Query 023293
Match_columns 284
No_of_seqs 229 out of 793
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 02:56:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023293.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023293hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12428 DUF3675: Protein of u 100.0 4.3E-43 9.4E-48 291.1 8.7 117 116-234 1-118 (118)
2 KOG1609 Protein involved in mR 99.8 4.4E-22 9.5E-27 181.0 -0.2 200 60-260 76-283 (323)
3 PHA02825 LAP/PHD finger-like p 99.8 2.9E-20 6.3E-25 161.5 4.6 80 58-152 4-83 (162)
4 smart00744 RINGv The RING-vari 99.7 1.6E-17 3.5E-22 118.5 3.3 48 64-111 1-49 (49)
5 PHA02862 5L protein; Provision 99.7 3.1E-17 6.7E-22 141.1 4.4 54 63-118 3-56 (156)
6 PF12906 RINGv: RING-variant d 99.6 2.3E-17 5E-22 116.8 0.5 46 65-110 1-47 (47)
7 COG5183 SSM4 Protein involved 99.5 1.2E-14 2.5E-19 150.5 5.3 65 63-127 13-81 (1175)
8 KOG3053 Uncharacterized conser 99.4 5.7E-14 1.2E-18 130.4 4.4 61 61-121 19-88 (293)
9 PF13639 zf-RING_2: Ring finge 97.1 0.00012 2.7E-09 50.0 0.2 41 64-111 2-44 (44)
10 PLN03208 E3 ubiquitin-protein 96.4 0.0042 9E-08 56.4 4.2 50 60-115 16-79 (193)
11 PF11793 FANCL_C: FANCL C-term 95.9 0.0018 3.9E-08 49.2 -0.1 53 62-117 2-68 (70)
12 PHA02929 N1R/p28-like protein; 95.5 0.012 2.6E-07 54.8 3.3 49 61-116 173-228 (238)
13 cd00162 RING RING-finger (Real 95.4 0.014 3.1E-07 37.7 2.6 44 64-113 1-44 (45)
14 KOG4628 Predicted E3 ubiquitin 95.2 0.021 4.5E-07 56.0 4.1 48 63-116 230-279 (348)
15 PF12861 zf-Apc11: Anaphase-pr 94.4 0.033 7.2E-07 44.7 2.8 34 81-117 50-84 (85)
16 smart00184 RING Ring finger. E 94.3 0.046 9.9E-07 34.0 2.7 39 65-110 1-39 (39)
17 COG5243 HRD1 HRD ubiquitin lig 94.2 0.067 1.5E-06 53.4 4.9 55 60-121 285-351 (491)
18 PF00097 zf-C3HC4: Zinc finger 94.0 0.029 6.2E-07 37.3 1.3 41 65-110 1-41 (41)
19 COG5540 RING-finger-containing 93.4 0.066 1.4E-06 52.1 3.2 49 61-115 322-372 (374)
20 PF12678 zf-rbx1: RING-H2 zinc 92.9 0.058 1.3E-06 41.2 1.6 22 88-111 52-73 (73)
21 PF13920 zf-C3HC4_3: Zinc fing 92.5 0.073 1.6E-06 37.2 1.6 46 63-115 3-48 (50)
22 KOG0802 E3 ubiquitin ligase [P 91.4 0.13 2.9E-06 52.3 2.7 47 61-114 290-340 (543)
23 smart00504 Ubox Modified RING 91.4 0.21 4.6E-06 35.6 3.0 44 64-115 3-46 (63)
24 KOG0827 Predicted E3 ubiquitin 90.1 0.26 5.6E-06 49.4 3.2 48 61-111 3-52 (465)
25 PHA02926 zinc finger-like prot 90.1 0.33 7.2E-06 45.5 3.8 52 61-117 169-232 (242)
26 COG5219 Uncharacterized conser 90.0 0.16 3.4E-06 55.8 1.8 55 58-115 1465-1523(1525)
27 KOG0317 Predicted E3 ubiquitin 87.3 0.86 1.9E-05 43.9 4.6 49 61-117 238-286 (293)
28 PF13923 zf-C3HC4_2: Zinc fing 86.7 0.27 6E-06 32.7 0.7 38 65-110 1-39 (39)
29 KOG1493 Anaphase-promoting com 85.6 0.32 7E-06 38.8 0.6 49 64-116 22-82 (84)
30 PF05883 Baculo_RING: Baculovi 85.4 0.44 9.6E-06 41.2 1.4 41 62-102 26-69 (134)
31 PF05290 Baculo_IE-1: Baculovi 83.6 0.87 1.9E-05 39.6 2.4 55 61-116 79-133 (140)
32 KOG0823 Predicted E3 ubiquitin 83.1 1.1 2.5E-05 41.8 3.2 50 60-115 45-95 (230)
33 PF14570 zf-RING_4: RING/Ubox 83.0 0.83 1.8E-05 33.1 1.8 45 65-115 1-48 (48)
34 PLN02189 cellulose synthase 82.7 1 2.2E-05 49.9 3.1 54 61-118 33-90 (1040)
35 KOG0828 Predicted E3 ubiquitin 82.6 1.1 2.4E-05 46.3 3.1 51 59-115 568-634 (636)
36 PF06210 DUF1003: Protein of u 79.7 13 0.00029 30.8 8.0 48 183-230 6-56 (108)
37 PLN02436 cellulose synthase A 79.6 1.4 3.1E-05 48.9 2.9 54 61-118 35-92 (1094)
38 PF14634 zf-RING_5: zinc-RING 79.2 1.6 3.6E-05 29.8 2.2 42 64-112 1-44 (44)
39 TIGR00599 rad18 DNA repair pro 79.0 1.5 3.3E-05 43.8 2.7 47 61-115 25-71 (397)
40 KOG0804 Cytoplasmic Zn-finger 75.2 1.5 3.3E-05 44.7 1.5 49 57-112 170-219 (493)
41 COG5194 APC11 Component of SCF 74.9 2.2 4.9E-05 34.4 2.1 27 88-116 56-82 (88)
42 PLN02638 cellulose synthase A 71.8 4.7 0.0001 45.0 4.3 58 61-121 16-76 (1079)
43 KOG1785 Tyrosine kinase negati 66.5 2.6 5.7E-05 42.8 1.0 48 62-115 369-416 (563)
44 COG4420 Predicted membrane pro 62.4 18 0.00039 33.2 5.4 49 182-230 59-110 (191)
45 KOG0825 PHD Zn-finger protein 59.4 12 0.00025 41.2 4.2 26 88-115 146-171 (1134)
46 KOG1645 RING-finger-containing 58.2 7.1 0.00015 39.7 2.3 48 63-114 5-55 (463)
47 PF08746 zf-RING-like: RING-li 55.5 6.7 0.00015 27.3 1.2 21 90-110 23-43 (43)
48 PLN02915 cellulose synthase A 54.9 13 0.00028 41.7 3.7 56 60-118 13-71 (1044)
49 PLN02195 cellulose synthase A 53.8 11 0.00023 41.9 3.0 52 61-115 5-59 (977)
50 PF10272 Tmpp129: Putative tra 52.2 14 0.00031 36.6 3.3 35 78-115 306-351 (358)
51 KOG2930 SCF ubiquitin ligase, 51.9 10 0.00022 32.0 1.9 27 88-116 83-109 (114)
52 PLN02400 cellulose synthase 50.6 11 0.00023 42.4 2.3 55 61-118 35-92 (1085)
53 KOG4265 Predicted E3 ubiquitin 47.1 26 0.00056 34.8 4.2 45 60-115 288-336 (349)
54 PF14569 zf-UDP: Zinc-binding 44.7 23 0.00049 28.4 2.7 57 60-119 7-66 (80)
55 KOG2177 Predicted E3 ubiquitin 38.6 14 0.00031 31.4 0.9 44 61-112 12-55 (386)
56 PF12273 RCR: Chitin synthesis 37.3 36 0.00078 28.3 3.0 31 222-252 8-38 (130)
57 PF05191 ADK_lid: Adenylate ki 37.0 16 0.00036 24.6 0.8 19 105-123 2-20 (36)
58 KOG1952 Transcription factor N 36.1 26 0.00057 38.6 2.5 52 60-115 189-247 (950)
59 PF10367 Vps39_2: Vacuolar sor 34.6 12 0.00027 28.8 -0.1 32 61-97 77-109 (109)
60 KOG4445 Uncharacterized conser 31.8 45 0.00098 33.0 3.1 52 61-117 114-188 (368)
61 KOG1734 Predicted RING-contain 31.8 21 0.00045 34.8 0.8 29 88-116 254-282 (328)
62 COG5175 MOT2 Transcriptional r 31.5 41 0.00089 33.9 2.8 64 64-133 16-82 (480)
63 PF09607 BrkDBD: Brinker DNA-b 30.8 26 0.00055 26.5 1.0 13 90-102 37-49 (58)
64 PF07800 DUF1644: Protein of u 30.5 74 0.0016 28.6 4.0 38 63-102 3-49 (162)
65 PF13894 zf-C2H2_4: C2H2-type 28.2 24 0.00051 19.7 0.4 11 106-116 2-12 (24)
66 PF11874 DUF3394: Domain of un 27.6 28 0.00061 31.6 0.9 21 223-243 162-182 (183)
67 KOG1002 Nucleotide excision re 27.6 40 0.00087 35.8 2.1 56 61-122 535-593 (791)
68 COG2322 Predicted membrane pro 27.6 1.9E+02 0.0041 26.4 6.1 55 182-236 84-144 (177)
69 PF00301 Rubredoxin: Rubredoxi 25.9 34 0.00074 24.5 0.9 34 105-138 2-36 (47)
70 KOG0955 PHD finger protein BR1 25.7 17 0.00038 40.7 -0.9 49 63-113 220-269 (1051)
71 KOG0956 PHD finger protein AF1 24.5 40 0.00086 36.7 1.5 59 63-121 118-188 (900)
72 PF15227 zf-C3HC4_4: zinc fing 24.1 49 0.0011 22.6 1.4 40 65-110 1-42 (42)
73 COG5236 Uncharacterized conser 23.9 1E+02 0.0022 31.3 4.1 47 64-116 63-109 (493)
74 TIGR00570 cdk7 CDK-activating 23.3 81 0.0018 30.9 3.2 49 63-117 4-56 (309)
75 cd00730 rubredoxin Rubredoxin; 22.9 64 0.0014 23.3 1.9 17 105-121 2-18 (50)
76 PF00096 zf-C2H2: Zinc finger, 22.5 34 0.00074 19.6 0.3 11 106-116 2-12 (23)
77 PF09630 DUF2024: Domain of un 22.3 43 0.00094 26.9 1.0 17 56-72 46-62 (81)
78 PF09788 Tmemb_55A: Transmembr 22.0 77 0.0017 30.4 2.7 60 175-234 189-249 (256)
79 PF04564 U-box: U-box domain; 21.3 73 0.0016 23.9 2.0 45 64-115 6-50 (73)
80 COG1983 PspC Putative stress-r 21.3 1E+02 0.0022 24.1 2.7 15 219-233 45-59 (70)
81 smart00249 PHD PHD zinc finger 20.6 32 0.00069 22.0 -0.1 29 65-96 2-30 (47)
No 1
>PF12428 DUF3675: Protein of unknown function (DUF3675) ; InterPro: IPR022143 This domain family is found in eukaryotes, and is approximately 120 amino acids in length. The family is found in association with PF00097 from PFAM. There are two completely conserved residues (R and L) that may be functionally important.
Probab=100.00 E-value=4.3e-43 Score=291.09 Aligned_cols=117 Identities=66% Similarity=1.020 Sum_probs=112.3
Q ss_pred cccCCCCCCC-cchhhhhcccceeeeCccCCCCChHHHHHHHHHHhhhhcccccccccCCCcceehHHHHHHHHHHHHHH
Q 023293 116 PNYTAPPPPR-LEETAIEIGGGWTISGTPLDLRDPRLLAIAEAERQFLEAEYDEYDASNASGSAFCRSAALILMALLLLR 194 (284)
Q Consensus 116 ~~yt~ppp~~-~~~~~i~i~~~w~i~g~~ldl~~pr~l~~~~~e~~~~e~~~~~y~~~~~~~a~~CRs~ali~m~lLlLR 194 (284)
++||+|||+. ++++.|+|+++|++ +++|++||++++|+++|++|+|+||+||+.+|++|++||||+|||||+|||||
T Consensus 1 PgYTaPp~~~~~~~~~i~ir~~we~--~~~d~~~~~~~a~~~ae~~~l~~~y~e~~~~~~~~a~~CRsvAli~m~LLllR 78 (118)
T PF12428_consen 1 PGYTAPPKKFQPGETAIDIRGNWEI--SRRDLRDPRFLAMAAAERQFLESEYDEYAASNTRGAACCRSVALIFMVLLLLR 78 (118)
T ss_pred CCCCCCCCCCCcCccceEecCCccc--cccCccchhhhhhhhhhhhccccccccccccCCCceeHHHHHHHHHHHHHHHH
Confidence 6899999988 78899999999994 46899999999999999999999999999999999999999999999999999
Q ss_pred HHccccCCCCCCchHHHHHHHHHHHhhhhhHHHHHHHHHH
Q 023293 195 HALAIPDADGEDDVSTFFSLFLLRAAGFLLPCYIMAWAIN 234 (284)
Q Consensus 195 h~l~~~~~~~e~~~~~~~tl~llRaaGillP~Yi~~~~i~ 234 (284)
|+++++++|+|+|+|++||+++||++|||||||||+|+|+
T Consensus 79 hal~l~~~~~~~~s~~lftl~~LRaaGilLP~Yim~rais 118 (118)
T PF12428_consen 79 HALALVTGGAEDYSFTLFTLLLLRAAGILLPCYIMARAIS 118 (118)
T ss_pred HHHHHhcCCcccccHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 9999999999999999999999999999999999999974
No 2
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=99.83 E-value=4.4e-22 Score=180.96 Aligned_cols=200 Identities=32% Similarity=0.327 Sum_probs=158.1
Q ss_pred CCCCceeEeccCCCCC---CcccccccCCCcccchHHHHHHHHHhcCCccccccccccccccCCCCCCC-cchhhhhccc
Q 023293 60 LQVGECRICQEEDSIN---NLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYKPNYTAPPPPR-LEETAIEIGG 135 (284)
Q Consensus 60 ~~~~~CRIC~eed~~~---~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~~~yt~ppp~~-~~~~~i~i~~ 135 (284)
.....||||+++++.. .++.||.|+|+++|||+.|+++|+..|++..||+|++.|...++.+++.. .....+...+
T Consensus 76 ~~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~~~~~~~~~~~~~~~~~~~~ 155 (323)
T KOG1609|consen 76 SSGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINVGTKLKPLIVISKVRSGALS 155 (323)
T ss_pred CCCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceecceeecceeehhhhhhHhhh
Confidence 4468999999876432 69999999999999999999999999999999999999999887776666 3344455566
Q ss_pred ceeeeCccCCCCChHHHHHHHHHHhhhhcccccccccCCCcceehHHHH-HHHHHHHHHHHHccccCCC---CCCchHHH
Q 023293 136 GWTISGTPLDLRDPRLLAIAEAERQFLEAEYDEYDASNASGSAFCRSAA-LILMALLLLRHALAIPDAD---GEDDVSTF 211 (284)
Q Consensus 136 ~w~i~g~~ldl~~pr~l~~~~~e~~~~e~~~~~y~~~~~~~a~~CRs~a-li~m~lLlLRh~l~~~~~~---~e~~~~~~ 211 (284)
.|.+.+. ..++++..+.+....+.++...+.++....+.++.+++.++ +.+.++.++++.+...... ...+.++.
T Consensus 156 ~~~~~~~-~~~~~~~~~~i~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~ 234 (323)
T KOG1609|consen 156 ERTLSGM-ILLKVALLVAIIVSVLPLLLGLLFELVLGVPSLVVESPLANPLALVALGLLGFKIWIFIILSGYIFILKSLK 234 (323)
T ss_pred heeeehh-hhhhhhhhheeeEEeehhhhhhhHHHhccccccccCCCccCchhheeecceechHHHHHHHHHHHHHHHHHH
Confidence 7766654 45667777777666777888888888877777788888888 7888888888888765553 24667777
Q ss_pred HHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhccceeeeeecC
Q 023293 212 FSLFLLRAAGFLLPCYIMAWAINILQRRRQRQEAAALAATQVAFVLQSG 260 (284)
Q Consensus 212 ~tl~llRaaGillP~Yi~~~~i~~~q~~r~~q~~~~~~a~~~~~~~~~~ 260 (284)
+.+.++|+.+++++.+++++++...|.++++..+...+...+.+...++
T Consensus 235 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 283 (323)
T KOG1609|consen 235 VKLVLIRAVIFLLLIKVVLAAVVILQLLLQRLVGYLLANSLTPLYIVSL 283 (323)
T ss_pred HHHhHhhhhccchhhhhhhhhHHHHHHHHhcceeEEEecccceeeeccc
Confidence 7889999999999999998777778888888887666666666666553
No 3
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=99.80 E-value=2.9e-20 Score=161.52 Aligned_cols=80 Identities=25% Similarity=0.551 Sum_probs=63.0
Q ss_pred CCCCCCceeEeccCCCCCCcccccccCCCcccchHHHHHHHHHhcCCccccccccccccccCCCCCCCcchhhhhcccce
Q 023293 58 PLLQVGECRICQEEDSINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYKPNYTAPPPPRLEETAIEIGGGW 137 (284)
Q Consensus 58 ~~~~~~~CRIC~eed~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~~~yt~ppp~~~~~~~i~i~~~w 137 (284)
.+...+.||||+++++ .+.+||+|+||+||||++||++|++.+++..||+|+++|+......|.. .|
T Consensus 4 ~s~~~~~CRIC~~~~~--~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~~~~kpl~-----------~W 70 (162)
T PHA02825 4 VSLMDKCCWICKDEYD--VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIKKNYKKCT-----------KW 70 (162)
T ss_pred cCCCCCeeEecCCCCC--CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEEEecCCCc-----------cc
Confidence 3455679999998864 4679999999999999999999999999999999999999875544333 47
Q ss_pred eeeCccCCCCChHHH
Q 023293 138 TISGTPLDLRDPRLL 152 (284)
Q Consensus 138 ~i~g~~ldl~~pr~l 152 (284)
..+. .|-+++.++
T Consensus 71 ~~~~--~dc~~~~l~ 83 (162)
T PHA02825 71 RCSF--RDCHDSAIV 83 (162)
T ss_pred cccC--cchhhHHHH
Confidence 6553 455555544
No 4
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=99.68 E-value=1.6e-17 Score=118.51 Aligned_cols=48 Identities=52% Similarity=1.225 Sum_probs=44.5
Q ss_pred ceeEecc-CCCCCCcccccccCCCcccchHHHHHHHHHhcCCccccccc
Q 023293 64 ECRICQE-EDSINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICH 111 (284)
Q Consensus 64 ~CRIC~e-ed~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk 111 (284)
+||||++ ++++++|+.||.|+|+++|||+.||++|+.++++.+||+|+
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 5999998 45577899999999999999999999999999999999996
No 5
>PHA02862 5L protein; Provisional
Probab=99.67 E-value=3.1e-17 Score=141.12 Aligned_cols=54 Identities=28% Similarity=0.670 Sum_probs=48.9
Q ss_pred CceeEeccCCCCCCcccccccCCCcccchHHHHHHHHHhcCCcccccccccccccc
Q 023293 63 GECRICQEEDSINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYKPNY 118 (284)
Q Consensus 63 ~~CRIC~eed~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~~~y 118 (284)
..||||++++++. .+||+|+||+||||++||++|++.+++..||+|+++|..+.
T Consensus 3 diCWIC~~~~~e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~ 56 (156)
T PHA02862 3 DICWICNDVCDER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKK 56 (156)
T ss_pred CEEEEecCcCCCC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEE
Confidence 4899999986543 69999999999999999999999999999999999998643
No 6
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=99.64 E-value=2.3e-17 Score=116.81 Aligned_cols=46 Identities=50% Similarity=1.225 Sum_probs=37.4
Q ss_pred eeEeccCCCC-CCcccccccCCCcccchHHHHHHHHHhcCCcccccc
Q 023293 65 CRICQEEDSI-NNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEIC 110 (284)
Q Consensus 65 CRIC~eed~~-~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEIC 110 (284)
||||++++++ ++|++||.|+||++|||++||++|+..+++.+||+|
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 8999987653 469999999999999999999999999999999998
No 7
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=99.51 E-value=1.2e-14 Score=150.47 Aligned_cols=65 Identities=43% Similarity=0.902 Sum_probs=57.8
Q ss_pred CceeEeccCC-CCCCcccccccCCCcccchHHHHHHHHHhcCCcccccccccccc--ccCCCCCCC-cc
Q 023293 63 GECRICQEED-SINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYKP--NYTAPPPPR-LE 127 (284)
Q Consensus 63 ~~CRIC~eed-~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~~--~yt~ppp~~-~~ 127 (284)
..||||+.|+ ++++|-+||+|+||+||+|+.||..|...+++++|||||++|+. .|...+|.. |.
T Consensus 13 ~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY~e~mP~~IPf 81 (1175)
T COG5183 13 RSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIYKEDMPQIIPF 81 (1175)
T ss_pred hhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeecccCCCcccce
Confidence 4899999776 68899999999999999999999999999999999999999765 587777766 43
No 8
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.44 E-value=5.7e-14 Score=130.45 Aligned_cols=61 Identities=30% Similarity=0.740 Sum_probs=52.8
Q ss_pred CCCceeEeccCCCCC---CcccccccCCCcccchHHHHHHHHHhcC------CccccccccccccccCCC
Q 023293 61 QVGECRICQEEDSIN---NLETPCACSGSLKYAHRKCVQHWCNEKG------DITCEICHQQYKPNYTAP 121 (284)
Q Consensus 61 ~~~~CRIC~eed~~~---~Li~PC~CkGSlkyVH~~CL~rW~~~k~------~~~CEICk~~Y~~~yt~p 121 (284)
.++.||||+..|+++ .+++||.|+|+.||||+.||.+|+.+|. ...|..|+++|.+.|+.-
T Consensus 19 ~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv~P~l 88 (293)
T KOG3053|consen 19 LERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIVFPQL 88 (293)
T ss_pred cceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheeecccc
Confidence 356999999877665 3899999999999999999999999883 589999999999988643
No 9
>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=97.12 E-value=0.00012 Score=49.97 Aligned_cols=41 Identities=34% Similarity=0.913 Sum_probs=30.6
Q ss_pred ceeEeccCC--CCCCcccccccCCCcccchHHHHHHHHHhcCCccccccc
Q 023293 64 ECRICQEED--SINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICH 111 (284)
Q Consensus 64 ~CRIC~eed--~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk 111 (284)
.|-||+++- ++.....| |. ...|.+|+++|++.+ .+|++|+
T Consensus 2 ~C~IC~~~~~~~~~~~~l~--C~---H~fh~~Ci~~~~~~~--~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLP--CG---HVFHRSCIKEWLKRN--NSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEET--TS---EEEEHHHHHHHHHHS--SB-TTTH
T ss_pred CCcCCChhhcCCCeEEEcc--CC---CeeCHHHHHHHHHhC--CcCCccC
Confidence 689999874 33344556 43 789999999999885 4999995
No 10
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=96.36 E-value=0.0042 Score=56.35 Aligned_cols=50 Identities=18% Similarity=0.521 Sum_probs=37.8
Q ss_pred CCCCceeEeccCCCCCCcccccccCCCcccchHHHHHHHHHh--------------cCCccccccccccc
Q 023293 60 LQVGECRICQEEDSINNLETPCACSGSLKYAHRKCVQHWCNE--------------KGDITCEICHQQYK 115 (284)
Q Consensus 60 ~~~~~CRIC~eed~~~~Li~PC~CkGSlkyVH~~CL~rW~~~--------------k~~~~CEICk~~Y~ 115 (284)
.+.-.|-||++... .+.+++|. ......||.+|+.. ++...|.+|+..+.
T Consensus 16 ~~~~~CpICld~~~-dPVvT~CG-----H~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is 79 (193)
T PLN03208 16 GGDFDCNICLDQVR-DPVVTLCG-----HLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS 79 (193)
T ss_pred CCccCCccCCCcCC-CcEEcCCC-----chhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence 34568999998653 46778763 56789999999863 23568999999864
No 11
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=95.95 E-value=0.0018 Score=49.25 Aligned_cols=53 Identities=21% Similarity=0.338 Sum_probs=25.5
Q ss_pred CCceeEeccCC--CCCCcc---cccccCCCcccchHHHHHHHHHhc--C-------Cccccccccccccc
Q 023293 62 VGECRICQEED--SINNLE---TPCACSGSLKYAHRKCVQHWCNEK--G-------DITCEICHQQYKPN 117 (284)
Q Consensus 62 ~~~CRIC~eed--~~~~Li---~PC~CkGSlkyVH~~CL~rW~~~k--~-------~~~CEICk~~Y~~~ 117 (284)
...|.||++.. .+.... ..+.|. +..|..||.+|+... + ...|+.|+.+.+..
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~---~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~ 68 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCG---KKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS 68 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT-------B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccC---CHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence 45899999742 222222 335777 789999999999753 1 24699999987654
No 12
>PHA02929 N1R/p28-like protein; Provisional
Probab=95.48 E-value=0.012 Score=54.77 Aligned_cols=49 Identities=24% Similarity=0.615 Sum_probs=35.7
Q ss_pred CCCceeEeccCCCCC-------CcccccccCCCcccchHHHHHHHHHhcCCcccccccccccc
Q 023293 61 QVGECRICQEEDSIN-------NLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYKP 116 (284)
Q Consensus 61 ~~~~CRIC~eed~~~-------~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~~ 116 (284)
...+|-||+++-.+. ....+| . ...|..|+.+|+.. ...|++|+..+..
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C--~---H~FC~~CI~~Wl~~--~~tCPlCR~~~~~ 228 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNC--N---HVFCIECIDIWKKE--KNTCPVCRTPFIS 228 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCC--C---CcccHHHHHHHHhc--CCCCCCCCCEeeE
Confidence 346999999863221 133455 3 67999999999864 4589999998864
No 13
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=95.40 E-value=0.014 Score=37.69 Aligned_cols=44 Identities=34% Similarity=0.796 Sum_probs=32.0
Q ss_pred ceeEeccCCCCCCcccccccCCCcccchHHHHHHHHHhcCCccccccccc
Q 023293 64 ECRICQEEDSINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQ 113 (284)
Q Consensus 64 ~CRIC~eed~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~ 113 (284)
.|-||++.........||. ...|..|+.+|+.. +...|.+|+..
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 4788987653333445553 45899999999986 67789999875
No 14
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.20 E-value=0.021 Score=55.97 Aligned_cols=48 Identities=23% Similarity=0.666 Sum_probs=38.0
Q ss_pred CceeEeccCCCCC--CcccccccCCCcccchHHHHHHHHHhcCCcccccccccccc
Q 023293 63 GECRICQEEDSIN--NLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYKP 116 (284)
Q Consensus 63 ~~CRIC~eed~~~--~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~~ 116 (284)
..|=||+|+...+ --+.||+ ..-|..|+..|+... .+.|++||+.-..
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~-----H~FH~~CIDpWL~~~-r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCS-----HKFHVNCIDPWLTQT-RTFCPVCKRDIRT 279 (348)
T ss_pred ceEEEeecccccCCeeeEecCC-----CchhhccchhhHhhc-CccCCCCCCcCCC
Confidence 7999999986433 2368875 568999999999887 6679999996543
No 15
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=94.43 E-value=0.033 Score=44.66 Aligned_cols=34 Identities=26% Similarity=0.691 Sum_probs=28.1
Q ss_pred cccCCCcccchHHHHHHHHHhc-CCccccccccccccc
Q 023293 81 CACSGSLKYAHRKCVQHWCNEK-GDITCEICHQQYKPN 117 (284)
Q Consensus 81 C~CkGSlkyVH~~CL~rW~~~k-~~~~CEICk~~Y~~~ 117 (284)
+.|+ .-.|..||.+|++.. .+..|.+|+++|+.+
T Consensus 50 g~C~---H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 50 GKCS---HNFHMHCILKWLSTQSSKGQCPMCRQPWKFK 84 (85)
T ss_pred ccCc---cHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence 4566 679999999999864 578999999998753
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=94.30 E-value=0.046 Score=33.97 Aligned_cols=39 Identities=38% Similarity=0.958 Sum_probs=28.3
Q ss_pred eeEeccCCCCCCcccccccCCCcccchHHHHHHHHHhcCCcccccc
Q 023293 65 CRICQEEDSINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEIC 110 (284)
Q Consensus 65 CRIC~eed~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEIC 110 (284)
|.||++. .......||. ...|..|+.+|++ ++...|.+|
T Consensus 1 C~iC~~~-~~~~~~~~C~-----H~~c~~C~~~~~~-~~~~~CP~C 39 (39)
T smart00184 1 CPICLEE-LKDPVVLPCG-----HTFCRSCIRKWLK-SGNNTCPIC 39 (39)
T ss_pred CCcCccC-CCCcEEecCC-----ChHHHHHHHHHHH-hCcCCCCCC
Confidence 6788877 3355667754 3479999999998 556678776
No 17
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=94.19 E-value=0.067 Score=53.35 Aligned_cols=55 Identities=25% Similarity=0.617 Sum_probs=39.0
Q ss_pred CCCCceeEeccCC--CC----------CCcccccccCCCcccchHHHHHHHHHhcCCccccccccccccccCCC
Q 023293 60 LQVGECRICQEED--SI----------NNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYKPNYTAP 121 (284)
Q Consensus 60 ~~~~~CRIC~eed--~~----------~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~~~yt~p 121 (284)
.....|-||.+|- ++ .+-..||. ...|-.||+.|+.. ..+|+||+.+....-..|
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCG-----HilHl~CLknW~ER--qQTCPICr~p~ifd~~~~ 351 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCG-----HILHLHCLKNWLER--QQTCPICRRPVIFDQSSP 351 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCccccccc-----ceeeHHHHHHHHHh--ccCCCcccCccccccCCC
Confidence 4456999999871 11 23456775 57899999999975 467999999855444433
No 18
>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=93.96 E-value=0.029 Score=37.32 Aligned_cols=41 Identities=29% Similarity=0.818 Sum_probs=32.8
Q ss_pred eeEeccCCCCCCcccccccCCCcccchHHHHHHHHHhcCCcccccc
Q 023293 65 CRICQEEDSINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEIC 110 (284)
Q Consensus 65 CRIC~eed~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEIC 110 (284)
|.||++...+.....||. ......|+.+|++.++...|.+|
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 678888765544478874 56999999999998888889887
No 19
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.40 E-value=0.066 Score=52.15 Aligned_cols=49 Identities=24% Similarity=0.500 Sum_probs=37.7
Q ss_pred CCCceeEeccCC--CCCCcccccccCCCcccchHHHHHHHHHhcCCccccccccccc
Q 023293 61 QVGECRICQEED--SINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYK 115 (284)
Q Consensus 61 ~~~~CRIC~eed--~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~ 115 (284)
...+|-||.+.. .+.-++.||+ .-.|..|+.+|+..- ..+|++|+.+..
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~-----H~FH~~Cv~kW~~~y-~~~CPvCrt~iP 372 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCD-----HRFHVGCVDKWLLGY-SNKCPVCRTAIP 372 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccC-----ceechhHHHHHHhhh-cccCCccCCCCC
Confidence 458999999864 3446789986 458999999999732 347999997653
No 20
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=92.91 E-value=0.058 Score=41.15 Aligned_cols=22 Identities=27% Similarity=0.936 Sum_probs=17.9
Q ss_pred ccchHHHHHHHHHhcCCccccccc
Q 023293 88 KYAHRKCVQHWCNEKGDITCEICH 111 (284)
Q Consensus 88 kyVH~~CL~rW~~~k~~~~CEICk 111 (284)
..-|..||.+|++.+. .|++|+
T Consensus 52 H~FH~~Ci~~Wl~~~~--~CP~CR 73 (73)
T PF12678_consen 52 HIFHFHCISQWLKQNN--TCPLCR 73 (73)
T ss_dssp EEEEHHHHHHHHTTSS--B-TTSS
T ss_pred CCEEHHHHHHHHhcCC--cCCCCC
Confidence 6799999999996655 999995
No 21
>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=92.49 E-value=0.073 Score=37.20 Aligned_cols=46 Identities=26% Similarity=0.590 Sum_probs=35.1
Q ss_pred CceeEeccCCCCCCcccccccCCCcccchHHHHHHHHHhcCCccccccccccc
Q 023293 63 GECRICQEEDSINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYK 115 (284)
Q Consensus 63 ~~CRIC~eed~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~ 115 (284)
..|.||++... +.+..||+=. .+-..|+.+|.+ ....|.+|+.+++
T Consensus 3 ~~C~iC~~~~~-~~~~~pCgH~----~~C~~C~~~~~~--~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 3 EECPICFENPR-DVVLLPCGHL----CFCEECAERLLK--RKKKCPICRQPIE 48 (50)
T ss_dssp SB-TTTSSSBS-SEEEETTCEE----EEEHHHHHHHHH--TTSBBTTTTBB-S
T ss_pred CCCccCCccCC-ceEEeCCCCh----HHHHHHhHHhcc--cCCCCCcCChhhc
Confidence 37999998754 4678898621 378899999998 8889999999875
No 22
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.42 E-value=0.13 Score=52.30 Aligned_cols=47 Identities=28% Similarity=0.633 Sum_probs=36.3
Q ss_pred CCCceeEeccCCCCC----CcccccccCCCcccchHHHHHHHHHhcCCcccccccccc
Q 023293 61 QVGECRICQEEDSIN----NLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQY 114 (284)
Q Consensus 61 ~~~~CRIC~eed~~~----~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y 114 (284)
....|.||.|+-... +-..||. ...|..||++|++. ...|.+|+..+
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~-----Hifh~~CL~~W~er--~qtCP~CR~~~ 340 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCG-----HIFHDSCLRSWFER--QQTCPTCRTVL 340 (543)
T ss_pred cCCeeeeechhhccccccccceeecc-----cchHHHHHHHHHHH--hCcCCcchhhh
Confidence 345999999874322 4566764 67999999999987 77899999943
No 23
>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=91.38 E-value=0.21 Score=35.59 Aligned_cols=44 Identities=18% Similarity=0.274 Sum_probs=34.7
Q ss_pred ceeEeccCCCCCCcccccccCCCcccchHHHHHHHHHhcCCccccccccccc
Q 023293 64 ECRICQEEDSINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYK 115 (284)
Q Consensus 64 ~CRIC~eed~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~ 115 (284)
.|.||.+--. +++..||. ...-+.|+.+|++. ...|.+|+..+.
T Consensus 3 ~Cpi~~~~~~-~Pv~~~~G-----~v~~~~~i~~~~~~--~~~cP~~~~~~~ 46 (63)
T smart00504 3 LCPISLEVMK-DPVILPSG-----QTYERRAIEKWLLS--HGTDPVTGQPLT 46 (63)
T ss_pred CCcCCCCcCC-CCEECCCC-----CEEeHHHHHHHHHH--CCCCCCCcCCCC
Confidence 5889987644 36778873 56899999999987 568999998874
No 24
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.14 E-value=0.26 Score=49.43 Aligned_cols=48 Identities=25% Similarity=0.690 Sum_probs=33.2
Q ss_pred CCCceeEeccCCCCCCcccccc-cCCCcccchHHHHHHHHHhcCC-ccccccc
Q 023293 61 QVGECRICQEEDSINNLETPCA-CSGSLKYAHRKCVQHWCNEKGD-ITCEICH 111 (284)
Q Consensus 61 ~~~~CRIC~eed~~~~Li~PC~-CkGSlkyVH~~CL~rW~~~k~~-~~CEICk 111 (284)
.+..|.||-+..+...-..|=. |- ...|..||++|+..-.. +.|+||+
T Consensus 3 i~A~C~Ic~d~~p~~~~l~~i~~cG---hifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 3 IMAECHICIDGRPNDHELGPIGTCG---HIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred ccceeeEeccCCccccccccccchh---hHHHHHHHHHHHccCCccCCCCcee
Confidence 4678999955433222223333 43 56899999999987654 7999999
No 25
>PHA02926 zinc finger-like protein; Provisional
Probab=90.11 E-value=0.33 Score=45.47 Aligned_cols=52 Identities=23% Similarity=0.532 Sum_probs=36.7
Q ss_pred CCCceeEeccCCC------C--CCcccccccCCCcccchHHHHHHHHHhc----CCccccccccccccc
Q 023293 61 QVGECRICQEEDS------I--NNLETPCACSGSLKYAHRKCVQHWCNEK----GDITCEICHQQYKPN 117 (284)
Q Consensus 61 ~~~~CRIC~eed~------~--~~Li~PC~CkGSlkyVH~~CL~rW~~~k----~~~~CEICk~~Y~~~ 117 (284)
...+|-||+|.-- + -.+..+|. ......|+.+|.+.+ ....|++|+..|...
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~Cn-----HsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I 232 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCN-----HIFCITCINIWHRTRRETGASDNCPICRTRFRNI 232 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCC-----chHHHHHHHHHHHhccccCcCCcCCCCcceeeee
Confidence 4579999998531 1 12455554 457789999999864 256799999999743
No 26
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=90.02 E-value=0.16 Score=55.81 Aligned_cols=55 Identities=22% Similarity=0.605 Sum_probs=38.9
Q ss_pred CCCCCCceeEeccCCC--CCCc-cccc-ccCCCcccchHHHHHHHHHhcCCccccccccccc
Q 023293 58 PLLQVGECRICQEEDS--INNL-ETPC-ACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYK 115 (284)
Q Consensus 58 ~~~~~~~CRIC~eed~--~~~L-i~PC-~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~ 115 (284)
...+..+|-||+.--. +..+ ..-| -|| .-.|..||-+|++++++..|++|+.++.
T Consensus 1465 ~fsG~eECaICYsvL~~vdr~lPskrC~TCk---nKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1465 KFSGHEECAICYSVLDMVDRSLPSKRCATCK---NKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred hcCCcchhhHHHHHHHHHhccCCccccchhh---hhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 3445678999985211 1112 1333 355 4689999999999999999999998764
No 27
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=87.33 E-value=0.86 Score=43.93 Aligned_cols=49 Identities=33% Similarity=0.967 Sum_probs=37.6
Q ss_pred CCCceeEeccCCCCCCcccccccCCCcccchHHHHHHHHHhcCCccccccccccccc
Q 023293 61 QVGECRICQEEDSINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYKPN 117 (284)
Q Consensus 61 ~~~~CRIC~eed~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~~~ 117 (284)
....|-+|+|.-. ++=-+||. ...=-.|++.|+++|.. |++|+..+++.
T Consensus 238 a~~kC~LCLe~~~-~pSaTpCG-----HiFCWsCI~~w~~ek~e--CPlCR~~~~ps 286 (293)
T KOG0317|consen 238 ATRKCSLCLENRS-NPSATPCG-----HIFCWSCILEWCSEKAE--CPLCREKFQPS 286 (293)
T ss_pred CCCceEEEecCCC-CCCcCcCc-----chHHHHHHHHHHccccC--CCcccccCCCc
Confidence 4579999998643 34568885 33445899999998766 99999999753
No 28
>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=86.72 E-value=0.27 Score=32.69 Aligned_cols=38 Identities=26% Similarity=0.788 Sum_probs=26.6
Q ss_pred eeEeccCCCCCC-cccccccCCCcccchHHHHHHHHHhcCCcccccc
Q 023293 65 CRICQEEDSINN-LETPCACSGSLKYAHRKCVQHWCNEKGDITCEIC 110 (284)
Q Consensus 65 CRIC~eed~~~~-Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEIC 110 (284)
|-||++...+ + ...+|. ....+.|+++|++. ..+|.+|
T Consensus 1 C~iC~~~~~~-~~~~~~CG-----H~fC~~C~~~~~~~--~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD-PVVVTPCG-----HSFCKECIEKYLEK--NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS-EEEECTTS-----EEEEHHHHHHHHHC--TSB-TTT
T ss_pred CCCCCCcccC-cCEECCCC-----CchhHHHHHHHHHC--cCCCcCC
Confidence 6688776544 4 456664 56899999999987 3688877
No 29
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=85.57 E-value=0.32 Score=38.81 Aligned_cols=49 Identities=24% Similarity=0.525 Sum_probs=35.5
Q ss_pred ceeEeccCC-----------CCCCcccccccCCCcccchHHHHHHHHHhc-CCcccccccccccc
Q 023293 64 ECRICQEED-----------SINNLETPCACSGSLKYAHRKCVQHWCNEK-GDITCEICHQQYKP 116 (284)
Q Consensus 64 ~CRIC~eed-----------~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k-~~~~CEICk~~Y~~ 116 (284)
.|-||+.+. ++=+|+-- .|+ ...|..|+.+|++.+ ....|+.|++.|+.
T Consensus 22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G-~C~---h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 22 TCGICRMPFDGCCPDCKLPGDDCPLVWG-YCL---HAFHAHCILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred ccceEecccCCcCCCCcCCCCCCccHHH-HHH---HHHHHHHHHHHhcCccccccCCcchheeEe
Confidence 788887542 22244433 454 568999999999876 46899999999875
No 30
>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=85.39 E-value=0.44 Score=41.22 Aligned_cols=41 Identities=22% Similarity=0.371 Sum_probs=26.9
Q ss_pred CCceeEeccCCC--CCCcccccccCCCc-ccchHHHHHHHHHhc
Q 023293 62 VGECRICQEEDS--INNLETPCACSGSL-KYAHRKCVQHWCNEK 102 (284)
Q Consensus 62 ~~~CRIC~eed~--~~~Li~PC~CkGSl-kyVH~~CL~rW~~~k 102 (284)
..+|+||++.-. ++-..-+|.-.=.+ |..|..|+++|-+++
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~ 69 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRER 69 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhc
Confidence 569999998633 34444554433222 458999999996554
No 31
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=83.55 E-value=0.87 Score=39.64 Aligned_cols=55 Identities=22% Similarity=0.511 Sum_probs=44.6
Q ss_pred CCCceeEeccCCCCCCcccccccCCCcccchHHHHHHHHHhcCCcccccccccccc
Q 023293 61 QVGECRICQEEDSINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYKP 116 (284)
Q Consensus 61 ~~~~CRIC~eed~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~~ 116 (284)
..-+|-||+|.+.+..+..|=.|-|. +.---=|.+-|-..+-.-.|++||+.|+.
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY-~iCn~Cya~LWK~~~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGY-SICNACYANLWKFCNLYPVCPVCKTSFKS 133 (140)
T ss_pred CceeccCcccccchhhcCCcccccch-HHHHHHHHHHHHHcccCCCCCcccccccc
Confidence 45699999999888899999999993 33344456778887888999999999985
No 32
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.09 E-value=1.1 Score=41.84 Aligned_cols=50 Identities=18% Similarity=0.534 Sum_probs=36.7
Q ss_pred CCCCceeEeccCCCCCCcccccccCCCcccchHHHHHHHHHhc-CCccccccccccc
Q 023293 60 LQVGECRICQEEDSINNLETPCACSGSLKYAHRKCVQHWCNEK-GDITCEICHQQYK 115 (284)
Q Consensus 60 ~~~~~CRIC~eed~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k-~~~~CEICk~~Y~ 115 (284)
...-.|-||++-.. .+.++.|. ..-==-||-+|+..+ +...|.+||..-.
T Consensus 45 ~~~FdCNICLd~ak-dPVvTlCG-----HLFCWpClyqWl~~~~~~~~cPVCK~~Vs 95 (230)
T KOG0823|consen 45 GGFFDCNICLDLAK-DPVVTLCG-----HLFCWPCLYQWLQTRPNSKECPVCKAEVS 95 (230)
T ss_pred CCceeeeeeccccC-CCEEeecc-----cceehHHHHHHHhhcCCCeeCCccccccc
Confidence 45568999998654 47889885 222346999999876 5677799998754
No 33
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=83.04 E-value=0.83 Score=33.11 Aligned_cols=45 Identities=27% Similarity=0.620 Sum_probs=21.1
Q ss_pred eeEeccCC-CCCCcccccccCCCcccchHHHHHHHHHhc--CCccccccccccc
Q 023293 65 CRICQEED-SINNLETPCACSGSLKYAHRKCVQHWCNEK--GDITCEICHQQYK 115 (284)
Q Consensus 65 CRIC~eed-~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k--~~~~CEICk~~Y~ 115 (284)
|.+|-++- ....-..||.|. ++-|+.=|.+-+ .+..|.-|+.+|+
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cg------f~IC~~C~~~i~~~~~g~CPgCr~~Y~ 48 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECG------FQICRFCYHDILENEGGRCPGCREPYK 48 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----------HHHHHHHTTSS-SB-TTT--B--
T ss_pred CCCcccccccCCCccccCcCC------CcHHHHHHHHHHhccCCCCCCCCCCCC
Confidence 45566543 334457999998 456766676654 5889999999984
No 34
>PLN02189 cellulose synthase
Probab=82.68 E-value=1 Score=49.90 Aligned_cols=54 Identities=26% Similarity=0.544 Sum_probs=40.3
Q ss_pred CCCceeEeccCC---CCCCcccccc-cCCCcccchHHHHHHHHHhcCCcccccccccccccc
Q 023293 61 QVGECRICQEED---SINNLETPCA-CSGSLKYAHRKCVQHWCNEKGDITCEICHQQYKPNY 118 (284)
Q Consensus 61 ~~~~CRIC~eed---~~~~Li~PC~-CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~~~y 118 (284)
+...|+||-++- .++.+-..|+ |. --|=+.|. ..-.+.|+..|..||++|+-..
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~---fpvCr~Cy-eyer~eg~q~CpqCkt~Y~r~k 90 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECG---FPVCRPCY-EYERREGTQNCPQCKTRYKRLK 90 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCC---Cccccchh-hhhhhcCCccCcccCCchhhcc
Confidence 456999999862 4556678888 65 23778898 4555669999999999998443
No 35
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.57 E-value=1.1 Score=46.31 Aligned_cols=51 Identities=25% Similarity=0.683 Sum_probs=37.4
Q ss_pred CCCCCceeEeccCC----------------CCCCcccccccCCCcccchHHHHHHHHHhcCCccccccccccc
Q 023293 59 LLQVGECRICQEED----------------SINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYK 115 (284)
Q Consensus 59 ~~~~~~CRIC~eed----------------~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~ 115 (284)
......|-||...- ..+.+.+||. ..-|+.||++|.+..+ ..|.+|+.+..
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~-----HifH~~CL~~WMd~yk-l~CPvCR~pLP 634 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCH-----HIFHRQCLLQWMDTYK-LICPVCRCPLP 634 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccchH-----HHHHHHHHHHHHhhhc-ccCCccCCCCC
Confidence 45677999997531 1235778986 6789999999998433 67999987653
No 36
>PF06210 DUF1003: Protein of unknown function (DUF1003); InterPro: IPR010406 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=79.72 E-value=13 Score=30.80 Aligned_cols=48 Identities=19% Similarity=0.195 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHHHHccccCCC---CCCchHHHHHHHHHHHhhhhhHHHHHH
Q 023293 183 AALILMALLLLRHALAIPDAD---GEDDVSTFFSLFLLRAAGFLLPCYIMA 230 (284)
Q Consensus 183 ~ali~m~lLlLRh~l~~~~~~---~e~~~~~~~tl~llRaaGillP~Yi~~ 230 (284)
..+++++++++|-++.+.... =|-|+|.++++++-=.|.++-|+..|-
T Consensus 6 Fi~~~~~~~~~Wi~~N~~~~~~~~fDpyPFilLnl~lS~~Aa~~ap~Ilms 56 (108)
T PF06210_consen 6 FIIIFTVFLAVWILLNILAPPRPAFDPYPFILLNLVLSLEAAYQAPLILMS 56 (108)
T ss_pred HHHHHHHHHHHHHHHHhhccccCCCCCccHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566666777666664443 288999999998888888888875554
No 37
>PLN02436 cellulose synthase A
Probab=79.58 E-value=1.4 Score=48.95 Aligned_cols=54 Identities=24% Similarity=0.554 Sum_probs=40.5
Q ss_pred CCCceeEeccC---CCCCCcccccc-cCCCcccchHHHHHHHHHhcCCcccccccccccccc
Q 023293 61 QVGECRICQEE---DSINNLETPCA-CSGSLKYAHRKCVQHWCNEKGDITCEICHQQYKPNY 118 (284)
Q Consensus 61 ~~~~CRIC~ee---d~~~~Li~PC~-CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~~~y 118 (284)
....|+||-++ +.++.+-.-|+ |. --|=+.|. ..-.+.|+..|..||++|+...
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~---fpvCr~Cy-eyer~eg~~~Cpqckt~Y~r~k 92 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECA---FPVCRPCY-EYERREGNQACPQCKTRYKRIK 92 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCC---Cccccchh-hhhhhcCCccCcccCCchhhcc
Confidence 45699999986 34566778887 55 23778898 4555668999999999998443
No 38
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=79.24 E-value=1.6 Score=29.78 Aligned_cols=42 Identities=26% Similarity=0.604 Sum_probs=32.9
Q ss_pred ceeEeccCC--CCCCcccccccCCCcccchHHHHHHHHHhcCCcccccccc
Q 023293 64 ECRICQEED--SINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQ 112 (284)
Q Consensus 64 ~CRIC~eed--~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~ 112 (284)
.|-||++.. +..+++.+|. ..+...|+.++. .....|.+|++
T Consensus 1 ~C~~C~~~~~~~~~~~l~~Cg-----H~~C~~C~~~~~--~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCG-----HIFCEKCLKKLK--GKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccC-----CHHHHHHHHhhc--CCCCCCcCCCC
Confidence 377898765 3456788883 678889999988 77889999974
No 39
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=78.99 E-value=1.5 Score=43.82 Aligned_cols=47 Identities=17% Similarity=0.456 Sum_probs=35.6
Q ss_pred CCCceeEeccCCCCCCcccccccCCCcccchHHHHHHHHHhcCCccccccccccc
Q 023293 61 QVGECRICQEEDSINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYK 115 (284)
Q Consensus 61 ~~~~CRIC~eed~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~ 115 (284)
....|.||++... .+.+.||. ......|+.+|+..+ ..|.+|+..+.
T Consensus 25 ~~l~C~IC~d~~~-~PvitpCg-----H~FCs~CI~~~l~~~--~~CP~Cr~~~~ 71 (397)
T TIGR00599 25 TSLRCHICKDFFD-VPVLTSCS-----HTFCSLCIRRCLSNQ--PKCPLCRAEDQ 71 (397)
T ss_pred cccCCCcCchhhh-CccCCCCC-----CchhHHHHHHHHhCC--CCCCCCCCccc
Confidence 4459999998653 45677874 456678999999764 48999999875
No 40
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=75.16 E-value=1.5 Score=44.74 Aligned_cols=49 Identities=24% Similarity=0.634 Sum_probs=32.1
Q ss_pred CCCCCCCceeEeccC-CCCCCcccccccCCCcccchHHHHHHHHHhcCCcccccccc
Q 023293 57 EPLLQVGECRICQEE-DSINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQ 112 (284)
Q Consensus 57 ~~~~~~~~CRIC~ee-d~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~ 112 (284)
......+.|-+|+|- |++-..+.|=.|. .-.|..|+++|-.. .|++|++
T Consensus 170 ~~~tELPTCpVCLERMD~s~~gi~t~~c~---Hsfh~~cl~~w~~~----scpvcR~ 219 (493)
T KOG0804|consen 170 TGLTELPTCPVCLERMDSSTTGILTILCN---HSFHCSCLMKWWDS----SCPVCRY 219 (493)
T ss_pred CCcccCCCcchhHhhcCccccceeeeecc---cccchHHHhhcccC----cChhhhh
Confidence 346678999999975 3333344444455 45799999999654 4555544
No 41
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=74.86 E-value=2.2 Score=34.37 Aligned_cols=27 Identities=19% Similarity=0.503 Sum_probs=23.1
Q ss_pred ccchHHHHHHHHHhcCCcccccccccccc
Q 023293 88 KYAHRKCVQHWCNEKGDITCEICHQQYKP 116 (284)
Q Consensus 88 kyVH~~CL~rW~~~k~~~~CEICk~~Y~~ 116 (284)
...|-.|+.+|++. ...|++++++|+.
T Consensus 56 HaFH~HCI~rWL~T--k~~CPld~q~w~~ 82 (88)
T COG5194 56 HAFHDHCIYRWLDT--KGVCPLDRQTWVL 82 (88)
T ss_pred hHHHHHHHHHHHhh--CCCCCCCCceeEE
Confidence 45899999999998 4579999999874
No 42
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=71.82 E-value=4.7 Score=45.03 Aligned_cols=58 Identities=21% Similarity=0.470 Sum_probs=37.4
Q ss_pred CCCceeEeccCC---CCCCcccccccCCCcccchHHHHHHHHHhcCCccccccccccccccCCC
Q 023293 61 QVGECRICQEED---SINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYKPNYTAP 121 (284)
Q Consensus 61 ~~~~CRIC~eed---~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~~~yt~p 121 (284)
....|+||-++- .++.+-.-|+=.| --|=+.|. ..=..-|+..|..||++|+-....|
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~--FPVCrpCY-EYEr~eG~q~CPqCktrYkr~kgsp 76 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCA--FPVCRPCY-EYERKDGNQSCPQCKTKYKRHKGSP 76 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCC--Cccccchh-hhhhhcCCccCCccCCchhhhcCCC
Confidence 456999999863 3444544454332 22667887 3334458999999999998544333
No 43
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=66.50 E-value=2.6 Score=42.79 Aligned_cols=48 Identities=27% Similarity=0.659 Sum_probs=38.0
Q ss_pred CCceeEeccCCCCCCcccccccCCCcccchHHHHHHHHHhcCCccccccccccc
Q 023293 62 VGECRICQEEDSINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYK 115 (284)
Q Consensus 62 ~~~CRIC~eed~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~ 115 (284)
...|.||-|.+-+ .-+-||. ...-..||-.|..+.+...|..|+.+.+
T Consensus 369 FeLCKICaendKd-vkIEPCG-----HLlCt~CLa~WQ~sd~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 369 FELCKICAENDKD-VKIEPCG-----HLLCTSCLAAWQDSDEGQTCPFCRCEIK 416 (563)
T ss_pred HHHHHHhhccCCC-ccccccc-----chHHHHHHHhhcccCCCCCCCceeeEec
Confidence 4589999887643 3478885 3456789999999998899999998875
No 44
>COG4420 Predicted membrane protein [Function unknown]
Probab=62.45 E-value=18 Score=33.18 Aligned_cols=49 Identities=22% Similarity=0.201 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHHHccccCC--CC-CCchHHHHHHHHHHHhhhhhHHHHHH
Q 023293 182 SAALILMALLLLRHALAIPDA--DG-EDDVSTFFSLFLLRAAGFLLPCYIMA 230 (284)
Q Consensus 182 s~ali~m~lLlLRh~l~~~~~--~~-e~~~~~~~tl~llRaaGillP~Yi~~ 230 (284)
...+.|.++|++|-.+.+... .. +.|+|.++.|++-=.|.|.-|+..|.
T Consensus 59 ~fil~~~~~ll~Wi~lNl~~~~~~~wDpyPFi~LnLllS~~AaiqAp~IlmS 110 (191)
T COG4420 59 AFILTFTLLLLLWIVLNLFLVPGLAWDPYPFILLNLLLSTLAAIQAPLILMS 110 (191)
T ss_pred HHHHHHHHHHHHHHHHHHhhhcCCcCCCccHHHHHHHHHHHHHHHHhHHHHH
Confidence 456678888899988877443 33 89999999999998899999986654
No 45
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=59.37 E-value=12 Score=41.16 Aligned_cols=26 Identities=23% Similarity=0.618 Sum_probs=20.5
Q ss_pred ccchHHHHHHHHHhcCCccccccccccc
Q 023293 88 KYAHRKCVQHWCNEKGDITCEICHQQYK 115 (284)
Q Consensus 88 kyVH~~CL~rW~~~k~~~~CEICk~~Y~ 115 (284)
.|.|..|+..|.+. ..+|.+|+.+|-
T Consensus 146 H~FC~~Ci~sWsR~--aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 146 HYFCEECVGSWSRC--AQTCPVDRGEFG 171 (1134)
T ss_pred cccHHHHhhhhhhh--cccCchhhhhhh
Confidence 47888888888754 457999999885
No 46
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=58.23 E-value=7.1 Score=39.69 Aligned_cols=48 Identities=19% Similarity=0.648 Sum_probs=35.5
Q ss_pred CceeEeccCCC---CCCcccccccCCCcccchHHHHHHHHHhcCCcccccccccc
Q 023293 63 GECRICQEEDS---INNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQY 114 (284)
Q Consensus 63 ~~CRIC~eed~---~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y 114 (284)
..|-||+++-. +-.++.| .|. ......|+++|+-.|-...|.+|+.+-
T Consensus 5 ~tcpiclds~~~~g~hr~vsl-~cg---hlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 5 TTCPICLDSYTTAGNHRIVSL-QCG---HLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred ccCceeeeeeeecCceEEeee-ccc---ccccHHHHHHHHhhhhhhhCcccCChh
Confidence 48999998742 3345555 343 457789999999866788999999764
No 47
>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=55.49 E-value=6.7 Score=27.29 Aligned_cols=21 Identities=19% Similarity=0.717 Sum_probs=15.4
Q ss_pred chHHHHHHHHHhcCCcccccc
Q 023293 90 AHRKCVQHWCNEKGDITCEIC 110 (284)
Q Consensus 90 VH~~CL~rW~~~k~~~~CEIC 110 (284)
.|..|+++++..+.+.+|+.|
T Consensus 23 ~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 23 LHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp E-HHHHHHHTTT-SS-B-TTT
T ss_pred HHHHHHHHHHhcCCCCCCcCC
Confidence 999999999998887789877
No 48
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=54.92 E-value=13 Score=41.66 Aligned_cols=56 Identities=21% Similarity=0.523 Sum_probs=36.5
Q ss_pred CCCCceeEeccCC---CCCCcccccccCCCcccchHHHHHHHHHhcCCcccccccccccccc
Q 023293 60 LQVGECRICQEED---SINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYKPNY 118 (284)
Q Consensus 60 ~~~~~CRIC~eed---~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~~~y 118 (284)
.....|.||-++- .++.+-.-|+=.| --|=+.|. ..=..-|+..|..||++|+...
T Consensus 13 ~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~--fpvCr~cy-eye~~~g~~~cp~c~t~y~~~~ 71 (1044)
T PLN02915 13 ADAKTCRVCGDEVGVKEDGQPFVACHVCG--FPVCKPCY-EYERSEGNQCCPQCNTRYKRHK 71 (1044)
T ss_pred CCcchhhccccccCcCCCCCEEEEeccCC--Cccccchh-hhhhhcCCccCCccCCchhhhc
Confidence 4567999998762 3344444444222 23667887 3444558999999999998544
No 49
>PLN02195 cellulose synthase A
Probab=53.83 E-value=11 Score=41.93 Aligned_cols=52 Identities=21% Similarity=0.390 Sum_probs=33.7
Q ss_pred CCCceeEeccCC---CCCCcccccccCCCcccchHHHHHHHHHhcCCccccccccccc
Q 023293 61 QVGECRICQEED---SINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYK 115 (284)
Q Consensus 61 ~~~~CRIC~eed---~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~ 115 (284)
....|+||-++- .++.+-.-|+=.| --|=+.|. ..=.+-|+..|..||++|+
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~--~pvCrpCy-eyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECS--YPLCKACL-EYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCC--Cccccchh-hhhhhcCCccCCccCCccc
Confidence 345899998752 3334434444222 23677887 3334458999999999998
No 50
>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=52.19 E-value=14 Score=36.61 Aligned_cols=35 Identities=20% Similarity=0.673 Sum_probs=26.9
Q ss_pred ccccccCCCcccchHHHHHHHHHhc-----------CCccccccccccc
Q 023293 78 ETPCACSGSLKYAHRKCVQHWCNEK-----------GDITCEICHQQYK 115 (284)
Q Consensus 78 i~PC~CkGSlkyVH~~CL~rW~~~k-----------~~~~CEICk~~Y~ 115 (284)
-.+|.|+- -==..|+-||+.++ ++..|+.|+.+|=
T Consensus 306 C~~C~CRP---mWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 306 CQQCYCRP---MWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred Cccccccc---hHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 45778873 33568999999765 5789999999884
No 51
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=51.92 E-value=10 Score=32.01 Aligned_cols=27 Identities=15% Similarity=0.480 Sum_probs=22.2
Q ss_pred ccchHHHHHHHHHhcCCcccccccccccc
Q 023293 88 KYAHRKCVQHWCNEKGDITCEICHQQYKP 116 (284)
Q Consensus 88 kyVH~~CL~rW~~~k~~~~CEICk~~Y~~ 116 (284)
.-.|..|+.+|++. ...|++|+++...
T Consensus 83 HaFH~hCisrWlkt--r~vCPLdn~eW~~ 109 (114)
T KOG2930|consen 83 HAFHFHCISRWLKT--RNVCPLDNKEWVF 109 (114)
T ss_pred hHHHHHHHHHHHhh--cCcCCCcCcceeE
Confidence 45799999999976 4579999998754
No 52
>PLN02400 cellulose synthase
Probab=50.64 E-value=11 Score=42.41 Aligned_cols=55 Identities=18% Similarity=0.487 Sum_probs=34.7
Q ss_pred CCCceeEeccCC---CCCCcccccccCCCcccchHHHHHHHHHhcCCcccccccccccccc
Q 023293 61 QVGECRICQEED---SINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYKPNY 118 (284)
Q Consensus 61 ~~~~CRIC~eed---~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~~~y 118 (284)
+..+|+||-++- .++.+-.-|+=.| --|=+.|.+ .=..-|+..|..||++|+-..
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCa--FPVCRpCYE-YERkeGnq~CPQCkTrYkR~K 92 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECA--FPVCRPCYE-YERKDGTQCCPQCKTRYRRHK 92 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCC--Cccccchhh-eecccCCccCcccCCcccccc
Confidence 456999999862 3444444444222 126667762 223448999999999998443
No 53
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=47.06 E-value=26 Score=34.84 Aligned_cols=45 Identities=33% Similarity=0.684 Sum_probs=29.8
Q ss_pred CCCCceeEeccCCCCCCccccc----ccCCCcccchHHHHHHHHHhcCCccccccccccc
Q 023293 60 LQVGECRICQEEDSINNLETPC----ACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYK 115 (284)
Q Consensus 60 ~~~~~CRIC~eed~~~~Li~PC----~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~ 115 (284)
...++|=||+.+.-+ -++.|| -|+| |.+... -....|.||++.+.
T Consensus 288 ~~gkeCVIClse~rd-t~vLPCRHLCLCs~--------Ca~~Lr--~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSESRD-TVVLPCRHLCLCSG--------CAKSLR--YQTNNCPICRQPIE 336 (349)
T ss_pred cCCCeeEEEecCCcc-eEEecchhhehhHh--------HHHHHH--HhhcCCCccccchH
Confidence 457899999987532 355555 5664 544443 23457999999875
No 54
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=44.69 E-value=23 Score=28.42 Aligned_cols=57 Identities=21% Similarity=0.425 Sum_probs=22.2
Q ss_pred CCCCceeEeccCC---CCCCcccccccCCCcccchHHHHHHHHHhcCCccccccccccccccC
Q 023293 60 LQVGECRICQEED---SINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYKPNYT 119 (284)
Q Consensus 60 ~~~~~CRIC~eed---~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~~~yt 119 (284)
.+...|.||-++- ..+.+-.-|+=-+ --|=+.|.+.=.+ -|+..|..||++|+....
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~--fPvCr~CyEYErk-eg~q~CpqCkt~ykr~kg 66 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECA--FPVCRPCYEYERK-EGNQVCPQCKTRYKRHKG 66 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-------HHHHHHHHH-TS-SB-TTT--B----TT
T ss_pred cCCcccccccCccccCCCCCEEEEEcccC--CccchhHHHHHhh-cCcccccccCCCcccccC
Confidence 3567999998752 3344444443222 2477788764443 478899999999985443
No 55
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.63 E-value=14 Score=31.45 Aligned_cols=44 Identities=25% Similarity=0.578 Sum_probs=32.7
Q ss_pred CCCceeEeccCCCCCCcccccccCCCcccchHHHHHHHHHhcCCcccccccc
Q 023293 61 QVGECRICQEEDSINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQ 112 (284)
Q Consensus 61 ~~~~CRIC~eed~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~ 112 (284)
....|.||++...+. .+.||. ...=+.|+..|.. ....|+.|+.
T Consensus 12 ~~~~C~iC~~~~~~p-~~l~C~-----H~~c~~C~~~~~~--~~~~Cp~cr~ 55 (386)
T KOG2177|consen 12 EELTCPICLEYFREP-VLLPCG-----HNFCRACLTRSWE--GPLSCPVCRP 55 (386)
T ss_pred ccccChhhHHHhhcC-cccccc-----chHhHHHHHHhcC--CCcCCcccCC
Confidence 456899999876543 667764 3455678888887 7799999993
No 56
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=37.29 E-value=36 Score=28.31 Aligned_cols=31 Identities=16% Similarity=0.353 Sum_probs=13.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 023293 222 FLLPCYIMAWAINILQRRRQRQEAAALAATQ 252 (284)
Q Consensus 222 illP~Yi~~~~i~~~q~~r~~q~~~~~~a~~ 252 (284)
|++.+.|++-++..+-|||+|...+-+.-|.
T Consensus 8 ii~~i~l~~~~~~~~~rRR~r~G~~P~~gt~ 38 (130)
T PF12273_consen 8 IIVAILLFLFLFYCHNRRRRRRGLQPIYGTR 38 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcCCCCcCCce
Confidence 3444444444444444555454333344443
No 57
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=37.04 E-value=16 Score=24.65 Aligned_cols=19 Identities=21% Similarity=0.586 Sum_probs=13.9
Q ss_pred ccccccccccccccCCCCC
Q 023293 105 ITCEICHQQYKPNYTAPPP 123 (284)
Q Consensus 105 ~~CEICk~~Y~~~yt~ppp 123 (284)
..|+.|+..|...|.+|..
T Consensus 2 r~C~~Cg~~Yh~~~~pP~~ 20 (36)
T PF05191_consen 2 RICPKCGRIYHIEFNPPKV 20 (36)
T ss_dssp EEETTTTEEEETTTB--SS
T ss_pred cCcCCCCCccccccCCCCC
Confidence 4799999999988875433
No 58
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=36.13 E-value=26 Score=38.64 Aligned_cols=52 Identities=23% Similarity=0.558 Sum_probs=39.0
Q ss_pred CCCCceeEeccCC--CCCCcccccccCCCcccchHHHHHHHHHhc-----CCccccccccccc
Q 023293 60 LQVGECRICQEED--SINNLETPCACSGSLKYAHRKCVQHWCNEK-----GDITCEICHQQYK 115 (284)
Q Consensus 60 ~~~~~CRIC~eed--~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k-----~~~~CEICk~~Y~ 115 (284)
....+|-||.+.- ....| +|+.=....|..|+++|-..+ ..+.|.-|+..++
T Consensus 189 ~~~yeCmIC~e~I~~t~~~W----SC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~ 247 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVW----SCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK 247 (950)
T ss_pred cCceEEEEeeeeccccCCce----ecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence 4557999999863 23334 455555679999999999754 4789999998776
No 59
>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=34.56 E-value=12 Score=28.80 Aligned_cols=32 Identities=19% Similarity=0.590 Sum_probs=22.4
Q ss_pred CCCceeEeccCCCCCC-cccccccCCCcccchHHHHHH
Q 023293 61 QVGECRICQEEDSINN-LETPCACSGSLKYAHRKCVQH 97 (284)
Q Consensus 61 ~~~~CRIC~eed~~~~-Li~PC~CkGSlkyVH~~CL~r 97 (284)
....|.+|...-..+. .+-||. ..+|..|++|
T Consensus 77 ~~~~C~vC~k~l~~~~f~~~p~~-----~v~H~~C~~r 109 (109)
T PF10367_consen 77 ESTKCSVCGKPLGNSVFVVFPCG-----HVVHYSCIKR 109 (109)
T ss_pred CCCCccCcCCcCCCceEEEeCCC-----eEEecccccC
Confidence 3457999998754444 456764 5899999864
No 60
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=31.80 E-value=45 Score=33.02 Aligned_cols=52 Identities=25% Similarity=0.564 Sum_probs=34.5
Q ss_pred CCCceeEeccCCCCCC--cccccccCCCcccchHHHHHHHHHhc---------------------CCccccccccccccc
Q 023293 61 QVGECRICQEEDSINN--LETPCACSGSLKYAHRKCVQHWCNEK---------------------GDITCEICHQQYKPN 117 (284)
Q Consensus 61 ~~~~CRIC~eed~~~~--Li~PC~CkGSlkyVH~~CL~rW~~~k---------------------~~~~CEICk~~Y~~~ 117 (284)
+..+|-||+=+..+++ .+++|. .|.|..||.|++++- -...|.+|.+..+..
T Consensus 114 p~gqCvICLygfa~~~~ft~T~C~-----Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e 188 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTACD-----HYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE 188 (368)
T ss_pred CCCceEEEEEeecCCCceeeehhH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence 3456777765443333 456663 799999999887631 245799999886543
No 61
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.79 E-value=21 Score=34.82 Aligned_cols=29 Identities=24% Similarity=0.662 Sum_probs=25.6
Q ss_pred ccchHHHHHHHHHhcCCcccccccccccc
Q 023293 88 KYAHRKCVQHWCNEKGDITCEICHQQYKP 116 (284)
Q Consensus 88 kyVH~~CL~rW~~~k~~~~CEICk~~Y~~ 116 (284)
.--|..|+.-|+..-+..+|+-||.+-..
T Consensus 254 HvFHEfCIrGWcivGKkqtCPYCKekVdl 282 (328)
T KOG1734|consen 254 HVFHEFCIRGWCIVGKKQTCPYCKEKVDL 282 (328)
T ss_pred cchHHHhhhhheeecCCCCCchHHHHhhH
Confidence 46899999999999999999999988653
No 62
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=31.46 E-value=41 Score=33.89 Aligned_cols=64 Identities=23% Similarity=0.493 Sum_probs=39.6
Q ss_pred ceeEeccCCC-CCCcccccccCCCcccchHHHHHHHHHhc--CCccccccccccccccCCCCCCCcchhhhhc
Q 023293 64 ECRICQEEDS-INNLETPCACSGSLKYAHRKCVQHWCNEK--GDITCEICHQQYKPNYTAPPPPRLEETAIEI 133 (284)
Q Consensus 64 ~CRIC~eed~-~~~Li~PC~CkGSlkyVH~~CL~rW~~~k--~~~~CEICk~~Y~~~yt~ppp~~~~~~~i~i 133 (284)
.|-.|.|+-+ ...-..||.|- | +-|---|-+-+ -+.+|.-|+..|.-.-..-.+..+++..|++
T Consensus 16 ~cplcie~mditdknf~pc~cg----y--~ic~fc~~~irq~lngrcpacrr~y~denv~~~~~s~ee~kmel 82 (480)
T COG5175 16 YCPLCIEPMDITDKNFFPCPCG----Y--QICQFCYNNIRQNLNGRCPACRRKYDDENVRYVTLSPEELKMEL 82 (480)
T ss_pred cCcccccccccccCCcccCCcc----c--HHHHHHHHHHHhhccCCChHhhhhccccceeEEecCHHHHHHHH
Confidence 6999998742 22335799997 3 33444465433 5789999999997443333344455555554
No 63
>PF09607 BrkDBD: Brinker DNA-binding domain; InterPro: IPR018586 This DNA-binding domain is the first approx. 100 residues of the N-terminal end of Brinker. The structure of this domain in complex with DNA consists of four alpha-helices that contain a helix-turn-helix DNA recognition motif specific for GC-rich DNA. The Brinker nuclear repressor is a major element of the Drosophila Decapentaplegic morphogen signalling pathway []. ; PDB: 2GLO_A.
Probab=30.83 E-value=26 Score=26.49 Aligned_cols=13 Identities=23% Similarity=0.670 Sum_probs=10.3
Q ss_pred chHHHHHHHHHhc
Q 023293 90 AHRKCVQHWCNEK 102 (284)
Q Consensus 90 VH~~CL~rW~~~k 102 (284)
|++.|+++|++.+
T Consensus 37 V~r~~Vr~W~kqe 49 (58)
T PF09607_consen 37 VSRRQVRKWRKQE 49 (58)
T ss_dssp S-HHHHHHHHTTH
T ss_pred ccHHHHHHHHHHH
Confidence 8999999999754
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=30.53 E-value=74 Score=28.59 Aligned_cols=38 Identities=26% Similarity=0.573 Sum_probs=25.3
Q ss_pred CceeEeccCC---------CCCCcccccccCCCcccchHHHHHHHHHhc
Q 023293 63 GECRICQEED---------SINNLETPCACSGSLKYAHRKCVQHWCNEK 102 (284)
Q Consensus 63 ~~CRIC~eed---------~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k 102 (284)
..|-||.|-. +-..--.|=-|.. .|-|..||.+..+..
T Consensus 3 ~~CpICme~PHNAVLLlCSS~~kgcRpymc~T--s~rhSNCLdqfkka~ 49 (162)
T PF07800_consen 3 VTCPICMEHPHNAVLLLCSSHEKGCRPYMCDT--SYRHSNCLDQFKKAY 49 (162)
T ss_pred ccCceeccCCCceEEEEeccccCCccccccCC--ccchhHHHHHHHHHh
Confidence 5799998743 1112233334765 489999999998754
No 65
>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=28.20 E-value=24 Score=19.73 Aligned_cols=11 Identities=27% Similarity=1.059 Sum_probs=7.2
Q ss_pred ccccccccccc
Q 023293 106 TCEICHQQYKP 116 (284)
Q Consensus 106 ~CEICk~~Y~~ 116 (284)
.|++|+..|..
T Consensus 2 ~C~~C~~~~~~ 12 (24)
T PF13894_consen 2 QCPICGKSFRS 12 (24)
T ss_dssp E-SSTS-EESS
T ss_pred CCcCCCCcCCc
Confidence 69999998863
No 66
>PF11874 DUF3394: Domain of unknown function (DUF3394); InterPro: IPR021814 This domain is functionally uncharacterised. This domain is found in bacteria. This presumed domain is about 190 amino acids in length. This domain is found associated with PF06808 from PFAM.
Probab=27.65 E-value=28 Score=31.59 Aligned_cols=21 Identities=33% Similarity=0.629 Sum_probs=16.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHH
Q 023293 223 LLPCYIMAWAINILQRRRQRQ 243 (284)
Q Consensus 223 llP~Yi~~~~i~~~q~~r~~q 243 (284)
.+|-..++-.|..+||||+++
T Consensus 162 yiPAlLLL~lv~~lQrRR~~~ 182 (183)
T PF11874_consen 162 YIPALLLLGLVAWLQRRRRRK 182 (183)
T ss_pred eHHHHHHHHHHHHHhhhhccC
Confidence 357777778888999999864
No 67
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=27.63 E-value=40 Score=35.80 Aligned_cols=56 Identities=21% Similarity=0.616 Sum_probs=40.6
Q ss_pred CCCceeEeccCCCCCCcccccccCCCcccchHHHHHHHHHh---cCCccccccccccccccCCCC
Q 023293 61 QVGECRICQEEDSINNLETPCACSGSLKYAHRKCVQHWCNE---KGDITCEICHQQYKPNYTAPP 122 (284)
Q Consensus 61 ~~~~CRIC~eed~~~~Li~PC~CkGSlkyVH~~CL~rW~~~---k~~~~CEICk~~Y~~~yt~pp 122 (284)
+..+|-+|+++.++ .+++-|+= -.-+.|+..++.. ..+..|+.|.-...+..+.|.
T Consensus 535 ~~~~C~lc~d~aed-~i~s~ChH-----~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~a 593 (791)
T KOG1002|consen 535 GEVECGLCHDPAED-YIESSCHH-----KFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEPA 593 (791)
T ss_pred CceeecccCChhhh-hHhhhhhH-----HHHHHHHHHHHHhhhcccCCCCccccccccccccchh
Confidence 45699999987653 56677652 2346789888864 456999999999887766543
No 68
>COG2322 Predicted membrane protein [Function unknown]
Probab=27.63 E-value=1.9e+02 Score=26.37 Aligned_cols=55 Identities=24% Similarity=0.259 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHHHHHccccC--CCC----CCchHHHHHHHHHHHhhhhhHHHHHHHHHHHH
Q 023293 182 SAALILMALLLLRHALAIPD--ADG----EDDVSTFFSLFLLRAAGFLLPCYIMAWAINIL 236 (284)
Q Consensus 182 s~ali~m~lLlLRh~l~~~~--~~~----e~~~~~~~tl~llRaaGillP~Yi~~~~i~~~ 236 (284)
..+++|+++-+-||-+.-.+ ++. .-|-+-+++=..|-++++-|-.|.++++++..
T Consensus 84 ~l~l~FlvlYltr~~l~~~t~f~~~G~~k~~Y~~iL~~Hi~LA~i~vPLal~al~~a~~~~ 144 (177)
T COG2322 84 TLALVFLVLYLTRHGLGGETAFGGTGIYKGIYFFILITHIILAAINVPLALYALILAWKGL 144 (177)
T ss_pred HHHHHHHHHHHHHHhccccccCCCCeeeehHHHHHHHHHHHHHHHhhhHHHHHHHHHhcch
Confidence 56788999999999998877 333 34556666667789999999999999999744
No 69
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=25.86 E-value=34 Score=24.50 Aligned_cols=34 Identities=18% Similarity=0.452 Sum_probs=18.1
Q ss_pred ccccccccccccccCCCCCCC-cchhhhhccccee
Q 023293 105 ITCEICHQQYKPNYTAPPPPR-LEETAIEIGGGWT 138 (284)
Q Consensus 105 ~~CEICk~~Y~~~yt~ppp~~-~~~~~i~i~~~w~ 138 (284)
..|.+|++.|.+...-|.-.. |+-..-++-++|.
T Consensus 2 y~C~~CgyvYd~~~Gd~~~~i~pGt~F~~Lp~~w~ 36 (47)
T PF00301_consen 2 YQCPVCGYVYDPEKGDPENGIPPGTPFEDLPDDWV 36 (47)
T ss_dssp EEETTTSBEEETTTBBGGGTB-TT--GGGS-TT-B
T ss_pred cCCCCCCEEEcCCcCCcccCcCCCCCHHHCCCCCc
Confidence 469999999987665332222 2222344556664
No 70
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=25.72 E-value=17 Score=40.70 Aligned_cols=49 Identities=24% Similarity=0.475 Sum_probs=31.4
Q ss_pred CceeEeccCCCC-CCcccccccCCCcccchHHHHHHHHHhcCCccccccccc
Q 023293 63 GECRICQEEDSI-NNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQ 113 (284)
Q Consensus 63 ~~CRIC~eed~~-~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~ 113 (284)
..|-||.+.+.+ .+.+.-|. |=-.+||+.|.-.=....|.+.|--|.+.
T Consensus 220 ~~C~iC~~~~~~n~n~ivfCD--~Cnl~VHq~Cygi~~ipeg~WlCr~Cl~s 269 (1051)
T KOG0955|consen 220 AVCCICLDGECQNSNVIVFCD--GCNLAVHQECYGIPFIPEGQWLCRRCLQS 269 (1051)
T ss_pred ccceeecccccCCCceEEEcC--CCcchhhhhccCCCCCCCCcEeehhhccC
Confidence 389999987654 35666663 33389999998722223355666666543
No 71
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=24.48 E-value=40 Score=36.70 Aligned_cols=59 Identities=29% Similarity=0.567 Sum_probs=0.0
Q ss_pred CceeEeccCCCCCC----cccccccCCCcccchHHHHHH---HHHhc-----CCccccccccccccccCCC
Q 023293 63 GECRICQEEDSINN----LETPCACSGSLKYAHRKCVQH---WCNEK-----GDITCEICHQQYKPNYTAP 121 (284)
Q Consensus 63 ~~CRIC~eed~~~~----Li~PC~CkGSlkyVH~~CL~r---W~~~k-----~~~~CEICk~~Y~~~yt~p 121 (284)
+.|.||.|+.-.+. --.-|+=.|=-+-.|..|-|+ .|.+. +...|--||+.|..-.+.+
T Consensus 118 KtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~HfsKlkk~~ 188 (900)
T KOG0956|consen 118 KTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHFSKLKKSP 188 (900)
T ss_pred ceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHHHHHHhhcCC
No 72
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=24.12 E-value=49 Score=22.61 Aligned_cols=40 Identities=25% Similarity=0.683 Sum_probs=22.4
Q ss_pred eeEeccCCCCCCcccccccCCCcccchHHHHHHHHHhcCC--cccccc
Q 023293 65 CRICQEEDSINNLETPCACSGSLKYAHRKCVQHWCNEKGD--ITCEIC 110 (284)
Q Consensus 65 CRIC~eed~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~--~~CEIC 110 (284)
|-||++--. ++...+|. .-.=+.||.+|.+.++. ..|.+|
T Consensus 1 CpiC~~~~~-~Pv~l~CG-----H~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFK-DPVSLPCG-----HSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-S-SEEE-SSS-----SEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhC-CccccCCc-----CHHHHHHHHHHHHccCCcCCCCcCC
Confidence 456665433 35556663 23457899999976644 588877
No 73
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=23.95 E-value=1e+02 Score=31.26 Aligned_cols=47 Identities=17% Similarity=0.485 Sum_probs=31.0
Q ss_pred ceeEeccCCCCCCcccccccCCCcccchHHHHHHHHHhcCCcccccccccccc
Q 023293 64 ECRICQEEDSINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYKP 116 (284)
Q Consensus 64 ~CRIC~eed~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~~ 116 (284)
.|-||-+...- .-+.||+=+ .-..|--|...--++..|.+|+++...
T Consensus 63 ~C~ICA~~~TY-s~~~PC~H~-----~CH~Ca~RlRALY~~K~C~~CrTE~e~ 109 (493)
T COG5236 63 NCQICAGSTTY-SARYPCGHQ-----ICHACAVRLRALYMQKGCPLCRTETEA 109 (493)
T ss_pred eeEEecCCceE-EEeccCCch-----HHHHHHHHHHHHHhccCCCccccccce
Confidence 89999887542 246787622 122344455555578889999999764
No 74
>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=23.27 E-value=81 Score=30.90 Aligned_cols=49 Identities=20% Similarity=0.459 Sum_probs=33.7
Q ss_pred CceeEeccCCCCC----CcccccccCCCcccchHHHHHHHHHhcCCccccccccccccc
Q 023293 63 GECRICQEEDSIN----NLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYKPN 117 (284)
Q Consensus 63 ~~CRIC~eed~~~----~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~~~ 117 (284)
..|-+|....-.+ -++++|. .-.=..|+.+.+. ++...|+.|+..++.+
T Consensus 4 ~~CP~Ck~~~y~np~~kl~i~~CG-----H~~C~sCv~~l~~-~~~~~CP~C~~~lrk~ 56 (309)
T TIGR00570 4 QGCPRCKTTKYRNPSLKLMVNVCG-----HTLCESCVDLLFV-RGSGSCPECDTPLRKN 56 (309)
T ss_pred CCCCcCCCCCccCcccccccCCCC-----CcccHHHHHHHhc-CCCCCCCCCCCccchh
Confidence 3799999864222 2677663 3344689999653 4667999999988754
No 75
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=22.91 E-value=64 Score=23.34 Aligned_cols=17 Identities=35% Similarity=0.798 Sum_probs=13.2
Q ss_pred ccccccccccccccCCC
Q 023293 105 ITCEICHQQYKPNYTAP 121 (284)
Q Consensus 105 ~~CEICk~~Y~~~yt~p 121 (284)
..|.+|++.|.+....|
T Consensus 2 y~C~~CgyiYd~~~Gd~ 18 (50)
T cd00730 2 YECRICGYIYDPAEGDP 18 (50)
T ss_pred cCCCCCCeEECCCCCCc
Confidence 47999999999765443
No 76
>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=22.53 E-value=34 Score=19.63 Aligned_cols=11 Identities=27% Similarity=0.984 Sum_probs=9.3
Q ss_pred ccccccccccc
Q 023293 106 TCEICHQQYKP 116 (284)
Q Consensus 106 ~CEICk~~Y~~ 116 (284)
.|+.|+..|..
T Consensus 2 ~C~~C~~~f~~ 12 (23)
T PF00096_consen 2 KCPICGKSFSS 12 (23)
T ss_dssp EETTTTEEESS
T ss_pred CCCCCCCccCC
Confidence 69999999974
No 77
>PF09630 DUF2024: Domain of unknown function (DUF2024); InterPro: IPR018592 This protein of 86 residues is expressed in bacteria. It consists of two alpha helices and four beta strands. Its function is unknown.; PDB: 2HFQ_A.
Probab=22.29 E-value=43 Score=26.88 Aligned_cols=17 Identities=29% Similarity=0.802 Sum_probs=9.7
Q ss_pred CCCCCCCCceeEeccCC
Q 023293 56 DEPLLQVGECRICQEED 72 (284)
Q Consensus 56 ~~~~~~~~~CRIC~eed 72 (284)
+........||+||.+.
T Consensus 46 ~~~~vt~~eC~FCHse~ 62 (81)
T PF09630_consen 46 EDADVTQKECRFCHSEE 62 (81)
T ss_dssp --S---TTTEEEEEEEE
T ss_pred CCCccccccCccccccc
Confidence 33446677999999764
No 78
>PF09788 Tmemb_55A: Transmembrane protein 55A; InterPro: IPR019178 Members of this family catalyse the hydrolysis of the 4-position phosphate of phosphatidylinositol 4,5-bisphosphate, in the reaction: 1-phosphatidyl-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Probab=21.99 E-value=77 Score=30.39 Aligned_cols=60 Identities=23% Similarity=0.276 Sum_probs=37.2
Q ss_pred CcceehHHHHHHHHHHHHHHHHccc-cCCCCCCchHHHHHHHHHHHhhhhhHHHHHHHHHH
Q 023293 175 SGSAFCRSAALILMALLLLRHALAI-PDADGEDDVSTFFSLFLLRAAGFLLPCYIMAWAIN 234 (284)
Q Consensus 175 ~~a~~CRs~ali~m~lLlLRh~l~~-~~~~~e~~~~~~~tl~llRaaGillP~Yi~~~~i~ 234 (284)
-|..|.|.-+|+|.+|.+|=-++.+ ++.|+-+++...-.++++=+..||+-++.++|++.
T Consensus 189 VG~~faRkR~i~f~llgllfliiaigltvGT~~~A~~~~giY~~wv~~~l~a~~~~~rs~y 249 (256)
T PF09788_consen 189 VGPRFARKRAIIFFLLGLLFLIIAIGLTVGTWTYAKTYGGIYVSWVGLFLIALICLIRSIY 249 (256)
T ss_pred ccchHhhhHHHHHHHHHHHHHHHHHHHhhhhHHHHhhcCcEeHHHHHHHHHHHHHHHHhhe
Confidence 3566888888887777555555544 33454455444444455555667777777877763
No 79
>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=21.27 E-value=73 Score=23.91 Aligned_cols=45 Identities=18% Similarity=0.257 Sum_probs=27.9
Q ss_pred ceeEeccCCCCCCcccccccCCCcccchHHHHHHHHHhcCCccccccccccc
Q 023293 64 ECRICQEEDSINNLETPCACSGSLKYAHRKCVQHWCNEKGDITCEICHQQYK 115 (284)
Q Consensus 64 ~CRIC~eed~~~~Li~PC~CkGSlkyVH~~CL~rW~~~k~~~~CEICk~~Y~ 115 (284)
.|-|+++-- .++.+.||. +..=+.|+++|++. +...|.+|+....
T Consensus 6 ~CpIt~~lM-~dPVi~~~G-----~tyer~~I~~~l~~-~~~~~P~t~~~l~ 50 (73)
T PF04564_consen 6 LCPITGELM-RDPVILPSG-----HTYERSAIERWLEQ-NGGTDPFTRQPLS 50 (73)
T ss_dssp B-TTTSSB--SSEEEETTS-----EEEEHHHHHHHHCT-TSSB-TTT-SB-S
T ss_pred CCcCcCcHh-hCceeCCcC-----CEEcHHHHHHHHHc-CCCCCCCCCCcCC
Confidence 455555422 235666643 57789999999987 6778999877654
No 80
>COG1983 PspC Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]
Probab=21.25 E-value=1e+02 Score=24.14 Aligned_cols=15 Identities=40% Similarity=0.561 Sum_probs=12.3
Q ss_pred HhhhhhHHHHHHHHH
Q 023293 219 AAGFLLPCYIMAWAI 233 (284)
Q Consensus 219 aaGillP~Yi~~~~i 233 (284)
..|+.++.||++|.|
T Consensus 45 ~~~~~ii~Yiia~~i 59 (70)
T COG1983 45 LTGFGIIAYIIAALI 59 (70)
T ss_pred chhHHHHHHHHHHHH
Confidence 457788999999976
No 81
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the