=35.1
Q ss_pred ceeEeccCCC-----------ccceeccccccCCCccccHHHHHHHHHhcCC-cccccCcccccc
Q 045467 76 QCRVCQQDKE-----------EVLIDLGCQCRGGLAKAHRSCINTWFRTKGS-NKCEICQQVAVN 128 (237)
Q Consensus 76 ~CRIC~~~~~-----------~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~-~~CEiCk~~~~~ 128 (237)
.|-||.+..+ +-+|+.. .| .+.+|..|+.+|+..+.+ ..|++|+++|+.
T Consensus 22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G-~C---~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 22 TCGICRMPFDGCCPDCKLPGDDCPLVWG-YC---LHAFHAHCILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred ccceEecccCCcCCCCcCCCCCCccHHH-HH---HHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence 7778876642 2344333 33 267999999999988755 589999998854
No 29
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.85 E-value=0.2 Score=45.37 Aligned_cols=52 Identities=15% Similarity=0.505 Sum_probs=40.8
Q ss_pred CCCCCCceeEeccCCCccceeccccccCCCccccHHHHHHHHHhcCC-cccccCccccc
Q 045467 70 TASSHEQCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGS-NKCEICQQVAV 127 (237)
Q Consensus 70 ~~s~~~~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~-~~CEiCk~~~~ 127 (237)
++...-.|-||++..++ ++++.|. ++.==-||-+|+..+.+ ..|++||....
T Consensus 43 ~~~~~FdCNICLd~akd-PVvTlCG-----HLFCWpClyqWl~~~~~~~~cPVCK~~Vs 95 (230)
T KOG0823|consen 43 RDGGFFDCNICLDLAKD-PVVTLCG-----HLFCWPCLYQWLQTRPNSKECPVCKAEVS 95 (230)
T ss_pred CCCCceeeeeeccccCC-CEEeecc-----cceehHHHHHHHhhcCCCeeCCccccccc
Confidence 34566789999887665 5679998 57777899999998865 56799998753
No 30
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.30 E-value=0.14 Score=49.71 Aligned_cols=45 Identities=27% Similarity=0.707 Sum_probs=32.1
Q ss_pred CCceeEeccCCCc-cce--eccccccCCCccccHHHHHHHHHhcCC-cccccCc
Q 045467 74 HEQCRVCQQDKEE-VLI--DLGCQCRGGLAKAHRSCINTWFRTKGS-NKCEICQ 123 (237)
Q Consensus 74 ~~~CRIC~~~~~~-~~l--~~PC~CkGsl~~vH~~CL~~Wl~~s~~-~~CEiCk 123 (237)
.+.|.||-+.... ..+ +.-|. +.+|..||.+||..--. +.|++|+
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cG-----hifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCG-----HIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred cceeeEeccCCccccccccccchh-----hHHHHHHHHHHHccCCccCCCCcee
Confidence 3689999444322 122 34455 57999999999988654 7999998
No 31
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=90.60 E-value=0.24 Score=32.95 Aligned_cols=41 Identities=24% Similarity=0.509 Sum_probs=33.6
Q ss_pred eeEeccCC--CccceeccccccCCCccccHHHHHHHHHhcCCcccccCcc
Q 045467 77 CRVCQQDK--EEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQ 124 (237)
Q Consensus 77 CRIC~~~~--~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~ 124 (237)
|-||++.. +...++++|. +.+...|+.++. .....|++|++
T Consensus 2 C~~C~~~~~~~~~~~l~~Cg-----H~~C~~C~~~~~--~~~~~CP~C~k 44 (44)
T PF14634_consen 2 CNICFEKYSEERRPRLTSCG-----HIFCEKCLKKLK--GKSVKCPICRK 44 (44)
T ss_pred CcCcCccccCCCCeEEcccC-----CHHHHHHHHhhc--CCCCCCcCCCC
Confidence 77898887 3467789998 789999999998 56678999974
No 32
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=87.98 E-value=0.37 Score=46.72 Aligned_cols=48 Identities=17% Similarity=0.463 Sum_probs=38.1
Q ss_pred CCCCceeEeccCCCccceeccccccCCCccccHHHHHHHHHhcCCcccccCccccc
Q 045467 72 SSHEQCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVAV 127 (237)
Q Consensus 72 s~~~~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~~ 127 (237)
.....|.||++.... +.+.||. +.....|+..|+..++ .|++|+..+.
T Consensus 24 e~~l~C~IC~d~~~~-PvitpCg-----H~FCs~CI~~~l~~~~--~CP~Cr~~~~ 71 (397)
T TIGR00599 24 DTSLRCHICKDFFDV-PVLTSCS-----HTFCSLCIRRCLSNQP--KCPLCRAEDQ 71 (397)
T ss_pred ccccCCCcCchhhhC-ccCCCCC-----CchhHHHHHHHHhCCC--CCCCCCCccc
Confidence 356799999887654 3468998 6788999999998753 7999998763
No 33
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=86.44 E-value=0.45 Score=36.92 Aligned_cols=27 Identities=37% Similarity=0.667 Sum_probs=23.6
Q ss_pred ccccHHHHHHHHHhcCCcccccCcccccc
Q 045467 100 AKAHRSCINTWFRTKGSNKCEICQQVAVN 128 (237)
Q Consensus 100 ~~vH~~CL~~Wl~~s~~~~CEiCk~~~~~ 128 (237)
...|-.|+.+|+++++ .|+++.++|..
T Consensus 56 HaFH~HCI~rWL~Tk~--~CPld~q~w~~ 82 (88)
T COG5194 56 HAFHDHCIYRWLDTKG--VCPLDRQTWVL 82 (88)
T ss_pred hHHHHHHHHHHHhhCC--CCCCCCceeEE
Confidence 5689999999999966 79999998854
No 34
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=85.97 E-value=0.28 Score=48.35 Aligned_cols=46 Identities=22% Similarity=0.714 Sum_probs=34.9
Q ss_pred CCCCceeEeccCCCc---cceeccccccCCCccccHHHHHHHHHhcCCcccccCcccc
Q 045467 72 SSHEQCRVCQQDKEE---VLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVA 126 (237)
Q Consensus 72 s~~~~CRIC~~~~~~---~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~ 126 (237)
.+-+.|-+|++..++ ..+-.+|. +-.|-.|+++|-.. +|++|++.-
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~c~-----Hsfh~~cl~~w~~~----scpvcR~~q 221 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTILCN-----HSFHCSCLMKWWDS----SCPVCRYCQ 221 (493)
T ss_pred ccCCCcchhHhhcCccccceeeeecc-----cccchHHHhhcccC----cChhhhhhc
Confidence 467999999987644 44667887 67999999999654 677776643
No 35
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=80.96 E-value=0.68 Score=38.81 Aligned_cols=39 Identities=18% Similarity=0.428 Sum_probs=27.5
Q ss_pred CCCceeEeccCCCc--cceeccccccCCCc---cccHHHHHHHHHh
Q 045467 73 SHEQCRVCQQDKEE--VLIDLGCQCRGGLA---KAHRSCINTWFRT 113 (237)
Q Consensus 73 ~~~~CRIC~~~~~~--~~l~~PC~CkGsl~---~vH~~CL~~Wl~~ 113 (237)
....|+||++.-.+ +-+..+|. |++- ..|.+|+++|-+.
T Consensus 25 ~~~EC~IC~~~I~~~~GvV~vt~~--g~lnLEkmfc~~C~~rw~~~ 68 (134)
T PF05883_consen 25 CTVECQICFDRIDNNDGVVYVTDG--GTLNLEKMFCADCDKRWRRE 68 (134)
T ss_pred cCeeehhhhhhhhcCCCEEEEecC--CeehHHHHHHHHHHHHHHhh
Confidence 36899999987544 55555655 4443 4899999999544
No 36
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=80.11 E-value=0.72 Score=45.26 Aligned_cols=51 Identities=22% Similarity=0.587 Sum_probs=40.9
Q ss_pred CCCCCceeEeccCCCccceeccccccCCCccccHHHHHHHHHhcCCcccccCccccc
Q 045467 71 ASSHEQCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVAV 127 (237)
Q Consensus 71 ~s~~~~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~~ 127 (237)
++.-..|.||-+.+.+-. +-||. ++.-..||-.|-.+++...|+.|+.+.+
T Consensus 366 gsTFeLCKICaendKdvk-IEPCG-----HLlCt~CLa~WQ~sd~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 366 GSTFELCKICAENDKDVK-IEPCG-----HLLCTSCLAAWQDSDEGQTCPFCRCEIK 416 (563)
T ss_pred cchHHHHHHhhccCCCcc-ccccc-----chHHHHHHHhhcccCCCCCCCceeeEec
Confidence 345578999977765544 46998 6788999999999988889999998864
No 37
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=79.05 E-value=1.6 Score=29.02 Aligned_cols=40 Identities=23% Similarity=0.662 Sum_probs=27.2
Q ss_pred eeEeccCCCccceeccccccCCCccccHHHHHHHHHhcCCc--ccccC
Q 045467 77 CRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSN--KCEIC 122 (237)
Q Consensus 77 CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~--~CEiC 122 (237)
|-||++-..+ ++.++|. +-.=+.||.+|.+..+.. .|++|
T Consensus 1 CpiC~~~~~~-Pv~l~CG-----H~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD-PVSLPCG-----HSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS-EEE-SSS-----SEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC-ccccCCc-----CHHHHHHHHHHHHccCCcCCCCcCC
Confidence 6688766655 4557987 567789999999887654 78887
No 38
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=78.41 E-value=0.95 Score=47.67 Aligned_cols=50 Identities=16% Similarity=0.329 Sum_probs=33.8
Q ss_pred CceeEeccCCCcc--ceeccccccCCCccccHHHHHHHHHhcCCcccccCccccccccC
Q 045467 75 EQCRVCQQDKEEV--LIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVAVNVPT 131 (237)
Q Consensus 75 ~~CRIC~~~~~~~--~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~~~v~~ 131 (237)
..|-+|+...-+. .-..+|.| |+|..|+..|-+.-+ +|.+|+.+|-.+.+
T Consensus 124 ~~CP~Ci~s~~DqL~~~~k~c~H-----~FC~~Ci~sWsR~aq--TCPiDR~EF~~v~V 175 (1134)
T KOG0825|consen 124 NQCPNCLKSCNDQLEESEKHTAH-----YFCEECVGSWSRCAQ--TCPVDRGEFGEVKV 175 (1134)
T ss_pred hhhhHHHHHHHHHhhcccccccc-----ccHHHHhhhhhhhcc--cCchhhhhhheeee
Confidence 4455554433221 12357775 999999999987755 79999999965543
No 39
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=77.82 E-value=1.6 Score=30.54 Aligned_cols=45 Identities=18% Similarity=0.505 Sum_probs=21.1
Q ss_pred eeEeccCCCc-cceeccccccCCCccccHHHHHHHHHhc--CCcccccCccccc
Q 045467 77 CRVCQQDKEE-VLIDLGCQCRGGLAKAHRSCINTWFRTK--GSNKCEICQQVAV 127 (237)
Q Consensus 77 CRIC~~~~~~-~~l~~PC~CkGsl~~vH~~CL~~Wl~~s--~~~~CEiCk~~~~ 127 (237)
|.+|.+..+. +.-..||.| -++-|+.=|.+.+ .+..|+-|+..|.
T Consensus 1 cp~C~e~~d~~d~~~~PC~C------gf~IC~~C~~~i~~~~~g~CPgCr~~Y~ 48 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCEC------GFQICRFCYHDILENEGGRCPGCREPYK 48 (48)
T ss_dssp -TTTS-B--CCCTT--SSTT------S----HHHHHHHTTSS-SB-TTT--B--
T ss_pred CCCcccccccCCCccccCcC------CCcHHHHHHHHHHhccCCCCCCCCCCCC
Confidence 5677666532 333479998 3577888888776 3679999998873
No 40
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=75.73 E-value=2.4 Score=35.75 Aligned_cols=57 Identities=16% Similarity=0.320 Sum_probs=45.1
Q ss_pred CCCceeEeccCCCccceeccccccCCCccccHHHHHHHHHhcCCcccccCcccccccc
Q 045467 73 SHEQCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVAVNVP 130 (237)
Q Consensus 73 ~~~~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~~~v~ 130 (237)
.--+|-||++...|+.+..|=.|-|. +.---=|+.-|-..+---.|++||+.|+...
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY-~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGY-SICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred CceeccCcccccchhhcCCcccccch-HHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 44689999999888888889888883 4455566788887777779999999997654
No 41
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=75.63 E-value=2.7 Score=40.24 Aligned_cols=51 Identities=22% Similarity=0.522 Sum_probs=36.0
Q ss_pred CCCCCceeEeccCCCccceeccccccCCCccccHHHHHHHHHhcCCcccccCcccccc
Q 045467 71 ASSHEQCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVAVN 128 (237)
Q Consensus 71 ~s~~~~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~~~ 128 (237)
+.+++.|=||+.+.-+ .+++||+- -..=..|++.-.- ..+.|+||++.+..
T Consensus 287 ~~~gkeCVIClse~rd-t~vLPCRH----LCLCs~Ca~~Lr~--q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 287 SESGKECVICLSESRD-TVVLPCRH----LCLCSGCAKSLRY--QTNNCPICRQPIEE 337 (349)
T ss_pred ccCCCeeEEEecCCcc-eEEecchh----hehhHhHHHHHHH--hhcCCCccccchHh
Confidence 3568999999776644 46689872 2255678887762 34469999998754
No 42
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=74.75 E-value=2.1 Score=34.77 Aligned_cols=25 Identities=24% Similarity=0.606 Sum_probs=21.6
Q ss_pred ccccHHHHHHHHHhcCCcccccCcccc
Q 045467 100 AKAHRSCINTWFRTKGSNKCEICQQVA 126 (237)
Q Consensus 100 ~~vH~~CL~~Wl~~s~~~~CEiCk~~~ 126 (237)
+-.|..|+.+|+++++ .|+||.++.
T Consensus 83 HaFH~hCisrWlktr~--vCPLdn~eW 107 (114)
T KOG2930|consen 83 HAFHFHCISRWLKTRN--VCPLDNKEW 107 (114)
T ss_pred hHHHHHHHHHHHhhcC--cCCCcCcce
Confidence 5689999999999966 799998765
No 43
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.58 E-value=2.5 Score=40.35 Aligned_cols=54 Identities=24% Similarity=0.557 Sum_probs=39.6
Q ss_pred CcCCCCCCceeEeccCCCccc-------eeccccccCCCccccHHHHHHHHHhcC-----CcccccCcccc
Q 045467 68 SRTASSHEQCRVCQQDKEEVL-------IDLGCQCRGGLAKAHRSCINTWFRTKG-----SNKCEICQQVA 126 (237)
Q Consensus 68 ~~~~s~~~~CRIC~~~~~~~~-------l~~PC~CkGsl~~vH~~CL~~Wl~~s~-----~~~CEiCk~~~ 126 (237)
....+.+..|=||++...+.. +..+|. +..=..|+.+|...+. ++.|++|+..-
T Consensus 155 a~~~s~~k~CGICme~i~ek~~~~~rfgilpnC~-----H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 155 ALQKSSEKECGICMETINEKAASERRFGILPNCN-----HSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred CcCccccccceehhhhccccchhhhhcccCCCcc-----hhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 345578899999998764422 335577 4566789999997776 68999998653
No 44
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=71.65 E-value=2.9 Score=39.77 Aligned_cols=57 Identities=16% Similarity=0.464 Sum_probs=42.6
Q ss_pred cccCcCCCCCCceeEeccCCCc--cceeccccccCCCccccHHHHHHHHHhc---------------------CCccccc
Q 045467 65 DILSRTASSHEQCRVCQQDKEE--VLIDLGCQCRGGLAKAHRSCINTWFRTK---------------------GSNKCEI 121 (237)
Q Consensus 65 ~~~~~~~s~~~~CRIC~~~~~~--~~l~~PC~CkGsl~~vH~~CL~~Wl~~s---------------------~~~~CEi 121 (237)
+.|+.++....+|-||+-+..+ .-.+++|- +|.|-.||.+.+.+- -...|.+
T Consensus 106 e~LT~nn~p~gqCvICLygfa~~~~ft~T~C~-----Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpV 180 (368)
T KOG4445|consen 106 EFLTENNHPNGQCVICLYGFASSPAFTVTACD-----HYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPV 180 (368)
T ss_pred HHcccCCCCCCceEEEEEeecCCCceeeehhH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhH
Confidence 3456777788899999888744 34679998 799999999887441 1246999
Q ss_pred Ccccc
Q 045467 122 CQQVA 126 (237)
Q Consensus 122 Ck~~~ 126 (237)
|....
T Consensus 181 cre~i 185 (368)
T KOG4445|consen 181 CRERI 185 (368)
T ss_pred hhhhc
Confidence 98865
No 45
>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=71.07 E-value=4.3 Score=38.34 Aligned_cols=49 Identities=24% Similarity=0.499 Sum_probs=35.9
Q ss_pred CCCceeEeccCCC--c--cceeccccccCCCccccHHHHHHHHHhcCCcccccCccccc
Q 045467 73 SHEQCRVCQQDKE--E--VLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVAV 127 (237)
Q Consensus 73 ~~~~CRIC~~~~~--~--~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~~ 127 (237)
++..|-+|....- . ..++++|. +-+=..|+.+.+.. +...|+.|+..++
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CG-----H~~C~sCv~~l~~~-~~~~CP~C~~~lr 54 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCG-----HTLCESCVDLLFVR-GSGSCPECDTPLR 54 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCC-----CcccHHHHHHHhcC-CCCCCCCCCCccc
Confidence 3568999988642 2 34667887 56778999997744 6668999998764
No 46
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=70.67 E-value=1.7 Score=32.76 Aligned_cols=33 Identities=24% Similarity=0.595 Sum_probs=24.7
Q ss_pred CCCCceeEeccCCCccc-eeccccccCCCccccHHHHHH
Q 045467 72 SSHEQCRVCQQDKEEVL-IDLGCQCRGGLAKAHRSCINT 109 (237)
Q Consensus 72 s~~~~CRIC~~~~~~~~-l~~PC~CkGsl~~vH~~CL~~ 109 (237)
+++..|.+|........ .+.||. ..+|..|+.+
T Consensus 76 ~~~~~C~vC~k~l~~~~f~~~p~~-----~v~H~~C~~r 109 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNSVFVVFPCG-----HVVHYSCIKR 109 (109)
T ss_pred CCCCCccCcCCcCCCceEEEeCCC-----eEEecccccC
Confidence 45678999998876544 467875 6899999753
No 47
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=67.78 E-value=1.7 Score=40.78 Aligned_cols=49 Identities=31% Similarity=0.642 Sum_probs=38.8
Q ss_pred CCCceeEeccCC-----Cc----cceeccccccCCCccccHHHHHHHHHhcCCcccccCcccc
Q 045467 73 SHEQCRVCQQDK-----EE----VLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVA 126 (237)
Q Consensus 73 ~~~~CRIC~~~~-----~~----~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~ 126 (237)
+..+|-+|-... ++ +.-.+-|+ +-.|+-|+.-|.-.-++.+|+-||.+.
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCn-----HvFHEfCIrGWcivGKkqtCPYCKekV 280 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCN-----HVFHEFCIRGWCIVGKKQTCPYCKEKV 280 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecc-----cchHHHhhhhheeecCCCCCchHHHHh
Confidence 457899996542 11 45577888 689999999999888888999999876
No 48
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=66.48 E-value=7.2 Score=26.30 Aligned_cols=38 Identities=21% Similarity=0.539 Sum_probs=20.9
Q ss_pred eeEeccC--CCccceeccccccCCCccccHHHHHHHHHhc--CCccc
Q 045467 77 CRVCQQD--KEEVLIDLGCQCRGGLAKAHRSCINTWFRTK--GSNKC 119 (237)
Q Consensus 77 CRIC~~~--~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s--~~~~C 119 (237)
|-||.+- ++..++++||. +-+=++||+++.+.+ +..+|
T Consensus 1 CpIc~e~~~~~n~P~~L~CG-----H~~c~~cl~~l~~~~~~~~~kC 42 (43)
T PF13445_consen 1 CPICKEFSTEENPPMVLPCG-----HVFCKDCLQKLSKKSDRNRFKC 42 (43)
T ss_dssp -TTT----TTSS-EEE-SSS------EEEHHHHHHHHHH-S-S-B--
T ss_pred CCccccccCCCCCCEEEeCc-----cHHHHHHHHHHHhcCCCCeeeC
Confidence 5567662 23357889988 578999999999976 34555
No 49
>PLN02189 cellulose synthase
Probab=66.09 E-value=4.8 Score=43.53 Aligned_cols=53 Identities=19% Similarity=0.558 Sum_probs=37.4
Q ss_pred CCCCceeEeccCC---Cccceecccc-ccCCCcc-ccHHHHHHHHHhcCCcccccCccccccc
Q 045467 72 SSHEQCRVCQQDK---EEVLIDLGCQ-CRGGLAK-AHRSCINTWFRTKGSNKCEICQQVAVNV 129 (237)
Q Consensus 72 s~~~~CRIC~~~~---~~~~l~~PC~-CkGsl~~-vH~~CL~~Wl~~s~~~~CEiCk~~~~~v 129 (237)
..+.+|+||-++- .++..--.|+ | +| |=+.|.+ .-...|+..|+.||++|+-.
T Consensus 32 ~~~~~C~iCgd~vg~~~~g~~fvaC~~C----~fpvCr~Cye-yer~eg~q~CpqCkt~Y~r~ 89 (1040)
T PLN02189 32 LDGQVCEICGDEIGLTVDGDLFVACNEC----GFPVCRPCYE-YERREGTQNCPQCKTRYKRL 89 (1040)
T ss_pred ccCccccccccccCcCCCCCEEEeeccC----CCccccchhh-hhhhcCCccCcccCCchhhc
Confidence 3567999998773 2333445777 5 34 7789984 44555899999999999743
No 50
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.98 E-value=4.8 Score=39.58 Aligned_cols=49 Identities=24% Similarity=0.571 Sum_probs=36.1
Q ss_pred CCCceeEeccCC---Ccccee-ccccccCCCccccHHHHHHHHHhcCCcccccCcccc
Q 045467 73 SHEQCRVCQQDK---EEVLID-LGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVA 126 (237)
Q Consensus 73 ~~~~CRIC~~~~---~~~~l~-~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~ 126 (237)
.+..|-||++.- .+-.++ .-|. ......|+++|+..+-...|+.|+...
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cg-----hlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCG-----HLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred ccccCceeeeeeeecCceEEeeeccc-----ccccHHHHHHHHhhhhhhhCcccCChh
Confidence 357899999874 233343 3444 578999999999766667999999764
No 51
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=64.17 E-value=3.9 Score=27.49 Aligned_cols=22 Identities=32% Similarity=0.948 Sum_probs=16.1
Q ss_pred cccHHHHHHHHHhcCCcccccC
Q 045467 101 KAHRSCINTWFRTKGSNKCEIC 122 (237)
Q Consensus 101 ~vH~~CL~~Wl~~s~~~~CEiC 122 (237)
-+|..|+.++++.+.+..|+.|
T Consensus 22 r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 22 RLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp EE-HHHHHHHTTT-SS-B-TTT
T ss_pred hHHHHHHHHHHhcCCCCCCcCC
Confidence 3999999999999888889877
No 52
>PLN02436 cellulose synthase A
Probab=63.53 E-value=5.8 Score=43.12 Aligned_cols=54 Identities=22% Similarity=0.553 Sum_probs=37.7
Q ss_pred CCCCceeEeccCC---Cccceecccc-ccCCCcc-ccHHHHHHHHHhcCCcccccCcccccccc
Q 045467 72 SSHEQCRVCQQDK---EEVLIDLGCQ-CRGGLAK-AHRSCINTWFRTKGSNKCEICQQVAVNVP 130 (237)
Q Consensus 72 s~~~~CRIC~~~~---~~~~l~~PC~-CkGsl~~-vH~~CL~~Wl~~s~~~~CEiCk~~~~~v~ 130 (237)
....+|+||-++- .++.+--.|+ | +| |=+.|.+ .-...|+..|+.||++|.-.+
T Consensus 34 ~~~~iCqICGD~Vg~t~dGe~FVACn~C----~fpvCr~Cye-yer~eg~~~Cpqckt~Y~r~k 92 (1094)
T PLN02436 34 LSGQTCQICGDEIELTVDGEPFVACNEC----AFPVCRPCYE-YERREGNQACPQCKTRYKRIK 92 (1094)
T ss_pred cCCccccccccccCcCCCCCEEEeeccC----CCccccchhh-hhhhcCCccCcccCCchhhcc
Confidence 3567999997763 3333435676 4 34 7788984 445558999999999997443
No 53
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.46 E-value=3.7 Score=34.40 Aligned_cols=45 Identities=22% Similarity=0.585 Sum_probs=37.2
Q ss_pred CCCCCceeEeccCCCccceeccccccCCCccccHHHHHHHHHhcCCcccccCc
Q 045467 71 ASSHEQCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQ 123 (237)
Q Consensus 71 ~s~~~~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk 123 (237)
..++-.|-||++...+. .+.||. +.+=+.|+..+.. ....|+.|+
T Consensus 10 ~~~~~~C~iC~~~~~~p-~~l~C~-----H~~c~~C~~~~~~--~~~~Cp~cr 54 (386)
T KOG2177|consen 10 LQEELTCPICLEYFREP-VLLPCG-----HNFCRACLTRSWE--GPLSCPVCR 54 (386)
T ss_pred ccccccChhhHHHhhcC-cccccc-----chHhHHHHHHhcC--CCcCCcccC
Confidence 45678999999988665 568988 5677899999998 668999999
No 54
>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=61.14 E-value=6.6 Score=28.71 Aligned_cols=45 Identities=16% Similarity=0.246 Sum_probs=29.4
Q ss_pred ceeEeccCCCccceeccccccCCCccccHHHHHHHHHhcCCcccccCccccc
Q 045467 76 QCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVAV 127 (237)
Q Consensus 76 ~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~~ 127 (237)
.|-|+++-..+ +.+.|+. +..-+.|+++|+.. +..+|++|+....
T Consensus 6 ~CpIt~~lM~d-PVi~~~G-----~tyer~~I~~~l~~-~~~~~P~t~~~l~ 50 (73)
T PF04564_consen 6 LCPITGELMRD-PVILPSG-----HTYERSAIERWLEQ-NGGTDPFTRQPLS 50 (73)
T ss_dssp B-TTTSSB-SS-EEEETTS-----EEEEHHHHHHHHCT-TSSB-TTT-SB-S
T ss_pred CCcCcCcHhhC-ceeCCcC-----CEEcHHHHHHHHHc-CCCCCCCCCCcCC
Confidence 46666555444 4557765 67899999999998 5568999987653
No 55
>PF09574 DUF2374: Protein of unknown function (Duf2374); InterPro: IPR014175 This very small protein (about 46 amino acids) consists largely of a single predicted membrane-spanning region. It is found in Photobacterium profundum SS9 and in three species of Vibrio, always near periplasmic nitrate reductase genes, but far from the periplasmic nitrate reductase genes in Aeromonas hydrophila ATCC 7966.
Probab=58.04 E-value=20 Score=24.40 Aligned_cols=28 Identities=36% Similarity=0.462 Sum_probs=21.6
Q ss_pred HHHHHHHHhcccccchhhHHHHHHHHHH
Q 045467 175 LDVLISITLGVSALPVNIIIGVIVVLGL 202 (237)
Q Consensus 175 ld~ll~~~~G~~alPf~~iiGllv~~~~ 202 (237)
+|..+=..+|+.|.|+.+.-|.+.+..+
T Consensus 4 lEsviWhvLGY~AmPvI~L~GF~~Vav~ 31 (42)
T PF09574_consen 4 LESVIWHVLGYAAMPVIILSGFAAVAVA 31 (42)
T ss_pred HHHHHHHHhccccchHHHHhhHHHHHHH
Confidence 4667778899999999888887765443
No 56
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=56.83 E-value=19 Score=35.11 Aligned_cols=55 Identities=15% Similarity=0.344 Sum_probs=36.1
Q ss_pred cCCCCCCceeEeccCCCccceeccccccCCCccccHHHHHHHHHhcCCcccccCccccccc
Q 045467 69 RTASSHEQCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVAVNV 129 (237)
Q Consensus 69 ~~~s~~~~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~~~v 129 (237)
.++.+...|-||-....-.. +.||+ .-+-.-|..+-...=.+..|.+|+.+...|
T Consensus 56 dtDEen~~C~ICA~~~TYs~-~~PC~-----H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V 110 (493)
T COG5236 56 DTDEENMNCQICAGSTTYSA-RYPCG-----HQICHACAVRLRALYMQKGCPLCRTETEAV 110 (493)
T ss_pred ccccccceeEEecCCceEEE-eccCC-----chHHHHHHHHHHHHHhccCCCccccccceE
Confidence 45677789999977654333 47998 223334555555444667899999986443
No 57
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=55.02 E-value=6.1 Score=37.54 Aligned_cols=48 Identities=21% Similarity=0.465 Sum_probs=35.5
Q ss_pred CCCceeEeccCCCccceeccccccCCCccccHHHHHHHHHhcCCcccccCcccccc
Q 045467 73 SHEQCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVAVN 128 (237)
Q Consensus 73 ~~~~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~~~ 128 (237)
+...||||++-..- +.++||. +-.-.-|+.+-+.+.. .|++|..++..
T Consensus 24 s~lrC~IC~~~i~i-p~~TtCg-----HtFCslCIR~hL~~qp--~CP~Cr~~~~e 71 (391)
T COG5432 24 SMLRCRICDCRISI-PCETTCG-----HTFCSLCIRRHLGTQP--FCPVCREDPCE 71 (391)
T ss_pred hHHHhhhhhheeec-ceecccc-----cchhHHHHHHHhcCCC--CCccccccHHh
Confidence 45789999876654 3457887 4566778888887755 69999987654
No 58
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=53.48 E-value=7.2 Score=41.49 Aligned_cols=57 Identities=25% Similarity=0.646 Sum_probs=41.6
Q ss_pred CCCCCceeEeccCCC--ccceeccccccCCCccccHHHHHHHHHhc-----CCcccccCccccccccC
Q 045467 71 ASSHEQCRVCQQDKE--EVLIDLGCQCRGGLAKAHRSCINTWFRTK-----GSNKCEICQQVAVNVPT 131 (237)
Q Consensus 71 ~s~~~~CRIC~~~~~--~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s-----~~~~CEiCk~~~~~v~~ 131 (237)
..+.-.|-||.+.-. ...+ +|+.=-+.+|..|+.+|-+.+ ..+.|.-|++.++.++.
T Consensus 188 ~~~~yeCmIC~e~I~~t~~~W----SC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~~~~~ 251 (950)
T KOG1952|consen 188 SNRKYECMICTERIKRTAPVW----SCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSKTVPK 251 (950)
T ss_pred hcCceEEEEeeeeccccCCce----ecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhccCCc
Confidence 455689999988753 3344 344445779999999998765 35799999988876653
No 59
>TIGR02808 short_TIGR02808 conserved hypothetical protein TIGR02808. This very small protein (about 46 amino acids) consists largely of a single predicted membrane-spanning region. It is found in Photobacterium profundum SS9 and in three species of Vibrio, always near periplasmic nitrate reductase genes, but far from the periplasmic nitrate reductase genes in Aeromonas hydrophila ATCC7966.
Probab=50.92 E-value=29 Score=23.63 Aligned_cols=28 Identities=32% Similarity=0.422 Sum_probs=20.7
Q ss_pred HHHHHHHHhcccccchhhHHHHHHHHHH
Q 045467 175 LDVLISITLGVSALPVNIIIGVIVVLGL 202 (237)
Q Consensus 175 ld~ll~~~~G~~alPf~~iiGllv~~~~ 202 (237)
+|..+=..+|+.|.|+.+.-|.+.+..+
T Consensus 4 LEsviWHilGY~AmPvIil~GF~~Va~~ 31 (42)
T TIGR02808 4 LESTIWHVLGYGAMPFIILSGFVAVAVT 31 (42)
T ss_pred HHHHHHHHhcccccchHHhhhhHHHHHH
Confidence 4666677889999999887777754443
No 60
>PF02529 PetG: Cytochrome B6-F complex subunit 5; InterPro: IPR003683 This family consists of cytochrome b6/f complex subunit 5 (PetG). The cytochrome bf complex, found in green plants, eukaryotic algae and cyanobacteria, connects photosystem I to photosystem II in the electron transport chain, functioning as a plastoquinol:plastocyanin/cytochrome c6 oxidoreductase []. The purified complex from the unicellular alga Chlamydomonas reinhardtii contains seven subunits; namely four high molecular weight subunits (cytochrome f, Rieske iron-sulphur protein, cytochrome b6, and subunit IV) and three approximately miniproteins (PetG, PetL, and PetX) []. Stoichiometry measurements are consistent with every subunit being present as two copies per b6/f dimer. The absence of PetG affects either the assembly or stability of the cytochrome bf complex in C. reinhardtii [].; GO: 0009512 cytochrome b6f complex; PDB: 1Q90_G 2ZT9_G 1VF5_G 2D2C_G 2E74_G 2E75_G 2E76_G.
Probab=50.89 E-value=18 Score=24.12 Aligned_cols=27 Identities=26% Similarity=0.344 Sum_probs=21.3
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHH
Q 045467 187 ALPVNIIIGVIVVLGLGTALRLALEFC 213 (237)
Q Consensus 187 alPf~~iiGllv~~~~gt~vr~~l~~~ 213 (237)
.+.+++++|++....+|.++-.++.+.
T Consensus 4 plL~GiVlGli~vtl~Glfv~Ay~QY~ 30 (37)
T PF02529_consen 4 PLLSGIVLGLIPVTLAGLFVAAYLQYR 30 (37)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred hhhhhHHHHhHHHHHHHHHHHHHHHHh
Confidence 467889999998888888887666554
No 61
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=50.35 E-value=22 Score=27.41 Aligned_cols=56 Identities=18% Similarity=0.391 Sum_probs=22.2
Q ss_pred CCCCCceeEeccCC---Cc-cceeccccccCCCccccHHHHHHHHHhcCCcccccCcccccccc
Q 045467 71 ASSHEQCRVCQQDK---EE-VLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVAVNVP 130 (237)
Q Consensus 71 ~s~~~~CRIC~~~~---~~-~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~~~v~ 130 (237)
+..+.+|.||-+.- .+ +.++ -|+ .=---+=+.|.+-=++. |+..|..||.+|...+
T Consensus 6 ~~~~qiCqiCGD~VGl~~~Ge~FV-AC~--eC~fPvCr~CyEYErke-g~q~CpqCkt~ykr~k 65 (80)
T PF14569_consen 6 NLNGQICQICGDDVGLTENGEVFV-ACH--ECAFPVCRPCYEYERKE-GNQVCPQCKTRYKRHK 65 (80)
T ss_dssp --SS-B-SSS--B--B-SSSSB---S-S--SS-----HHHHHHHHHT-S-SB-TTT--B----T
T ss_pred hcCCcccccccCccccCCCCCEEE-EEc--ccCCccchhHHHHHhhc-CcccccccCCCccccc
Confidence 34678999997663 22 3443 332 11123788898765555 8889999999997654
No 62
>COG5336 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=48.78 E-value=50 Score=27.09 Aligned_cols=18 Identities=22% Similarity=0.444 Sum_probs=14.1
Q ss_pred cchhhHHHHHHHHHHHHH
Q 045467 188 LPVNIIIGVIVVLGLGTA 205 (237)
Q Consensus 188 lPf~~iiGllv~~~~gt~ 205 (237)
-|...|+.+|+.|++|+.
T Consensus 73 sPwglIv~lllGf~AG~l 90 (116)
T COG5336 73 SPWGLIVFLLLGFGAGVL 90 (116)
T ss_pred CcHHHHHHHHHHHHHHHH
Confidence 366778888889998865
No 63
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=47.50 E-value=13 Score=37.04 Aligned_cols=44 Identities=20% Similarity=0.658 Sum_probs=33.2
Q ss_pred CCCCceeEeccCCCccceeccccccCCCccccHHHHHHHHHhcCCcccccCccccc
Q 045467 72 SSHEQCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVAV 127 (237)
Q Consensus 72 s~~~~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~~ 127 (237)
..++.|+||.++. . .-+.||. |..|+.+|...+. .|++|+....
T Consensus 477 ~~~~~~~~~~~~~-~-~~~~~~~--------~~~~l~~~~~~~~--~~pl~~~~~~ 520 (543)
T KOG0802|consen 477 EPNDVCAICYQEM-S-ARITPCS--------HALCLRKWLYVQE--VCPLCHTYMK 520 (543)
T ss_pred cccCcchHHHHHH-H-hcccccc--------chhHHHhhhhhcc--ccCCCchhhh
Confidence 3458999998877 2 2235665 9999999998866 7999976653
No 64
>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=47.17 E-value=25 Score=30.44 Aligned_cols=39 Identities=18% Similarity=0.715 Sum_probs=24.7
Q ss_pred CCceeEeccCCCccce------ecccc---ccCCCccccHHHHHHHHHhc
Q 045467 74 HEQCRVCQQDKEEVLI------DLGCQ---CRGGLAKAHRSCINTWFRTK 114 (237)
Q Consensus 74 ~~~CRIC~~~~~~~~l------~~PC~---CkGsl~~vH~~CL~~Wl~~s 114 (237)
+..|-||++..-..-| ...|. |.. .|-|..||++..+..
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~T--s~rhSNCLdqfkka~ 49 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDT--SYRHSNCLDQFKKAY 49 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccccCC--ccchhHHHHHHHHHh
Confidence 5679999776532111 12222 544 488999999998664
No 65
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=47.01 E-value=8.3 Score=37.98 Aligned_cols=49 Identities=22% Similarity=0.588 Sum_probs=38.8
Q ss_pred CCCceeEeccCC---CccceeccccccCCCccccHHHHHHHHHhcCCcccccCcccc
Q 045467 73 SHEQCRVCQQDK---EEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVA 126 (237)
Q Consensus 73 ~~~~CRIC~~~~---~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~ 126 (237)
-+-.|-.|-+.. .++.--.||+ +..|..|+...+...++++|+-|+.--
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALpCs-----HIfH~rCl~e~L~~n~~rsCP~Crklr 415 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALPCS-----HIFHLRCLQEILENNGTRSCPNCRKLR 415 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccchh-----HHHHHHHHHHHHHhCCCCCCccHHHHH
Confidence 346788886653 2344468999 799999999999999999999998443
No 66
>CHL00008 petG cytochrome b6/f complex subunit V
Probab=46.57 E-value=33 Score=22.80 Aligned_cols=28 Identities=25% Similarity=0.400 Sum_probs=22.0
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHH
Q 045467 187 ALPVNIIIGVIVVLGLGTALRLALEFCR 214 (237)
Q Consensus 187 alPf~~iiGllv~~~~gt~vr~~l~~~~ 214 (237)
.+.+++++|++-...+|.++-.++.+.|
T Consensus 4 ~lL~GiVLGlipvTl~GlfvaAylQYrR 31 (37)
T CHL00008 4 VLLFGIVLGLIPITLAGLFVTAYLQYRR 31 (37)
T ss_pred hhhhhHHHHhHHHHHHHHHHHHHHHHhh
Confidence 4567899999988888988887776643
No 67
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=45.27 E-value=29 Score=37.97 Aligned_cols=54 Identities=19% Similarity=0.415 Sum_probs=35.0
Q ss_pred CCCCceeEeccCC---Cc-cceeccccccCCCcc-ccHHHHHHHHHhcCCcccccCcccccccc
Q 045467 72 SSHEQCRVCQQDK---EE-VLIDLGCQCRGGLAK-AHRSCINTWFRTKGSNKCEICQQVAVNVP 130 (237)
Q Consensus 72 s~~~~CRIC~~~~---~~-~~l~~PC~CkGsl~~-vH~~CL~~Wl~~s~~~~CEiCk~~~~~v~ 130 (237)
.++.+|+||-++- .+ ++++ -|+ +-+| |=+.|.+- =+.-|+..|+.||++|+-.+
T Consensus 15 ~~~qiCqICGD~vg~~~~Ge~FV-AC~---eC~FPVCrpCYEY-Er~eG~q~CPqCktrYkr~k 73 (1079)
T PLN02638 15 GGGQVCQICGDNVGKTVDGEPFV-ACD---VCAFPVCRPCYEY-ERKDGNQSCPQCKTKYKRHK 73 (1079)
T ss_pred cCCceeeecccccCcCCCCCEEE-Eec---cCCCccccchhhh-hhhcCCccCCccCCchhhhc
Confidence 4567999997763 22 3443 343 1134 77889843 33448999999999998443
No 68
>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=44.02 E-value=29 Score=33.51 Aligned_cols=55 Identities=24% Similarity=0.512 Sum_probs=35.9
Q ss_pred CCCCCceeEeccCCCccc-------------------eeccccccCCCccccHHHHHHHHHhcC-----------Ccccc
Q 045467 71 ASSHEQCRVCQQDKEEVL-------------------IDLGCQCRGGLAKAHRSCINTWFRTKG-----------SNKCE 120 (237)
Q Consensus 71 ~s~~~~CRIC~~~~~~~~-------------------l~~PC~CkGsl~~vH~~CL~~Wl~~s~-----------~~~CE 120 (237)
.++...|-=|++....-. --.+|.|+- .-=.+|+-|||..++ +-.|+
T Consensus 268 ~~e~e~CigC~~~~~~vkl~k~C~~~~~~g~~~~~~~~C~~C~CRP---mWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CP 344 (358)
T PF10272_consen 268 GQELEPCIGCMQAQPNVKLVKRCADEEQEGSPLPNEPPCQQCYCRP---MWCLECMGKWFASRQDQQHPETWLSGKCPCP 344 (358)
T ss_pred ccccCCccccccCCCCcEEEeccCCcccCCcccccCCCCccccccc---hHHHHHHHHHhhhcCCCCChhhhhcCCCCCC
Confidence 456677877776543211 123566654 234689999998874 45899
Q ss_pred cCcccccc
Q 045467 121 ICQQVAVN 128 (237)
Q Consensus 121 iCk~~~~~ 128 (237)
.|+..|-.
T Consensus 345 tCRa~FCi 352 (358)
T PF10272_consen 345 TCRAKFCI 352 (358)
T ss_pred CCccccee
Confidence 99988854
No 69
>PRK00665 petG cytochrome b6-f complex subunit PetG; Reviewed
Probab=40.67 E-value=45 Score=22.18 Aligned_cols=27 Identities=22% Similarity=0.246 Sum_probs=21.3
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHH
Q 045467 187 ALPVNIIIGVIVVLGLGTALRLALEFC 213 (237)
Q Consensus 187 alPf~~iiGllv~~~~gt~vr~~l~~~ 213 (237)
.+.+++++|++-...+|.++-.++.+.
T Consensus 4 plL~GiVLGlipiTl~GlfvaAylQYr 30 (37)
T PRK00665 4 PLLCGIVLGLIPVTLAGLFVAAWNQYK 30 (37)
T ss_pred hhhhhHHHHhHHHHHHHHHHHHHHHHh
Confidence 456788999998888898888776654
No 70
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=40.41 E-value=25 Score=35.45 Aligned_cols=49 Identities=20% Similarity=0.490 Sum_probs=36.0
Q ss_pred CCceeEeccCCCccceeccccccCCCccccHHHHHHHHHhc---CCcccccCcccccc
Q 045467 74 HEQCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTK---GSNKCEICQQVAVN 128 (237)
Q Consensus 74 ~~~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s---~~~~CEiCk~~~~~ 128 (237)
...|-||++...-..+ +-|. +..=-.||.+.+..+ +-..|++|...+..
T Consensus 186 ~~~CPICL~~~~~p~~-t~CG-----HiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVR-TNCG-----HIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCcccc-cccC-----ceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 7899999988765444 3366 456678888887665 55799999977644
No 71
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=39.50 E-value=86 Score=21.92 Aligned_cols=13 Identities=23% Similarity=0.424 Sum_probs=6.8
Q ss_pred hhhhhhHHhhhhc
Q 045467 215 EWSLRRVVQRVET 227 (237)
Q Consensus 215 ~w~~~~~i~~~~~ 227 (237)
.++.++++.+++.
T Consensus 50 ~~~~~k~l~~le~ 62 (68)
T PF06305_consen 50 IRRLRKELKKLEK 62 (68)
T ss_pred HHHHHHHHHHHHH
Confidence 3455556655543
No 72
>PLN02195 cellulose synthase A
Probab=39.03 E-value=28 Score=37.72 Aligned_cols=51 Identities=16% Similarity=0.358 Sum_probs=33.3
Q ss_pred CCCCceeEeccCCC----ccceeccccccCCCcc-ccHHHHHHHHHhcCCcccccCccccc
Q 045467 72 SSHEQCRVCQQDKE----EVLIDLGCQCRGGLAK-AHRSCINTWFRTKGSNKCEICQQVAV 127 (237)
Q Consensus 72 s~~~~CRIC~~~~~----~~~l~~PC~CkGsl~~-vH~~CL~~Wl~~s~~~~CEiCk~~~~ 127 (237)
++..+|+||-+.-+ .++++ -|+= -+| |=+.|.+ .=+.-|+..|+.||++|+
T Consensus 4 ~~~~~c~~cgd~~~~~~~g~~fv-aC~e---C~~pvCrpCye-yer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 4 SGAPICATCGEEVGVDSNGEAFV-ACHE---CSYPLCKACLE-YEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCCccceecccccCcCCCCCeEE-Eecc---CCCccccchhh-hhhhcCCccCCccCCccc
Confidence 45679999976532 23443 3331 123 7788984 334448999999999997
No 73
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.18 E-value=47 Score=29.42 Aligned_cols=48 Identities=21% Similarity=0.564 Sum_probs=35.5
Q ss_pred CCCCCceeEeccCCCccc-eeccccccCCCccccHHHHHHHHHhcCCcccccCccc
Q 045467 71 ASSHEQCRVCQQDKEEVL-IDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQV 125 (237)
Q Consensus 71 ~s~~~~CRIC~~~~~~~~-l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~ 125 (237)
..+-.-|-||++..++.. .-+-|. +..=.+|++.-++. +..|++|+..
T Consensus 128 ~~~~~~CPiCl~~~sek~~vsTkCG-----HvFC~~Cik~alk~--~~~CP~C~kk 176 (187)
T KOG0320|consen 128 KEGTYKCPICLDSVSEKVPVSTKCG-----HVFCSQCIKDALKN--TNKCPTCRKK 176 (187)
T ss_pred cccccCCCceecchhhccccccccc-----hhHHHHHHHHHHHh--CCCCCCcccc
Confidence 344478999999987644 446676 56778998887765 5689999873
No 74
>PF04341 DUF485: Protein of unknown function, DUF485; InterPro: IPR007436 This family includes several putative integral membrane proteins.
Probab=38.03 E-value=55 Score=25.02 Aligned_cols=50 Identities=10% Similarity=0.070 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHH--HHHHHHHhcc----cccchhhHHHHHHHHHHHHHHHHHHH
Q 045467 162 LWVAFSILIGGLLL--DVLISITLGV----SALPVNIIIGVIVVLGLGTALRLALE 211 (237)
Q Consensus 162 l~vi~S~L~~~lfl--d~ll~~~~G~----~alPf~~iiGllv~~~~gt~vr~~l~ 211 (237)
.+.++.++.|+.|. --+.-..++. ..+++++++|+......-.+.-.+..
T Consensus 20 ~l~~i~l~~y~~~~ll~a~~p~~m~~~v~~G~~t~g~~~g~~~~~~~~~l~~~Yv~ 75 (91)
T PF04341_consen 20 PLSAIFLVLYFGFVLLSAFAPELMATPVFPGSLTLGIVLGLGQIVFAWVLTWLYVR 75 (91)
T ss_pred HHHHHHHHHHHHHHHHHHHCHHHHcCcccCCCcCHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444445555433 2222334442 24666667776654333333333443
No 75
>PF13829 DUF4191: Domain of unknown function (DUF4191)
Probab=37.84 E-value=1.6e+02 Score=26.72 Aligned_cols=42 Identities=24% Similarity=0.439 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHH
Q 045467 162 LWVAFSILIGGLLLDVLISITLGVSALPVNIIIGVIVVLGLGTA 205 (237)
Q Consensus 162 l~vi~S~L~~~lfld~ll~~~~G~~alPf~~iiGllv~~~~gt~ 205 (237)
.|+++.+++.-+.+-.++..-+| .+-++.++|+++.+.+.++
T Consensus 28 ~~~ml~a~l~~~~v~v~ig~l~~--~~~~~~i~gi~~g~l~am~ 69 (224)
T PF13829_consen 28 PWLMLGAFLGPIAVFVLIGLLFG--SWWYWLIIGILLGLLAAMI 69 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHc--cHHHHHHHHHHHHHHHHHH
Confidence 44444444433333333333333 3334455555554444333
No 76
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=35.40 E-value=15 Score=35.62 Aligned_cols=47 Identities=17% Similarity=0.376 Sum_probs=35.4
Q ss_pred CCCceeEeccCCCccceeccccccCCCccccHHHHHHHHHhcCCcccccCccccc
Q 045467 73 SHEQCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVAV 127 (237)
Q Consensus 73 ~~~~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~~ 127 (237)
+--.|-||++=..- +++.||. +-.-.-|+.+.++.+- .|+.|..+|+
T Consensus 22 ~lLRC~IC~eyf~i-p~itpCs-----HtfCSlCIR~~L~~~p--~CP~C~~~~~ 68 (442)
T KOG0287|consen 22 DLLRCGICFEYFNI-PMITPCS-----HTFCSLCIRKFLSYKP--QCPTCCVTVT 68 (442)
T ss_pred HHHHHhHHHHHhcC-ceecccc-----chHHHHHHHHHhccCC--CCCceecccc
Confidence 44689999877654 4668987 4556778888888765 6999998764
No 77
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=35.40 E-value=22 Score=36.45 Aligned_cols=51 Identities=22% Similarity=0.599 Sum_probs=38.1
Q ss_pred CCCCCCceeEeccCCCccceeccccccCCCccccHHHHHHHHH---hcCCcccccCcccc
Q 045467 70 TASSHEQCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFR---TKGSNKCEICQQVA 126 (237)
Q Consensus 70 ~~s~~~~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~---~s~~~~CEiCk~~~ 126 (237)
.+.++.+|-+|++..++ .+.+-|+ +..-+.|+..++. ...+.+|+.|.-..
T Consensus 532 enk~~~~C~lc~d~aed-~i~s~Ch-----H~FCrlCi~eyv~~f~~~~nvtCP~C~i~L 585 (791)
T KOG1002|consen 532 ENKGEVECGLCHDPAED-YIESSCH-----HKFCRLCIKEYVESFMENNNVTCPVCHIGL 585 (791)
T ss_pred cccCceeecccCChhhh-hHhhhhh-----HHHHHHHHHHHHHhhhcccCCCCccccccc
Confidence 35567899999887655 5668887 4567889988864 34568999998765
No 78
>PF10954 DUF2755: Protein of unknown function (DUF2755); InterPro: IPR020513 This entry contains membrane proteins with no known function.; GO: 0016021 integral to membrane
Probab=35.37 E-value=1.6e+02 Score=23.45 Aligned_cols=33 Identities=27% Similarity=0.503 Sum_probs=24.8
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 045467 187 ALPVNIIIGVIVVLGLGTALRLALEFCREWSLRR 220 (237)
Q Consensus 187 alPf~~iiGllv~~~~gt~vr~~l~~~~~w~~~~ 220 (237)
++-++.++||+=.+. |.++--++.++-+|+-||
T Consensus 68 gl~VgTlFgLiPFL~-Gc~~~~v~~l~lrwr~rr 100 (100)
T PF10954_consen 68 GLGVGTLFGLIPFLA-GCLILGVIALILRWRHRR 100 (100)
T ss_pred eehhHHHHHHHHHHH-HHHHHHHHHHHHHHHhcC
Confidence 677888899885544 777777788888887664
No 79
>PF01440 Gemini_AL2: Geminivirus AL2 protein; InterPro: IPR000942 Geminiviruses are characterised by a genome of circular single-stranded DNA encapsidated in twinned (geminate) quasi-isometric particles, from which the group derives its name []. Most geminiviruses can be divided into two subgroups on the basis of host range and/or insect vector: i.e. those that infect dicotyledenous plants and are transmitted by the same whitefly species, and those that infect monocotyledenous plants and are transmitted by different leafhopper vectors. The genomes of the whitefly-transmitted African cassava mosaic virus, Tomato golden mosaic virus (TGMV) and Bean golden mosaic virus (BGMV) possess a bipartite genome. By contrast, only a single DNA component has been identified for the leafhopper-transmitted Maize streak virus (MSV) and Wheat dwarf virus (WDV) [, ]. Beet curly top virus (BCTV), and Tobacco yellow dwarf virus belong to a third possible subgroup. Like MSV and WDV, BCTV is transmitted by a specific leafhopper species, yet like the whitefly-transmitted geminiviruses it has a host range confined to dicotyledenous plants. Sequence comparison of the whitefly-transmitted Squash leaf curl virus (SqLCV) and Tomato yellow leaf curl virus (TYLCV) with the genomic components of TGMV and BGMV reveals a close evolutionary relationship [, , ]. Amino acid sequence alignments of Potato yellow mosaic virus (PYMV) proteins with those encoded by other geminiviruses show that PYMV is closely related to geminiviruses isolated from the New World, especially in the putative coat protein gene regions []. Comparison of MSV DNA-encoded proteins with those of other geminiviruses infecting monocotyledonous plants, including Panicum streak virus [] and Miscanthus streak virus (MiSV) [], reveal high levels of similarity.; GO: 0005198 structural molecule activity, 0019028 viral capsid
Probab=34.91 E-value=6.9 Score=32.81 Aligned_cols=34 Identities=32% Similarity=0.662 Sum_probs=28.8
Q ss_pred cceeccccccCCCccccHHHHHHHHHhcCCcccccCc
Q 045467 87 VLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQ 123 (237)
Q Consensus 87 ~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk 123 (237)
..+.++|.|. .|+|..|-...|.++|+..|---.
T Consensus 31 RRIDL~CGCS---yyihinC~~hGFTHRGthhCsS~~ 64 (134)
T PF01440_consen 31 RRIDLPCGCS---YYIHINCHNHGFTHRGTHHCSSSR 64 (134)
T ss_pred CccccCCCCE---EEeecccCCCCcCCCcCccCCCcC
Confidence 4577899994 689999999999999998887554
No 80
>PF11712 Vma12: Endoplasmic reticulum-based factor for assembly of V-ATPase; InterPro: IPR021013 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. The yeast vacuolar proton-translocating ATPase (V-ATPase) is the best characterised member of the V-ATPase family. A total of thirteen genes are required for encoding the subunits of the enzyme complex itself and an additional three for providing factors necessary for the assembly of the whole. Vma12 is one of these latter, all three of which are localised to the endoplasmic reticulum [].
Probab=33.83 E-value=1.1e+02 Score=24.96 Aligned_cols=42 Identities=12% Similarity=0.097 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHH
Q 045467 162 LWVAFSILIGGLLLDVLISITLGVSALPVNIIIGVIVVLGLG 203 (237)
Q Consensus 162 l~vi~S~L~~~lfld~ll~~~~G~~alPf~~iiGllv~~~~g 203 (237)
+-+++|+++.|.+.=.......|....++-+++|++.+++.+
T Consensus 83 ~Nilvsv~~~~~~~~~~~~~~~~~~~~~~Rvllgl~~al~vl 124 (142)
T PF11712_consen 83 FNILVSVFAVFFAGWYWAGYSFGGWSFPYRVLLGLFGALLVL 124 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHH
Confidence 345666665544322111222233345555666666555433
No 81
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.32 E-value=53 Score=30.94 Aligned_cols=55 Identities=24% Similarity=0.311 Sum_probs=39.1
Q ss_pred CcCCCCCCceeEeccCCCccceeccccccCCCccccHHHHHHHHHhcCCcccccCccccc
Q 045467 68 SRTASSHEQCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVAV 127 (237)
Q Consensus 68 ~~~~s~~~~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~~ 127 (237)
+.+.++..+|-+|.+...-.-...||. +..=..|+.+=+...-.-+|+.|+....
T Consensus 233 ss~~t~~~~C~~Cg~~PtiP~~~~~C~-----HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 233 SSTGTSDTECPVCGEPPTIPHVIGKCG-----HIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cccccCCceeeccCCCCCCCeeecccc-----ceeehhhhhhhhcchhhcccCccCCCCc
Confidence 335567899999966555444556787 4556678777666666679999998764
No 82
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.04 E-value=31 Score=32.87 Aligned_cols=46 Identities=17% Similarity=0.481 Sum_probs=28.4
Q ss_pred CCCceeEeccCCCccceeccccccCCCccccHHHHHHHHHh--cCCcccccCccccc
Q 045467 73 SHEQCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRT--KGSNKCEICQQVAV 127 (237)
Q Consensus 73 ~~~~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~--s~~~~CEiCk~~~~ 127 (237)
-.++|-||+...--. ..++| -|+-|..---.. .+.+.|.+|.+++.
T Consensus 6 ~~~eC~IC~nt~n~P-v~l~C--------~HkFCyiCiKGsy~ndk~~CavCR~pid 53 (324)
T KOG0824|consen 6 KKKECLICYNTGNCP-VNLYC--------FHKFCYICIKGSYKNDKKTCAVCRFPID 53 (324)
T ss_pred cCCcceeeeccCCcC-ccccc--------cchhhhhhhcchhhcCCCCCceecCCCC
Confidence 347899998765332 33454 577775432211 24567999999863
No 83
>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=32.63 E-value=19 Score=19.46 Aligned_cols=12 Identities=25% Similarity=0.622 Sum_probs=7.8
Q ss_pred ccccCccccccc
Q 045467 118 KCEICQQVAVNV 129 (237)
Q Consensus 118 ~CEiCk~~~~~v 129 (237)
.|++|+..|.+.
T Consensus 2 ~C~~C~~~~~~~ 13 (24)
T PF13894_consen 2 QCPICGKSFRSK 13 (24)
T ss_dssp E-SSTS-EESSH
T ss_pred CCcCCCCcCCcH
Confidence 599999988654
No 84
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.52 E-value=37 Score=33.22 Aligned_cols=51 Identities=16% Similarity=0.494 Sum_probs=34.0
Q ss_pred CCCCCCceeEeccCCCccceeccccccCCCccccHHHHHHHHHhcCCcccccCcccccc
Q 045467 70 TASSHEQCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVAVN 128 (237)
Q Consensus 70 ~~s~~~~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~~~ 128 (237)
.++++..|-||+.+.-. .+..||+- ---..|+.+-+- +++.|=.||.....
T Consensus 418 p~sEd~lCpICyA~pi~-Avf~PC~H-----~SC~~CI~qHlm--N~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 418 PDSEDNLCPICYAGPIN-AVFAPCSH-----RSCYGCITQHLM--NCKRCFFCKTTVID 468 (489)
T ss_pred CCcccccCcceecccch-hhccCCCC-----chHHHHHHHHHh--cCCeeeEecceeee
Confidence 45788999999877543 45689982 122345555443 45579999988764
No 85
>PF06637 PV-1: PV-1 protein (PLVAP); InterPro: IPR009538 This family consists of several PV-1 (PLVAP) proteins, which seem to be specific to mammals. PV-1 is a novel protein component of the endothelial fenestral and stomatal diaphragms []. The function of this family is unknown.
Probab=32.50 E-value=68 Score=31.61 Aligned_cols=13 Identities=31% Similarity=0.700 Sum_probs=7.9
Q ss_pred hhHHHHHHHHHHH
Q 045467 191 NIIIGVIVVLGLG 203 (237)
Q Consensus 191 ~~iiGllv~~~~g 203 (237)
.+|+||+++|..|
T Consensus 38 LIIlgLVLFmVYG 50 (442)
T PF06637_consen 38 LIILGLVLFMVYG 50 (442)
T ss_pred HHHHHHHHHHhhC
Confidence 3566666666654
No 86
>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase. Two proteolipids (PMP1 and PMP2) are associated with the ATPase and both genes are similarly expressed in the wild-type strain of yeast. No modification of the level of transcription of one PMP gene is detected in a strain deleted of the other. Though both proteolipids show similarity with other small proteolipids associated with other cation -transporting ATPases, their functions remain unclear [].
Probab=32.43 E-value=58 Score=22.31 Aligned_cols=35 Identities=31% Similarity=0.514 Sum_probs=18.1
Q ss_pred cccchhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhH
Q 045467 186 SALPVNIIIGVIVVLGLGTALRLALEFCREWSLRRV 221 (237)
Q Consensus 186 ~alPf~~iiGllv~~~~gt~vr~~l~~~~~w~~~~~ 221 (237)
+.+|-++|+-.+++..+|..+ .++-.+++|-.|++
T Consensus 4 s~lp~GVIlVF~lVglv~i~i-va~~iYRKw~aRkr 38 (43)
T PF08114_consen 4 STLPGGVILVFCLVGLVGIGI-VALFIYRKWQARKR 38 (43)
T ss_pred ccCCCCeeeehHHHHHHHHHH-HHHHHHHHHHHHHH
Confidence 345544444333333333332 23556789998876
No 87
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.60 E-value=25 Score=30.92 Aligned_cols=24 Identities=29% Similarity=0.811 Sum_probs=18.5
Q ss_pred CCCCceeEeccCCCc--cceeccccc
Q 045467 72 SSHEQCRVCQQDKEE--VLIDLGCQC 95 (237)
Q Consensus 72 s~~~~CRIC~~~~~~--~~l~~PC~C 95 (237)
.+.-+|-||+++.+. ..-.+||-|
T Consensus 175 ddkGECvICLEdL~~GdtIARLPCLC 200 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAGDTIARLPCLC 200 (205)
T ss_pred ccCCcEEEEhhhccCCCceeccceEE
Confidence 355799999999754 445789999
No 88
>PF11669 WBP-1: WW domain-binding protein 1; InterPro: IPR021684 This family of proteins represents WBP-1, a ligand of the WW domain of Yes-associated protein. This protein has a proline-rich domain. WBP-1 does not bind to the SH3 domain [].
Probab=30.82 E-value=89 Score=24.66 Aligned_cols=8 Identities=25% Similarity=0.235 Sum_probs=3.8
Q ss_pred hhhhhhHH
Q 045467 215 EWSLRRVV 222 (237)
Q Consensus 215 ~w~~~~~i 222 (237)
.|+.|+++
T Consensus 42 ~~r~r~~~ 49 (102)
T PF11669_consen 42 HRRRRRRL 49 (102)
T ss_pred HHHHHHhh
Confidence 44444444
No 89
>PF09835 DUF2062: Uncharacterized protein conserved in bacteria (DUF2062); InterPro: IPR018639 This domain, found in various prokaryotic proteins, has no known function. It is found at the C-terminal of family 2 glycosyltransferase proteins, in addition to proteins of unknown function.
Probab=29.01 E-value=86 Score=25.61 Aligned_cols=29 Identities=14% Similarity=0.156 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhhH
Q 045467 193 IIGVIVVLGLGTALRLALEFCREWSLRRV 221 (237)
Q Consensus 193 iiGllv~~~~gt~vr~~l~~~~~w~~~~~ 221 (237)
++|++++..+...++..++.+++++.+||
T Consensus 126 i~~~v~~~i~Y~l~~~~~~~~r~~r~~~r 154 (154)
T PF09835_consen 126 ILGIVLGIISYFLVYFLVRKYRKRRRKRR 154 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCc
Confidence 33444444444556777777777776654
No 90
>PF06198 DUF999: Protein of unknown function (DUF999); InterPro: IPR009340 This is a family of conserved Schizosaccharomyces pombe proteins with unknown function.
Probab=28.65 E-value=92 Score=25.81 Aligned_cols=49 Identities=24% Similarity=0.407 Sum_probs=27.2
Q ss_pred ccccccchhHHHHHHHHHHHHH-----HHHHHHHHhc---cc---ccchhhHHHHHHHHHH
Q 045467 153 DRERGCFSPLWVAFSILIGGLL-----LDVLISITLG---VS---ALPVNIIIGVIVVLGL 202 (237)
Q Consensus 153 ~r~~~cf~~l~vi~S~L~~~lf-----ld~ll~~~~G---~~---alPf~~iiGllv~~~~ 202 (237)
.++..-| |+++|||+++.|.. +..++.+-+| ++ =.|+.+-+||++-+.+
T Consensus 81 t~~~~rw-~lliiw~ii~v~~idk~f~vk~~~~~wi~en~~~seiw~pi~iyv~l~illl~ 140 (143)
T PF06198_consen 81 TRSKSRW-PLLIIWSIIIVFAIDKKFEVKEFLSIWINENRFYSEIWGPIAIYVCLFILLLL 140 (143)
T ss_pred ccccccc-HHHHHHHHHHheeeccchhHHHHHHHHHcccchHHHHHHHHHHHHHHHHHHHH
Confidence 3444556 89999999987751 1222333333 11 2566666666654443
No 91
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=27.94 E-value=56 Score=37.82 Aligned_cols=50 Identities=22% Similarity=0.569 Sum_probs=36.9
Q ss_pred CCCCceeEeccCC-C-ccceeccccccCCCccccHHHHHHHHHhc--------CCcccccCcccc
Q 045467 72 SSHEQCRVCQQDK-E-EVLIDLGCQCRGGLAKAHRSCINTWFRTK--------GSNKCEICQQVA 126 (237)
Q Consensus 72 s~~~~CRIC~~~~-~-~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s--------~~~~CEiCk~~~ 126 (237)
...++|-||+.+. + -..+.+.|. +..|-.|..+=+..+ +-..|+||+...
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~-----HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~I 3543 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCS-----HIFHLQCCRRVLENRWLGPRITFGFISCPICKNKI 3543 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCc-----cchhHHHHHHHHHhcccCCeeEEeeeecccccchh
Confidence 4568999999875 2 245666776 789999998766554 335899999865
No 92
>PF06522 B12D: NADH-ubiquinone reductase complex 1 MLRQ subunit; InterPro: IPR010530 The MLRQ subunit of mitochondrial NADH-ubiquinone reductase complex I is nuclear [] and is found in plants [], insects, fungi and higher metazoans []. It appears to act within the membrane and, in mammals, is highly expressed in muscle and neural tissue, indicative of a role in ATP generation [].
Probab=27.83 E-value=76 Score=23.47 Aligned_cols=23 Identities=30% Similarity=0.271 Sum_probs=18.6
Q ss_pred ccchhhHHHHHHHHHHHHHHHHH
Q 045467 187 ALPVNIIIGVIVVLGLGTALRLA 209 (237)
Q Consensus 187 alPf~~iiGllv~~~~gt~vr~~ 209 (237)
.+|+.+++|+-++++.+.++|++
T Consensus 6 l~PL~~~vg~a~~~a~~~~~r~l 28 (73)
T PF06522_consen 6 LYPLFVIVGVAVGGATFYLYRLL 28 (73)
T ss_pred ccchHHHHHHHHHHHHHHHHHHH
Confidence 47888888888888888888855
No 93
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=27.28 E-value=48 Score=32.37 Aligned_cols=50 Identities=14% Similarity=0.473 Sum_probs=34.8
Q ss_pred CCCCCceeEeccCC--CccceeccccccCCCccccHHHHHHHHHhc--CCcccccCccccc
Q 045467 71 ASSHEQCRVCQQDK--EEVLIDLGCQCRGGLAKAHRSCINTWFRTK--GSNKCEICQQVAV 127 (237)
Q Consensus 71 ~s~~~~CRIC~~~~--~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s--~~~~CEiCk~~~~ 127 (237)
..+++.|..|.++- .+..+ .||-| +| +-|-.-|-..+ -+-+|+-|+..|.
T Consensus 11 edeed~cplcie~mditdknf-~pc~c----gy--~ic~fc~~~irq~lngrcpacrr~y~ 64 (480)
T COG5175 11 EDEEDYCPLCIEPMDITDKNF-FPCPC----GY--QICQFCYNNIRQNLNGRCPACRRKYD 64 (480)
T ss_pred ccccccCcccccccccccCCc-ccCCc----cc--HHHHHHHHHHHhhccCCChHhhhhcc
Confidence 34567899998875 34555 69998 33 45666676555 3568999998874
No 94
>PF13937 DUF4212: Domain of unknown function (DUF4212)
Probab=27.06 E-value=1.5e+02 Score=22.68 Aligned_cols=32 Identities=28% Similarity=0.542 Sum_probs=20.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhcccccchhhHH
Q 045467 161 PLWVAFSILIGGLLLDVLISITLGVSALPVNIII 194 (237)
Q Consensus 161 ~l~vi~S~L~~~lfld~ll~~~~G~~alPf~~ii 194 (237)
.+|+++|...+.+|.+.|...++ .++|+++-+
T Consensus 19 ~iW~vvsfg~~~lfa~~Ln~~~~--~GfPlgfw~ 50 (81)
T PF13937_consen 19 AIWFVVSFGVGILFADELNQITF--GGFPLGFWF 50 (81)
T ss_pred HHHHHHHHHHHHHHHHHHcCCee--CCCChHHHH
Confidence 46667776665667788765653 367766544
No 95
>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=26.88 E-value=30 Score=21.03 Aligned_cols=13 Identities=15% Similarity=0.245 Sum_probs=10.3
Q ss_pred CCcccccCccccc
Q 045467 115 GSNKCEICQQVAV 127 (237)
Q Consensus 115 ~~~~CEiCk~~~~ 127 (237)
..+.|+.|+|.|.
T Consensus 13 ~~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 13 SAKFCPHCGYDFE 25 (26)
T ss_pred hcCcCCCCCCCCc
Confidence 3468999999884
No 96
>PLN02400 cellulose synthase
Probab=25.65 E-value=48 Score=36.40 Aligned_cols=53 Identities=23% Similarity=0.460 Sum_probs=33.6
Q ss_pred CCCCceeEeccCC---Cc-cceeccccccCCCcc-ccHHHHHHHHHhcCCcccccCccccccc
Q 045467 72 SSHEQCRVCQQDK---EE-VLIDLGCQCRGGLAK-AHRSCINTWFRTKGSNKCEICQQVAVNV 129 (237)
Q Consensus 72 s~~~~CRIC~~~~---~~-~~l~~PC~CkGsl~~-vH~~CL~~Wl~~s~~~~CEiCk~~~~~v 129 (237)
..+.+|+||-++- .+ ++++ -|+ .-+| |=+.|.+- =+.-|+..|+.||++|+-.
T Consensus 34 ~~gqiCqICGD~VG~t~dGe~FV-AC~---eCaFPVCRpCYEY-ERkeGnq~CPQCkTrYkR~ 91 (1085)
T PLN02400 34 LNGQICQICGDDVGVTETGDVFV-ACN---ECAFPVCRPCYEY-ERKDGTQCCPQCKTRYRRH 91 (1085)
T ss_pred cCCceeeecccccCcCCCCCEEE-EEc---cCCCccccchhhe-ecccCCccCcccCCccccc
Confidence 3567999997763 22 3443 333 1123 66788742 2334889999999999744
No 97
>PRK14401 membrane protein; Provisional
Probab=25.62 E-value=1.2e+02 Score=26.90 Aligned_cols=26 Identities=23% Similarity=0.414 Sum_probs=20.8
Q ss_pred HHHHHH--HHHhcccccchhhHHHHHHH
Q 045467 174 LLDVLI--SITLGVSALPVNIIIGVIVV 199 (237)
Q Consensus 174 fld~ll--~~~~G~~alPf~~iiGllv~ 199 (237)
++-+++ +...|.+++||..+.|.++.
T Consensus 128 ~~~~~~~~~~r~~~~~~p~~~~~~~~~~ 155 (187)
T PRK14401 128 LYRALLWRQRRKGLYPIPFGAVVGYPVG 155 (187)
T ss_pred HHHHHHccccccCCcCCchhhHHHHHHH
Confidence 555666 88899999999998887754
No 98
>CHL00199 infC translation initiation factor 3; Provisional
Probab=25.13 E-value=29 Score=30.47 Aligned_cols=32 Identities=22% Similarity=0.387 Sum_probs=23.5
Q ss_pred hhhhccccccCCCcccCCCCCccceEEEeCCC
Q 045467 12 LEKQGNEQEVDNSADDANSSLRLPTIVISNGE 43 (237)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~n~~ 43 (237)
||+-.++.++.+...-+|+++..+.+-+.+.+
T Consensus 2 ~~~~~~~~~~~~~~~~iNe~I~~~~VrlI~~~ 33 (182)
T CHL00199 2 LEKYKNSKKLSRDLPLINERIRFPKVRVIDDS 33 (182)
T ss_pred chhhhhhhhcccccCCcCcccCCCEEEEECCC
Confidence 56667777777777789999988766666444
No 99
>PF03229 Alpha_GJ: Alphavirus glycoprotein J; InterPro: IPR004913 The exact function of the herpesvirus glycoprotein J is unknown, but it appears to play a role in the inhibition of apotosis of the host cell [].; GO: 0019050 suppression by virus of host apoptosis
Probab=25.01 E-value=1.2e+02 Score=25.21 Aligned_cols=22 Identities=36% Similarity=0.687 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhH
Q 045467 197 IVVLGLGTALRLALEFCREWSLRRV 221 (237)
Q Consensus 197 lv~~~~gt~vr~~l~~~~~w~~~~~ 221 (237)
|.++|++..+| ++||+|--||+
T Consensus 98 LaamGA~~LLr---R~cRr~arrR~ 119 (126)
T PF03229_consen 98 LAAMGAGALLR---RCCRRAARRRQ 119 (126)
T ss_pred HHHHHHHHHHH---HHHHHHHHhhc
Confidence 34666666665 78888877775
No 100
>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=24.12 E-value=31 Score=19.05 Aligned_cols=11 Identities=36% Similarity=0.812 Sum_probs=9.1
Q ss_pred ccccCcccccc
Q 045467 118 KCEICQQVAVN 128 (237)
Q Consensus 118 ~CEiCk~~~~~ 128 (237)
.|+.|+..|..
T Consensus 2 ~C~~C~~~f~~ 12 (23)
T PF00096_consen 2 KCPICGKSFSS 12 (23)
T ss_dssp EETTTTEEESS
T ss_pred CCCCCCCccCC
Confidence 59999998864
No 101
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.90 E-value=52 Score=24.05 Aligned_cols=49 Identities=16% Similarity=0.420 Sum_probs=29.1
Q ss_pred CceeEeccCCCccceeccccccCCCccccHHHHHHHHHhcCCcccccCccccccc
Q 045467 75 EQCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINTWFRTKGSNKCEICQQVAVNV 129 (237)
Q Consensus 75 ~~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~Wl~~s~~~~CEiCk~~~~~v 129 (237)
++|-||++..-+.-+ --|.- -..-..|-.+-.+. ..-+|+||+.+.+.+
T Consensus 8 dECTICye~pvdsVl-YtCGH----MCmCy~Cg~rl~~~-~~g~CPiCRapi~dv 56 (62)
T KOG4172|consen 8 DECTICYEHPVDSVL-YTCGH----MCMCYACGLRLKKA-LHGCCPICRAPIKDV 56 (62)
T ss_pred cceeeeccCcchHHH-HHcch----HHhHHHHHHHHHHc-cCCcCcchhhHHHHH
Confidence 899999987644332 33431 11224565544443 445899999887654
No 102
>COG4890 Predicted outer membrane lipoprotein [Function unknown]
Probab=23.80 E-value=1.9e+02 Score=19.14 Aligned_cols=25 Identities=24% Similarity=0.373 Sum_probs=18.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHH
Q 045467 190 VNIIIGVIVVLGLGTALRLALEFCR 214 (237)
Q Consensus 190 f~~iiGllv~~~~gt~vr~~l~~~~ 214 (237)
|+-++|+++.-.||+.--+.+|.-.
T Consensus 4 FaWiLG~lLAcAFgiinAlwlEh~e 28 (37)
T COG4890 4 FAWILGLLLACAFGIINALWLEHME 28 (37)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6678899988888877666677664
No 103
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.49 E-value=1.4e+02 Score=27.84 Aligned_cols=47 Identities=19% Similarity=0.444 Sum_probs=33.7
Q ss_pred CCCCceeEeccCCCccceeccccccCCCccccHHHHHH-HHHhcCCcccccCccc
Q 045467 72 SSHEQCRVCQQDKEEVLIDLGCQCRGGLAKAHRSCINT-WFRTKGSNKCEICQQV 125 (237)
Q Consensus 72 s~~~~CRIC~~~~~~~~l~~PC~CkGsl~~vH~~CL~~-Wl~~s~~~~CEiCk~~ 125 (237)
.....|-||++..+. +.-+||. +..=-.||.. |-.. ....|++|++.
T Consensus 213 ~~d~kC~lC~e~~~~-ps~t~Cg-----HlFC~~Cl~~~~t~~-k~~~CplCRak 260 (271)
T COG5574 213 LADYKCFLCLEEPEV-PSCTPCG-----HLFCLSCLLISWTKK-KYEFCPLCRAK 260 (271)
T ss_pred ccccceeeeecccCC-ccccccc-----chhhHHHHHHHHHhh-ccccCchhhhh
Confidence 334789999887765 3457887 5677788888 6555 44579999864
No 104
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=22.06 E-value=93 Score=34.16 Aligned_cols=53 Identities=19% Similarity=0.477 Sum_probs=34.6
Q ss_pred CCCCCceeEeccCCC----ccceeccccccCCCcc-ccHHHHHHHHHhcCCcccccCcccccc
Q 045467 71 ASSHEQCRVCQQDKE----EVLIDLGCQCRGGLAK-AHRSCINTWFRTKGSNKCEICQQVAVN 128 (237)
Q Consensus 71 ~s~~~~CRIC~~~~~----~~~l~~PC~CkGsl~~-vH~~CL~~Wl~~s~~~~CEiCk~~~~~ 128 (237)
+-+..+|.||-++-+ .++++ -|+ .-+| |=+.|.+ .=..-|+..|..||++|+-
T Consensus 12 ~~~~~~c~iCGd~vg~~~~Ge~FV-AC~---eC~fpvCr~cye-ye~~~g~~~cp~c~t~y~~ 69 (1044)
T PLN02915 12 SADAKTCRVCGDEVGVKEDGQPFV-ACH---VCGFPVCKPCYE-YERSEGNQCCPQCNTRYKR 69 (1044)
T ss_pred CCCcchhhccccccCcCCCCCEEE-Eec---cCCCccccchhh-hhhhcCCccCCccCCchhh
Confidence 346789999977632 23443 333 1123 7788984 3344488999999999974
No 105
>PF13779 DUF4175: Domain of unknown function (DUF4175)
Probab=21.34 E-value=3.2e+02 Score=29.32 Aligned_cols=45 Identities=20% Similarity=0.335 Sum_probs=22.3
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHH-hhhhhhH-HhhhhccCCC
Q 045467 187 ALPVNIIIGVIVVLGLGTALRLALEFCR-EWSLRRV-VQRVETNVNL 231 (237)
Q Consensus 187 alPf~~iiGllv~~~~gt~vr~~l~~~~-~w~~~~~-i~~~~~~~~~ 231 (237)
.+|++..+++++.+.++.++.++..+++ +|-++.. +.+++..+-+
T Consensus 28 ~lp~~~~~~~l~~~~~a~~~al~~~lrrfr~Pt~~ea~~RLe~~sgL 74 (820)
T PF13779_consen 28 LLPDWLRWALLAAFAAAALAALVRGLRRFRWPTRAEALRRLERASGL 74 (820)
T ss_pred hccHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHhhhccc
Confidence 5777666666665555544444333331 4444333 3555544333
No 106
>PF11286 DUF3087: Protein of unknown function (DUF3087); InterPro: IPR021438 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=20.10 E-value=3.8e+02 Score=23.30 Aligned_cols=14 Identities=21% Similarity=0.565 Sum_probs=9.0
Q ss_pred HHHHHHhhhhhhHH
Q 045467 209 ALEFCREWSLRRVV 222 (237)
Q Consensus 209 ~l~~~~~w~~~~~i 222 (237)
.-|-..-|++++..
T Consensus 76 m~Ev~YvW~LKq~l 89 (165)
T PF11286_consen 76 MTEVYYVWQLKQLL 89 (165)
T ss_pred HHHHHHHHHHHHHH
Confidence 44555678887763
Done!