Query 023641
Match_columns 279
No_of_seqs 254 out of 794
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 05:33:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023641.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023641hhsearch_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 1.8E-39 3.9E-44 268.7 7.4 115 113-241 1-118 (118)
2 PHA02825 LAP/PHD finger-like p 99.8 1.1E-20 2.4E-25 163.5 3.1 77 54-141 3-79 (162)
3 KOG1609 Protein involved in mR 99.8 4E-20 8.7E-25 168.7 4.9 186 54-252 73-268 (323)
4 PHA02862 5L protein; Provision 99.7 9.7E-18 2.1E-22 143.5 3.9 63 59-124 2-64 (156)
5 smart00744 RINGv The RING-vari 99.7 1.9E-17 4.1E-22 117.8 3.1 48 61-108 1-49 (49)
6 PF12906 RINGv: RING-variant d 99.6 2.3E-17 4.9E-22 116.4 0.9 46 62-107 1-47 (47)
7 COG5183 SSM4 Protein involved 99.5 8.9E-15 1.9E-19 150.7 4.2 58 57-114 10-68 (1175)
8 KOG3053 Uncharacterized conser 99.5 1.2E-14 2.6E-19 134.3 4.0 67 54-120 15-90 (293)
9 PF13639 zf-RING_2: Ring finge 97.4 7.1E-05 1.5E-09 51.0 1.4 41 61-108 2-44 (44)
10 KOG4628 Predicted E3 ubiquitin 96.9 0.0012 2.5E-08 64.3 4.5 48 60-113 230-279 (348)
11 cd00162 RING RING-finger (Real 96.7 0.0013 2.9E-08 42.7 2.6 44 61-110 1-44 (45)
12 PHA02929 N1R/p28-like protein; 96.6 0.0017 3.7E-08 60.2 3.4 50 57-113 172-228 (238)
13 COG5540 RING-finger-containing 96.5 0.0022 4.8E-08 61.7 3.3 49 58-112 322-372 (374)
14 PLN03208 E3 ubiquitin-protein 96.2 0.0047 1E-07 55.8 3.8 51 57-113 16-80 (193)
15 smart00184 RING Ring finger. E 96.0 0.0065 1.4E-07 37.9 2.6 39 62-107 1-39 (39)
16 PF13920 zf-C3HC4_3: Zinc fing 95.9 0.0037 8.1E-08 43.7 1.4 46 59-112 2-48 (50)
17 PF00097 zf-C3HC4: Zinc finger 95.9 0.004 8.6E-08 41.4 1.4 41 62-107 1-41 (41)
18 COG5243 HRD1 HRD ubiquitin lig 95.9 0.012 2.6E-07 58.2 5.0 52 56-114 284-347 (491)
19 PF11793 FANCL_C: FANCL C-term 95.6 0.0038 8.3E-08 47.3 0.3 53 59-114 2-68 (70)
20 PF12861 zf-Apc11: Anaphase-pr 95.5 0.01 2.2E-07 47.3 2.6 30 85-114 54-84 (85)
21 PF12678 zf-rbx1: RING-H2 zinc 95.5 0.0083 1.8E-07 45.6 1.9 41 61-108 21-73 (73)
22 KOG0802 E3 ubiquitin ligase [P 94.7 0.022 4.7E-07 57.9 2.8 49 56-111 288-340 (543)
23 KOG0828 Predicted E3 ubiquitin 94.6 0.033 7.2E-07 56.8 3.8 64 43-112 553-634 (636)
24 PHA02926 zinc finger-like prot 94.3 0.039 8.4E-07 51.3 3.4 54 56-114 167-232 (242)
25 KOG0317 Predicted E3 ubiquitin 94.1 0.08 1.7E-06 50.6 5.0 54 53-114 233-286 (293)
26 smart00504 Ubox Modified RING 93.4 0.094 2E-06 37.4 3.2 46 60-113 2-47 (63)
27 PF13923 zf-C3HC4_2: Zinc fing 93.1 0.039 8.4E-07 36.7 0.8 38 62-107 1-39 (39)
28 KOG0823 Predicted E3 ubiquitin 92.5 0.17 3.6E-06 47.0 4.3 53 55-113 43-96 (230)
29 COG5219 Uncharacterized conser 91.1 0.066 1.4E-06 58.3 0.1 54 56-112 1466-1523(1525)
30 KOG1493 Anaphase-promoting com 90.8 0.084 1.8E-06 41.7 0.4 49 61-113 22-82 (84)
31 PF14634 zf-RING_5: zinc-RING 89.5 0.26 5.6E-06 33.7 2.0 42 61-109 1-44 (44)
32 TIGR00599 rad18 DNA repair pro 89.4 0.27 5.8E-06 48.9 2.7 50 56-113 23-72 (397)
33 KOG0827 Predicted E3 ubiquitin 88.6 0.39 8.4E-06 48.0 3.2 45 59-108 4-52 (465)
34 PF05290 Baculo_IE-1: Baculovi 88.1 0.39 8.5E-06 41.5 2.5 56 58-114 79-134 (140)
35 PF05883 Baculo_RING: Baculovi 85.8 0.47 1E-05 40.9 1.7 41 57-99 24-69 (134)
36 KOG1785 Tyrosine kinase negati 85.3 0.34 7.4E-06 48.7 0.8 50 57-112 367-416 (563)
37 COG5194 APC11 Component of SCF 85.1 0.56 1.2E-05 37.4 1.8 27 85-113 56-82 (88)
38 PLN02189 cellulose synthase 83.4 0.73 1.6E-05 50.8 2.3 52 57-112 32-87 (1040)
39 PF14570 zf-RING_4: RING/Ubox 82.7 0.9 1.9E-05 32.7 1.8 45 62-112 1-48 (48)
40 PLN02436 cellulose synthase A 80.0 1.2 2.6E-05 49.3 2.5 52 57-112 34-89 (1094)
41 KOG4265 Predicted E3 ubiquitin 78.6 2.3 5E-05 41.8 3.7 51 56-113 287-337 (349)
42 KOG0804 Cytoplasmic Zn-finger 71.3 1.8 3.9E-05 44.0 0.9 49 55-112 171-222 (493)
43 KOG2930 SCF ubiquitin ligase, 70.6 2.9 6.3E-05 34.9 1.9 27 85-113 83-109 (114)
44 PF06210 DUF1003: Protein of u 68.4 31 0.00067 28.5 7.5 45 193-237 9-56 (108)
45 PF15227 zf-C3HC4_4: zinc fing 67.5 2.5 5.3E-05 28.9 0.7 40 62-107 1-42 (42)
46 KOG0825 PHD Zn-finger protein 66.8 5.5 0.00012 43.3 3.4 31 75-112 141-171 (1134)
47 KOG2177 Predicted E3 ubiquitin 65.4 3 6.5E-05 35.8 1.0 47 55-109 9-55 (386)
48 TIGR00570 cdk7 CDK-activating 64.6 6.5 0.00014 38.2 3.2 50 59-114 3-56 (309)
49 PLN02195 cellulose synthase A 63.0 6.6 0.00014 43.4 3.2 52 58-112 5-59 (977)
50 PF13445 zf-RING_UBOX: RING-ty 62.5 3.9 8.4E-05 28.5 0.9 39 62-105 1-43 (43)
51 KOG1645 RING-finger-containing 62.4 6 0.00013 40.0 2.6 50 58-111 3-55 (463)
52 KOG2164 Predicted E3 ubiquitin 61.1 8.2 0.00018 39.8 3.4 50 59-114 186-238 (513)
53 KOG1002 Nucleotide excision re 61.0 6.3 0.00014 41.3 2.5 58 55-118 532-592 (791)
54 PLN02638 cellulose synthase A 59.9 8.7 0.00019 42.9 3.5 52 58-112 16-70 (1079)
55 PF08746 zf-RING-like: RING-li 59.5 5.2 0.00011 27.7 1.2 22 86-107 22-43 (43)
56 PF10272 Tmpp129: Putative tra 58.8 10 0.00022 37.5 3.5 34 76-112 307-351 (358)
57 PF04564 U-box: U-box domain; 58.2 5.3 0.00012 30.0 1.2 47 60-113 5-51 (73)
58 COG5432 RAD18 RING-finger-cont 56.0 5.4 0.00012 38.9 1.0 48 57-112 23-70 (391)
59 PF14569 zf-UDP: Zinc-binding 53.0 15 0.00032 29.2 2.9 55 57-114 7-64 (80)
60 COG1983 PspC Putative stress-r 52.2 23 0.0005 27.4 3.8 15 226-240 45-59 (70)
61 PLN02400 cellulose synthase 51.5 11 0.00024 42.1 2.7 53 57-112 34-89 (1085)
62 COG4420 Predicted membrane pro 50.7 46 0.001 30.4 6.0 44 194-237 64-110 (191)
63 PF10367 Vps39_2: Vacuolar sor 50.6 5.5 0.00012 30.8 0.1 33 57-94 76-109 (109)
64 PLN02915 cellulose synthase A 50.1 14 0.00031 41.1 3.2 54 56-112 12-68 (1044)
65 PF11669 WBP-1: WW domain-bind 47.8 83 0.0018 25.6 6.6 8 227-234 30-37 (102)
66 KOG0287 Postreplication repair 46.6 7.6 0.00017 38.6 0.5 48 57-112 21-68 (442)
67 PF05191 ADK_lid: Adenylate ki 44.4 9.3 0.0002 25.7 0.5 19 102-120 2-20 (36)
68 KOG4445 Uncharacterized conser 44.2 20 0.00044 35.1 2.9 55 55-114 111-188 (368)
69 smart00249 PHD PHD zinc finger 42.6 7.8 0.00017 25.0 -0.1 30 61-93 1-30 (47)
70 KOG1952 Transcription factor N 42.0 19 0.00041 39.5 2.5 54 55-112 187-247 (950)
71 PF01102 Glycophorin_A: Glycop 41.8 37 0.00081 28.7 3.8 25 223-250 71-95 (122)
72 PF06679 DUF1180: Protein of u 41.2 30 0.00065 30.7 3.3 30 223-252 100-131 (163)
73 PF12273 RCR: Chitin synthesis 40.5 32 0.0007 28.5 3.3 22 229-250 8-29 (130)
74 KOG0955 PHD finger protein BR1 37.6 11 0.00024 42.0 0.1 52 57-110 217-269 (1051)
75 KOG1039 Predicted E3 ubiquitin 37.6 26 0.00056 34.5 2.6 51 57-112 159-221 (344)
76 KOG1734 Predicted RING-contain 37.0 11 0.00024 36.4 -0.0 55 55-114 220-283 (328)
77 PF07800 DUF1644: Protein of u 35.5 52 0.0011 29.4 3.8 39 59-99 2-49 (162)
78 KOG0320 Predicted E3 ubiquitin 31.5 46 0.00099 30.3 2.9 52 53-111 125-177 (187)
79 PF09607 BrkDBD: Brinker DNA-b 31.2 24 0.00052 26.5 0.9 13 87-99 37-49 (58)
80 PRK11877 psaI photosystem I re 30.8 63 0.0014 22.4 2.8 34 212-245 3-36 (38)
81 COG5574 PEX10 RING-finger-cont 30.8 56 0.0012 31.3 3.5 53 55-114 211-264 (271)
82 PF11874 DUF3394: Domain of un 29.8 35 0.00075 30.9 1.9 21 230-250 162-182 (183)
83 PF12768 Rax2: Cortical protei 28.8 1E+02 0.0022 29.4 4.9 47 215-271 235-281 (281)
84 KOG3899 Uncharacterized conser 28.8 37 0.0008 33.3 2.0 28 86-113 328-366 (381)
85 PF13894 zf-C2H2_4: C2H2-type 28.2 23 0.00049 19.7 0.3 11 103-113 2-12 (24)
86 KOG1941 Acetylcholine receptor 27.8 31 0.00068 35.0 1.3 49 56-109 362-413 (518)
87 PF04532 DUF587: Protein of un 26.6 22 0.00048 32.8 0.1 17 74-90 105-121 (215)
88 COG5175 MOT2 Transcriptional r 26.3 60 0.0013 32.6 2.9 51 57-113 12-65 (480)
89 COG5236 Uncharacterized conser 25.2 81 0.0018 31.8 3.6 55 52-112 54-108 (493)
90 PF00096 zf-C2H2: Zinc finger, 24.1 28 0.00062 19.8 0.2 12 103-114 2-13 (23)
91 PF04641 Rtf2: Rtf2 RING-finge 24.0 71 0.0015 29.6 2.9 50 56-113 110-162 (260)
92 PF05210 Sprouty: Sprouty prot 23.0 59 0.0013 27.2 1.9 19 75-98 59-77 (108)
93 KOG0802 E3 ubiquitin ligase [P 21.6 40 0.00087 34.5 0.8 48 55-114 475-522 (543)
94 PHA03375 hypothetical protein; 21.6 32 0.00069 37.2 0.1 27 65-91 99-128 (844)
95 KOG1100 Predicted E3 ubiquitin 21.0 48 0.001 30.2 1.1 43 58-111 157-199 (207)
96 PF04423 Rad50_zn_hook: Rad50 20.6 64 0.0014 22.8 1.5 23 91-113 8-32 (54)
97 PF10571 UPF0547: Uncharacteri 20.5 49 0.0011 20.7 0.8 13 100-112 13-25 (26)
98 PF02891 zf-MIZ: MIZ/SP-RING z 20.3 66 0.0014 22.8 1.5 35 73-110 11-50 (50)
99 PF11431 Transport_MerF: Membr 20.2 2.1E+02 0.0044 20.7 3.9 21 230-250 24-46 (46)
100 KOG1428 Inhibitor of type V ad 20.2 98 0.0021 37.0 3.4 54 56-112 3483-3544(3738)
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=1.8e-39 Score=268.72 Aligned_cols=115 Identities=55% Similarity=1.064 Sum_probs=111.5
Q ss_pred cCccCCCCcccccc---ccCCCceeeccccCCCCeEEEeeeccccccccccccccCCCCCccchhhhHHHhhhhhhhhhh
Q 023641 113 PGYTAPPPLFRYGG---NFRANWEISGRDLHHNPQLITMVTGEREFLDSDFDEYYTPSSRSLICCRIVAITVHLSLTLFG 189 (279)
Q Consensus 113 ~~yt~p~~l~~~~~---~~~~~Wei~~~dl~~~~~~iam~~~e~~~l~~~~~~~~~~~~~~~~~CR~vai~~~~s~t~~g 189 (279)
|+||+|+|+++.++ ++|++|+++++|+++ +++++|+.+|++|++++|++|+.+|+++++||||+||
T Consensus 1 PgYTaPp~~~~~~~~~i~ir~~we~~~~d~~~-~~~~a~~~ae~~~l~~~y~e~~~~~~~~a~~CRsvAl---------- 69 (118)
T PF12428_consen 1 PGYTAPPKKFQPGETAIDIRGNWEISRRDLRD-PRFLAMAAAERQFLESEYDEYAASNTRGAACCRSVAL---------- 69 (118)
T ss_pred CCCCCCCCCCCcCccceEecCCccccccCccc-hhhhhhhhhhhhccccccccccccCCCceeHHHHHHH----------
Confidence 68999999999987 899999999999997 9999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHhhhhhhccCCCchhHHHHHHHHHHHhhhhHHHHHHHHHHH
Q 023641 190 VRSLFMVLLVLRHTLPIIISGAGEYSLTLFTLLILRTIGILLPIYVMVKAFT 241 (279)
Q Consensus 190 v~~i~~~lLvlRh~~~v~~~~~~~~~~~~~t~~~lra~gillP~yi~~~~~~ 241 (279)
|||+||||||+++|+++|+|+|+|++||+++|||+||+||||||+|+|+
T Consensus 70 ---i~m~LLllRhal~l~~~~~~~~s~~lftl~~LRaaGilLP~Yim~rais 118 (118)
T PF12428_consen 70 ---IFMVLLLLRHALALVTGGAEDYSFTLFTLLLLRAAGILLPCYIMARAIS 118 (118)
T ss_pred ---HHHHHHHHHHHHHHhcCCcccccHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 9999999999999999999999999999999999999999999999984
No 2
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=99.80 E-value=1.1e-20 Score=163.49 Aligned_cols=77 Identities=27% Similarity=0.564 Sum_probs=63.3
Q ss_pred CCCCCCCeeeEeccCCCCCCcccccccCCCcccccHHHHHHHHHhcCCccccccccccccCccCCCCccccccccCCCce
Q 023641 54 SSPSKLVECRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNPGYTAPPPLFRYGGNFRANWE 133 (279)
Q Consensus 54 ~~~~~~~~CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~~~yt~p~~l~~~~~~~~~~We 133 (279)
+.+...+.||||+++++ .+.+||+|+||+||||++||++|++.+++..||+|+++|.... ..+|+. .|.
T Consensus 3 ~~s~~~~~CRIC~~~~~--~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~~-~~kpl~--------~W~ 71 (162)
T PHA02825 3 DVSLMDKCCWICKDEYD--VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIKK-NYKKCT--------KWR 71 (162)
T ss_pred CcCCCCCeeEecCCCCC--CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEEE-ecCCCc--------ccc
Confidence 45677899999998864 4679999999999999999999999999999999999998773 445553 466
Q ss_pred eeccccCC
Q 023641 134 ISGRDLHH 141 (279)
Q Consensus 134 i~~~dl~~ 141 (279)
.+.+|.++
T Consensus 72 ~~~~dc~~ 79 (162)
T PHA02825 72 CSFRDCHD 79 (162)
T ss_pred ccCcchhh
Confidence 66666544
No 3
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=99.79 E-value=4e-20 Score=168.69 Aligned_cols=186 Identities=28% Similarity=0.406 Sum_probs=134.5
Q ss_pred CCCCCCCeeeEeccCCCCC---CcccccccCCCcccccHHHHHHHHHhcCCccccccccccccCccCCCCcccccc---c
Q 023641 54 SSPSKLVECRICHEEDEDS---NMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNPGYTAPPPLFRYGG---N 127 (279)
Q Consensus 54 ~~~~~~~~CRIC~ee~~d~---~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~~~yt~p~~l~~~~~---~ 127 (279)
+.+.....||||+++.++. .++.||.|+|+++|||+.|+++|+..|++..||+|++.|.+.++.+++...+.. .
T Consensus 73 ~~~~~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~~~~~~~~~~~~~~~~~ 152 (323)
T KOG1609|consen 73 ESPSSGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINVGTKLKPLIVISKVRSG 152 (323)
T ss_pred cCCCCCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceecceeecceeehhhhhhH
Confidence 4556678999999987532 699999999999999999999999999999999999999998877766654432 1
Q ss_pred cCCCceeeccccCCCCeEEEeeeccccccccccccccCCCCCccchhhhHH-HhhhhhhhhhhhHHHHHHHHHHHhhhhh
Q 023641 128 FRANWEISGRDLHHNPQLITMVTGEREFLDSDFDEYYTPSSRSLICCRIVA-ITVHLSLTLFGVRSLFMVLLVLRHTLPI 206 (279)
Q Consensus 128 ~~~~Wei~~~dl~~~~~~iam~~~e~~~l~~~~~~~~~~~~~~~~~CR~va-i~~~~s~t~~gv~~i~~~lLvlRh~~~v 206 (279)
..+.|..........+..+++....+.++...++++....+..+..++.+. + ++.++.+.++.+++
T Consensus 153 ~~~~~~~~~~~~~~~~~~~~i~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~~~i~~ 219 (323)
T KOG1609|consen 153 ALSERTLSGMILLKVALLVAIIVSVLPLLLGLLFELVLGVPSLVVESPLANPL-------------ALVALGLLGFKIWI 219 (323)
T ss_pred hhhheeeehhhhhhhhhhheeeEEeehhhhhhhHHHhccccccccCCCccCch-------------hheeecceechHHH
Confidence 123444444322222566666666666776666666555556667777777 4 55555666666665
Q ss_pred hcc---CCCchhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhcc
Q 023641 207 IIS---GAGEYSLTLFTLLILRTIGILLPIYVMVKAFTAIQRRRHQQDT 252 (279)
Q Consensus 207 ~~~---~~~~~~~~~~t~~~lra~gillP~yi~~~~~~~~q~~r~~q~~ 252 (279)
... ....+..+.+.+.++|+.+++++.+++++++-..|.++.+...
T Consensus 220 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 268 (323)
T KOG1609|consen 220 FIILSGYIFILKSLKVKLVLIRAVIFLLLIKVVLAAVVILQLLLQRLVG 268 (323)
T ss_pred HHHHHHHHHHHHHHHHHHhHhhhhccchhhhhhhhhHHHHHHHHhccee
Confidence 432 1225677778899999999999999998777777777776655
No 4
>PHA02862 5L protein; Provisional
Probab=99.69 E-value=9.7e-18 Score=143.49 Aligned_cols=63 Identities=25% Similarity=0.602 Sum_probs=53.7
Q ss_pred CCeeeEeccCCCCCCcccccccCCCcccccHHHHHHHHHhcCCccccccccccccCccCCCCcccc
Q 023641 59 LVECRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNPGYTAPPPLFRY 124 (279)
Q Consensus 59 ~~~CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~~~yt~p~~l~~~ 124 (279)
...||||++++++. .+||+|+||+||||++||++|++.+++..||+|+++|..+ +..+|+.+|
T Consensus 2 ~diCWIC~~~~~e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik-~~yKpf~kW 64 (156)
T PHA02862 2 SDICWICNDVCDER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK-KTYVSFKKW 64 (156)
T ss_pred CCEEEEecCcCCCC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE-EccccHHHh
Confidence 46899999997544 6999999999999999999999999999999999999865 344456554
No 5
>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=1.9e-17 Score=117.76 Aligned_cols=48 Identities=58% Similarity=1.342 Sum_probs=43.9
Q ss_pred eeeEeccC-CCCCCcccccccCCCcccccHHHHHHHHHhcCCccccccc
Q 023641 61 ECRICHEE-DEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICR 108 (279)
Q Consensus 61 ~CRIC~ee-~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk 108 (279)
.||||+++ +++++|+.||.|+|+++|||+.||++|+.++++.+||+|+
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 3457899999999999999999999999999999999996
No 6
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=99.65 E-value=2.3e-17 Score=116.45 Aligned_cols=46 Identities=52% Similarity=1.276 Sum_probs=37.7
Q ss_pred eeEeccCCCC-CCcccccccCCCcccccHHHHHHHHHhcCCcccccc
Q 023641 62 CRICHEEDED-SNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEIC 107 (279)
Q Consensus 62 CRIC~ee~~d-~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiC 107 (279)
||||++++++ ++|++||.|+||++|||++||++|+..+++.+||+|
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 8999998754 469999999999999999999999999999999998
No 7
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=99.50 E-value=8.9e-15 Score=150.73 Aligned_cols=58 Identities=40% Similarity=0.959 Sum_probs=52.8
Q ss_pred CCCCeeeEeccCC-CCCCcccccccCCCcccccHHHHHHHHHhcCCccccccccccccC
Q 023641 57 SKLVECRICHEED-EDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNPG 114 (279)
Q Consensus 57 ~~~~~CRIC~ee~-~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~~~ 114 (279)
++...||||+.|+ +|+||.+||+|+||+||+|++||..|...+++++|++||++|+.+
T Consensus 10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk 68 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFK 68 (1175)
T ss_pred ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeee
Confidence 3447999999887 678999999999999999999999999999999999999998643
No 8
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.50 E-value=1.2e-14 Score=134.34 Aligned_cols=67 Identities=31% Similarity=0.737 Sum_probs=58.1
Q ss_pred CCCCCCCeeeEeccCCCCCC---cccccccCCCcccccHHHHHHHHHhcC------CccccccccccccCccCCCC
Q 023641 54 SSPSKLVECRICHEEDEDSN---MEIPCSCCGSLKYAHRKCVQRWCNEKG------DTTCEICREQYNPGYTAPPP 120 (279)
Q Consensus 54 ~~~~~~~~CRIC~ee~~d~~---Li~PC~C~GSlkyVH~~CL~~W~~~k~------~~~CEiCk~~Y~~~yt~p~~ 120 (279)
++.+.++.||||+..++|+. +++||.|+||.||||+.||.+|+++|. ...|.+|+++|...|+..-+
T Consensus 15 ~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv~P~l~~ 90 (293)
T KOG3053|consen 15 DNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIVFPQLGP 90 (293)
T ss_pred CccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheeeccccCh
Confidence 56678899999999998864 799999999999999999999999873 57999999999987754433
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=97.39 E-value=7.1e-05 Score=51.03 Aligned_cols=41 Identities=39% Similarity=1.066 Sum_probs=31.4
Q ss_pred eeeEeccCCC--CCCcccccccCCCcccccHHHHHHHHHhcCCccccccc
Q 023641 61 ECRICHEEDE--DSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICR 108 (279)
Q Consensus 61 ~CRIC~ee~~--d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk 108 (279)
.|-||+++-+ +.....||. +..|.+|+++|++.++ +|++|+
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~-----H~fh~~Ci~~~~~~~~--~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCG-----HVFHRSCIKEWLKRNN--SCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTS-----EEEEHHHHHHHHHHSS--B-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCC-----CeeCHHHHHHHHHhCC--cCCccC
Confidence 6889998853 334566653 7999999999998864 999995
No 10
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.86 E-value=0.0012 Score=64.31 Aligned_cols=48 Identities=29% Similarity=0.773 Sum_probs=39.9
Q ss_pred CeeeEeccCCCCCC--cccccccCCCcccccHHHHHHHHHhcCCcccccccccccc
Q 023641 60 VECRICHEEDEDSN--MEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNP 113 (279)
Q Consensus 60 ~~CRIC~ee~~d~~--Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~~ 113 (279)
..|-||+|+..++. -+.||+ +..|..|+..|+.+. .+.|++||+.-..
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 79999999975543 379998 789999999999987 4579999996653
No 11
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=96.72 E-value=0.0013 Score=42.67 Aligned_cols=44 Identities=36% Similarity=0.949 Sum_probs=33.2
Q ss_pred eeeEeccCCCCCCcccccccCCCcccccHHHHHHHHHhcCCccccccccc
Q 023641 61 ECRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQ 110 (279)
Q Consensus 61 ~CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~ 110 (279)
.|-||++...+.....||. +..|..|+.+|+.. +...|++|+..
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 4789988764333455676 56899999999987 56689999875
No 12
>PHA02929 N1R/p28-like protein; Provisional
Probab=96.61 E-value=0.0017 Score=60.20 Aligned_cols=50 Identities=34% Similarity=0.698 Sum_probs=37.7
Q ss_pred CCCCeeeEeccCCCCC-------CcccccccCCCcccccHHHHHHHHHhcCCcccccccccccc
Q 023641 57 SKLVECRICHEEDEDS-------NMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNP 113 (279)
Q Consensus 57 ~~~~~CRIC~ee~~d~-------~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~~ 113 (279)
....+|-||+++-.+. ....||. +..|..|+.+|+..+ .+|++|+..+..
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~-----H~FC~~CI~~Wl~~~--~tCPlCR~~~~~ 228 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCN-----HVFCIECIDIWKKEK--NTCPVCRTPFIS 228 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCC-----CcccHHHHHHHHhcC--CCCCCCCCEeeE
Confidence 3467999999974322 1345665 789999999999754 489999998863
No 13
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.48 E-value=0.0022 Score=61.74 Aligned_cols=49 Identities=33% Similarity=0.699 Sum_probs=38.6
Q ss_pred CCCeeeEeccCC--CCCCcccccccCCCcccccHHHHHHHHHhcCCccccccccccc
Q 023641 58 KLVECRICHEED--EDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYN 112 (279)
Q Consensus 58 ~~~~CRIC~ee~--~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~ 112 (279)
...+|-||.+.. .|.-++.||+ +-.|..|+.+|+..-. .+|++|+++..
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~-----H~FH~~Cv~kW~~~y~-~~CPvCrt~iP 372 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCD-----HRFHVGCVDKWLLGYS-NKCPVCRTAIP 372 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccC-----ceechhHHHHHHhhhc-ccCCccCCCCC
Confidence 448999999885 3445799998 6899999999998322 37999997754
No 14
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=96.21 E-value=0.0047 Score=55.78 Aligned_cols=51 Identities=16% Similarity=0.585 Sum_probs=40.3
Q ss_pred CCCCeeeEeccCCCCCCcccccccCCCcccccHHHHHHHHHh--------------cCCcccccccccccc
Q 023641 57 SKLVECRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNE--------------KGDTTCEICREQYNP 113 (279)
Q Consensus 57 ~~~~~CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~--------------k~~~~CEiCk~~Y~~ 113 (279)
.+...|-||++... .+.++||. +.....||.+|+.. ++...|++|+..+..
T Consensus 16 ~~~~~CpICld~~~-dPVvT~CG-----H~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 16 GGDFDCNICLDQVR-DPVVTLCG-----HLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CCccCCccCCCcCC-CcEEcCCC-----chhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 35678999998764 47788886 67899999999863 235689999999864
No 15
>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=95.97 E-value=0.0065 Score=37.91 Aligned_cols=39 Identities=38% Similarity=1.026 Sum_probs=29.9
Q ss_pred eeEeccCCCCCCcccccccCCCcccccHHHHHHHHHhcCCcccccc
Q 023641 62 CRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEIC 107 (279)
Q Consensus 62 CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiC 107 (279)
|.||++.. ......||. ...|..|+.+|++ ++...|++|
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 67888773 356778877 4689999999998 455678876
No 16
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=95.93 E-value=0.0037 Score=43.67 Aligned_cols=46 Identities=28% Similarity=0.689 Sum_probs=36.0
Q ss_pred CCeeeEeccCCCCCCcccccccCCCccc-ccHHHHHHHHHhcCCccccccccccc
Q 023641 59 LVECRICHEEDEDSNMEIPCSCCGSLKY-AHRKCVQRWCNEKGDTTCEICREQYN 112 (279)
Q Consensus 59 ~~~CRIC~ee~~d~~Li~PC~C~GSlky-VH~~CL~~W~~~k~~~~CEiCk~~Y~ 112 (279)
...|.||++... +.+..||. +. +-..|+.+|++ ...+|++|+++++
T Consensus 2 ~~~C~iC~~~~~-~~~~~pCg-----H~~~C~~C~~~~~~--~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPR-DVVLLPCG-----HLCFCEECAERLLK--RKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBS-SEEEETTC-----EEEEEHHHHHHHHH--TTSBBTTTTBB-S
T ss_pred cCCCccCCccCC-ceEEeCCC-----ChHHHHHHhHHhcc--cCCCCCcCChhhc
Confidence 457999998754 36788997 45 88999999998 6679999998865
No 17
>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=95.90 E-value=0.004 Score=41.39 Aligned_cols=41 Identities=34% Similarity=0.944 Sum_probs=34.4
Q ss_pred eeEeccCCCCCCcccccccCCCcccccHHHHHHHHHhcCCcccccc
Q 023641 62 CRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEIC 107 (279)
Q Consensus 62 CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiC 107 (279)
|.||++...+.....||. +.+...|+.+|++.++...|++|
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 678988776544589987 78999999999998888889987
No 18
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=95.86 E-value=0.012 Score=58.19 Aligned_cols=52 Identities=29% Similarity=0.698 Sum_probs=39.6
Q ss_pred CCCCCeeeEeccCC--CC----------CCcccccccCCCcccccHHHHHHHHHhcCCccccccccccccC
Q 023641 56 PSKLVECRICHEED--ED----------SNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNPG 114 (279)
Q Consensus 56 ~~~~~~CRIC~ee~--~d----------~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~~~ 114 (279)
......|-||.+|- .+ .|-..||. +..|-.||+.|+..+. +|+||+.+....
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCG-----HilHl~CLknW~ERqQ--TCPICr~p~ifd 347 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCG-----HILHLHCLKNWLERQQ--TCPICRRPVIFD 347 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCccccccc-----ceeeHHHHHHHHHhcc--CCCcccCccccc
Confidence 45667999999882 11 23478887 6899999999997654 899999985433
No 19
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=95.56 E-value=0.0038 Score=47.30 Aligned_cols=53 Identities=25% Similarity=0.395 Sum_probs=25.7
Q ss_pred CCeeeEeccCCC-CC-C--cc-cccccCCCcccccHHHHHHHHHhc--C-------CccccccccccccC
Q 023641 59 LVECRICHEEDE-DS-N--ME-IPCSCCGSLKYAHRKCVQRWCNEK--G-------DTTCEICREQYNPG 114 (279)
Q Consensus 59 ~~~CRIC~ee~~-d~-~--Li-~PC~C~GSlkyVH~~CL~~W~~~k--~-------~~~CEiCk~~Y~~~ 114 (279)
+.+|.||++... ++ . ++ ..+.|+ +..|..||.+|+... + ..+|+.|+.+.+..
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 468999997642 22 1 22 334664 689999999999752 1 24799999887653
No 20
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=95.52 E-value=0.01 Score=47.32 Aligned_cols=30 Identities=20% Similarity=0.706 Sum_probs=25.7
Q ss_pred ccccHHHHHHHHHhc-CCccccccccccccC
Q 023641 85 KYAHRKCVQRWCNEK-GDTTCEICREQYNPG 114 (279)
Q Consensus 85 kyVH~~CL~~W~~~k-~~~~CEiCk~~Y~~~ 114 (279)
+-.|..||.+|++.. .+..|++|+++|+.+
T Consensus 54 H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 54 HNFHMHCILKWLSTQSSKGQCPMCRQPWKFK 84 (85)
T ss_pred cHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence 679999999999973 567999999998753
No 21
>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=95.48 E-value=0.0083 Score=45.65 Aligned_cols=41 Identities=37% Similarity=0.918 Sum_probs=28.7
Q ss_pred eeeEeccCCCC-----------CC-cccccccCCCcccccHHHHHHHHHhcCCccccccc
Q 023641 61 ECRICHEEDED-----------SN-MEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICR 108 (279)
Q Consensus 61 ~CRIC~ee~~d-----------~~-Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk 108 (279)
.|-||+++-.+ -+ ...+|+ +..|..||.+|++.+. +|++|+
T Consensus 21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~-----H~FH~~Ci~~Wl~~~~--~CP~CR 73 (73)
T PF12678_consen 21 NCAICREPLEDPCPECQAPQDECPIVWGPCG-----HIFHFHCISQWLKQNN--TCPLCR 73 (73)
T ss_dssp BETTTTSBTTSTTCCHHHCTTTS-EEEETTS-----EEEEHHHHHHHHTTSS--B-TTSS
T ss_pred cccccChhhhChhhhhcCCccccceEecccC-----CCEEHHHHHHHHhcCC--cCCCCC
Confidence 49999877421 11 234664 7899999999997655 999996
No 22
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.66 E-value=0.022 Score=57.90 Aligned_cols=49 Identities=29% Similarity=0.673 Sum_probs=39.3
Q ss_pred CCCCCeeeEeccCCCCC----CcccccccCCCcccccHHHHHHHHHhcCCcccccccccc
Q 023641 56 PSKLVECRICHEEDEDS----NMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQY 111 (279)
Q Consensus 56 ~~~~~~CRIC~ee~~d~----~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y 111 (279)
......|.||.|+-... +-..||. +..|..||++|++.+ ..|++|+..+
T Consensus 288 ~~~~~~C~IC~e~l~~~~~~~~~rL~C~-----Hifh~~CL~~W~er~--qtCP~CR~~~ 340 (543)
T KOG0802|consen 288 ALSDELCIICLEELHSGHNITPKRLPCG-----HIFHDSCLRSWFERQ--QTCPTCRTVL 340 (543)
T ss_pred hhcCCeeeeechhhccccccccceeecc-----cchHHHHHHHHHHHh--CcCCcchhhh
Confidence 34577999999985432 5678886 789999999999884 5899999944
No 23
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.60 E-value=0.033 Score=56.75 Aligned_cols=64 Identities=25% Similarity=0.586 Sum_probs=45.5
Q ss_pred cccccccC--CCCCCCCCCCeeeEeccCCC----------------CCCcccccccCCCcccccHHHHHHHHHhcCCccc
Q 023641 43 FSTHRMDK--SIGSSPSKLVECRICHEEDE----------------DSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTC 104 (279)
Q Consensus 43 ~s~~~~~~--~~~~~~~~~~~CRIC~ee~~----------------d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~C 104 (279)
++.++.-+ .+|.-.+....|-||...-+ .+.+.+||. +..|+.||++|.+..+ ..|
T Consensus 553 YsY~r~l~~dh~~~~~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~-----HifH~~CL~~WMd~yk-l~C 626 (636)
T KOG0828|consen 553 YSYHRRLQQDHLEAFVRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCH-----HIFHRQCLLQWMDTYK-LIC 626 (636)
T ss_pred cccccccccccccchhhccccceEeccccceeeccCcchhhhhhhhccccccchH-----HHHHHHHHHHHHhhhc-ccC
Confidence 44444332 23445678899999986521 135778998 6899999999998533 579
Q ss_pred cccccccc
Q 023641 105 EICREQYN 112 (279)
Q Consensus 105 EiCk~~Y~ 112 (279)
++|+.+..
T Consensus 627 PvCR~pLP 634 (636)
T KOG0828|consen 627 PVCRCPLP 634 (636)
T ss_pred CccCCCCC
Confidence 99997654
No 24
>PHA02926 zinc finger-like protein; Provisional
Probab=94.34 E-value=0.039 Score=51.29 Aligned_cols=54 Identities=28% Similarity=0.576 Sum_probs=40.9
Q ss_pred CCCCCeeeEeccCCC------CC--CcccccccCCCcccccHHHHHHHHHhc----CCccccccccccccC
Q 023641 56 PSKLVECRICHEEDE------DS--NMEIPCSCCGSLKYAHRKCVQRWCNEK----GDTTCEICREQYNPG 114 (279)
Q Consensus 56 ~~~~~~CRIC~ee~~------d~--~Li~PC~C~GSlkyVH~~CL~~W~~~k----~~~~CEiCk~~Y~~~ 114 (279)
.+++.+|-||+|.-- +. .+..||. +.....|+.+|.+.+ ....|++|+..|...
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~Cn-----HsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I 232 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCN-----HIFCITCINIWHRTRRETGASDNCPICRTRFRNI 232 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCC-----chHHHHHHHHHHHhccccCcCCcCCCCcceeeee
Confidence 456789999998631 11 3567877 678899999999864 256799999999743
No 25
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=94.11 E-value=0.08 Score=50.60 Aligned_cols=54 Identities=31% Similarity=0.897 Sum_probs=44.0
Q ss_pred CCCCCCCCeeeEeccCCCCCCcccccccCCCcccccHHHHHHHHHhcCCccccccccccccC
Q 023641 53 GSSPSKLVECRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNPG 114 (279)
Q Consensus 53 ~~~~~~~~~CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~~~ 114 (279)
...++....|-+|++.-+ ++=-+||. +..=-.|++.|+++|.. |++|+..++|.
T Consensus 233 ~~i~~a~~kC~LCLe~~~-~pSaTpCG-----HiFCWsCI~~w~~ek~e--CPlCR~~~~ps 286 (293)
T KOG0317|consen 233 SSIPEATRKCSLCLENRS-NPSATPCG-----HIFCWSCILEWCSEKAE--CPLCREKFQPS 286 (293)
T ss_pred ccCCCCCCceEEEecCCC-CCCcCcCc-----chHHHHHHHHHHccccC--CCcccccCCCc
Confidence 345678899999998864 36679998 45667999999999874 99999999875
No 26
>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=93.38 E-value=0.094 Score=37.36 Aligned_cols=46 Identities=17% Similarity=0.344 Sum_probs=36.7
Q ss_pred CeeeEeccCCCCCCcccccccCCCcccccHHHHHHHHHhcCCcccccccccccc
Q 023641 60 VECRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNP 113 (279)
Q Consensus 60 ~~CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~~ 113 (279)
-.|.||.+.-.+ +...||. +..-+.|+.+|+.. ..+|++|+.++..
T Consensus 2 ~~Cpi~~~~~~~-Pv~~~~G-----~v~~~~~i~~~~~~--~~~cP~~~~~~~~ 47 (63)
T smart00504 2 FLCPISLEVMKD-PVILPSG-----QTYERRAIEKWLLS--HGTDPVTGQPLTH 47 (63)
T ss_pred cCCcCCCCcCCC-CEECCCC-----CEEeHHHHHHHHHH--CCCCCCCcCCCCh
Confidence 368899877553 7888874 67899999999987 4589999988854
No 27
>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=93.12 E-value=0.039 Score=36.70 Aligned_cols=38 Identities=26% Similarity=0.877 Sum_probs=28.8
Q ss_pred eeEeccCCCCCC-cccccccCCCcccccHHHHHHHHHhcCCcccccc
Q 023641 62 CRICHEEDEDSN-MEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEIC 107 (279)
Q Consensus 62 CRIC~ee~~d~~-Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiC 107 (279)
|-||++.-.+ + ...||. +...+.|+++|++. ..+|++|
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 6788877654 5 578887 78999999999988 3689887
No 28
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.46 E-value=0.17 Score=47.03 Aligned_cols=53 Identities=17% Similarity=0.591 Sum_probs=43.0
Q ss_pred CCCCCCeeeEeccCCCCCCcccccccCCCcccccHHHHHHHHHhc-CCcccccccccccc
Q 023641 55 SPSKLVECRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEK-GDTTCEICREQYNP 113 (279)
Q Consensus 55 ~~~~~~~CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k-~~~~CEiCk~~Y~~ 113 (279)
.+...-.|-||++...| +.+++|. +..==.||-+|+..+ +...|++||..-..
T Consensus 43 ~~~~~FdCNICLd~akd-PVvTlCG-----HLFCWpClyqWl~~~~~~~~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 43 RDGGFFDCNICLDLAKD-PVVTLCG-----HLFCWPCLYQWLQTRPNSKECPVCKAEVSI 96 (230)
T ss_pred CCCCceeeeeeccccCC-CEEeecc-----cceehHHHHHHHhhcCCCeeCCcccccccc
Confidence 46778899999998865 8999997 455568999999876 46677999998764
No 29
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=91.06 E-value=0.066 Score=58.33 Aligned_cols=54 Identities=26% Similarity=0.688 Sum_probs=39.7
Q ss_pred CCCCCeeeEeccCCC--CCCc-ccccc-cCCCcccccHHHHHHHHHhcCCccccccccccc
Q 023641 56 PSKLVECRICHEEDE--DSNM-EIPCS-CCGSLKYAHRKCVQRWCNEKGDTTCEICREQYN 112 (279)
Q Consensus 56 ~~~~~~CRIC~ee~~--d~~L-i~PC~-C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~ 112 (279)
-+.-.+|-||..--. |..| -.-|. || .-.|-.||-+|++++++..|++|+.++.
T Consensus 1466 fsG~eECaICYsvL~~vdr~lPskrC~TCk---nKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1466 FSGHEECAICYSVLDMVDRSLPSKRCATCK---NKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred cCCcchhhHHHHHHHHHhccCCccccchhh---hhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 356779999976421 2223 23444 54 4689999999999999999999998764
No 30
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=90.82 E-value=0.084 Score=41.73 Aligned_cols=49 Identities=27% Similarity=0.704 Sum_probs=36.0
Q ss_pred eeeEeccCC-----------CCCCcccccccCCCcccccHHHHHHHHHhc-CCcccccccccccc
Q 023641 61 ECRICHEED-----------EDSNMEIPCSCCGSLKYAHRKCVQRWCNEK-GDTTCEICREQYNP 113 (279)
Q Consensus 61 ~CRIC~ee~-----------~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k-~~~~CEiCk~~Y~~ 113 (279)
.|-||+.+. ++-||+-- .| ....|..|+.+|++.+ ....|++|+++|+.
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 777777653 23355443 45 3679999999999975 45799999999875
No 31
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=89.53 E-value=0.26 Score=33.65 Aligned_cols=42 Identities=29% Similarity=0.665 Sum_probs=34.1
Q ss_pred eeeEeccCC--CCCCcccccccCCCcccccHHHHHHHHHhcCCcccccccc
Q 023641 61 ECRICHEED--EDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICRE 109 (279)
Q Consensus 61 ~CRIC~ee~--~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~ 109 (279)
.|-||++.. +..+++.+|. ..+..+|+.++. .....|++|++
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 377898886 3356899997 789999999998 66789999984
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=89.41 E-value=0.27 Score=48.94 Aligned_cols=50 Identities=20% Similarity=0.519 Sum_probs=40.0
Q ss_pred CCCCCeeeEeccCCCCCCcccccccCCCcccccHHHHHHHHHhcCCcccccccccccc
Q 023641 56 PSKLVECRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNP 113 (279)
Q Consensus 56 ~~~~~~CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~~ 113 (279)
.+....|.||++... .+.+.||. +.....|+.+|+..+ ..|++|+..+..
T Consensus 23 Le~~l~C~IC~d~~~-~PvitpCg-----H~FCs~CI~~~l~~~--~~CP~Cr~~~~~ 72 (397)
T TIGR00599 23 LDTSLRCHICKDFFD-VPVLTSCS-----HTFCSLCIRRCLSNQ--PKCPLCRAEDQE 72 (397)
T ss_pred cccccCCCcCchhhh-CccCCCCC-----CchhHHHHHHHHhCC--CCCCCCCCcccc
Confidence 456779999998764 46778987 678889999999765 389999998864
No 33
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.55 E-value=0.39 Score=47.97 Aligned_cols=45 Identities=27% Similarity=0.770 Sum_probs=32.3
Q ss_pred CCeeeEeccCCC-CCCc--ccccccCCCcccccHHHHHHHHHhcCC-ccccccc
Q 023641 59 LVECRICHEEDE-DSNM--EIPCSCCGSLKYAHRKCVQRWCNEKGD-TTCEICR 108 (279)
Q Consensus 59 ~~~CRIC~ee~~-d~~L--i~PC~C~GSlkyVH~~CL~~W~~~k~~-~~CEiCk 108 (279)
...|.||-+..+ +.+| +.-|. ...|..||++|+..-.. +.|+||+
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 568999944433 2233 34444 57999999999987544 7999999
No 34
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=88.06 E-value=0.39 Score=41.49 Aligned_cols=56 Identities=25% Similarity=0.626 Sum_probs=46.7
Q ss_pred CCCeeeEeccCCCCCCcccccccCCCcccccHHHHHHHHHhcCCccccccccccccC
Q 023641 58 KLVECRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNPG 114 (279)
Q Consensus 58 ~~~~CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~~~ 114 (279)
..-+|-||+|.+.|..+..|=.|.|. +.---=|.+-|--.+-.-.|++|++.|+..
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY-~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGY-SICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred CceeccCcccccchhhcCCcccccch-HHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 67899999999988899999999983 445555678888877788999999999854
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=85.76 E-value=0.47 Score=40.85 Aligned_cols=41 Identities=29% Similarity=0.631 Sum_probs=28.9
Q ss_pred CCCCeeeEeccCCCC--CCcccccccCCCc---ccccHHHHHHHHHhc
Q 023641 57 SKLVECRICHEEDED--SNMEIPCSCCGSL---KYAHRKCVQRWCNEK 99 (279)
Q Consensus 57 ~~~~~CRIC~ee~~d--~~Li~PC~C~GSl---kyVH~~CL~~W~~~k 99 (279)
....+|+||++.-.+ +-..-+|. |++ |..|..|+++|-+++
T Consensus 24 ~~~~EC~IC~~~I~~~~GvV~vt~~--g~lnLEkmfc~~C~~rw~~~~ 69 (134)
T PF05883_consen 24 RCTVECQICFDRIDNNDGVVYVTDG--GTLNLEKMFCADCDKRWRRER 69 (134)
T ss_pred ccCeeehhhhhhhhcCCCEEEEecC--CeehHHHHHHHHHHHHHHhhc
Confidence 347899999988533 44555554 544 459999999996554
No 36
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=85.28 E-value=0.34 Score=48.65 Aligned_cols=50 Identities=30% Similarity=0.721 Sum_probs=40.2
Q ss_pred CCCCeeeEeccCCCCCCcccccccCCCcccccHHHHHHHHHhcCCccccccccccc
Q 023641 57 SKLVECRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYN 112 (279)
Q Consensus 57 ~~~~~CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~ 112 (279)
+.-..|.||-|.+.+ .-+-||. +..-..||..|..+.+...|+.|+.+.+
T Consensus 367 sTFeLCKICaendKd-vkIEPCG-----HLlCt~CLa~WQ~sd~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 367 STFELCKICAENDKD-VKIEPCG-----HLLCTSCLAAWQDSDEGQTCPFCRCEIK 416 (563)
T ss_pred chHHHHHHhhccCCC-ccccccc-----chHHHHHHHhhcccCCCCCCCceeeEec
Confidence 345689999776643 5578997 4667899999999988889999998876
No 37
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=85.13 E-value=0.56 Score=37.44 Aligned_cols=27 Identities=30% Similarity=0.755 Sum_probs=24.1
Q ss_pred ccccHHHHHHHHHhcCCcccccccccccc
Q 023641 85 KYAHRKCVQRWCNEKGDTTCEICREQYNP 113 (279)
Q Consensus 85 kyVH~~CL~~W~~~k~~~~CEiCk~~Y~~ 113 (279)
...|-.|+.+|++.|+ .|++++++|+.
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 5689999999999976 79999999875
No 38
>PLN02189 cellulose synthase
Probab=83.39 E-value=0.73 Score=50.78 Aligned_cols=52 Identities=25% Similarity=0.638 Sum_probs=39.6
Q ss_pred CCCCeeeEeccCC---CCCCcccccc-cCCCcccccHHHHHHHHHhcCCccccccccccc
Q 023641 57 SKLVECRICHEED---EDSNMEIPCS-CCGSLKYAHRKCVQRWCNEKGDTTCEICREQYN 112 (279)
Q Consensus 57 ~~~~~CRIC~ee~---~d~~Li~PC~-C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~ 112 (279)
.....|+||-++- .++.+...|+ |. --|=+.|. ..-.+.|+..|+.||+.|+
T Consensus 32 ~~~~~C~iCgd~vg~~~~g~~fvaC~~C~---fpvCr~Cy-eyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 32 LDGQVCEICGDEIGLTVDGDLFVACNECG---FPVCRPCY-EYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred ccCccccccccccCcCCCCCEEEeeccCC---Cccccchh-hhhhhcCCccCcccCCchh
Confidence 3456999998873 4577888998 73 23888998 4444568899999999998
No 39
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=82.66 E-value=0.9 Score=32.71 Aligned_cols=45 Identities=31% Similarity=0.678 Sum_probs=20.6
Q ss_pred eeEeccCC-CCCCcccccccCCCcccccHHHHHHHHHhc--CCccccccccccc
Q 023641 62 CRICHEED-EDSNMEIPCSCCGSLKYAHRKCVQRWCNEK--GDTTCEICREQYN 112 (279)
Q Consensus 62 CRIC~ee~-~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k--~~~~CEiCk~~Y~ 112 (279)
|.+|-++- ..+.-..||.|. ++-|+.=|.+-+ .+..|+-|+.+|+
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 45666654 233457999994 456766676654 4789999999985
No 40
>PLN02436 cellulose synthase A
Probab=80.05 E-value=1.2 Score=49.33 Aligned_cols=52 Identities=25% Similarity=0.667 Sum_probs=40.1
Q ss_pred CCCCeeeEeccC---CCCCCcccccc-cCCCcccccHHHHHHHHHhcCCccccccccccc
Q 023641 57 SKLVECRICHEE---DEDSNMEIPCS-CCGSLKYAHRKCVQRWCNEKGDTTCEICREQYN 112 (279)
Q Consensus 57 ~~~~~CRIC~ee---~~d~~Li~PC~-C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~ 112 (279)
.....|+||-++ +.++.+...|+ |. --|=+.|. ..-.+.|+..|+.||+.|+
T Consensus 34 ~~~~iCqICGD~Vg~t~dGe~FVACn~C~---fpvCr~Cy-eyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 34 LSGQTCQICGDEIELTVDGEPFVACNECA---FPVCRPCY-EYERREGNQACPQCKTRYK 89 (1094)
T ss_pred cCCccccccccccCcCCCCCEEEeeccCC---Cccccchh-hhhhhcCCccCcccCCchh
Confidence 345699999887 35678888888 63 24888998 4445568889999999998
No 41
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.59 E-value=2.3 Score=41.84 Aligned_cols=51 Identities=25% Similarity=0.562 Sum_probs=32.7
Q ss_pred CCCCCeeeEeccCCCCCCcccccccCCCcccccHHHHHHHHHhcCCcccccccccccc
Q 023641 56 PSKLVECRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNP 113 (279)
Q Consensus 56 ~~~~~~CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~~ 113 (279)
.+..++|=||+.+.-+ -++.||+= -..=..|.+.-.- ....|+||++.+..
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 3668999999988754 46667650 0122346555542 23479999998863
No 42
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=71.34 E-value=1.8 Score=44.01 Aligned_cols=49 Identities=24% Similarity=0.691 Sum_probs=35.0
Q ss_pred CCCCCCeeeEeccCCC-C--CCcccccccCCCcccccHHHHHHHHHhcCCccccccccccc
Q 023641 55 SPSKLVECRICHEEDE-D--SNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYN 112 (279)
Q Consensus 55 ~~~~~~~CRIC~ee~~-d--~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~ 112 (279)
...+.+.|-+|+|--+ + +.+-.+|. +-.|-.||++|-.. +|++|++.-.
T Consensus 171 ~~tELPTCpVCLERMD~s~~gi~t~~c~-----Hsfh~~cl~~w~~~----scpvcR~~q~ 222 (493)
T KOG0804|consen 171 GLTELPTCPVCLERMDSSTTGILTILCN-----HSFHCSCLMKWWDS----SCPVCRYCQS 222 (493)
T ss_pred CcccCCCcchhHhhcCccccceeeeecc-----cccchHHHhhcccC----cChhhhhhcC
Confidence 4578999999998632 2 34556665 67899999999654 5777765544
No 43
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=70.61 E-value=2.9 Score=34.91 Aligned_cols=27 Identities=19% Similarity=0.586 Sum_probs=23.4
Q ss_pred ccccHHHHHHHHHhcCCcccccccccccc
Q 023641 85 KYAHRKCVQRWCNEKGDTTCEICREQYNP 113 (279)
Q Consensus 85 kyVH~~CL~~W~~~k~~~~CEiCk~~Y~~ 113 (279)
+-.|..|+.+|++.++ .|++|.++...
T Consensus 83 HaFH~hCisrWlktr~--vCPLdn~eW~~ 109 (114)
T KOG2930|consen 83 HAFHFHCISRWLKTRN--VCPLDNKEWVF 109 (114)
T ss_pred hHHHHHHHHHHHhhcC--cCCCcCcceeE
Confidence 5689999999998876 89999988764
No 44
>PF06210 DUF1003: Protein of unknown function (DUF1003); InterPro: IPR010406 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=68.35 E-value=31 Score=28.49 Aligned_cols=45 Identities=22% Similarity=0.401 Sum_probs=33.9
Q ss_pred HHHHHHHHHhhhhhhcc---CCCchhHHHHHHHHHHHhhhhHHHHHHH
Q 023641 193 LFMVLLVLRHTLPIIIS---GAGEYSLTLFTLLILRTIGILLPIYVMV 237 (279)
Q Consensus 193 i~~~lLvlRh~~~v~~~---~~~~~~~~~~t~~~lra~gillP~yi~~ 237 (279)
++++++++|-++.+..- .-|.|+|.++++++-=.|.++-|+..|.
T Consensus 9 ~~~~~~~~Wi~~N~~~~~~~~fDpyPFilLnl~lS~~Aa~~ap~Ilms 56 (108)
T PF06210_consen 9 IFTVFLAVWILLNILAPPRPAFDPYPFILLNLVLSLEAAYQAPLILMS 56 (108)
T ss_pred HHHHHHHHHHHHHhhccccCCCCCccHHHHHHHHHHHHHHHHHHHHHH
Confidence 56667777777777532 3488999999998888888888885553
No 45
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=67.46 E-value=2.5 Score=28.93 Aligned_cols=40 Identities=28% Similarity=0.715 Sum_probs=25.9
Q ss_pred eeEeccCCCCCCcccccccCCCcccccHHHHHHHHHhcCC--cccccc
Q 023641 62 CRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGD--TTCEIC 107 (279)
Q Consensus 62 CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~--~~CEiC 107 (279)
|-||++--. +|...+|. +-.=+.||.+|.++.+. ..|++|
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 567776654 37778886 45668999999987644 588887
No 46
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=66.82 E-value=5.5 Score=43.34 Aligned_cols=31 Identities=26% Similarity=0.591 Sum_probs=25.1
Q ss_pred ccccccCCCcccccHHHHHHHHHhcCCccccccccccc
Q 023641 75 EIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYN 112 (279)
Q Consensus 75 i~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~ 112 (279)
..+|.| |.|..|+..|.+.- .+|++|..+|-
T Consensus 141 ~k~c~H-----~FC~~Ci~sWsR~a--qTCPiDR~EF~ 171 (1134)
T KOG0825|consen 141 EKHTAH-----YFCEECVGSWSRCA--QTCPVDRGEFG 171 (1134)
T ss_pred cccccc-----ccHHHHhhhhhhhc--ccCchhhhhhh
Confidence 355665 99999999998654 48999999995
No 47
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.41 E-value=3 Score=35.76 Aligned_cols=47 Identities=28% Similarity=0.657 Sum_probs=38.2
Q ss_pred CCCCCCeeeEeccCCCCCCcccccccCCCcccccHHHHHHHHHhcCCcccccccc
Q 023641 55 SPSKLVECRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICRE 109 (279)
Q Consensus 55 ~~~~~~~CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~ 109 (279)
...+...|.||++...+. .+.||. +..=+.|+..+.. ....|+.|+.
T Consensus 9 ~~~~~~~C~iC~~~~~~p-~~l~C~-----H~~c~~C~~~~~~--~~~~Cp~cr~ 55 (386)
T KOG2177|consen 9 VLQEELTCPICLEYFREP-VLLPCG-----HNFCRACLTRSWE--GPLSCPVCRP 55 (386)
T ss_pred hccccccChhhHHHhhcC-cccccc-----chHhHHHHHHhcC--CCcCCcccCC
Confidence 345788999999987653 788887 5677889999988 7789999994
No 48
>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=64.56 E-value=6.5 Score=38.15 Aligned_cols=50 Identities=18% Similarity=0.368 Sum_probs=35.5
Q ss_pred CCeeeEeccCCCCC----CcccccccCCCcccccHHHHHHHHHhcCCccccccccccccC
Q 023641 59 LVECRICHEEDEDS----NMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNPG 114 (279)
Q Consensus 59 ~~~CRIC~ee~~d~----~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~~~ 114 (279)
...|-+|....-.+ -|++||. +-.=..|+.+.+. ++...|+.|+..+...
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CG-----H~~C~sCv~~l~~-~~~~~CP~C~~~lrk~ 56 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCG-----HTLCESCVDLLFV-RGSGSCPECDTPLRKN 56 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCC-----CcccHHHHHHHhc-CCCCCCCCCCCccchh
Confidence 35799999874222 2677775 4555799999654 3566999999988764
No 49
>PLN02195 cellulose synthase A
Probab=63.00 E-value=6.6 Score=43.38 Aligned_cols=52 Identities=21% Similarity=0.533 Sum_probs=36.0
Q ss_pred CCCeeeEeccCC---CCCCcccccccCCCcccccHHHHHHHHHhcCCccccccccccc
Q 023641 58 KLVECRICHEED---EDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYN 112 (279)
Q Consensus 58 ~~~~CRIC~ee~---~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~ 112 (279)
....|+||-++- .++.+..-|+=.| --|=+.|.+ .=+.-|+..|+.||++|+
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~--~pvCrpCye-yer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECS--YPLCKACLE-YEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCC--Cccccchhh-hhhhcCCccCCccCCccc
Confidence 345899998763 3556666666222 247888973 333457899999999998
No 50
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=62.48 E-value=3.9 Score=28.45 Aligned_cols=39 Identities=26% Similarity=0.701 Sum_probs=20.7
Q ss_pred eeEeccCCC-C-CCcccccccCCCcccccHHHHHHHHHhc--CCcccc
Q 023641 62 CRICHEEDE-D-SNMEIPCSCCGSLKYAHRKCVQRWCNEK--GDTTCE 105 (279)
Q Consensus 62 CRIC~ee~~-d-~~Li~PC~C~GSlkyVH~~CL~~W~~~k--~~~~CE 105 (279)
|-||.+-.+ + .++..||. +-+=++||++|.+.+ +..+|+
T Consensus 1 CpIc~e~~~~~n~P~~L~CG-----H~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKEFSTEENPPMVLPCG-----HVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT----TTSS-EEE-SSS------EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCccccccCCCCCCEEEeCc-----cHHHHHHHHHHHhcCCCCeeeCc
Confidence 567776322 2 36889977 578899999999875 456664
No 51
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.39 E-value=6 Score=40.00 Aligned_cols=50 Identities=18% Similarity=0.535 Sum_probs=37.2
Q ss_pred CCCeeeEeccCCC---CCCcccccccCCCcccccHHHHHHHHHhcCCcccccccccc
Q 023641 58 KLVECRICHEEDE---DSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQY 111 (279)
Q Consensus 58 ~~~~CRIC~ee~~---d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y 111 (279)
....|-||+++-. +..++.| .| -...-..|+++|+..+....|+.|+.+-
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl-~c---ghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSL-QC---GHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred ccccCceeeeeeeecCceEEeee-cc---cccccHHHHHHHHhhhhhhhCcccCChh
Confidence 3568999998842 3456666 33 2578899999999866788999998754
No 52
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.14 E-value=8.2 Score=39.79 Aligned_cols=50 Identities=26% Similarity=0.574 Sum_probs=35.0
Q ss_pred CCeeeEeccCCCCCCcccccccCCCcccccHHHHHHHHHh---cCCccccccccccccC
Q 023641 59 LVECRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNE---KGDTTCEICREQYNPG 114 (279)
Q Consensus 59 ~~~CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~---k~~~~CEiCk~~Y~~~ 114 (279)
...|-||+++..- +..+-|. +..=-.||-+.++. ++-..|++|.....++
T Consensus 186 ~~~CPICL~~~~~-p~~t~CG-----HiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~k 238 (513)
T KOG2164|consen 186 DMQCPICLEPPSV-PVRTNCG-----HIFCGPCILQYWNYSAIKGPCSCPICRSTITLK 238 (513)
T ss_pred CCcCCcccCCCCc-ccccccC-----ceeeHHHHHHHHhhhcccCCccCCchhhhcccc
Confidence 7899999998754 3333355 34445777766654 4678999999888764
No 53
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=61.01 E-value=6.3 Score=41.27 Aligned_cols=58 Identities=26% Similarity=0.651 Sum_probs=44.6
Q ss_pred CCCCCCeeeEeccCCCCCCcccccccCCCcccccHHHHHHHHHh---cCCccccccccccccCccCC
Q 023641 55 SPSKLVECRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNE---KGDTTCEICREQYNPGYTAP 118 (279)
Q Consensus 55 ~~~~~~~CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~---k~~~~CEiCk~~Y~~~yt~p 118 (279)
......+|-+|+++.+| ..++-|+ +-.-+.|+..++.. ..+.+|+.|.-.....-+.|
T Consensus 532 enk~~~~C~lc~d~aed-~i~s~Ch-----H~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~ 592 (791)
T KOG1002|consen 532 ENKGEVECGLCHDPAED-YIESSCH-----HKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEP 592 (791)
T ss_pred cccCceeecccCChhhh-hHhhhhh-----HHHHHHHHHHHHHhhhcccCCCCccccccccccccch
Confidence 34567899999998765 7888887 35568899999874 45799999998887664444
No 54
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=59.85 E-value=8.7 Score=42.88 Aligned_cols=52 Identities=23% Similarity=0.600 Sum_probs=36.9
Q ss_pred CCCeeeEeccCC---CCCCcccccccCCCcccccHHHHHHHHHhcCCccccccccccc
Q 023641 58 KLVECRICHEED---EDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYN 112 (279)
Q Consensus 58 ~~~~CRIC~ee~---~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~ 112 (279)
....|+||-++- .++.+..-|+=.| --|=+.|.+- =..-|+..|+.||++|+
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~--FPVCrpCYEY-Er~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCA--FPVCRPCYEY-ERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCC--Cccccchhhh-hhhcCCccCCccCCchh
Confidence 456999998873 4567766676222 2377889743 33447889999999998
No 55
>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=59.50 E-value=5.2 Score=27.66 Aligned_cols=22 Identities=18% Similarity=0.730 Sum_probs=15.8
Q ss_pred cccHHHHHHHHHhcCCcccccc
Q 023641 86 YAHRKCVQRWCNEKGDTTCEIC 107 (279)
Q Consensus 86 yVH~~CL~~W~~~k~~~~CEiC 107 (279)
-.|..|++++++.+.+.+|+.|
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 3999999999998877789877
No 56
>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=58.76 E-value=10 Score=37.51 Aligned_cols=34 Identities=24% Similarity=0.765 Sum_probs=25.3
Q ss_pred cccccCCCcccccHHHHHHHHHhc-----------CCccccccccccc
Q 023641 76 IPCSCCGSLKYAHRKCVQRWCNEK-----------GDTTCEICREQYN 112 (279)
Q Consensus 76 ~PC~C~GSlkyVH~~CL~~W~~~k-----------~~~~CEiCk~~Y~ 112 (279)
.+|.|+- -==.+|+-||+.++ |+..|+.|+..|=
T Consensus 307 ~~C~CRP---mWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 307 QQCYCRP---MWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred ccccccc---hHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 4667752 22468999999765 4779999999884
No 57
>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=58.25 E-value=5.3 Score=30.02 Aligned_cols=47 Identities=19% Similarity=0.355 Sum_probs=30.7
Q ss_pred CeeeEeccCCCCCCcccccccCCCcccccHHHHHHHHHhcCCcccccccccccc
Q 023641 60 VECRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNP 113 (279)
Q Consensus 60 ~~CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~~ 113 (279)
-.|-|+++--. ++.+.||. +..=+.|+++|+.. +..+|++|+.....
T Consensus 5 f~CpIt~~lM~-dPVi~~~G-----~tyer~~I~~~l~~-~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 5 FLCPITGELMR-DPVILPSG-----HTYERSAIERWLEQ-NGGTDPFTRQPLSE 51 (73)
T ss_dssp GB-TTTSSB-S-SEEEETTS-----EEEEHHHHHHHHCT-TSSB-TTT-SB-SG
T ss_pred cCCcCcCcHhh-CceeCCcC-----CEEcHHHHHHHHHc-CCCCCCCCCCcCCc
Confidence 34566654433 37777754 68899999999988 55689999887764
No 58
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=55.99 E-value=5.4 Score=38.90 Aligned_cols=48 Identities=25% Similarity=0.571 Sum_probs=36.1
Q ss_pred CCCCeeeEeccCCCCCCcccccccCCCcccccHHHHHHHHHhcCCccccccccccc
Q 023641 57 SKLVECRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYN 112 (279)
Q Consensus 57 ~~~~~CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~ 112 (279)
..+..||||.+--. -++++||. +-.-.-|+.+.+++.. .|++|.+++.
T Consensus 23 Ds~lrC~IC~~~i~-ip~~TtCg-----HtFCslCIR~hL~~qp--~CP~Cr~~~~ 70 (391)
T COG5432 23 DSMLRCRICDCRIS-IPCETTCG-----HTFCSLCIRRHLGTQP--FCPVCREDPC 70 (391)
T ss_pred hhHHHhhhhhheee-cceecccc-----cchhHHHHHHHhcCCC--CCccccccHH
Confidence 45678999977653 37888887 3455678888887654 7999999875
No 59
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=52.99 E-value=15 Score=29.20 Aligned_cols=55 Identities=24% Similarity=0.562 Sum_probs=23.5
Q ss_pred CCCCeeeEeccCC---CCCCcccccccCCCcccccHHHHHHHHHhcCCccccccccccccC
Q 023641 57 SKLVECRICHEED---EDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNPG 114 (279)
Q Consensus 57 ~~~~~CRIC~ee~---~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~~~ 114 (279)
.....|.||-++- .++.+..-|.=-+ --|=+.|.+-=+++ |+..|..|+++|+-.
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~--fPvCr~CyEYErke-g~q~CpqCkt~ykr~ 64 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECA--FPVCRPCYEYERKE-GNQVCPQCKTRYKRH 64 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-------HHHHHHHHHT-S-SB-TTT--B----
T ss_pred cCCcccccccCccccCCCCCEEEEEcccC--CccchhHHHHHhhc-CcccccccCCCcccc
Confidence 4567899998763 4566766666222 34788887765544 677999999999854
No 60
>COG1983 PspC Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]
Probab=52.25 E-value=23 Score=27.43 Aligned_cols=15 Identities=13% Similarity=0.304 Sum_probs=12.6
Q ss_pred HhhhhHHHHHHHHHH
Q 023641 226 TIGILLPIYVMVKAF 240 (279)
Q Consensus 226 a~gillP~yi~~~~~ 240 (279)
..|+.++.||+++.|
T Consensus 45 ~~~~~ii~Yiia~~i 59 (70)
T COG1983 45 LTGFGIIAYIIAALI 59 (70)
T ss_pred chhHHHHHHHHHHHH
Confidence 578889999999865
No 61
>PLN02400 cellulose synthase
Probab=51.52 E-value=11 Score=42.07 Aligned_cols=53 Identities=23% Similarity=0.586 Sum_probs=36.5
Q ss_pred CCCCeeeEeccCC---CCCCcccccccCCCcccccHHHHHHHHHhcCCccccccccccc
Q 023641 57 SKLVECRICHEED---EDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYN 112 (279)
Q Consensus 57 ~~~~~CRIC~ee~---~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~ 112 (279)
.....|+||-++- .++++..-|+=.| --|=|.|.+- =..-|+..|+.||++|+
T Consensus 34 ~~gqiCqICGD~VG~t~dGe~FVAC~eCa--FPVCRpCYEY-ERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 34 LNGQICQICGDDVGVTETGDVFVACNECA--FPVCRPCYEY-ERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred cCCceeeecccccCcCCCCCEEEEEccCC--Cccccchhhe-ecccCCccCcccCCccc
Confidence 3456999998773 4567766666222 2377788632 23347889999999998
No 62
>COG4420 Predicted membrane protein [Function unknown]
Probab=50.71 E-value=46 Score=30.41 Aligned_cols=44 Identities=27% Similarity=0.465 Sum_probs=34.1
Q ss_pred HHHHHHHHhhhhhhc---cCCCchhHHHHHHHHHHHhhhhHHHHHHH
Q 023641 194 FMVLLVLRHTLPIII---SGAGEYSLTLFTLLILRTIGILLPIYVMV 237 (279)
Q Consensus 194 ~~~lLvlRh~~~v~~---~~~~~~~~~~~t~~~lra~gillP~yi~~ 237 (279)
+++++++|-.+.+.+ ..-+.|+|.++.+++--.|.|--|+..|.
T Consensus 64 ~~~~ll~Wi~lNl~~~~~~~wDpyPFi~LnLllS~~AaiqAp~IlmS 110 (191)
T COG4420 64 FTLLLLLWIVLNLFLVPGLAWDPYPFILLNLLLSTLAAIQAPLILMS 110 (191)
T ss_pred HHHHHHHHHHHHHhhhcCCcCCCccHHHHHHHHHHHHHHHHhHHHHH
Confidence 346677888877753 23389999999999999999999986654
No 63
>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=50.60 E-value=5.5 Score=30.77 Aligned_cols=33 Identities=24% Similarity=0.700 Sum_probs=23.9
Q ss_pred CCCCeeeEeccCCCCCC-cccccccCCCcccccHHHHHH
Q 023641 57 SKLVECRICHEEDEDSN-MEIPCSCCGSLKYAHRKCVQR 94 (279)
Q Consensus 57 ~~~~~CRIC~ee~~d~~-Li~PC~C~GSlkyVH~~CL~~ 94 (279)
.+...|.+|...-..+. .+-||. ..+|..|++|
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 34567999988764444 467875 6899999864
No 64
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=50.05 E-value=14 Score=41.10 Aligned_cols=54 Identities=26% Similarity=0.718 Sum_probs=37.7
Q ss_pred CCCCCeeeEeccCC---CCCCcccccccCCCcccccHHHHHHHHHhcCCccccccccccc
Q 023641 56 PSKLVECRICHEED---EDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYN 112 (279)
Q Consensus 56 ~~~~~~CRIC~ee~---~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~ 112 (279)
.-....|.||-++- .++.+..-|+=.| --|=+.|.+ .=.+.|+..|+.||++|+
T Consensus 12 ~~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~--fpvCr~cye-ye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 12 SADAKTCRVCGDEVGVKEDGQPFVACHVCG--FPVCKPCYE-YERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CCCcchhhccccccCcCCCCCEEEEeccCC--Cccccchhh-hhhhcCCccCCccCCchh
Confidence 34677899998773 4566666666222 237788983 334457889999999998
No 65
>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=47.83 E-value=83 Score=25.56 Aligned_cols=8 Identities=38% Similarity=0.380 Sum_probs=3.3
Q ss_pred hhhhHHHH
Q 023641 227 IGILLPIY 234 (279)
Q Consensus 227 ~gillP~y 234 (279)
+.|||.+.
T Consensus 30 liill~c~ 37 (102)
T PF11669_consen 30 LIILLSCC 37 (102)
T ss_pred HHHHHHHH
Confidence 33444443
No 66
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=46.65 E-value=7.6 Score=38.60 Aligned_cols=48 Identities=27% Similarity=0.573 Sum_probs=37.1
Q ss_pred CCCCeeeEeccCCCCCCcccccccCCCcccccHHHHHHHHHhcCCccccccccccc
Q 023641 57 SKLVECRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYN 112 (279)
Q Consensus 57 ~~~~~CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~ 112 (279)
...-.|-||++=.. -+++.||. +-.-.-|+...++.+ ..|+.|..+++
T Consensus 21 D~lLRC~IC~eyf~-ip~itpCs-----HtfCSlCIR~~L~~~--p~CP~C~~~~~ 68 (442)
T KOG0287|consen 21 DDLLRCGICFEYFN-IPMITPCS-----HTFCSLCIRKFLSYK--PQCPTCCVTVT 68 (442)
T ss_pred HHHHHHhHHHHHhc-Cceecccc-----chHHHHHHHHHhccC--CCCCceecccc
Confidence 34668999998764 48999987 345567888888765 47999999886
No 67
>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=44.41 E-value=9.3 Score=25.67 Aligned_cols=19 Identities=21% Similarity=0.593 Sum_probs=14.2
Q ss_pred ccccccccccccCccCCCC
Q 023641 102 TTCEICREQYNPGYTAPPP 120 (279)
Q Consensus 102 ~~CEiCk~~Y~~~yt~p~~ 120 (279)
+.|+.|+..|...|.+|+.
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 4799999999998877643
No 68
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=44.24 E-value=20 Score=35.12 Aligned_cols=55 Identities=25% Similarity=0.513 Sum_probs=39.9
Q ss_pred CCCCCCeeeEeccCCCCCC--cccccccCCCcccccHHHHHHHHHhc---------------------CCcccccccccc
Q 023641 55 SPSKLVECRICHEEDEDSN--MEIPCSCCGSLKYAHRKCVQRWCNEK---------------------GDTTCEICREQY 111 (279)
Q Consensus 55 ~~~~~~~CRIC~ee~~d~~--Li~PC~C~GSlkyVH~~CL~~W~~~k---------------------~~~~CEiCk~~Y 111 (279)
+.....+|-||+-+..+++ .+++|. +|.|-.||.|.+++- -...|++|....
T Consensus 111 nn~p~gqCvICLygfa~~~~ft~T~C~-----Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i 185 (368)
T KOG4445|consen 111 NNHPNGQCVICLYGFASSPAFTVTACD-----HYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERI 185 (368)
T ss_pred CCCCCCceEEEEEeecCCCceeeehhH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhc
Confidence 3455667888877654444 578887 799999999998641 145799999887
Q ss_pred ccC
Q 023641 112 NPG 114 (279)
Q Consensus 112 ~~~ 114 (279)
+..
T Consensus 186 ~~e 188 (368)
T KOG4445|consen 186 KIE 188 (368)
T ss_pred ccc
Confidence 643
No 69
>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 KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=41.97 E-value=19 Score=39.49 Aligned_cols=54 Identities=22% Similarity=0.557 Sum_probs=40.0
Q ss_pred CCCCCCeeeEeccCCC--CCCcccccccCCCcccccHHHHHHHHHhc-----CCccccccccccc
Q 023641 55 SPSKLVECRICHEEDE--DSNMEIPCSCCGSLKYAHRKCVQRWCNEK-----GDTTCEICREQYN 112 (279)
Q Consensus 55 ~~~~~~~CRIC~ee~~--d~~Li~PC~C~GSlkyVH~~CL~~W~~~k-----~~~~CEiCk~~Y~ 112 (279)
......+|-||.+.-. ..-| +|+.=....|..|+++|-..+ ..|+|+-|++.++
T Consensus 187 l~~~~yeCmIC~e~I~~t~~~W----SC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~ 247 (950)
T KOG1952|consen 187 LSNRKYECMICTERIKRTAPVW----SCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK 247 (950)
T ss_pred HhcCceEEEEeeeeccccCCce----ecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence 3467889999998753 2223 233335779999999999753 4799999998886
No 71
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=41.84 E-value=37 Score=28.75 Aligned_cols=25 Identities=20% Similarity=0.195 Sum_probs=9.6
Q ss_pred HHHHhhhhHHHHHHHHHHHHHHHHHhhh
Q 023641 223 ILRTIGILLPIYVMVKAFTAIQRRRHQQ 250 (279)
Q Consensus 223 ~lra~gillP~yi~~~~~~~~q~~r~~q 250 (279)
+...||+++=+.+ ....|.|+|+++
T Consensus 71 ~gv~aGvIg~Ill---i~y~irR~~Kk~ 95 (122)
T PF01102_consen 71 FGVMAGVIGIILL---ISYCIRRLRKKS 95 (122)
T ss_dssp HHHHHHHHHHHHH---HHHHHHHHS---
T ss_pred HHHHHHHHHHHHH---HHHHHHHHhccC
Confidence 3444666553322 223344444444
No 72
>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins. Their function is unknown.
Probab=41.17 E-value=30 Score=30.70 Aligned_cols=30 Identities=20% Similarity=0.448 Sum_probs=17.8
Q ss_pred HHHHhhhhHHHHHHHHHHHHHHHHH--hhhcc
Q 023641 223 ILRTIGILLPIYVMVKAFTAIQRRR--HQQDT 252 (279)
Q Consensus 223 ~lra~gillP~yi~~~~~~~~q~~r--~~q~~ 252 (279)
++-.+..++=.|+++|++..-.+.| |+++.
T Consensus 100 Vl~g~s~l~i~yfvir~~R~r~~~rktRkYgv 131 (163)
T PF06679_consen 100 VLVGLSALAILYFVIRTFRLRRRNRKTRKYGV 131 (163)
T ss_pred HHHHHHHHHHHHHHHHHHhhccccccceeecc
Confidence 3444555667899999887543222 45544
No 73
>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=40.55 E-value=32 Score=28.48 Aligned_cols=22 Identities=27% Similarity=0.537 Sum_probs=9.5
Q ss_pred hhHHHHHHHHHHHHHHHHHhhh
Q 023641 229 ILLPIYVMVKAFTAIQRRRHQQ 250 (279)
Q Consensus 229 illP~yi~~~~~~~~q~~r~~q 250 (279)
|++.+.|++-++..+-|||+|.
T Consensus 8 ii~~i~l~~~~~~~~~rRR~r~ 29 (130)
T PF12273_consen 8 IIVAILLFLFLFYCHNRRRRRR 29 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHhhc
Confidence 3334444444444444444444
No 74
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=37.65 E-value=11 Score=42.03 Aligned_cols=52 Identities=23% Similarity=0.436 Sum_probs=37.4
Q ss_pred CCCCeeeEeccCCCC-CCcccccccCCCcccccHHHHHHHHHhcCCccccccccc
Q 023641 57 SKLVECRICHEEDED-SNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQ 110 (279)
Q Consensus 57 ~~~~~CRIC~ee~~d-~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~ 110 (279)
+....|-||.+.+.+ .+.+.-|. |=-.+||+.|.-.=....|.|.|.-|.+.
T Consensus 217 ~~D~~C~iC~~~~~~n~n~ivfCD--~Cnl~VHq~Cygi~~ipeg~WlCr~Cl~s 269 (1051)
T KOG0955|consen 217 EEDAVCCICLDGECQNSNVIVFCD--GCNLAVHQECYGIPFIPEGQWLCRRCLQS 269 (1051)
T ss_pred CCCccceeecccccCCCceEEEcC--CCcchhhhhccCCCCCCCCcEeehhhccC
Confidence 566789999998755 35566665 32479999998744445678888888753
No 75
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=37.56 E-value=26 Score=34.52 Aligned_cols=51 Identities=24% Similarity=0.578 Sum_probs=35.4
Q ss_pred CCCCeeeEeccCCCCCC-----c--ccccccCCCcccccHHHHHHHHHhcC-----Cccccccccccc
Q 023641 57 SKLVECRICHEEDEDSN-----M--EIPCSCCGSLKYAHRKCVQRWCNEKG-----DTTCEICREQYN 112 (279)
Q Consensus 57 ~~~~~CRIC~ee~~d~~-----L--i~PC~C~GSlkyVH~~CL~~W~~~k~-----~~~CEiCk~~Y~ 112 (279)
...+.|=||++...+.. + ..+|. +..=.+|+.+|...+. ...|++|+..-+
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~-----H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCN-----HSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcc-----hhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 45889999998864322 2 24465 3445689999997665 689999986543
No 76
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.97 E-value=11 Score=36.36 Aligned_cols=55 Identities=24% Similarity=0.671 Sum_probs=39.1
Q ss_pred CCCCCCeeeEeccC-----CCCC----CcccccccCCCcccccHHHHHHHHHhcCCccccccccccccC
Q 023641 55 SPSKLVECRICHEE-----DEDS----NMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNPG 114 (279)
Q Consensus 55 ~~~~~~~CRIC~ee-----~~d~----~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~~~ 114 (279)
...+...|-+|-.. ++|+ --..-|+ +-.|+-|+.-|+.-.+..+|+-||.+-..+
T Consensus 220 khl~d~vCaVCg~~~~~s~~eegvienty~LsCn-----HvFHEfCIrGWcivGKkqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 220 KHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCN-----HVFHEFCIRGWCIVGKKQTCPYCKEKVDLK 283 (328)
T ss_pred CCCCcchhHhhcchheeecchhhhhhhheeeecc-----cchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence 34566789999544 1222 1234454 679999999999988888999999877643
No 77
>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=35.49 E-value=52 Score=29.38 Aligned_cols=39 Identities=28% Similarity=0.658 Sum_probs=25.9
Q ss_pred CCeeeEeccCCCCC------Cccccc---ccCCCcccccHHHHHHHHHhc
Q 023641 59 LVECRICHEEDEDS------NMEIPC---SCCGSLKYAHRKCVQRWCNEK 99 (279)
Q Consensus 59 ~~~CRIC~ee~~d~------~Li~PC---~C~GSlkyVH~~CL~~W~~~k 99 (279)
...|-||+|-.-.. .-...| -|.. .|-|..||.+..+..
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 56899998764211 113334 3664 488999999998764
No 78
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.51 E-value=46 Score=30.30 Aligned_cols=52 Identities=15% Similarity=0.453 Sum_probs=35.3
Q ss_pred CCCCCCCCeeeEeccCCCCC-CcccccccCCCcccccHHHHHHHHHhcCCcccccccccc
Q 023641 53 GSSPSKLVECRICHEEDEDS-NMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQY 111 (279)
Q Consensus 53 ~~~~~~~~~CRIC~ee~~d~-~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y 111 (279)
+...+...-|-||++..++. +.-+=|. +..=.+|++.-++ ...+|++|+...
T Consensus 125 ~~~~~~~~~CPiCl~~~sek~~vsTkCG-----HvFC~~Cik~alk--~~~~CP~C~kkI 177 (187)
T KOG0320|consen 125 PLRKEGTYKCPICLDSVSEKVPVSTKCG-----HVFCSQCIKDALK--NTNKCPTCRKKI 177 (187)
T ss_pred ccccccccCCCceecchhhccccccccc-----hhHHHHHHHHHHH--hCCCCCCccccc
Confidence 44456678899999987543 3334454 4555788877764 456899999743
No 79
>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=31.16 E-value=24 Score=26.45 Aligned_cols=13 Identities=23% Similarity=0.723 Sum_probs=10.4
Q ss_pred ccHHHHHHHHHhc
Q 023641 87 AHRKCVQRWCNEK 99 (279)
Q Consensus 87 VH~~CL~~W~~~k 99 (279)
|++.|+++|+..+
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 80
>PRK11877 psaI photosystem I reaction center subunit VIII; Reviewed
Probab=30.84 E-value=63 Score=22.38 Aligned_cols=34 Identities=18% Similarity=0.370 Sum_probs=26.1
Q ss_pred CchhHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Q 023641 212 GEYSLTLFTLLILRTIGILLPIYVMVKAFTAIQR 245 (279)
Q Consensus 212 ~~~~~~~~t~~~lra~gillP~yi~~~~~~~~q~ 245 (279)
++|+-+.+--++.=..|+++|...|+-.+.-||+
T Consensus 3 g~~aas~LPsI~VPlVGlvfPai~Mallf~yIe~ 36 (38)
T PRK11877 3 GDFAASWLPWIFVPLVGWVFPAVFMVLLGRYITA 36 (38)
T ss_pred chHhHHhCchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 5666666666777889999999999887766654
No 81
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.84 E-value=56 Score=31.33 Aligned_cols=53 Identities=28% Similarity=0.606 Sum_probs=39.3
Q ss_pred CCCCCCeeeEeccCCCCCCcccccccCCCcccccHHHHHH-HHHhcCCccccccccccccC
Q 023641 55 SPSKLVECRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQR-WCNEKGDTTCEICREQYNPG 114 (279)
Q Consensus 55 ~~~~~~~CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~-W~~~k~~~~CEiCk~~Y~~~ 114 (279)
.+.....|-||.+.-+ .+.-+||. +..--.||.. |..++ ...|++|++.-.|+
T Consensus 211 ip~~d~kC~lC~e~~~-~ps~t~Cg-----HlFC~~Cl~~~~t~~k-~~~CplCRak~~pk 264 (271)
T COG5574 211 IPLADYKCFLCLEEPE-VPSCTPCG-----HLFCLSCLLISWTKKK-YEFCPLCRAKVYPK 264 (271)
T ss_pred ccccccceeeeecccC-Cccccccc-----chhhHHHHHHHHHhhc-cccCchhhhhccch
Confidence 4567888999988765 47788887 4566788888 87665 34699999876554
No 82
>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=29.85 E-value=35 Score=30.88 Aligned_cols=21 Identities=24% Similarity=0.540 Sum_probs=16.6
Q ss_pred hHHHHHHHHHHHHHHHHHhhh
Q 023641 230 LLPIYVMVKAFTAIQRRRHQQ 250 (279)
Q Consensus 230 llP~yi~~~~~~~~q~~r~~q 250 (279)
.+|-.+++-.+..+||||+++
T Consensus 162 yiPAlLLL~lv~~lQrRR~~~ 182 (183)
T PF11874_consen 162 YIPALLLLGLVAWLQRRRRRK 182 (183)
T ss_pred eHHHHHHHHHHHHHhhhhccC
Confidence 357777778888899999775
No 83
>PF12768 Rax2: Cortical protein marker for cell polarity
Probab=28.78 E-value=1e+02 Score=29.35 Aligned_cols=47 Identities=30% Similarity=0.400 Sum_probs=23.4
Q ss_pred hHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhccccCccCCcccccCCCCCCC
Q 023641 215 SLTLFTLLILRTIGILLPIYVMVKAFTAIQRRRHQQDTRFSLVTSDEENELPQQQHT 271 (279)
Q Consensus 215 ~~~~~t~~~lra~gillP~yi~~~~~~~~q~~r~~q~~~~~~~~~~~~~~~~~~~~~ 271 (279)
+.+|=+++++..+||++ .-++|||+.+ .+.+...--+|+||-+..||
T Consensus 235 AiALG~v~ll~l~Gii~---------~~~~r~~~~~-~~~p~~~~~d~~~~~~~vpP 281 (281)
T PF12768_consen 235 AIALGTVFLLVLIGIIL---------AYIRRRRQGY-VPAPTSPRIDEDEMMQRVPP 281 (281)
T ss_pred HHHHHHHHHHHHHHHHH---------HHHHhhhccC-cCCCcccccCcccccccCCC
Confidence 34555666777777654 2244554433 22222233456666554443
No 84
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=28.75 E-value=37 Score=33.33 Aligned_cols=28 Identities=21% Similarity=0.571 Sum_probs=22.0
Q ss_pred cccHHHHHHHHHhc-----------CCcccccccccccc
Q 023641 86 YAHRKCVQRWCNEK-----------GDTTCEICREQYNP 113 (279)
Q Consensus 86 yVH~~CL~~W~~~k-----------~~~~CEiCk~~Y~~ 113 (279)
.--++||.+|+..+ |+-.|+.|+..|-.
T Consensus 328 ~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci 366 (381)
T KOG3899|consen 328 LWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI 366 (381)
T ss_pred HHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence 45689999999643 67899999988853
No 85
>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=28.23 E-value=23 Score=19.70 Aligned_cols=11 Identities=27% Similarity=0.990 Sum_probs=7.3
Q ss_pred ccccccccccc
Q 023641 103 TCEICREQYNP 113 (279)
Q Consensus 103 ~CEiCk~~Y~~ 113 (279)
.|++|+..|..
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 69999998864
No 86
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=27.77 E-value=31 Score=35.04 Aligned_cols=49 Identities=27% Similarity=0.705 Sum_probs=38.9
Q ss_pred CCCCCeeeEeccCC--CCCCc-ccccccCCCcccccHHHHHHHHHhcCCcccccccc
Q 023641 56 PSKLVECRICHEED--EDSNM-EIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICRE 109 (279)
Q Consensus 56 ~~~~~~CRIC~ee~--~d~~L-i~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~ 109 (279)
.+.+-.|-.|-+.- .+++| -.||+ +..|..|++..+..++++.|+-|+.
T Consensus 362 ~e~~L~Cg~CGe~~Glk~e~LqALpCs-----HIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 362 EETELYCGLCGESIGLKNERLQALPCS-----HIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HHHhhhhhhhhhhhcCCcccccccchh-----HHHHHHHHHHHHHhCCCCCCccHHH
Confidence 35567899996652 23345 58998 7899999999999999999999993
No 87
>PF04532 DUF587: Protein of unknown function (DUF587); InterPro: IPR007618 This domain is found at the N-termini of some human herpesvirus U58 proteins, and some cytomegalovirus UL87 proteins. This region is always found N-terminal to the UL87 (IPR004285 from INTERPRO), which has no known function.
Probab=26.62 E-value=22 Score=32.79 Aligned_cols=17 Identities=47% Similarity=0.761 Sum_probs=15.2
Q ss_pred cccccccCCCcccccHH
Q 023641 74 MEIPCSCCGSLKYAHRK 90 (279)
Q Consensus 74 Li~PC~C~GSlkyVH~~ 90 (279)
...|+.|.|.+-|||++
T Consensus 105 ~~~~~~C~GP~LYVhr~ 121 (215)
T PF04532_consen 105 AECAYFCRGPLLYVHRK 121 (215)
T ss_pred hhCCcccCCceEEEEcc
Confidence 37899999999999994
No 88
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=26.27 E-value=60 Score=32.58 Aligned_cols=51 Identities=25% Similarity=0.632 Sum_probs=33.2
Q ss_pred CCCCeeeEeccCCC-CCCcccccccCCCcccccHHHHHHHHHhc--CCcccccccccccc
Q 023641 57 SKLVECRICHEEDE-DSNMEIPCSCCGSLKYAHRKCVQRWCNEK--GDTTCEICREQYNP 113 (279)
Q Consensus 57 ~~~~~CRIC~ee~~-d~~Li~PC~C~GSlkyVH~~CL~~W~~~k--~~~~CEiCk~~Y~~ 113 (279)
.++..|-.|.++-+ ...-..||.|. | +-|---|-+-+ -+.+|+-|+..|.-
T Consensus 12 deed~cplcie~mditdknf~pc~cg----y--~ic~fc~~~irq~lngrcpacrr~y~d 65 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCPCG----Y--QICQFCYNNIRQNLNGRCPACRRKYDD 65 (480)
T ss_pred cccccCcccccccccccCCcccCCcc----c--HHHHHHHHHHHhhccCCChHhhhhccc
Confidence 34556999998853 22446799983 3 33444464433 46799999999964
No 89
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=25.25 E-value=81 Score=31.77 Aligned_cols=55 Identities=18% Similarity=0.454 Sum_probs=35.0
Q ss_pred CCCCCCCCCeeeEeccCCCCCCcccccccCCCcccccHHHHHHHHHhcCCccccccccccc
Q 023641 52 IGSSPSKLVECRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYN 112 (279)
Q Consensus 52 ~~~~~~~~~~CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~ 112 (279)
+++..++...|-||-+.-. -.-+.||.= -.-..|--|-..--....|.+|+++..
T Consensus 54 addtDEen~~C~ICA~~~T-Ys~~~PC~H-----~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 54 ADDTDEENMNCQICAGSTT-YSARYPCGH-----QICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred ccccccccceeEEecCCce-EEEeccCCc-----hHHHHHHHHHHHHHhccCCCccccccc
Confidence 4456677889999977642 134689871 122234444444445668999999875
No 90
>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=24.11 E-value=28 Score=19.85 Aligned_cols=12 Identities=25% Similarity=0.897 Sum_probs=9.8
Q ss_pred cccccccccccC
Q 023641 103 TCEICREQYNPG 114 (279)
Q Consensus 103 ~CEiCk~~Y~~~ 114 (279)
.|+.|+..|...
T Consensus 2 ~C~~C~~~f~~~ 13 (23)
T PF00096_consen 2 KCPICGKSFSSK 13 (23)
T ss_dssp EETTTTEEESSH
T ss_pred CCCCCCCccCCH
Confidence 699999999753
No 91
>PF04641 Rtf2: Rtf2 RING-finger
Probab=24.03 E-value=71 Score=29.61 Aligned_cols=50 Identities=18% Similarity=0.474 Sum_probs=33.9
Q ss_pred CCCCCeeeEeccCCCC-CC--cccccccCCCcccccHHHHHHHHHhcCCcccccccccccc
Q 023641 56 PSKLVECRICHEEDED-SN--MEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNP 113 (279)
Q Consensus 56 ~~~~~~CRIC~ee~~d-~~--Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~~ 113 (279)
....-.|-|...+-.. .. .+.||.| .+-..+|++- +....|++|+.+|..
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~-----V~s~~alke~---k~~~~Cp~c~~~f~~ 162 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGC-----VFSEKALKEL---KKSKKCPVCGKPFTE 162 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCC-----EeeHHHHHhh---cccccccccCCcccc
Confidence 3445566666555422 12 4789998 6777887776 245679999999974
No 92
>PF05210 Sprouty: Sprouty protein (Spry); InterPro: IPR007875 Sprouty (Spry) and Spred (Sprouty related EVH1 domain) proteins have been identified as inhibitors of the Ras/mitogen-activated protein kinase (MAPK) cascade, a pathway crucial for developmental processes initiated by activation of various receptor tyrosine kinases [1,2]. These proteins share a conserved, C-terminal cysteine-rich region, the SPR domain. This domain has been defined as a novel cytosol to membrane translocation domain [, , , ]. It has been found to be a PtdIns(4,5)P2-binding domain that targets the proteins to a cellular localization that maximizes their inhibitory potential [, ]. It also mediates homodimer formation of these proteins [, ]. The SPR domain can occur in association with the WH1 domain (see IPR000697 from INTERPRO) (located in the N-terminal part of the proteins) in the Spred proteins.; GO: 0007275 multicellular organismal development, 0009966 regulation of signal transduction, 0016020 membrane
Probab=22.96 E-value=59 Score=27.15 Aligned_cols=19 Identities=37% Similarity=0.982 Sum_probs=15.7
Q ss_pred ccccccCCCcccccHHHHHHHHHh
Q 023641 75 EIPCSCCGSLKYAHRKCVQRWCNE 98 (279)
Q Consensus 75 i~PC~C~GSlkyVH~~CL~~W~~~ 98 (279)
..||+|.. +..|..||.--
T Consensus 59 d~PCSC~~-----~~~c~~RW~~L 77 (108)
T PF05210_consen 59 DHPCSCDT-----PSRCCARWLAL 77 (108)
T ss_pred CCccccCC-----ccchHHHHHHH
Confidence 46999986 88999999753
No 93
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.64 E-value=40 Score=34.54 Aligned_cols=48 Identities=27% Similarity=0.616 Sum_probs=35.7
Q ss_pred CCCCCCeeeEeccCCCCCCcccccccCCCcccccHHHHHHHHHhcCCccccccccccccC
Q 023641 55 SPSKLVECRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQYNPG 114 (279)
Q Consensus 55 ~~~~~~~CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y~~~ 114 (279)
.......|+||.++. ..-+.||. |..|+.+|...+. .|+.|+......
T Consensus 475 l~~~~~~~~~~~~~~--~~~~~~~~--------~~~~l~~~~~~~~--~~pl~~~~~~~~ 522 (543)
T KOG0802|consen 475 LREPNDVCAICYQEM--SARITPCS--------HALCLRKWLYVQE--VCPLCHTYMKED 522 (543)
T ss_pred hhcccCcchHHHHHH--Hhcccccc--------chhHHHhhhhhcc--ccCCCchhhhcc
Confidence 346678899998776 23355665 9999999998764 699998776544
No 94
>PHA03375 hypothetical protein; Provisional
Probab=21.60 E-value=32 Score=37.19 Aligned_cols=27 Identities=33% Similarity=0.708 Sum_probs=19.4
Q ss_pred eccCCCC--CC-cccccccCCCcccccHHH
Q 023641 65 CHEEDED--SN-MEIPCSCCGSLKYAHRKC 91 (279)
Q Consensus 65 C~ee~~d--~~-Li~PC~C~GSlkyVH~~C 91 (279)
|..++.| +. ...+|.|.|.+-|||+++
T Consensus 99 CycdeWd~~eyl~~~~~~C~gP~LYvhr~r 128 (844)
T PHA03375 99 CYCDEWDVNEYLAKTACNCRGPLLYIHRSR 128 (844)
T ss_pred ccccchhhhhhhhhcccccCCceEEEEecc
Confidence 5555433 23 379999999999999943
No 95
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.98 E-value=48 Score=30.19 Aligned_cols=43 Identities=28% Similarity=0.708 Sum_probs=24.1
Q ss_pred CCCeeeEeccCCCCCCcccccccCCCcccccHHHHHHHHHhcCCcccccccccc
Q 023641 58 KLVECRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEKGDTTCEICREQY 111 (279)
Q Consensus 58 ~~~~CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k~~~~CEiCk~~Y 111 (279)
....||.|.+.+. .-+..||+ +++| =.=+.++ ..+|++|+..-
T Consensus 157 ~~~~Cr~C~~~~~-~VlllPCr-----Hl~l----C~~C~~~-~~~CPiC~~~~ 199 (207)
T KOG1100|consen 157 RMRSCRKCGEREA-TVLLLPCR-----HLCL----CGICDES-LRICPICRSPK 199 (207)
T ss_pred ccccceecCcCCc-eEEeeccc-----ceEe----ccccccc-CccCCCCcChh
Confidence 3444999976653 36788886 1111 0002222 56799998543
No 96
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=20.62 E-value=64 Score=22.77 Aligned_cols=23 Identities=17% Similarity=0.551 Sum_probs=11.9
Q ss_pred HHHHHHHh-cC-Ccccccccccccc
Q 023641 91 CVQRWCNE-KG-DTTCEICREQYNP 113 (279)
Q Consensus 91 CL~~W~~~-k~-~~~CEiCk~~Y~~ 113 (279)
-+.+++.. ++ ...|++|+.+|..
T Consensus 8 ~~~k~i~~l~~~~~~CPlC~r~l~~ 32 (54)
T PF04423_consen 8 ELKKYIEELKEAKGCCPLCGRPLDE 32 (54)
T ss_dssp HHHHHHHHHTT-SEE-TTT--EE-H
T ss_pred HHHHHHHHHhcCCCcCCCCCCCCCH
Confidence 45666654 22 3399999999864
No 97
>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=20.53 E-value=49 Score=20.74 Aligned_cols=13 Identities=15% Similarity=0.552 Sum_probs=10.3
Q ss_pred CCccccccccccc
Q 023641 100 GDTTCEICREQYN 112 (279)
Q Consensus 100 ~~~~CEiCk~~Y~ 112 (279)
....|+.|++.|.
T Consensus 13 ~~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 13 SAKFCPHCGYDFE 25 (26)
T ss_pred hcCcCCCCCCCCc
Confidence 3568999999885
No 98
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=20.32 E-value=66 Score=22.76 Aligned_cols=35 Identities=23% Similarity=0.612 Sum_probs=14.6
Q ss_pred CcccccccCCCcccccHHHH--HHHHH---hcCCccccccccc
Q 023641 73 NMEIPCSCCGSLKYAHRKCV--QRWCN---EKGDTTCEICREQ 110 (279)
Q Consensus 73 ~Li~PC~C~GSlkyVH~~CL--~~W~~---~k~~~~CEiCk~~ 110 (279)
.+..|++ | ..-.|..|. ..|+. +++.+.|++|+++
T Consensus 11 ~i~~P~R--g-~~C~H~~CFDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 11 RIRIPVR--G-KNCKHLQCFDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp B-SSEEE--E-TT--SS--EEHHHHHHHHHHS---B-TTT---
T ss_pred EEEeCcc--C-CcCcccceECHHHHHHHhhccCCeECcCCcCc
Confidence 4566655 2 346788884 55665 3578999999864
No 99
>PF11431 Transport_MerF: Membrane transport protein MerF; InterPro: IPR021091 This entry represents Mercury ion transport protein MerF, which has a core helix-loop-helix domain. It also has two vicinal pairs of cysteine residues which are involved in the transport of Hg(II) across the membrane and are exposed to the cytoplasm []. ; PDB: 1WAZ_A 2LJ2_A 2H3O_A.
Probab=20.18 E-value=2.1e+02 Score=20.67 Aligned_cols=21 Identities=38% Similarity=0.580 Sum_probs=10.7
Q ss_pred hHHHHHHHHHH--HHHHHHHhhh
Q 023641 230 LLPIYVMVKAF--TAIQRRRHQQ 250 (279)
Q Consensus 230 llP~yi~~~~~--~~~q~~r~~q 250 (279)
|+|...+.-++ +++.|+|++|
T Consensus 24 L~PaLa~fi~lt~yal~r~~~~~ 46 (46)
T PF11431_consen 24 LLPALAVFIGLTIYALWRRRRKQ 46 (46)
T ss_dssp TTTTHHHHHHHHHHHHHHHHHS-
T ss_pred HHHHHHHHHHHHHHHHHHHhccC
Confidence 56665554444 4455555544
No 100
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=20.18 E-value=98 Score=36.95 Aligned_cols=54 Identities=24% Similarity=0.467 Sum_probs=38.5
Q ss_pred CCCCCeeeEeccCCCCCCcccccccCCCcccccHHHHHHHHHhc--------CCccccccccccc
Q 023641 56 PSKLVECRICHEEDEDSNMEIPCSCCGSLKYAHRKCVQRWCNEK--------GDTTCEICREQYN 112 (279)
Q Consensus 56 ~~~~~~CRIC~ee~~d~~Li~PC~C~GSlkyVH~~CL~~W~~~k--------~~~~CEiCk~~Y~ 112 (279)
......|-||+.+.-. -.||---|--+..|-.|..+-+..+ +...|+||+.+..
T Consensus 3483 QD~DDmCmICFTE~L~---AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALS---AAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred cccCceEEEEehhhhC---CCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 4566789999877522 2565544444789999998766554 5789999998875
Done!