Query psy16185
Match_columns 263
No_of_seqs 197 out of 747
Neff 4.4
Searched_HMMs 46136
Date Fri Aug 16 22:55:59 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16185.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16185hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3053|consensus 100.0 5.5E-50 1.2E-54 363.8 6.0 151 8-209 17-167 (293)
2 PHA02862 5L protein; Provision 99.7 7.2E-19 1.6E-23 149.4 4.4 55 11-76 2-56 (156)
3 PHA02825 LAP/PHD finger-like p 99.7 2.8E-18 6E-23 147.6 5.2 59 7-76 4-62 (162)
4 COG5183 SSM4 Protein involved 99.7 4.3E-17 9.4E-22 166.4 8.8 62 6-75 7-68 (1175)
5 smart00744 RINGv The RING-vari 99.7 5.1E-17 1.1E-21 114.7 3.2 49 13-69 1-49 (49)
6 PF12906 RINGv: RING-variant d 99.6 3.9E-17 8.4E-22 114.4 1.5 47 14-68 1-47 (47)
7 KOG1609|consensus 99.0 1.7E-10 3.7E-15 104.4 3.0 59 11-75 78-136 (323)
8 PF11793 FANCL_C: FANCL C-term 97.8 6.2E-06 1.3E-10 62.0 1.4 63 11-76 2-69 (70)
9 PF13639 zf-RING_2: Ring finge 97.2 0.00012 2.5E-09 49.6 0.8 44 12-69 1-44 (44)
10 PF12861 zf-Apc11: Anaphase-pr 96.6 0.0032 6.9E-08 49.8 4.4 58 9-75 19-84 (85)
11 PHA02929 N1R/p28-like protein; 96.5 0.0023 5.1E-08 58.8 3.8 59 9-78 172-232 (238)
12 KOG4628|consensus 95.9 0.0077 1.7E-07 58.3 3.8 58 4-74 218-279 (348)
13 COG5243 HRD1 HRD ubiquitin lig 95.7 0.014 3.1E-07 57.3 4.8 55 9-76 285-348 (491)
14 PHA02926 zinc finger-like prot 95.6 0.013 2.9E-07 53.9 4.1 63 9-78 168-235 (242)
15 cd00162 RING RING-finger (Real 95.6 0.012 2.6E-07 37.7 2.8 45 13-72 1-45 (45)
16 PF13920 zf-C3HC4_3: Zinc fing 95.6 0.0066 1.4E-07 42.1 1.6 47 10-73 1-48 (50)
17 PF12678 zf-rbx1: RING-H2 zinc 95.2 0.023 5E-07 42.8 3.5 50 7-69 15-73 (73)
18 COG5540 RING-finger-containing 95.0 0.021 4.5E-07 54.9 3.3 49 11-72 323-371 (374)
19 PLN03208 E3 ubiquitin-protein 94.6 0.038 8.3E-07 49.6 3.7 59 7-74 14-80 (193)
20 smart00184 RING Ring finger. E 94.1 0.056 1.2E-06 33.2 2.8 39 14-68 1-39 (39)
21 KOG0823|consensus 93.0 0.11 2.4E-06 47.8 3.8 53 9-75 45-97 (230)
22 KOG1493|consensus 91.2 0.1 2.2E-06 41.1 1.2 55 12-75 21-83 (84)
23 PLN02189 cellulose synthase 90.8 0.16 3.6E-06 55.2 2.7 52 12-73 35-87 (1040)
24 COG5219 Uncharacterized conser 90.8 0.09 2E-06 56.9 0.7 56 10-74 1468-1524(1525)
25 KOG1645|consensus 90.5 0.23 5E-06 49.4 3.2 55 9-73 2-56 (463)
26 PF14570 zf-RING_4: RING/Ubox 90.4 0.2 4.3E-06 35.8 2.0 48 14-73 1-48 (48)
27 KOG0802|consensus 90.2 0.25 5.5E-06 49.8 3.4 50 10-72 290-340 (543)
28 PF00097 zf-C3HC4: Zinc finger 89.1 0.2 4.3E-06 32.8 1.1 41 14-68 1-41 (41)
29 smart00504 Ubox Modified RING 88.5 0.7 1.5E-05 32.5 3.7 45 13-74 3-47 (63)
30 KOG0828|consensus 87.9 0.34 7.4E-06 49.3 2.4 51 10-72 570-633 (636)
31 PLN02436 cellulose synthase A 87.6 0.4 8.7E-06 52.5 2.8 52 12-73 37-89 (1094)
32 PLN02195 cellulose synthase A 86.1 0.68 1.5E-05 50.3 3.5 58 7-73 2-59 (977)
33 PF14634 zf-RING_5: zinc-RING 85.3 0.74 1.6E-05 31.1 2.3 43 14-70 2-44 (44)
34 KOG1734|consensus 84.5 0.54 1.2E-05 44.8 1.7 92 8-112 221-325 (328)
35 KOG0317|consensus 82.9 1.2 2.5E-05 42.5 3.2 48 9-73 237-284 (293)
36 COG5194 APC11 Component of SCF 82.2 1.1 2.4E-05 35.6 2.3 30 40-77 56-85 (88)
37 PF10272 Tmpp129: Putative tra 81.5 1.7 3.6E-05 42.5 3.8 44 28-74 304-352 (358)
38 KOG0804|consensus 81.3 0.69 1.5E-05 46.5 1.1 48 10-72 174-221 (493)
39 KOG0827|consensus 80.6 1.2 2.6E-05 44.2 2.5 47 12-69 5-52 (465)
40 PF14569 zf-UDP: Zinc-binding 80.5 1.4 3.1E-05 34.6 2.4 60 7-75 5-64 (80)
41 KOG2930|consensus 79.8 1.4 3.1E-05 36.5 2.3 29 40-76 83-111 (114)
42 PF05883 Baculo_RING: Baculovi 79.7 2.3 5E-05 36.4 3.6 61 11-79 26-87 (134)
43 PF13923 zf-C3HC4_2: Zinc fing 79.3 1.2 2.5E-05 29.2 1.4 38 14-68 1-39 (39)
44 TIGR00599 rad18 DNA repair pro 78.9 2.9 6.2E-05 41.4 4.5 50 9-75 24-73 (397)
45 PLN02638 cellulose synthase A 78.2 2 4.4E-05 47.3 3.5 55 10-73 16-70 (1079)
46 KOG1785|consensus 76.0 0.84 1.8E-05 45.7 -0.1 48 12-74 370-417 (563)
47 PF13445 zf-RING_UBOX: RING-ty 74.8 1.6 3.4E-05 30.2 1.1 43 14-66 1-43 (43)
48 KOG3970|consensus 73.6 6.5 0.00014 36.9 5.1 76 7-92 46-121 (299)
49 PLN02400 cellulose synthase 70.4 2.8 6.1E-05 46.2 2.2 53 12-73 37-89 (1085)
50 KOG1039|consensus 68.9 4.4 9.5E-05 39.5 3.0 65 9-78 159-226 (344)
51 PF10529 Hist_rich_Ca-bd: Hist 68.3 2 4.4E-05 24.0 0.3 9 212-220 1-9 (15)
52 PF07800 DUF1644: Protein of u 62.4 14 0.00031 32.6 4.6 59 10-73 1-91 (162)
53 PLN02915 cellulose synthase A 61.8 6.2 0.00013 43.5 2.8 55 10-73 14-68 (1044)
54 KOG3268|consensus 60.9 8.7 0.00019 34.9 3.1 66 6-76 160-231 (234)
55 KOG4265|consensus 59.1 7.3 0.00016 38.1 2.5 46 8-73 287-336 (349)
56 KOG0825|consensus 55.8 6.3 0.00014 42.6 1.6 28 40-75 146-173 (1134)
57 COG5175 MOT2 Transcriptional r 55.7 10 0.00023 37.5 2.9 54 8-73 11-64 (480)
58 PF05290 Baculo_IE-1: Baculovi 55.1 11 0.00023 32.6 2.5 60 5-75 74-134 (140)
59 TIGR00570 cdk7 CDK-activating 51.9 14 0.00031 35.6 3.2 54 10-75 2-56 (309)
60 PF08746 zf-RING-like: RING-li 50.1 7.8 0.00017 26.6 0.8 21 42-68 23-43 (43)
61 smart00249 PHD PHD zinc finger 49.8 7.5 0.00016 24.8 0.7 47 13-68 1-47 (47)
62 KOG0956|consensus 47.2 10 0.00022 40.5 1.5 71 2-73 108-182 (900)
63 PF09889 DUF2116: Uncharacteri 46.0 69 0.0015 23.7 5.3 13 62-74 3-15 (59)
64 KOG4445|consensus 45.5 11 0.00024 36.7 1.3 58 12-75 116-188 (368)
65 PF13717 zinc_ribbon_4: zinc-r 44.5 7 0.00015 25.9 -0.1 15 62-76 2-16 (36)
66 PF15227 zf-C3HC4_4: zinc fing 43.7 9.2 0.0002 25.9 0.4 42 14-68 1-42 (42)
67 KOG4323|consensus 42.1 10 0.00022 38.5 0.5 59 12-74 169-227 (464)
68 PF06170 DUF983: Protein of un 39.7 46 0.00099 26.2 3.8 22 62-83 8-29 (86)
69 PHA03375 hypothetical protein; 39.6 8.7 0.00019 40.9 -0.3 29 17-45 99-127 (844)
70 KOG1428|consensus 38.9 37 0.00081 39.8 4.2 62 7-74 3482-3545(3738)
71 COG3703 ChaC Uncharacterized p 38.4 20 0.00044 32.4 1.8 19 233-251 142-160 (190)
72 PF04532 DUF587: Protein of un 37.8 9 0.00019 35.1 -0.5 29 17-45 93-121 (215)
73 KOG0955|consensus 37.6 22 0.00048 39.4 2.3 36 9-48 217-252 (1051)
74 PF13719 zinc_ribbon_5: zinc-r 35.8 16 0.00035 24.1 0.6 15 62-76 2-16 (37)
75 PF04564 U-box: U-box domain; 35.5 30 0.00066 25.7 2.1 52 27-92 16-67 (73)
76 KOG0287|consensus 34.5 29 0.00062 34.5 2.3 47 10-73 22-68 (442)
77 PF10571 UPF0547: Uncharacteri 34.3 18 0.00039 22.6 0.6 13 61-73 13-25 (26)
78 PF10367 Vps39_2: Vacuolar sor 33.8 17 0.00036 27.8 0.5 34 9-49 76-109 (109)
79 KOG4692|consensus 32.9 34 0.00074 34.1 2.5 46 8-73 419-467 (489)
80 KOG3899|consensus 32.2 34 0.00073 33.4 2.3 43 30-75 320-367 (381)
81 COG5574 PEX10 RING-finger-cont 31.7 45 0.00097 31.7 3.0 48 9-72 213-261 (271)
82 KOG1952|consensus 31.3 53 0.0011 36.0 3.8 60 8-73 188-247 (950)
83 COG5236 Uncharacterized conser 30.2 56 0.0012 32.6 3.5 54 7-75 57-110 (493)
84 KOG1814|consensus 29.5 45 0.00097 33.7 2.7 55 12-72 185-239 (445)
85 KOG1973|consensus 29.3 32 0.00068 32.1 1.6 39 27-72 230-269 (274)
86 PF04423 Rad50_zn_hook: Rad50 27.8 44 0.00096 23.4 1.8 24 46-73 8-31 (54)
87 PF02891 zf-MIZ: MIZ/SP-RING z 27.0 40 0.00086 23.7 1.4 29 40-71 20-50 (50)
88 PF00628 PHD: PHD-finger; Int 26.5 19 0.00042 24.3 -0.3 50 13-70 1-50 (51)
89 COG5349 Uncharacterized protei 26.0 20 0.00044 30.4 -0.3 49 62-122 40-88 (126)
90 PF14353 CpXC: CpXC protein 26.0 42 0.0009 27.2 1.6 19 59-77 35-53 (128)
91 PF05210 Sprouty: Sprouty prot 26.0 43 0.00094 27.7 1.6 20 30-54 59-78 (108)
92 TIGR02098 MJ0042_CXXC MJ0042 f 24.3 36 0.00079 22.0 0.8 15 62-76 2-16 (38)
93 PF13894 zf-C2H2_4: C2H2-type 24.2 31 0.00067 18.9 0.4 10 64-73 2-11 (24)
94 PF04217 DUF412: Protein of un 22.3 1E+02 0.0023 26.7 3.4 67 90-173 35-105 (143)
95 PF10497 zf-4CXXC_R1: Zinc-fin 22.1 93 0.002 25.2 2.9 60 6-70 2-69 (105)
96 PF14446 Prok-RING_1: Prokaryo 21.6 43 0.00093 24.6 0.7 15 59-73 18-32 (54)
97 PF01363 FYVE: FYVE zinc finge 21.5 22 0.00049 25.6 -0.8 21 49-75 2-22 (69)
98 PF13465 zf-H2C2_2: Zinc-finge 21.2 46 0.001 20.1 0.7 15 59-73 11-25 (26)
99 PF07503 zf-HYPF: HypF finger; 21.1 55 0.0012 21.8 1.1 32 44-75 3-34 (35)
100 PF08274 PhnA_Zn_Ribbon: PhnA 21.0 36 0.00079 22.0 0.2 13 63-75 3-15 (30)
101 PF09986 DUF2225: Uncharacteri 20.9 49 0.0011 29.7 1.1 15 61-75 4-18 (214)
102 KOG2177|consensus 20.8 47 0.001 28.0 1.0 49 8-73 10-58 (386)
103 KOG0956|consensus 20.5 61 0.0013 34.9 1.9 60 12-73 6-73 (900)
104 PRK05978 hypothetical protein; 20.5 1E+02 0.0022 26.7 3.0 21 61-81 51-71 (148)
105 KOG4770|consensus 20.2 1.1E+02 0.0023 29.6 3.3 34 195-228 177-210 (315)
No 1
>KOG3053|consensus
Probab=100.00 E-value=5.5e-50 Score=363.82 Aligned_cols=151 Identities=58% Similarity=1.195 Sum_probs=147.3
Q ss_pred cCCCCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceeeccCCcchHHHHHH
Q psy16185 8 SSDLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFIVYPYRGLLVSLLD 87 (263)
Q Consensus 8 ~ee~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~~P~~~~l~~lle 87 (263)
.+.++.|||||++++|++...|++||+|+||+|||||+||.+|++||+.+|+.+.+.|+||++||.|++|+++++...+|
T Consensus 17 ~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv~P~l~~~~~~Le 96 (293)
T KOG3053|consen 17 QELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIVFPQLGPFDRVLE 96 (293)
T ss_pred cccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheeeccccChHHHHHH
Confidence 45689999999999999888999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhhhhhhhHHHHHHhHHhHhHhhhhhhhHhhhccccccccccchhhhccccccccchhhhhhhhhhhhhhhhhhH
Q psy16185 88 TIDTAVYKLCPFVAAGVVLGSMYWCAVTYGAVTVMVVSPLHTYLGALSLRFCLVHPLVNINRQYRFQLDNILRICDKGLL 167 (263)
Q Consensus 88 ~vdr~~~~l~pfla~gil~g~vyW~a~tyGa~Tv~~~~~~~a~~g~~~~r~~s~~~~v~lp~~~~~~~~ni~~d~~~g~~ 167 (263)
.+|....++|||+++|++++++||+|++|||.|++
T Consensus 97 ~~d~~i~r~cp~l~~g~~v~~iYWsAVtyGA~T~l--------------------------------------------- 131 (293)
T KOG3053|consen 97 RLDILIFRLCPFLAAGIFVGSIYWSAVTYGAVTVL--------------------------------------------- 131 (293)
T ss_pred HhhhHHhhcChHHHHHHHhheeehhhhhhcceeee---------------------------------------------
Confidence 99999999999999999999999999999999999
Q ss_pred hhhhhceeccchhhhhhhhhhhhHHHHhcCChhhHHHHHhhh
Q psy16185 168 RRLRARQVIGRENGLQVMREVDAIVLLLGLPAIPVVLILGWC 209 (263)
Q Consensus 168 ~~~~~~~v~g~~~~~~~m~~~~~~~~~~glp~ip~~lil~r~ 209 (263)
||.|++.|+++|++.||.++++|||+|||+|||||+
T Consensus 132 ------Qv~G~~~~m~ime~~d~~~lliGlP~ipv~LiL~Rl 167 (293)
T KOG3053|consen 132 ------QVVGQEHGMQIMESGDPLFLLIGLPSIPVGLILGRL 167 (293)
T ss_pred ------ehhhhHHHHHHHhcCCceEEEEcCCcchHHHHHhhh
Confidence 999999999999999999999999999999999996
No 2
>PHA02862 5L protein; Provisional
Probab=99.75 E-value=7.2e-19 Score=149.40 Aligned_cols=55 Identities=31% Similarity=0.732 Sum_probs=49.6
Q ss_pred CCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceeecc
Q psy16185 11 LKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFIVY 76 (263)
Q Consensus 11 ~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~~ 76 (263)
.+.||||+++++|+ .+||+|+||.|||||+||++|++.++ +..||||+++|.+..
T Consensus 2 ~diCWIC~~~~~e~-----~~PC~C~GS~K~VHq~CL~~WIn~S~------k~~CeLCkteY~Ik~ 56 (156)
T PHA02862 2 SDICWICNDVCDER-----NNFCGCNEEYKVVHIKCMQLWINYSK------KKECNLCKTKYNIKK 56 (156)
T ss_pred CCEEEEecCcCCCC-----cccccccCcchhHHHHHHHHHHhcCC------CcCccCCCCeEEEEE
Confidence 47899999987654 69999999999999999999998876 899999999999874
No 3
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=99.73 E-value=2.8e-18 Score=147.56 Aligned_cols=59 Identities=32% Similarity=0.764 Sum_probs=52.3
Q ss_pred ecCCCCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceeecc
Q psy16185 7 ISSDLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFIVY 76 (263)
Q Consensus 7 ~~ee~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~~ 76 (263)
.++.++.||||+++++ +|.+||+|+||.||||++||++|+++++ +..||+|+++|.++.
T Consensus 4 ~s~~~~~CRIC~~~~~-----~~~~PC~CkGs~k~VH~sCL~rWi~~s~------~~~CeiC~~~Y~i~~ 62 (162)
T PHA02825 4 VSLMDKCCWICKDEYD-----VVTNYCNCKNENKIVHKECLEEWINTSK------NKSCKICNGPYNIKK 62 (162)
T ss_pred cCCCCCeeEecCCCCC-----CccCCcccCCCchHHHHHHHHHHHhcCC------CCcccccCCeEEEEE
Confidence 4567899999987753 4679999999999999999999999886 789999999999984
No 4
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=99.69 E-value=4.3e-17 Score=166.37 Aligned_cols=62 Identities=26% Similarity=0.702 Sum_probs=57.1
Q ss_pred eecCCCCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceeec
Q psy16185 6 IISSDLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFIV 75 (263)
Q Consensus 6 ~~~ee~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~ 75 (263)
++.+|.+.||||+.++.+| +++.|||+|+||+||+||+||..|+..+. +.+|++|+++|+++
T Consensus 7 ~mN~d~~~CRICr~e~~~d--~pLfhPCKC~GSIkYiH~eCL~eW~~~s~------~~kCdiChy~~~Fk 68 (1175)
T COG5183 7 PMNEDKRSCRICRTEDIRD--DPLFHPCKCSGSIKYIHRECLMEWMECSG------TKKCDICHYEYKFK 68 (1175)
T ss_pred CCCccchhceeecCCCCCC--CcCcccccccchhHHHHHHHHHHHHhcCC------Ccceeeecceeeee
Confidence 4677889999999988765 89999999999999999999999999887 89999999999987
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=99.66 E-value=5.1e-17 Score=114.71 Aligned_cols=49 Identities=39% Similarity=1.002 Sum_probs=43.1
Q ss_pred eeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCC
Q psy16185 13 YCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCN 69 (263)
Q Consensus 13 ~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk 69 (263)
+||||+++++ ++++|++||+|+||++|||++||.+|+.++. +..||+|+
T Consensus 1 ~CrIC~~~~~--~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~------~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGD--EGDPLVSPCRCKGSLKYVHQECLERWINESG------NKTCEICK 49 (49)
T ss_pred CccCCCCCCC--CCCeeEeccccCCchhHHHHHHHHHHHHHcC------CCcCCCCC
Confidence 5999998333 3578999999999999999999999999987 57999996
No 6
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=99.64 E-value=3.9e-17 Score=114.40 Aligned_cols=47 Identities=40% Similarity=1.097 Sum_probs=37.7
Q ss_pred eeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccC
Q psy16185 14 CWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQC 68 (263)
Q Consensus 14 CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqC 68 (263)
||||+++++++ ++|++||+|+||++|||++||++|+.++. +.+||+|
T Consensus 1 CrIC~~~~~~~--~~li~pC~C~Gs~~~vH~~CL~~W~~~~~------~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEED--EPLISPCRCKGSMKYVHRSCLERWIRESG------NRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSS--S-EE-SSS-SSCCGSEECCHHHHHHHHHT-------SB-TTT
T ss_pred CeEeCCcCCCC--CceecccccCCCcchhHHHHHHHHHHhcC------CCcCCCC
Confidence 89999998875 38999999999999999999999999876 6779998
No 7
>KOG1609|consensus
Probab=99.00 E-value=1.7e-10 Score=104.37 Aligned_cols=59 Identities=29% Similarity=0.846 Sum_probs=51.7
Q ss_pred CCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceeec
Q psy16185 11 LKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFIV 75 (263)
Q Consensus 11 ~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~ 75 (263)
+..||||..+.++....+++.||.|+|+.++||++|+++|...+. +..||+|++.|...
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~------~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKG------NITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhcccc------Ceeeecccccceec
Confidence 478999998776542227999999999999999999999999887 89999999999877
No 8
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.84 E-value=6.2e-06 Score=62.04 Aligned_cols=63 Identities=22% Similarity=0.429 Sum_probs=31.1
Q ss_pred CCeeeEecccCcCCC--CCcceeccCCCCCCccccHHHHHHHHHHhccCCC---CCCcccccCCcceeecc
Q psy16185 11 LKYCWVCFATHEDDR--NALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNA---FTQVACPQCNTKYFIVY 76 (263)
Q Consensus 11 ~~~CrIC~~~eeed~--~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~---~~~~~CeqCk~eY~i~~ 76 (263)
+..|.||++...++. ...+-...+|+ +..|..||.+|+.+..+.+. ...-.||.|++++.+.+
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~---~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~~ 69 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCG---KKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWSF 69 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT-------B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGGG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccC---CHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEec
Confidence 467999998765321 23455656888 67999999999987654322 22347999999998753
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=97.22 E-value=0.00012 Score=49.57 Aligned_cols=44 Identities=27% Similarity=0.854 Sum_probs=31.3
Q ss_pred CeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCC
Q psy16185 12 KYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCN 69 (263)
Q Consensus 12 ~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk 69 (263)
+.|-||+++-+++ +.....| |. ...|.+|+.+|++.+ ..||+|+
T Consensus 1 d~C~IC~~~~~~~-~~~~~l~--C~---H~fh~~Ci~~~~~~~--------~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDG-EKVVKLP--CG---HVFHRSCIKEWLKRN--------NSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTT-SCEEEET--TS---EEEEHHHHHHHHHHS--------SB-TTTH
T ss_pred CCCcCCChhhcCC-CeEEEcc--CC---CeeCHHHHHHHHHhC--------CcCCccC
Confidence 4688998887542 3445555 54 789999999999763 3999995
No 10
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=96.60 E-value=0.0032 Score=49.81 Aligned_cols=58 Identities=17% Similarity=0.485 Sum_probs=41.5
Q ss_pred CCCCeeeEecccCcCC------C--CCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceeec
Q psy16185 9 SDLKYCWVCFATHEDD------R--NALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFIV 75 (263)
Q Consensus 9 ee~~~CrIC~~~eeed------~--~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~ 75 (263)
.+++.|-||+...+.. | +-+++ =+.|+ .-.|.-|+.+|++..+ .+..||.|+.++.+.
T Consensus 19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv-~g~C~---H~FH~hCI~kWl~~~~-----~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLV-WGKCS---HNFHMHCILKWLSTQS-----SKGQCPMCRQPWKFK 84 (85)
T ss_pred CCCCceeeEecccccCCCCccCCCCCCcee-eccCc---cHHHHHHHHHHHcccc-----CCCCCCCcCCeeeeC
Confidence 4578899998766522 1 12333 24677 7799999999998653 256999999999874
No 11
>PHA02929 N1R/p28-like protein; Provisional
Probab=96.54 E-value=0.0023 Score=58.79 Aligned_cols=59 Identities=25% Similarity=0.528 Sum_probs=40.8
Q ss_pred CCCCeeeEecccCcCCC--CCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceeeccCC
Q psy16185 9 SDLKYCWVCFATHEDDR--NALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFIVYPY 78 (263)
Q Consensus 9 ee~~~CrIC~~~eeed~--~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~~P~ 78 (263)
.++..|-||+++-.++. +....-.-.|. ...|.+|+.+|++. ...||+|+.++..+.+.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~---H~FC~~CI~~Wl~~--------~~tCPlCR~~~~~v~~~ 232 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCN---HVFCIECIDIWKKE--------KNTCPVCRTPFISVIKS 232 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCC---CcccHHHHHHHHhc--------CCCCCCCCCEeeEEeee
Confidence 34689999998754421 11122223454 67999999999863 35899999999877654
No 12
>KOG4628|consensus
Probab=95.90 E-value=0.0077 Score=58.26 Aligned_cols=58 Identities=22% Similarity=0.625 Sum_probs=41.7
Q ss_pred eEeecCCCC----eeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceee
Q psy16185 4 LVIISSDLK----YCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFI 74 (263)
Q Consensus 4 ~~~~~ee~~----~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i 74 (263)
...+..++. .|-||+++.++. +.--+-||+ ...|..|...|+.+.+ ..||+||.+..-
T Consensus 218 ~~f~~~~~~~~~~~CaIClEdY~~G-dklRiLPC~-----H~FH~~CIDpWL~~~r-------~~CPvCK~di~~ 279 (348)
T KOG4628|consen 218 RTFTKGDDEDATDTCAICLEDYEKG-DKLRILPCS-----HKFHVNCIDPWLTQTR-------TFCPVCKRDIRT 279 (348)
T ss_pred EEeccccccCCCceEEEeecccccC-CeeeEecCC-----CchhhccchhhHhhcC-------ccCCCCCCcCCC
Confidence 344444443 999999998763 333457765 4599999999998653 679999997653
No 13
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=95.69 E-value=0.014 Score=57.26 Aligned_cols=55 Identities=24% Similarity=0.585 Sum_probs=39.9
Q ss_pred CCCCeeeEecccCcC-CC--------CCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceeecc
Q psy16185 9 SDLKYCWVCFATHED-DR--------NALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFIVY 76 (263)
Q Consensus 9 ee~~~CrIC~~~eee-d~--------~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~~ 76 (263)
++++.|-||+++--+ +. -.+=.-||. ...|-.||+.|++.+| .||+|+.+..+..
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCG-----HilHl~CLknW~ERqQ--------TCPICr~p~ifd~ 348 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCG-----HILHLHCLKNWLERQQ--------TCPICRRPVIFDQ 348 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCccccccc-----ceeeHHHHHHHHHhcc--------CCCcccCcccccc
Confidence 467999999887322 11 123345764 4589999999998765 8999999977664
No 14
>PHA02926 zinc finger-like protein; Provisional
Probab=95.64 E-value=0.013 Score=53.89 Aligned_cols=63 Identities=22% Similarity=0.464 Sum_probs=45.0
Q ss_pred CCCCeeeEecccCcC-----CCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceeeccCC
Q psy16185 9 SDLKYCWVCFATHED-----DRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFIVYPY 78 (263)
Q Consensus 9 ee~~~CrIC~~~eee-----d~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~~P~ 78 (263)
..++.|-||++.-.+ +..-....+|. ......|+.+|.+.++ .......||+|+.++..+.|+
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~Cn-----HsFCl~CIr~Wr~~r~--~~~~~rsCPiCR~~f~~I~pS 235 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCN-----HIFCITCINIWHRTRR--ETGASDNCPICRTRFRNITMS 235 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCC-----chHHHHHHHHHHHhcc--ccCcCCcCCCCcceeeeeccc
Confidence 457999999987432 11224566654 4478899999998653 223467899999999988875
No 15
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=95.63 E-value=0.012 Score=37.70 Aligned_cols=45 Identities=22% Similarity=0.751 Sum_probs=31.2
Q ss_pred eeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcce
Q psy16185 13 YCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKY 72 (263)
Q Consensus 13 ~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY 72 (263)
.|-||++...+ .....||.= ..|.+|+.+|++.. ...||.|+.++
T Consensus 1 ~C~iC~~~~~~---~~~~~~C~H-----~~c~~C~~~~~~~~-------~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFRE---PVVLLPCGH-----VFCRSCIDKWLKSG-------KNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhC---ceEecCCCC-----hhcHHHHHHHHHhC-------cCCCCCCCCcC
Confidence 37789776522 233445544 48999999999862 46899999763
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=95.60 E-value=0.0066 Score=42.06 Aligned_cols=47 Identities=21% Similarity=0.586 Sum_probs=34.8
Q ss_pred CCCeeeEecccCcCCCCCcceeccCCCCCCcc-ccHHHHHHHHHHhccCCCCCCcccccCCccee
Q psy16185 10 DLKYCWVCFATHEDDRNALWVQPCLCRGTSKW-VHQACLNRWIDEKQKGNAFTQVACPQCNTKYF 73 (263)
Q Consensus 10 e~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~-VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~ 73 (263)
++..|.||++... +..+.||+ .. +-.+|+.+|++ + ...||+|+.++.
T Consensus 1 ~~~~C~iC~~~~~----~~~~~pCg-----H~~~C~~C~~~~~~--~------~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 1 EDEECPICFENPR----DVVLLPCG-----HLCFCEECAERLLK--R------KKKCPICRQPIE 48 (50)
T ss_dssp -HSB-TTTSSSBS----SEEEETTC-----EEEEEHHHHHHHHH--T------TSBBTTTTBB-S
T ss_pred CcCCCccCCccCC----ceEEeCCC-----ChHHHHHHhHHhcc--c------CCCCCcCChhhc
Confidence 3568999998753 46888885 33 77899999998 2 679999999875
No 17
>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=95.18 E-value=0.023 Score=42.85 Aligned_cols=50 Identities=24% Similarity=0.623 Sum_probs=32.4
Q ss_pred ecCCCCeeeEecccCcCC------CC--Ccc-eeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCC
Q psy16185 7 ISSDLKYCWVCFATHEDD------RN--ALW-VQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCN 69 (263)
Q Consensus 7 ~~ee~~~CrIC~~~eeed------~~--~~~-v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk 69 (263)
.+..++.|-||++.-.+. ++ -+. ..+ |. ...|..||.+|++.+ ..||+|+
T Consensus 15 ~~~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~--C~---H~FH~~Ci~~Wl~~~--------~~CP~CR 73 (73)
T PF12678_consen 15 WDIADDNCAICREPLEDPCPECQAPQDECPIVWGP--CG---HIFHFHCISQWLKQN--------NTCPLCR 73 (73)
T ss_dssp ESSCCSBETTTTSBTTSTTCCHHHCTTTS-EEEET--TS---EEEEHHHHHHHHTTS--------SB-TTSS
T ss_pred ecCcCCcccccChhhhChhhhhcCCccccceEecc--cC---CCEEHHHHHHHHhcC--------CcCCCCC
Confidence 344566799998877432 11 122 234 44 789999999999543 4999996
No 18
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.98 E-value=0.021 Score=54.86 Aligned_cols=49 Identities=29% Similarity=0.687 Sum_probs=38.2
Q ss_pred CCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcce
Q psy16185 11 LKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKY 72 (263)
Q Consensus 11 ~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY 72 (263)
+-.|-||+++-.- .+.-.+.||+=. .|..|+.+|+..- +.+||.|+++.
T Consensus 323 GveCaICms~fiK-~d~~~vlPC~H~-----FH~~Cv~kW~~~y-------~~~CPvCrt~i 371 (374)
T COG5540 323 GVECAICMSNFIK-NDRLRVLPCDHR-----FHVGCVDKWLLGY-------SNKCPVCRTAI 371 (374)
T ss_pred CceEEEEhhhhcc-cceEEEeccCce-----echhHHHHHHhhh-------cccCCccCCCC
Confidence 4689999988753 234677888755 9999999999733 46899999985
No 19
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=94.55 E-value=0.038 Score=49.59 Aligned_cols=59 Identities=17% Similarity=0.370 Sum_probs=41.0
Q ss_pred ecCCCCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhcc--------CCCCCCcccccCCcceee
Q psy16185 7 ISSDLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQK--------GNAFTQVACPQCNTKYFI 74 (263)
Q Consensus 7 ~~ee~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~--------~n~~~~~~CeqCk~eY~i 74 (263)
..+++-.|-||++... .+.+.+| . ...+..|+.+|+..+.. .+......||+|++++..
T Consensus 14 ~~~~~~~CpICld~~~----dPVvT~C--G---H~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 14 DSGGDFDCNICLDQVR----DPVVTLC--G---HLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred cCCCccCCccCCCcCC----CcEEcCC--C---chhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 3445688999988654 3567765 3 56788999999875321 012345799999999863
No 20
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=94.12 E-value=0.056 Score=33.20 Aligned_cols=39 Identities=26% Similarity=0.810 Sum_probs=27.9
Q ss_pred eeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccC
Q psy16185 14 CWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQC 68 (263)
Q Consensus 14 CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqC 68 (263)
|-||++.. ....+.||.-. .|.+|+.+|++ .. ...||.|
T Consensus 1 C~iC~~~~----~~~~~~~C~H~-----~c~~C~~~~~~-~~------~~~CP~C 39 (39)
T smart00184 1 CPICLEEL----KDPVVLPCGHT-----FCRSCIRKWLK-SG------NNTCPIC 39 (39)
T ss_pred CCcCccCC----CCcEEecCCCh-----HHHHHHHHHHH-hC------cCCCCCC
Confidence 66887773 24566776554 89999999998 22 4678887
No 21
>KOG0823|consensus
Probab=92.97 E-value=0.11 Score=47.81 Aligned_cols=53 Identities=23% Similarity=0.553 Sum_probs=40.2
Q ss_pred CCCCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceeec
Q psy16185 9 SDLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFIV 75 (263)
Q Consensus 9 ee~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~ 75 (263)
+..--|-||++...| +.+++|. ...==-||.+|+..+. .+..||+||.+..+.
T Consensus 45 ~~~FdCNICLd~akd----PVvTlCG-----HLFCWpClyqWl~~~~-----~~~~cPVCK~~Vs~~ 97 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKD----PVVTLCG-----HLFCWPCLYQWLQTRP-----NSKECPVCKAEVSID 97 (230)
T ss_pred CCceeeeeeccccCC----CEEeecc-----cceehHHHHHHHhhcC-----CCeeCCccccccccc
Confidence 344679999998754 7899885 2233379999998765 378899999998764
No 22
>KOG1493|consensus
Probab=91.20 E-value=0.1 Score=41.07 Aligned_cols=55 Identities=20% Similarity=0.544 Sum_probs=39.0
Q ss_pred CeeeEecccCcCC--------CCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceeec
Q psy16185 12 KYCWVCFATHEDD--------RNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFIV 75 (263)
Q Consensus 12 ~~CrIC~~~eeed--------~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~ 75 (263)
..|-||+...+.- .+=+++-- .|. .-.|.-|+.+|++.+.+ .-.||.|+.+|+++
T Consensus 21 e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G-~C~---h~fh~hCI~~wl~~~ts-----q~~CPmcRq~~~~~ 83 (84)
T KOG1493|consen 21 ETCGICRMPFDGCCPDCKLPGDDCPLVWG-YCL---HAFHAHCILKWLNTPTS-----QGQCPMCRQTWQFK 83 (84)
T ss_pred CccceEecccCCcCCCCcCCCCCCccHHH-HHH---HHHHHHHHHHHhcCccc-----cccCCcchheeEec
Confidence 4888887765421 12344433 455 56899999999987652 57999999999875
No 23
>PLN02189 cellulose synthase
Probab=90.80 E-value=0.16 Score=55.16 Aligned_cols=52 Identities=25% Similarity=0.432 Sum_probs=38.9
Q ss_pred CeeeEecccCcCCCCCcceeccC-CCCCCccccHHHHHHHHHHhccCCCCCCcccccCCccee
Q psy16185 12 KYCWVCFATHEDDRNALWVQPCL-CRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYF 73 (263)
Q Consensus 12 ~~CrIC~~~eeed~~~~~v~PC~-C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~ 73 (263)
..|+||-++-.-+.+++..-.|+ |. --|=+.|...=.+|- +..|||||++|.
T Consensus 35 ~~C~iCgd~vg~~~~g~~fvaC~~C~---fpvCr~Cyeyer~eg-------~q~CpqCkt~Y~ 87 (1040)
T PLN02189 35 QVCEICGDEIGLTVDGDLFVACNECG---FPVCRPCYEYERREG-------TQNCPQCKTRYK 87 (1040)
T ss_pred ccccccccccCcCCCCCEEEeeccCC---CccccchhhhhhhcC-------CccCcccCCchh
Confidence 49999976655445677888888 76 447779995544433 579999999998
No 24
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=90.75 E-value=0.09 Score=56.94 Aligned_cols=56 Identities=20% Similarity=0.563 Sum_probs=37.4
Q ss_pred CCCeeeEecccCc-CCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceee
Q psy16185 10 DLKYCWVCFATHE-DDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFI 74 (263)
Q Consensus 10 e~~~CrIC~~~ee-ed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i 74 (263)
+...|-||+.--. -| ..+-+- +|..-..-.|-.||.+|.+.+. ...||+|+.++.+
T Consensus 1468 G~eECaICYsvL~~vd--r~lPsk-rC~TCknKFH~~CLyKWf~Ss~------~s~CPlCRseitf 1524 (1525)
T COG5219 1468 GHEECAICYSVLDMVD--RSLPSK-RCATCKNKFHTRCLYKWFASSA------RSNCPLCRSEITF 1524 (1525)
T ss_pred CcchhhHHHHHHHHHh--ccCCcc-ccchhhhhhhHHHHHHHHHhcC------CCCCCcccccccc
Confidence 4578999986543 11 111111 2222225589999999999887 6899999998765
No 25
>KOG1645|consensus
Probab=90.48 E-value=0.23 Score=49.38 Aligned_cols=55 Identities=24% Similarity=0.558 Sum_probs=42.9
Q ss_pred CCCCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCccee
Q psy16185 9 SDLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYF 73 (263)
Q Consensus 9 ee~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~ 73 (263)
+..-+|-||+++-+-..+..+++| .|. ...-++|..+|+-.+ .+..||+|+.+-.
T Consensus 2 d~g~tcpiclds~~~~g~hr~vsl-~cg---hlFgs~cie~wl~k~------~~~~cp~c~~kat 56 (463)
T KOG1645|consen 2 DCGTTCPICLDSYTTAGNHRIVSL-QCG---HLFGSQCIEKWLGKK------TKMQCPLCSGKAT 56 (463)
T ss_pred CccccCceeeeeeeecCceEEeee-ccc---ccccHHHHHHHHhhh------hhhhCcccCChhH
Confidence 456789999988765556678888 776 668899999999532 2789999998754
No 26
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=90.40 E-value=0.2 Score=35.78 Aligned_cols=48 Identities=25% Similarity=0.483 Sum_probs=22.6
Q ss_pred eeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCccee
Q psy16185 14 CWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYF 73 (263)
Q Consensus 14 CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~ 73 (263)
|.+|.++-+ .+..-+.||.|. +|-|+.=|.+-.. +..-.||-|+.+|.
T Consensus 1 cp~C~e~~d--~~d~~~~PC~Cg------f~IC~~C~~~i~~----~~~g~CPgCr~~Y~ 48 (48)
T PF14570_consen 1 CPLCDEELD--ETDKDFYPCECG------FQICRFCYHDILE----NEGGRCPGCREPYK 48 (48)
T ss_dssp -TTTS-B----CCCTT--SSTTS----------HHHHHHHTT----SS-SB-TTT--B--
T ss_pred CCCcccccc--cCCCccccCcCC------CcHHHHHHHHHHh----ccCCCCCCCCCCCC
Confidence 345544432 234568999998 8888888887664 23679999999984
No 27
>KOG0802|consensus
Probab=90.23 E-value=0.25 Score=49.81 Aligned_cols=50 Identities=26% Similarity=0.694 Sum_probs=37.0
Q ss_pred CCCeeeEecccCcCCC-CCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcce
Q psy16185 10 DLKYCWVCFATHEDDR-NALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKY 72 (263)
Q Consensus 10 e~~~CrIC~~~eeed~-~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY 72 (263)
+...|-||.++-...+ -.+-+-||. .-.|..||++|++.++ .||.|+.++
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~-----Hifh~~CL~~W~er~q--------tCP~CR~~~ 340 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCG-----HIFHDSCLRSWFERQQ--------TCPTCRTVL 340 (543)
T ss_pred cCCeeeeechhhccccccccceeecc-----cchHHHHHHHHHHHhC--------cCCcchhhh
Confidence 3689999988765321 124566664 5599999999998754 899999944
No 28
>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=89.07 E-value=0.2 Score=32.81 Aligned_cols=41 Identities=32% Similarity=0.920 Sum_probs=29.6
Q ss_pred eeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccC
Q psy16185 14 CWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQC 68 (263)
Q Consensus 14 CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqC 68 (263)
|-||++..++. ....||. ..++.+|+.+|++.+. ...||+|
T Consensus 1 C~iC~~~~~~~---~~~~~C~-----H~fC~~C~~~~~~~~~------~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP---VILLPCG-----HSFCRDCLRKWLENSG------SVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE---EEETTTS-----EEEEHHHHHHHHHHTS------SSBTTTT
T ss_pred CCcCCccccCC---CEEecCC-----CcchHHHHHHHHHhcC------CccCCcC
Confidence 66787765432 2367765 5589999999998733 6789988
No 29
>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=88.45 E-value=0.7 Score=32.49 Aligned_cols=45 Identities=9% Similarity=0.193 Sum_probs=33.9
Q ss_pred eeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceee
Q psy16185 13 YCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFI 74 (263)
Q Consensus 13 ~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i 74 (263)
.|.||.+.-+ ++.+.||. .-+-++|+.+|+++ ...||.|+.++..
T Consensus 3 ~Cpi~~~~~~----~Pv~~~~G-----~v~~~~~i~~~~~~--------~~~cP~~~~~~~~ 47 (63)
T smart00504 3 LCPISLEVMK----DPVILPSG-----QTYERRAIEKWLLS--------HGTDPVTGQPLTH 47 (63)
T ss_pred CCcCCCCcCC----CCEECCCC-----CEEeHHHHHHHHHH--------CCCCCCCcCCCCh
Confidence 5888876643 36777763 56899999999975 2589999998753
No 30
>KOG0828|consensus
Probab=87.92 E-value=0.34 Score=49.35 Aligned_cols=51 Identities=27% Similarity=0.765 Sum_probs=37.1
Q ss_pred CCCeeeEecccCc------CC-------CCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcce
Q psy16185 10 DLKYCWVCFATHE------DD-------RNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKY 72 (263)
Q Consensus 10 e~~~CrIC~~~ee------ed-------~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY 72 (263)
...-|-||..+-+ +. ..+-.+.||. ...|..||++|++.- +..||.|+.+.
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~-----HifH~~CL~~WMd~y-------kl~CPvCR~pL 633 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCH-----HIFHRQCLLQWMDTY-------KLICPVCRCPL 633 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccchH-----HHHHHHHHHHHHhhh-------cccCCccCCCC
Confidence 3578999976543 11 2345667886 568999999999854 47899998764
No 31
>PLN02436 cellulose synthase A
Probab=87.61 E-value=0.4 Score=52.48 Aligned_cols=52 Identities=29% Similarity=0.470 Sum_probs=38.0
Q ss_pred CeeeEecccCcCCCCCcceeccC-CCCCCccccHHHHHHHHHHhccCCCCCCcccccCCccee
Q psy16185 12 KYCWVCFATHEDDRNALWVQPCL-CRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYF 73 (263)
Q Consensus 12 ~~CrIC~~~eeed~~~~~v~PC~-C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~ 73 (263)
.+|+||-++-.-+.+++..-.|+ |. --|=+.|...=.++- +..|||||++|.
T Consensus 37 ~iCqICGD~Vg~t~dGe~FVACn~C~---fpvCr~Cyeyer~eg-------~~~Cpqckt~Y~ 89 (1094)
T PLN02436 37 QTCQICGDEIELTVDGEPFVACNECA---FPVCRPCYEYERREG-------NQACPQCKTRYK 89 (1094)
T ss_pred ccccccccccCcCCCCCEEEeeccCC---CccccchhhhhhhcC-------CccCcccCCchh
Confidence 49999966654344577888888 65 447779995544432 579999999998
No 32
>PLN02195 cellulose synthase A
Probab=86.07 E-value=0.68 Score=50.33 Aligned_cols=58 Identities=24% Similarity=0.322 Sum_probs=38.1
Q ss_pred ecCCCCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCccee
Q psy16185 7 ISSDLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYF 73 (263)
Q Consensus 7 ~~ee~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~ 73 (263)
|+.+...|+||-++-.-+.+++..--|+=-| --|=+.|..-=.+|. +..|||||++|.
T Consensus 2 ~~~~~~~c~~cgd~~~~~~~g~~fvaC~eC~--~pvCrpCyeyer~eg-------~q~CpqCkt~Yk 59 (977)
T PLN02195 2 MESGAPICATCGEEVGVDSNGEAFVACHECS--YPLCKACLEYEIKEG-------RKVCLRCGGPYD 59 (977)
T ss_pred CcCCCccceecccccCcCCCCCeEEEeccCC--CccccchhhhhhhcC-------CccCCccCCccc
Confidence 5667789999966555444555554443111 235668985544433 679999999998
No 33
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=85.33 E-value=0.74 Score=31.12 Aligned_cols=43 Identities=23% Similarity=0.655 Sum_probs=32.4
Q ss_pred eeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCc
Q psy16185 14 CWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNT 70 (263)
Q Consensus 14 CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~ 70 (263)
|-||++..+++ ...++.+|. ..+.++|+.+.. . ....||+|++
T Consensus 2 C~~C~~~~~~~-~~~~l~~Cg-----H~~C~~C~~~~~--~------~~~~CP~C~k 44 (44)
T PF14634_consen 2 CNICFEKYSEE-RRPRLTSCG-----HIFCEKCLKKLK--G------KSVKCPICRK 44 (44)
T ss_pred CcCcCccccCC-CCeEEcccC-----CHHHHHHHHhhc--C------CCCCCcCCCC
Confidence 77898887332 468999873 568899998877 2 2689999984
No 34
>KOG1734|consensus
Probab=84.49 E-value=0.54 Score=44.78 Aligned_cols=92 Identities=21% Similarity=0.331 Sum_probs=52.7
Q ss_pred cCCCCeeeEecccCc----CCC--CCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceeecc-CC--
Q psy16185 8 SSDLKYCWVCFATHE----DDR--NALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFIVY-PY-- 78 (263)
Q Consensus 8 ~ee~~~CrIC~~~ee----ed~--~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~~-P~-- 78 (263)
..++..|-||-..-. ||+ ++.-.- .|. ...|+.|..-|.--.+ +..||-||.+..... ++
T Consensus 221 hl~d~vCaVCg~~~~~s~~eegvienty~L--sCn---HvFHEfCIrGWcivGK------kqtCPYCKekVdl~rmfsnp 289 (328)
T KOG1734|consen 221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKL--SCN---HVFHEFCIRGWCIVGK------KQTCPYCKEKVDLKRMFSNP 289 (328)
T ss_pred CCCcchhHhhcchheeecchhhhhhhheee--ecc---cchHHHhhhhheeecC------CCCCchHHHHhhHhhhccCc
Confidence 446789999953322 111 122233 454 5699999999987654 679999999987652 21
Q ss_pred cc----hHHHHHHHHHHHhhhhhhhhHHHHHHhHHhHh
Q psy16185 79 RG----LLVSLLDTIDTAVYKLCPFVAAGVVLGSMYWC 112 (263)
Q Consensus 79 ~~----~l~~lle~vdr~~~~l~pfla~gil~g~vyW~ 112 (263)
.. ..-.++|.+..++ .+ ..++.+++-+..||.
T Consensus 290 Wekph~~yg~LldwlRylV-aw-qpvi~~iVqgin~~l 325 (328)
T KOG1734|consen 290 WEKPHVWYGQLLDWLRYLV-AW-QPVIITIVQGINYYL 325 (328)
T ss_pred cccchhHHHHHHHHHHHHH-HH-HHHHHHHHHHHHHHh
Confidence 11 1235555544321 11 224556665655554
No 35
>KOG0317|consensus
Probab=82.88 E-value=1.2 Score=42.55 Aligned_cols=48 Identities=25% Similarity=0.665 Sum_probs=36.2
Q ss_pred CCCCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCccee
Q psy16185 9 SDLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYF 73 (263)
Q Consensus 9 ee~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~ 73 (263)
+..+.|-+|+++-+ ++=-.||. .-.=-+|++.|..++. .||+|+.++.
T Consensus 237 ~a~~kC~LCLe~~~----~pSaTpCG-----HiFCWsCI~~w~~ek~--------eCPlCR~~~~ 284 (293)
T KOG0317|consen 237 EATRKCSLCLENRS----NPSATPCG-----HIFCWSCILEWCSEKA--------ECPLCREKFQ 284 (293)
T ss_pred CCCCceEEEecCCC----CCCcCcCc-----chHHHHHHHHHHcccc--------CCCcccccCC
Confidence 34589999998864 34567775 2344589999998875 4999999874
No 36
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=82.19 E-value=1.1 Score=35.57 Aligned_cols=30 Identities=27% Similarity=0.665 Sum_probs=25.3
Q ss_pred ccccHHHHHHHHHHhccCCCCCCcccccCCcceeeccC
Q psy16185 40 KWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFIVYP 77 (263)
Q Consensus 40 k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~~P 77 (263)
.-.|.-|+.||++.+ ..||+++.+|++..+
T Consensus 56 HaFH~HCI~rWL~Tk--------~~CPld~q~w~~~~~ 85 (88)
T COG5194 56 HAFHDHCIYRWLDTK--------GVCPLDRQTWVLADG 85 (88)
T ss_pred hHHHHHHHHHHHhhC--------CCCCCCCceeEEecc
Confidence 558999999999874 589999999987643
No 37
>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=81.48 E-value=1.7 Score=42.54 Aligned_cols=44 Identities=27% Similarity=0.712 Sum_probs=33.4
Q ss_pred cceeccCCCCCCccccHHHHHHHHHHhccCCC-----CCCcccccCCcceee
Q psy16185 28 LWVQPCLCRGTSKWVHQACLNRWIDEKQKGNA-----FTQVACPQCNTKYFI 74 (263)
Q Consensus 28 ~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~-----~~~~~CeqCk~eY~i 74 (263)
+=-.+|.|+ --==.+||-+|...+|..+. ..+..||-|+++|=+
T Consensus 304 ~~C~~C~CR---PmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 304 PPCQQCYCR---PMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred CCCcccccc---chHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 345689998 33467999999998874322 578899999999854
No 38
>KOG0804|consensus
Probab=81.29 E-value=0.69 Score=46.55 Aligned_cols=48 Identities=27% Similarity=0.670 Sum_probs=35.8
Q ss_pred CCCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcce
Q psy16185 10 DLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKY 72 (263)
Q Consensus 10 e~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY 72 (263)
+.++|-||++.=+++-++.+..+|.=+ .|-.||++|=+ ..||+|++--
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~c~Hs-----fh~~cl~~w~~----------~scpvcR~~q 221 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTILCNHS-----FHCSCLMKWWD----------SSCPVCRYCQ 221 (493)
T ss_pred cCCCcchhHhhcCccccceeeeecccc-----cchHHHhhccc----------CcChhhhhhc
Confidence 358999998876655445566666544 89999999964 6799998754
No 39
>KOG0827|consensus
Probab=80.61 E-value=1.2 Score=44.25 Aligned_cols=47 Identities=23% Similarity=0.731 Sum_probs=31.1
Q ss_pred CeeeEecccCcCCCCCcceeccC-CCCCCccccHHHHHHHHHHhccCCCCCCcccccCC
Q psy16185 12 KYCWVCFATHEDDRNALWVQPCL-CRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCN 69 (263)
Q Consensus 12 ~~CrIC~~~eeed~~~~~v~PC~-C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk 69 (263)
..|-|| .+..+. ..+ +.|=. |- .-+|..||.+|...... ++.||+|+
T Consensus 5 A~C~Ic-~d~~p~-~~~-l~~i~~cG---hifh~~cl~qwfe~~Ps-----~R~cpic~ 52 (465)
T KOG0827|consen 5 AECHIC-IDGRPN-DHE-LGPIGTCG---HIFHTTCLTQWFEGDPS-----NRGCPICQ 52 (465)
T ss_pred ceeeEe-ccCCcc-ccc-cccccchh---hHHHHHHHHHHHccCCc-----cCCCCcee
Confidence 579999 444332 122 22322 44 55999999999986541 37999999
No 40
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=80.46 E-value=1.4 Score=34.62 Aligned_cols=60 Identities=22% Similarity=0.283 Sum_probs=24.4
Q ss_pred ecCCCCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceeec
Q psy16185 7 ISSDLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFIV 75 (263)
Q Consensus 7 ~~ee~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~ 75 (263)
.+-+..+|.||-++-.-+.+++.+--|.=-+ --|=+.|..-=+++. +..|+|||++|.-.
T Consensus 5 k~~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~--fPvCr~CyEYErkeg-------~q~CpqCkt~ykr~ 64 (80)
T PF14569_consen 5 KNLNGQICQICGDDVGLTENGEVFVACHECA--FPVCRPCYEYERKEG-------NQVCPQCKTRYKRH 64 (80)
T ss_dssp S--SS-B-SSS--B--B-SSSSB--S-SSS-------HHHHHHHHHTS--------SB-TTT--B----
T ss_pred hhcCCcccccccCccccCCCCCEEEEEcccC--CccchhHHHHHhhcC-------cccccccCCCcccc
Confidence 3456789999966554333455565554221 447789998766654 57999999999854
No 41
>KOG2930|consensus
Probab=79.85 E-value=1.4 Score=36.45 Aligned_cols=29 Identities=24% Similarity=0.677 Sum_probs=24.4
Q ss_pred ccccHHHHHHHHHHhccCCCCCCcccccCCcceeecc
Q psy16185 40 KWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFIVY 76 (263)
Q Consensus 40 k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~~ 76 (263)
.-.|.-|+.||++.. ..||+|+.++.+..
T Consensus 83 HaFH~hCisrWlktr--------~vCPLdn~eW~~qr 111 (114)
T KOG2930|consen 83 HAFHFHCISRWLKTR--------NVCPLDNKEWVFQR 111 (114)
T ss_pred hHHHHHHHHHHHhhc--------CcCCCcCcceeEee
Confidence 448999999999864 48999999998764
No 42
>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=79.68 E-value=2.3 Score=36.40 Aligned_cols=61 Identities=21% Similarity=0.528 Sum_probs=38.1
Q ss_pred CCeeeEecccCcCCCCCcceeccCCCCC-CccccHHHHHHHHHHhccCCCCCCcccccCCcceeeccCCc
Q psy16185 11 LKYCWVCFATHEDDRNALWVQPCLCRGT-SKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFIVYPYR 79 (263)
Q Consensus 11 ~~~CrIC~~~eeed~~~~~v~PC~C~GS-~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~~P~~ 79 (263)
.-.|+||++.-.+ .++-..-+|.-+-. -|..|.+|+.+|-++..+ .+-+. .-+|.+.+|+.
T Consensus 26 ~~EC~IC~~~I~~-~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~r-DPfnR------~I~y~F~fPf~ 87 (134)
T PF05883_consen 26 TVECQICFDRIDN-NDGVVYVTDGGTLNLEKMFCADCDKRWRRERNR-DPFNR------NIKYWFNFPFK 87 (134)
T ss_pred Ceeehhhhhhhhc-CCCEEEEecCCeehHHHHHHHHHHHHHHhhccC-CCccc------ceEEEEeCCCC
Confidence 4689999988766 23555555544422 267899999999755432 22111 24677778753
No 43
>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=79.34 E-value=1.2 Score=29.24 Aligned_cols=38 Identities=24% Similarity=0.772 Sum_probs=25.0
Q ss_pred eeEecccCcCCCCCc-ceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccC
Q psy16185 14 CWVCFATHEDDRNAL-WVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQC 68 (263)
Q Consensus 14 CrIC~~~eeed~~~~-~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqC 68 (263)
|-||++.-. ++ .+.||. ....++|+.+|++. + ..||.|
T Consensus 1 C~iC~~~~~----~~~~~~~CG-----H~fC~~C~~~~~~~-~-------~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELR----DPVVVTPCG-----HSFCKECIEKYLEK-N-------PKCPVC 39 (39)
T ss_dssp ETTTTSB-S----SEEEECTTS-----EEEEHHHHHHHHHC-T-------SB-TTT
T ss_pred CCCCCCccc----CcCEECCCC-----CchhHHHHHHHHHC-c-------CCCcCC
Confidence 567866543 35 345543 66899999999975 2 589887
No 44
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=78.92 E-value=2.9 Score=41.42 Aligned_cols=50 Identities=18% Similarity=0.423 Sum_probs=36.5
Q ss_pred CCCCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceeec
Q psy16185 9 SDLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFIV 75 (263)
Q Consensus 9 ee~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~ 75 (263)
++.-.|-||++.-. .+.+.||. ......|+.+|+.. ...||.|+.++...
T Consensus 24 e~~l~C~IC~d~~~----~PvitpCg-----H~FCs~CI~~~l~~--------~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 24 DTSLRCHICKDFFD----VPVLTSCS-----HTFCSLCIRRCLSN--------QPKCPLCRAEDQES 73 (397)
T ss_pred ccccCCCcCchhhh----CccCCCCC-----CchhHHHHHHHHhC--------CCCCCCCCCccccc
Confidence 34579999987653 35677764 34678999999863 24899999998643
No 45
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=78.19 E-value=2 Score=47.26 Aligned_cols=55 Identities=22% Similarity=0.341 Sum_probs=35.1
Q ss_pred CCCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCccee
Q psy16185 10 DLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYF 73 (263)
Q Consensus 10 e~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~ 73 (263)
+..+|+||-++-.-+.+++..--|+=-| --|=+.|..-=.+|- +..|||||++|.
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~--FPVCrpCYEYEr~eG-------~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCA--FPVCRPCYEYERKDG-------NQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCC--CccccchhhhhhhcC-------CccCCccCCchh
Confidence 4569999966654444555554443111 225558985544433 579999999998
No 46
>KOG1785|consensus
Probab=76.01 E-value=0.84 Score=45.66 Aligned_cols=48 Identities=25% Similarity=0.696 Sum_probs=35.8
Q ss_pred CeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceee
Q psy16185 12 KYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFI 74 (263)
Q Consensus 12 ~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i 74 (263)
..|.||-+.+.| .-+.||. ...-..||-.|.++++ ...||.|+.|+.=
T Consensus 370 eLCKICaendKd----vkIEPCG-----HLlCt~CLa~WQ~sd~------gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 370 ELCKICAENDKD----VKIEPCG-----HLLCTSCLAAWQDSDE------GQTCPFCRCEIKG 417 (563)
T ss_pred HHHHHhhccCCC----ccccccc-----chHHHHHHHhhcccCC------CCCCCceeeEecc
Confidence 679999776643 4578885 2244589999997765 5789999998863
No 47
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=74.80 E-value=1.6 Score=30.17 Aligned_cols=43 Identities=23% Similarity=0.556 Sum_probs=22.2
Q ss_pred eeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccc
Q psy16185 14 CWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACP 66 (263)
Q Consensus 14 CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~Ce 66 (263)
|-||++ ..++.+.+.+-||.-. +=++||+++.+.+. ....+||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~-----~c~~cl~~l~~~~~----~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHV-----FCKDCLQKLSKKSD----RNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-E-----EEHHHHHHHHHH-S-----S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccH-----HHHHHHHHHHhcCC----CCeeeCc
Confidence 567877 4444466888997654 78999999998653 2256775
No 48
>KOG3970|consensus
Probab=73.62 E-value=6.5 Score=36.87 Aligned_cols=76 Identities=20% Similarity=0.378 Sum_probs=49.6
Q ss_pred ecCCCCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceeeccCCcchHHHHH
Q psy16185 7 ISSDLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFIVYPYRGLLVSLL 86 (263)
Q Consensus 7 ~~ee~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~~P~~~~l~~ll 86 (263)
++|-..-|+.|-.+-.+.....++ |- ...|=+||..|-..--..-.....+||-|..++ +|+.+....+.
T Consensus 46 DsDY~pNC~LC~t~La~gdt~RLv----Cy---hlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei---FPp~NlvsPva 115 (299)
T KOG3970|consen 46 DSDYNPNCRLCNTPLASGDTTRLV----CY---HLFHWKCLNERAANLPANTAPAGYQCPCCSQEI---FPPINLVSPVA 115 (299)
T ss_pred hcCCCCCCceeCCccccCcceeeh----hh---hhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc---CCCccccchhH
Confidence 456678899996554432122232 32 678999999999865433345678999999995 77665555555
Q ss_pred HHHHHH
Q psy16185 87 DTIDTA 92 (263)
Q Consensus 87 e~vdr~ 92 (263)
|.+...
T Consensus 116 ~aLre~ 121 (299)
T KOG3970|consen 116 EALREQ 121 (299)
T ss_pred HHHHHH
Confidence 555444
No 49
>PLN02400 cellulose synthase
Probab=70.38 E-value=2.8 Score=46.20 Aligned_cols=53 Identities=21% Similarity=0.302 Sum_probs=32.4
Q ss_pred CeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCccee
Q psy16185 12 KYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYF 73 (263)
Q Consensus 12 ~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~ 73 (263)
.+|+||-++-.-+.+++..--|+=-| --|=+.|..-=.+ ..+..|||||++|.
T Consensus 37 qiCqICGD~VG~t~dGe~FVAC~eCa--FPVCRpCYEYERk-------eGnq~CPQCkTrYk 89 (1085)
T PLN02400 37 QICQICGDDVGVTETGDVFVACNECA--FPVCRPCYEYERK-------DGTQCCPQCKTRYR 89 (1085)
T ss_pred ceeeecccccCcCCCCCEEEEEccCC--Cccccchhheecc-------cCCccCcccCCccc
Confidence 49999966644334455554443111 2245578743332 23679999999998
No 50
>KOG1039|consensus
Probab=68.93 E-value=4.4 Score=39.45 Aligned_cols=65 Identities=25% Similarity=0.493 Sum_probs=43.0
Q ss_pred CCCCeeeEecccCcCCCCCc---ceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceeeccCC
Q psy16185 9 SDLKYCWVCFATHEDDRNAL---WVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFIVYPY 78 (263)
Q Consensus 9 ee~~~CrIC~~~eeed~~~~---~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~~P~ 78 (263)
..++.|=||++.-.+..... =+.| +|. .-.=.+|..+|....+- +......||+|+..-..+-|.
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilp-nC~---H~~Cl~Cir~wr~~~q~-~~~~sksCP~CRv~s~~v~pS 226 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILP-NCN---HSFCLNCIRKWRQATQF-ESKTSKSCPFCRVPSSFVNPS 226 (344)
T ss_pred cccccceehhhhccccchhhhhcccCC-Ccc---hhhhhcHhHhhhhhhcc-ccccccCCCcccCcccccccc
Confidence 45799999998887643111 1224 444 22345788999976553 445578999999988877664
No 51
>PF10529 Hist_rich_Ca-bd: Histidine-rich Calcium-binding repeat region; InterPro: IPR019552 This entry represents a histidine-rich calcium-binding repeat which appears in proteins called histidine-rich-calcium binding proteins (HRC). HRC is a high capacity, low affinity Ca2+-binding protein, residing in the lumen of the sarcoplasmic reticulum. HRC binds directly to triadin. This binding interaction occurs between the histidine-rich region of HRC and multiple clusters of charged amino acids, named KEKE motifs, in the lumenal domain of triadin. This repeat is found in the acidic region of the protein, which can be long and variable. There is also a cysteine-rich region further towards the C terminus []. HRC may regulate sarcoplasmic reticular calcium transport, play a critical role in maintaining calcium homeostasis, and function in the heart. HRC is a candidate regulator of sarcoplasmic reticular calcium uptake.
Probab=68.34 E-value=2 Score=23.98 Aligned_cols=9 Identities=56% Similarity=1.269 Sum_probs=7.1
Q ss_pred hcccCCCCC
Q psy16185 212 HRHQGHPQD 220 (263)
Q Consensus 212 ~~~~~~~~~ 220 (263)
||||||-.+
T Consensus 1 HRhrgH~~e 9 (15)
T PF10529_consen 1 HRHRGHREE 9 (15)
T ss_pred CccCccccc
Confidence 799999643
No 52
>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=62.43 E-value=14 Score=32.62 Aligned_cols=59 Identities=24% Similarity=0.592 Sum_probs=37.5
Q ss_pred CCCeeeEecccCcCCCCCcc---------eeccCCCCCCccccHHHHHHHHHHhccCC----------------------
Q psy16185 10 DLKYCWVCFATHEDDRNALW---------VQPCLCRGTSKWVHQACLNRWIDEKQKGN---------------------- 58 (263)
Q Consensus 10 e~~~CrIC~~~eeed~~~~~---------v~PC~C~GS~k~VHq~CL~rWI~esq~~n---------------------- 58 (263)
|+-.|-||++-.- ++-| ..|=-|.. .|-|.+||.+.-+...+..
T Consensus 1 ed~~CpICme~PH---NAVLLlCSS~~kgcRpymc~T--s~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (162)
T PF07800_consen 1 EDVTCPICMEHPH---NAVLLLCSSHEKGCRPYMCDT--SYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSES 75 (162)
T ss_pred CCccCceeccCCC---ceEEEEeccccCCccccccCC--ccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccc
Confidence 4568999987642 1211 22333653 5789999999987644311
Q ss_pred -CCCCcccccCCccee
Q psy16185 59 -AFTQVACPQCNTKYF 73 (263)
Q Consensus 59 -~~~~~~CeqCk~eY~ 73 (263)
...+..||+|.-+..
T Consensus 76 ~~~~~L~CPLCRG~V~ 91 (162)
T PF07800_consen 76 QEQPELACPLCRGEVK 91 (162)
T ss_pred cccccccCccccCcee
Confidence 124679999998754
No 53
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=61.81 E-value=6.2 Score=43.50 Aligned_cols=55 Identities=31% Similarity=0.469 Sum_probs=35.3
Q ss_pred CCCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCccee
Q psy16185 10 DLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYF 73 (263)
Q Consensus 10 e~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~ 73 (263)
+...|+||-++-.-+.+++..--|+=-| --|=+.|..-=.+|- +..|||||++|.
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~--fpvCr~cyeye~~~g-------~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCG--FPVCKPCYEYERSEG-------NQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCC--CccccchhhhhhhcC-------CccCCccCCchh
Confidence 4689999966654444555554443111 225568985444332 579999999998
No 54
>KOG3268|consensus
Probab=60.88 E-value=8.7 Score=34.92 Aligned_cols=66 Identities=26% Similarity=0.540 Sum_probs=39.5
Q ss_pred eecCCCCeeeEecccCcCCCCCcceecc---CCCCCCccccHHHHHHHHHHhccCC-C--CCCcccccCCcceeecc
Q psy16185 6 IISSDLKYCWVCFATHEDDRNALWVQPC---LCRGTSKWVHQACLNRWIDEKQKGN-A--FTQVACPQCNTKYFIVY 76 (263)
Q Consensus 6 ~~~ee~~~CrIC~~~eeed~~~~~v~PC---~C~GS~k~VHq~CL~rWI~esq~~n-~--~~~~~CeqCk~eY~i~~ 76 (263)
.++++.-.|-||+.-.-+. ..=-.-| .|. |-.||-||..|++.--..+ + .---.||-|..+..++.
T Consensus 160 ekdd~~~~cgicyayqldG--TipDqtCdN~qCg---kpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm 231 (234)
T KOG3268|consen 160 EKDDELGACGICYAYQLDG--TIPDQTCDNIQCG---KPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM 231 (234)
T ss_pred CcchhhhcccceeeeecCC--ccccccccccccC---CcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence 4556667788887654321 0111122 343 6699999999997532211 1 22347999999887654
No 55
>KOG4265|consensus
Probab=59.06 E-value=7.3 Score=38.12 Aligned_cols=46 Identities=28% Similarity=0.616 Sum_probs=32.3
Q ss_pred cCCCCeeeEecccCcCCCCCcceeccC----CCCCCccccHHHHHHHHHHhccCCCCCCcccccCCccee
Q psy16185 8 SSDLKYCWVCFATHEDDRNALWVQPCL----CRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYF 73 (263)
Q Consensus 8 ~ee~~~CrIC~~~eeed~~~~~v~PC~----C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~ 73 (263)
+++.+.|=||+++..| -.+-||+ |+ +|-+.-. .+ ...||+|+.++.
T Consensus 287 ~~~gkeCVIClse~rd----t~vLPCRHLCLCs--------~Ca~~Lr-~q-------~n~CPICRqpi~ 336 (349)
T KOG4265|consen 287 SESGKECVICLSESRD----TVVLPCRHLCLCS--------GCAKSLR-YQ-------TNNCPICRQPIE 336 (349)
T ss_pred ccCCCeeEEEecCCcc----eEEecchhhehhH--------hHHHHHH-Hh-------hcCCCccccchH
Confidence 4668999999887654 5677765 55 5654433 22 578999999864
No 56
>KOG0825|consensus
Probab=55.84 E-value=6.3 Score=42.64 Aligned_cols=28 Identities=18% Similarity=0.502 Sum_probs=20.1
Q ss_pred ccccHHHHHHHHHHhccCCCCCCcccccCCcceeec
Q psy16185 40 KWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFIV 75 (263)
Q Consensus 40 k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~ 75 (263)
.|.|..|+..|-.- .-.||+|+.+|.-+
T Consensus 146 H~FC~~Ci~sWsR~--------aqTCPiDR~EF~~v 173 (1134)
T KOG0825|consen 146 HYFCEECVGSWSRC--------AQTCPVDRGEFGEV 173 (1134)
T ss_pred cccHHHHhhhhhhh--------cccCchhhhhhhee
Confidence 45677777777653 34899999999744
No 57
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=55.72 E-value=10 Score=37.46 Aligned_cols=54 Identities=26% Similarity=0.541 Sum_probs=36.5
Q ss_pred cCCCCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCccee
Q psy16185 8 SSDLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYF 73 (263)
Q Consensus 8 ~ee~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~ 73 (263)
++++++|-.|.++-+- ...-+.||.|- . |-|---|-.-++.. .-.||.|+..|.
T Consensus 11 edeed~cplcie~mdi--tdknf~pc~cg---y---~ic~fc~~~irq~l----ngrcpacrr~y~ 64 (480)
T COG5175 11 EDEEDYCPLCIEPMDI--TDKNFFPCPCG---Y---QICQFCYNNIRQNL----NGRCPACRRKYD 64 (480)
T ss_pred ccccccCccccccccc--ccCCcccCCcc---c---HHHHHHHHHHHhhc----cCCChHhhhhcc
Confidence 4567999999766432 34568899997 3 44444455444422 568999998886
No 58
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=55.12 E-value=11 Score=32.64 Aligned_cols=60 Identities=28% Similarity=0.582 Sum_probs=43.2
Q ss_pred EeecCCCCeeeEecccCcCCCCCcceeccCCCCCCccccHHH-HHHHHHHhccCCCCCCcccccCCcceeec
Q psy16185 5 VIISSDLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQAC-LNRWIDEKQKGNAFTQVACPQCNTKYFIV 75 (263)
Q Consensus 5 ~~~~ee~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~C-L~rWI~esq~~n~~~~~~CeqCk~eY~i~ 75 (263)
|+.+..--.|-||.++..| ..+..|=-|-|.. +=..| -.-|--.+- .-+||.||+.|.-.
T Consensus 74 vF~d~~lYeCnIC~etS~e---e~FLKPneCCgY~--iCn~Cya~LWK~~~~------ypvCPvCkTSFKss 134 (140)
T PF05290_consen 74 VFLDPKLYECNICKETSAE---ERFLKPNECCGYS--ICNACYANLWKFCNL------YPVCPVCKTSFKSS 134 (140)
T ss_pred eecCCCceeccCcccccch---hhcCCcccccchH--HHHHHHHHHHHHccc------CCCCCccccccccc
Confidence 4556666789999888765 4789998899852 44444 455755443 68999999999743
No 59
>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=51.90 E-value=14 Score=35.57 Aligned_cols=54 Identities=22% Similarity=0.386 Sum_probs=35.4
Q ss_pred CCCeeeEecccCcCCCCC-cceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceeec
Q psy16185 10 DLKYCWVCFATHEDDRNA-LWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFIV 75 (263)
Q Consensus 10 e~~~CrIC~~~eeed~~~-~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~ 75 (263)
++..|-+|..+.--.++. -++++|. +-.=++|+.+.... . ...||+|+..+.-.
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CG-----H~~C~sCv~~l~~~-~------~~~CP~C~~~lrk~ 56 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCG-----HTLCESCVDLLFVR-G------SGSCPECDTPLRKN 56 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCC-----CcccHHHHHHHhcC-C------CCCCCCCCCccchh
Confidence 457899999876543332 3667653 33557899885432 1 45899999887643
No 60
>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=50.10 E-value=7.8 Score=26.57 Aligned_cols=21 Identities=24% Similarity=1.004 Sum_probs=14.1
Q ss_pred ccHHHHHHHHHHhccCCCCCCcccccC
Q psy16185 42 VHQACLNRWIDEKQKGNAFTQVACPQC 68 (263)
Q Consensus 42 VHq~CL~rWI~esq~~n~~~~~~CeqC 68 (263)
+|..|+.+++.... ...||.|
T Consensus 23 ~H~~C~~~y~r~~~------~~~CP~C 43 (43)
T PF08746_consen 23 LHDDCFKKYFRHRS------NPKCPNC 43 (43)
T ss_dssp E-HHHHHHHTTT-S------S-B-TTT
T ss_pred HHHHHHHHHHhcCC------CCCCcCC
Confidence 89999999997654 3489987
No 61
>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 KOG0956|consensus
Probab=47.20 E-value=10 Score=40.47 Aligned_cols=71 Identities=21% Similarity=0.284 Sum_probs=45.4
Q ss_pred eeeEeecCCCCeeeEecccCcCCC-CCcceeccCCCCCCccccHHHHHHHH--HHhccCC-CCCCcccccCCccee
Q psy16185 2 LCLVIISSDLKYCWVCFATHEDDR-NALWVQPCLCRGTSKWVHQACLNRWI--DEKQKGN-AFTQVACPQCNTKYF 73 (263)
Q Consensus 2 ~~~~~~~ee~~~CrIC~~~eeed~-~~~~v~PC~C~GS~k~VHq~CL~rWI--~esq~~n-~~~~~~CeqCk~eY~ 73 (263)
|-+|+.+-..+.|.||-++..+.. ..--.--|+=.|-.+-.|..|-++-= =|.. +| .++-.+|--||+.|.
T Consensus 108 Lq~VP~dRfnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~-gn~~dNVKYCGYCk~Hfs 182 (900)
T KOG0956|consen 108 LQDVPHDRFNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEE-GNISDNVKYCGYCKYHFS 182 (900)
T ss_pred eccCchhhhcceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceecc-ccccccceechhHHHHHH
Confidence 445777778899999987765532 11233455544444779999987631 1111 23 244679999999987
No 63
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=46.00 E-value=69 Score=23.74 Aligned_cols=13 Identities=23% Similarity=0.529 Sum_probs=10.4
Q ss_pred CcccccCCcceee
Q psy16185 62 QVACPQCNTKYFI 74 (263)
Q Consensus 62 ~~~CeqCk~eY~i 74 (263)
...|+.|+.+...
T Consensus 3 HkHC~~CG~~Ip~ 15 (59)
T PF09889_consen 3 HKHCPVCGKPIPP 15 (59)
T ss_pred CCcCCcCCCcCCc
Confidence 5789999988653
No 64
>KOG4445|consensus
Probab=45.53 E-value=11 Score=36.67 Aligned_cols=58 Identities=26% Similarity=0.576 Sum_probs=36.8
Q ss_pred CeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhcc---------------CCCCCCcccccCCcceeec
Q psy16185 12 KYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQK---------------GNAFTQVACPQCNTKYFIV 75 (263)
Q Consensus 12 ~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~---------------~n~~~~~~CeqCk~eY~i~ 75 (263)
-.|-||+-.-.+. ..--+.+| . .|.|-.||.|.+.+... ........||+|..++.++
T Consensus 116 gqCvICLygfa~~-~~ft~T~C--~---Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e 188 (368)
T KOG4445|consen 116 GQCVICLYGFASS-PAFTVTAC--D---HYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE 188 (368)
T ss_pred CceEEEEEeecCC-Cceeeehh--H---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence 4566665443321 23456665 3 89999999999976432 1123345699999998876
No 65
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=44.55 E-value=7 Score=25.86 Aligned_cols=15 Identities=40% Similarity=0.884 Sum_probs=12.6
Q ss_pred CcccccCCcceeecc
Q psy16185 62 QVACPQCNTKYFIVY 76 (263)
Q Consensus 62 ~~~CeqCk~eY~i~~ 76 (263)
...||.|+++|.+..
T Consensus 2 ~i~Cp~C~~~y~i~d 16 (36)
T PF13717_consen 2 IITCPNCQAKYEIDD 16 (36)
T ss_pred EEECCCCCCEEeCCH
Confidence 368999999999873
No 66
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=43.70 E-value=9.2 Score=25.86 Aligned_cols=42 Identities=26% Similarity=0.647 Sum_probs=23.7
Q ss_pred eeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccC
Q psy16185 14 CWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQC 68 (263)
Q Consensus 14 CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqC 68 (263)
|-||++--. ++..-+|.= -.=++||.+|.++.+. ....||+|
T Consensus 1 CpiC~~~~~----~Pv~l~CGH-----~FC~~Cl~~~~~~~~~----~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFK----DPVSLPCGH-----SFCRSCLERLWKEPSG----SGFSCPEC 42 (42)
T ss_dssp ETTTTSB-S----SEEE-SSSS-----EEEHHHHHHHHCCSSS----ST---SSS
T ss_pred CCccchhhC----CccccCCcC-----HHHHHHHHHHHHccCC----cCCCCcCC
Confidence 556765543 356666643 3667999999875542 23789988
No 67
>KOG4323|consensus
Probab=42.11 E-value=10 Score=38.48 Aligned_cols=59 Identities=29% Similarity=0.544 Sum_probs=46.8
Q ss_pred CeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceee
Q psy16185 12 KYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFI 74 (263)
Q Consensus 12 ~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i 74 (263)
..|-+|+.....+. +.++.=|+|+ .|.||.|-+=-++....++......|..|...-..
T Consensus 169 ~qc~vC~~g~~~~~-NrmlqC~~C~---~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~~~ 227 (464)
T KOG4323|consen 169 LQCSVCYCGGPGAG-NRMLQCDKCR---QWYHQACHQPLIKDELAGDPFYEWFCDVCNRGPKK 227 (464)
T ss_pred ceeeeeecCCcCcc-ceeeeecccc---cHHHHHhccCCCCHhhccCccceEeehhhccchhh
Confidence 45999998776553 4889888898 99999999888866655666778999999877553
No 68
>PF06170 DUF983: Protein of unknown function (DUF983); InterPro: IPR009325 This family consists of several bacterial proteins of unknown function.
Probab=39.74 E-value=46 Score=26.19 Aligned_cols=22 Identities=23% Similarity=0.442 Sum_probs=18.1
Q ss_pred CcccccCCcceeeccCCcchHH
Q psy16185 62 QVACPQCNTKYFIVYPYRGLLV 83 (263)
Q Consensus 62 ~~~CeqCk~eY~i~~P~~~~l~ 83 (263)
..+|+.|+.+|....+..++..
T Consensus 8 ~~~C~~CG~d~~~~~adDgPA~ 29 (86)
T PF06170_consen 8 APRCPHCGLDYSHARADDGPAY 29 (86)
T ss_pred CCcccccCCccccCCcCccchh
Confidence 5799999999999887766653
No 69
>PHA03375 hypothetical protein; Provisional
Probab=39.58 E-value=8.7 Score=40.94 Aligned_cols=29 Identities=28% Similarity=0.644 Sum_probs=23.0
Q ss_pred ecccCcCCCCCcceeccCCCCCCccccHH
Q psy16185 17 CFATHEDDRNALWVQPCLCRGTSKWVHQA 45 (263)
Q Consensus 17 C~~~eeed~~~~~v~PC~C~GS~k~VHq~ 45 (263)
|+.+|.|..+---..+|+|+|...|||+.
T Consensus 99 CycdeWd~~eyl~~~~~~C~gP~LYvhr~ 127 (844)
T PHA03375 99 CYCDEWDVNEYLAKTACNCRGPLLYIHRS 127 (844)
T ss_pred ccccchhhhhhhhhcccccCCceEEEEec
Confidence 88888775334455899999999999993
No 70
>KOG1428|consensus
Probab=38.95 E-value=37 Score=39.82 Aligned_cols=62 Identities=23% Similarity=0.500 Sum_probs=41.4
Q ss_pred ecCCCCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCC--CCCCcccccCCcceee
Q psy16185 7 ISSDLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGN--AFTQVACPQCNTKYFI 74 (263)
Q Consensus 7 ~~ee~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n--~~~~~~CeqCk~eY~i 74 (263)
.++.+++|-|||.+.-. -.||---|-....|-.|-.+=+...=.+. .-....||+|+.++.-
T Consensus 3482 kQD~DDmCmICFTE~L~------AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALS------AAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred hcccCceEEEEehhhhC------CCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 35567999999987542 34665444448899999977554322111 1246799999999863
No 71
>COG3703 ChaC Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]
Probab=38.36 E-value=20 Score=32.39 Aligned_cols=19 Identities=32% Similarity=0.768 Sum_probs=16.3
Q ss_pred cccccccCchhHHHHHHHh
Q psy16185 233 TTSVGLRGPATQYVADLVK 251 (263)
Q Consensus 233 ~~~~~~~~~~~~~~~~~~~ 251 (263)
...+|+.||.++|+.++++
T Consensus 142 a~a~G~sG~n~eYL~~t~~ 160 (190)
T COG3703 142 AAAVGLSGPNAEYLFNTLQ 160 (190)
T ss_pred HHHhCCCCCcHHHHHHHHH
Confidence 3568999999999998875
No 72
>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=37.78 E-value=9 Score=35.05 Aligned_cols=29 Identities=28% Similarity=0.554 Sum_probs=22.3
Q ss_pred ecccCcCCCCCcceeccCCCCCCccccHH
Q psy16185 17 CFATHEDDRNALWVQPCLCRGTSKWVHQA 45 (263)
Q Consensus 17 C~~~eeed~~~~~v~PC~C~GS~k~VHq~ 45 (263)
|+.+|.|..+---..|+.|.|...|||++
T Consensus 93 CyCdeWd~~eyl~~~~~~C~GP~LYVhr~ 121 (215)
T PF04532_consen 93 CYCDEWDTNEYLAECAYFCRGPLLYVHRK 121 (215)
T ss_pred eeecceehhhHHhhCCcccCCceEEEEcc
Confidence 88887764333445889999999999984
No 73
>KOG0955|consensus
Probab=37.60 E-value=22 Score=39.43 Aligned_cols=36 Identities=25% Similarity=0.570 Sum_probs=27.2
Q ss_pred CCCCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHH
Q psy16185 9 SDLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLN 48 (263)
Q Consensus 9 ee~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~ 48 (263)
+++..|-||.+.+.++ .+..+. |.|-...|||+|.-
T Consensus 217 ~~D~~C~iC~~~~~~n-~n~ivf---CD~Cnl~VHq~Cyg 252 (1051)
T KOG0955|consen 217 EEDAVCCICLDGECQN-SNVIVF---CDGCNLAVHQECYG 252 (1051)
T ss_pred CCCccceeecccccCC-CceEEE---cCCCcchhhhhccC
Confidence 5678999999998774 233332 66666999999996
No 74
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=35.76 E-value=16 Score=24.13 Aligned_cols=15 Identities=27% Similarity=0.875 Sum_probs=12.5
Q ss_pred CcccccCCcceeecc
Q psy16185 62 QVACPQCNTKYFIVY 76 (263)
Q Consensus 62 ~~~CeqCk~eY~i~~ 76 (263)
...||.|++.|.+..
T Consensus 2 ~i~CP~C~~~f~v~~ 16 (37)
T PF13719_consen 2 IITCPNCQTRFRVPD 16 (37)
T ss_pred EEECCCCCceEEcCH
Confidence 368999999999763
No 75
>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=35.52 E-value=30 Score=25.66 Aligned_cols=52 Identities=12% Similarity=0.072 Sum_probs=32.9
Q ss_pred CcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceeeccCCcchHHHHHHHHHHH
Q psy16185 27 ALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFIVYPYRGLLVSLLDTIDTA 92 (263)
Q Consensus 27 ~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~~P~~~~l~~lle~vdr~ 92 (263)
++.+.|+. +-.=++|+.+|+... ...||+|+.+.... +.-+-..+.+.++.+
T Consensus 16 dPVi~~~G-----~tyer~~I~~~l~~~-------~~~~P~t~~~l~~~--~l~pn~~Lk~~I~~~ 67 (73)
T PF04564_consen 16 DPVILPSG-----HTYERSAIERWLEQN-------GGTDPFTRQPLSES--DLIPNRALKSAIEEW 67 (73)
T ss_dssp SEEEETTS-----EEEEHHHHHHHHCTT-------SSB-TTT-SB-SGG--GSEE-HHHHHHHHHH
T ss_pred CceeCCcC-----CEEcHHHHHHHHHcC-------CCCCCCCCCcCCcc--cceECHHHHHHHHHH
Confidence 46777754 457899999999862 58999999887643 222334556666655
No 76
>KOG0287|consensus
Probab=34.46 E-value=29 Score=34.48 Aligned_cols=47 Identities=26% Similarity=0.671 Sum_probs=34.0
Q ss_pred CCCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCccee
Q psy16185 10 DLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYF 73 (263)
Q Consensus 10 e~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~ 73 (263)
+--.|-||++-- +.+++.||.=+ .-.-|+...+.+ +..||.|-.++.
T Consensus 22 ~lLRC~IC~eyf----~ip~itpCsHt-----fCSlCIR~~L~~--------~p~CP~C~~~~~ 68 (442)
T KOG0287|consen 22 DLLRCGICFEYF----NIPMITPCSHT-----FCSLCIRKFLSY--------KPQCPTCCVTVT 68 (442)
T ss_pred HHHHHhHHHHHh----cCceeccccch-----HHHHHHHHHhcc--------CCCCCceecccc
Confidence 346799998875 46899995422 344677777765 468999999875
No 77
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=34.31 E-value=18 Score=22.55 Aligned_cols=13 Identities=23% Similarity=0.751 Sum_probs=10.1
Q ss_pred CCcccccCCccee
Q psy16185 61 TQVACPQCNTKYF 73 (263)
Q Consensus 61 ~~~~CeqCk~eY~ 73 (263)
....||.|++.|.
T Consensus 13 ~~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 13 SAKFCPHCGYDFE 25 (26)
T ss_pred hcCcCCCCCCCCc
Confidence 3578999998874
No 78
>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=33.78 E-value=17 Score=27.76 Aligned_cols=34 Identities=29% Similarity=0.586 Sum_probs=22.5
Q ss_pred CCCCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHH
Q psy16185 9 SDLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNR 49 (263)
Q Consensus 9 ee~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~r 49 (263)
+++..|.+|...-.. +.-.+.||. ..+|..|..|
T Consensus 76 ~~~~~C~vC~k~l~~--~~f~~~p~~-----~v~H~~C~~r 109 (109)
T PF10367_consen 76 TESTKCSVCGKPLGN--SVFVVFPCG-----HVVHYSCIKR 109 (109)
T ss_pred CCCCCccCcCCcCCC--ceEEEeCCC-----eEEecccccC
Confidence 445779999765532 234556663 4689999864
No 79
>KOG4692|consensus
Probab=32.86 E-value=34 Score=34.14 Aligned_cols=46 Identities=24% Similarity=0.568 Sum_probs=33.2
Q ss_pred cCCCCeeeEecccCcCCCCCcceeccCCCCCCccccHH---HHHHHHHHhccCCCCCCcccccCCccee
Q psy16185 8 SSDLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQA---CLNRWIDEKQKGNAFTQVACPQCNTKYF 73 (263)
Q Consensus 8 ~ee~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~---CL~rWI~esq~~n~~~~~~CeqCk~eY~ 73 (263)
+.|+..|-||+..+- +..+.||+ |++ |+.+-+- +...|=.||+..+
T Consensus 419 ~sEd~lCpICyA~pi----~Avf~PC~--------H~SC~~CI~qHlm--------N~k~CFfCktTv~ 467 (489)
T KOG4692|consen 419 DSEDNLCPICYAGPI----NAVFAPCS--------HRSCYGCITQHLM--------NCKRCFFCKTTVI 467 (489)
T ss_pred CcccccCcceecccc----hhhccCCC--------CchHHHHHHHHHh--------cCCeeeEecceee
Confidence 456789999998863 67899986 555 4544432 1568999999876
No 80
>KOG3899|consensus
Probab=32.23 E-value=34 Score=33.37 Aligned_cols=43 Identities=23% Similarity=0.599 Sum_probs=31.5
Q ss_pred eeccCCCCCCccccHHHHHHHHHHhccCC-----CCCCcccccCCcceeec
Q psy16185 30 VQPCLCRGTSKWVHQACLNRWIDEKQKGN-----AFTQVACPQCNTKYFIV 75 (263)
Q Consensus 30 v~PC~C~GS~k~VHq~CL~rWI~esq~~n-----~~~~~~CeqCk~eY~i~ 75 (263)
..-|-|+ ..--.+||-+|....|..- ...+-.||.|+++|-+.
T Consensus 320 c~nc~cr---p~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~ 367 (381)
T KOG3899|consen 320 CENCICR---PLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIR 367 (381)
T ss_pred ccccccc---cHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEe
Confidence 3456777 4456899999998766321 25678999999998764
No 81
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.73 E-value=45 Score=31.74 Aligned_cols=48 Identities=27% Similarity=0.586 Sum_probs=32.8
Q ss_pred CCCCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHH-HHHHhccCCCCCCcccccCCcce
Q psy16185 9 SDLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNR-WIDEKQKGNAFTQVACPQCNTKY 72 (263)
Q Consensus 9 ee~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~r-WI~esq~~n~~~~~~CeqCk~eY 72 (263)
+....|-||++..+ .+...||. ...=-.||.. |-.++ ...||+|...-
T Consensus 213 ~~d~kC~lC~e~~~----~ps~t~Cg-----HlFC~~Cl~~~~t~~k-------~~~CplCRak~ 261 (271)
T COG5574 213 LADYKCFLCLEEPE----VPSCTPCG-----HLFCLSCLLISWTKKK-------YEFCPLCRAKV 261 (271)
T ss_pred ccccceeeeecccC----Cccccccc-----chhhHHHHHHHHHhhc-------cccCchhhhhc
Confidence 34578999987754 45666663 3344567877 77644 56799999874
No 82
>KOG1952|consensus
Probab=31.35 E-value=53 Score=35.97 Aligned_cols=60 Identities=20% Similarity=0.565 Sum_probs=43.3
Q ss_pred cCCCCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCccee
Q psy16185 8 SSDLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYF 73 (263)
Q Consensus 8 ~ee~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~ 73 (263)
+++.-.|-||++.-... ...| .|+---...|-.|+.+|-..+++ +....+.||-|++.+.
T Consensus 188 ~~~~yeCmIC~e~I~~t-~~~W----SC~sCYhVFHl~CI~~WArs~ek-~~~~~WrCP~Cqsv~~ 247 (950)
T KOG1952|consen 188 SNRKYECMICTERIKRT-APVW----SCKSCYHVFHLNCIKKWARSSEK-TGQDGWRCPACQSVSK 247 (950)
T ss_pred hcCceEEEEeeeecccc-CCce----ecchhhhhhhHHHHHHHHHHhhh-ccCccccCCcccchhc
Confidence 34557899998765432 3455 35555578999999999987554 3346899999998876
No 83
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=30.21 E-value=56 Score=32.64 Aligned_cols=54 Identities=24% Similarity=0.391 Sum_probs=33.4
Q ss_pred ecCCCCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcceeec
Q psy16185 7 ISSDLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYFIV 75 (263)
Q Consensus 7 ~~ee~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~ 75 (263)
+++++..|.||-+.-+ -.-+.||.=+ .-..|-.|-.+--. +..|++|+++..-+
T Consensus 57 tDEen~~C~ICA~~~T----Ys~~~PC~H~-----~CH~Ca~RlRALY~------~K~C~~CrTE~e~V 110 (493)
T COG5236 57 TDEENMNCQICAGSTT----YSARYPCGHQ-----ICHACAVRLRALYM------QKGCPLCRTETEAV 110 (493)
T ss_pred cccccceeEEecCCce----EEEeccCCch-----HHHHHHHHHHHHHh------ccCCCccccccceE
Confidence 4567789999965543 3456787633 22344444443222 57899999997643
No 84
>KOG1814|consensus
Probab=29.48 E-value=45 Score=33.67 Aligned_cols=55 Identities=16% Similarity=0.455 Sum_probs=41.1
Q ss_pred CeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCcce
Q psy16185 12 KYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKY 72 (263)
Q Consensus 12 ~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY 72 (263)
-.|-|||++.-.. .---..||. .+.=++|+.......-+.+..+.++||.|+.+=
T Consensus 185 f~C~ICf~e~~G~-~c~~~lpC~-----Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~ 239 (445)
T KOG1814|consen 185 FDCCICFEEQMGQ-HCFKFLPCS-----HVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGS 239 (445)
T ss_pred ccceeeehhhcCc-ceeeecccc-----hHHHHHHHHHHHHHhhhcceeeeecCCCCCCcc
Confidence 5699999887531 234568876 555688999988776666677889999999874
No 85
>KOG1973|consensus
Probab=29.32 E-value=32 Score=32.13 Aligned_cols=39 Identities=23% Similarity=0.604 Sum_probs=26.1
Q ss_pred CcceeccCCCCCC-ccccHHHHHHHHHHhccCCCCCCcccccCCcce
Q psy16185 27 ALWVQPCLCRGTS-KWVHQACLNRWIDEKQKGNAFTQVACPQCNTKY 72 (263)
Q Consensus 27 ~~~v~PC~C~GS~-k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY 72 (263)
++++. |.|.+-. .|.|-.|.-- +..+..+++|+.|+.+-
T Consensus 230 g~Mi~-CDn~~C~~eWFH~~CVGL------~~~PkgkWyC~~C~~~~ 269 (274)
T KOG1973|consen 230 GKMIG-CDNPGCPIEWFHFTCVGL------KTKPKGKWYCPRCKAEN 269 (274)
T ss_pred ccccc-cCCCCCCcceEEEecccc------ccCCCCcccchhhhhhh
Confidence 44554 6665555 9999999721 22345579999998764
No 86
>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=27.80 E-value=44 Score=23.41 Aligned_cols=24 Identities=25% Similarity=0.596 Sum_probs=12.4
Q ss_pred HHHHHHHHhccCCCCCCcccccCCccee
Q psy16185 46 CLNRWIDEKQKGNAFTQVACPQCNTKYF 73 (263)
Q Consensus 46 CL~rWI~esq~~n~~~~~~CeqCk~eY~ 73 (263)
-+.+++..-.. ....||+|+.++.
T Consensus 8 ~~~k~i~~l~~----~~~~CPlC~r~l~ 31 (54)
T PF04423_consen 8 ELKKYIEELKE----AKGCCPLCGRPLD 31 (54)
T ss_dssp HHHHHHHHHTT-----SEE-TTT--EE-
T ss_pred HHHHHHHHHhc----CCCcCCCCCCCCC
Confidence 45666665542 1239999999985
No 87
>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=26.96 E-value=40 Score=23.72 Aligned_cols=29 Identities=28% Similarity=0.730 Sum_probs=13.4
Q ss_pred ccccHHH--HHHHHHHhccCCCCCCcccccCCcc
Q psy16185 40 KWVHQAC--LNRWIDEKQKGNAFTQVACPQCNTK 71 (263)
Q Consensus 40 k~VHq~C--L~rWI~esq~~n~~~~~~CeqCk~e 71 (263)
.-.|-+| |..|++..++. ....||+|+++
T Consensus 20 ~C~H~~CFDl~~fl~~~~~~---~~W~CPiC~~~ 50 (50)
T PF02891_consen 20 NCKHLQCFDLESFLESNQRT---PKWKCPICNKP 50 (50)
T ss_dssp T--SS--EEHHHHHHHHHHS------B-TTT---
T ss_pred cCcccceECHHHHHHHhhcc---CCeECcCCcCc
Confidence 4458899 56788876643 25899999864
No 88
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=26.46 E-value=19 Score=24.31 Aligned_cols=50 Identities=26% Similarity=0.660 Sum_probs=28.9
Q ss_pred eeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCc
Q psy16185 13 YCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNT 70 (263)
Q Consensus 13 ~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~ 70 (263)
+|.||...+. ++.++. |.+=..|+|..|+.-=...... ......|+.|+.
T Consensus 1 ~C~vC~~~~~---~~~~i~---C~~C~~~~H~~C~~~~~~~~~~--~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDD---DGDMIQ---CDSCNRWYHQECVGPPEKAEEI--PSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCT---TSSEEE---BSTTSCEEETTTSTSSHSHHSH--HSSSBSSHHHHH
T ss_pred eCcCCCCcCC---CCCeEE---cCCCChhhCcccCCCChhhccC--CCCcEECcCCcC
Confidence 4778876332 345664 4445589999999543321111 122688888853
No 89
>COG5349 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.01 E-value=20 Score=30.44 Aligned_cols=49 Identities=20% Similarity=0.366 Sum_probs=31.8
Q ss_pred CcccccCCcceeeccCCcchHHHHHHHHHHHhhhhhhhhHHHHHHhHHhHhHhhhhhhhHh
Q psy16185 62 QVACPQCNTKYFIVYPYRGLLVSLLDTIDTAVYKLCPFVAAGVVLGSMYWCAVTYGAVTVM 122 (263)
Q Consensus 62 ~~~CeqCk~eY~i~~P~~~~l~~lle~vdr~~~~l~pfla~gil~g~vyW~a~tyGa~Tv~ 122 (263)
...|+.|+.+|.+..+..++.. ++-.++.-++++...|+-++|..-.|.
T Consensus 40 ~p~C~aCG~dyg~~~a~DgPa~------------fvI~IvG~ivvg~~l~~e~~~~~p~W~ 88 (126)
T COG5349 40 VPACEACGLDYGFADADDGPAY------------FVILIVGHIVVGLALWVEVTLNPPLWV 88 (126)
T ss_pred CchhhhccccccCCcccCCCcE------------EEEEeecHHHhHHHHhhhhccCCCchh
Confidence 5689999999999887766642 111123334456667777777766655
No 90
>PF14353 CpXC: CpXC protein
Probab=26.00 E-value=42 Score=27.23 Aligned_cols=19 Identities=32% Similarity=0.948 Sum_probs=15.8
Q ss_pred CCCCcccccCCcceeeccC
Q psy16185 59 AFTQVACPQCNTKYFIVYP 77 (263)
Q Consensus 59 ~~~~~~CeqCk~eY~i~~P 77 (263)
.-....||.|++++.+..|
T Consensus 35 ~l~~~~CP~Cg~~~~~~~p 53 (128)
T PF14353_consen 35 SLFSFTCPSCGHKFRLEYP 53 (128)
T ss_pred CcCEEECCCCCCceecCCC
Confidence 4567899999999998765
No 91
>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=25.97 E-value=43 Score=27.74 Aligned_cols=20 Identities=30% Similarity=0.863 Sum_probs=15.9
Q ss_pred eeccCCCCCCccccHHHHHHHHHHh
Q psy16185 30 VQPCLCRGTSKWVHQACLNRWIDEK 54 (263)
Q Consensus 30 v~PC~C~GS~k~VHq~CL~rWI~es 54 (263)
-+||.|.. ++.|-.||..-.
T Consensus 59 d~PCSC~~-----~~~c~~RW~~L~ 78 (108)
T PF05210_consen 59 DHPCSCDT-----PSRCCARWLALA 78 (108)
T ss_pred CCccccCC-----ccchHHHHHHHH
Confidence 35999995 889999998643
No 92
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=24.27 E-value=36 Score=21.95 Aligned_cols=15 Identities=33% Similarity=0.992 Sum_probs=12.3
Q ss_pred CcccccCCcceeecc
Q psy16185 62 QVACPQCNTKYFIVY 76 (263)
Q Consensus 62 ~~~CeqCk~eY~i~~ 76 (263)
...||.|++.|.+..
T Consensus 2 ~~~CP~C~~~~~v~~ 16 (38)
T TIGR02098 2 RIQCPNCKTSFRVVD 16 (38)
T ss_pred EEECCCCCCEEEeCH
Confidence 368999999998863
No 93
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=24.18 E-value=31 Score=18.94 Aligned_cols=10 Identities=30% Similarity=1.032 Sum_probs=6.5
Q ss_pred ccccCCccee
Q psy16185 64 ACPQCNTKYF 73 (263)
Q Consensus 64 ~CeqCk~eY~ 73 (263)
.|++|+..|.
T Consensus 2 ~C~~C~~~~~ 11 (24)
T PF13894_consen 2 QCPICGKSFR 11 (24)
T ss_dssp E-SSTS-EES
T ss_pred CCcCCCCcCC
Confidence 5999998875
No 94
>PF04217 DUF412: Protein of unknown function, DUF412; InterPro: IPR007334 This family consists of bacterial uncharacterised proteins.
Probab=22.30 E-value=1e+02 Score=26.71 Aligned_cols=67 Identities=10% Similarity=0.014 Sum_probs=39.9
Q ss_pred HHHhhhhhhhhHHHHHHhHHhHhHhhhhhhhHhhhccccccccccchhhhccccccccchh---hh-hhhhhhhhhhhhh
Q psy16185 90 DTAVYKLCPFVAAGVVLGSMYWCAVTYGAVTVMVVSPLHTYLGALSLRFCLVHPLVNINRQ---YR-FQLDNILRICDKG 165 (263)
Q Consensus 90 dr~~~~l~pfla~gil~g~vyW~a~tyGa~Tv~~~~~~~a~~g~~~~r~~s~~~~v~lp~~---~~-~~~~ni~~d~~~g 165 (263)
-++.-++.|++++-.++--.++....++..++. ...+.++||+| |+ ...+.-+|--+.+
T Consensus 35 Trfa~k~MP~lAv~s~~~Q~~~~~~~~lp~ai~-----------------~aLFalSLPlQGl~WLGkRa~tpLPp~l~~ 97 (143)
T PF04217_consen 35 TRFAIKFMPALAVFSLLWQIAFNGGQALPQAIA-----------------TALFALSLPLQGLYWLGKRANTPLPPSLLS 97 (143)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHhhhhhhHHHHH-----------------HHHHHHHHHHHHHHHhhcccCCCCCHHHHH
Confidence 345566777666644433333334444544444 34457789999 66 5666677777777
Q ss_pred hHhhhhhc
Q psy16185 166 LLRRLRAR 173 (263)
Q Consensus 166 ~~~~~~~~ 173 (263)
+++..+.+
T Consensus 98 Wy~ei~~K 105 (143)
T PF04217_consen 98 WYHEIRQK 105 (143)
T ss_pred HHHHHHHH
Confidence 77766554
No 95
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=22.06 E-value=93 Score=25.18 Aligned_cols=60 Identities=25% Similarity=0.421 Sum_probs=39.4
Q ss_pred eecCCCCeeeEecccCcCCCCCcceecc-------CCCCCCccccHHHHHHHHHHhcc-CCCCCCcccccCCc
Q psy16185 6 IISSDLKYCWVCFATHEDDRNALWVQPC-------LCRGTSKWVHQACLNRWIDEKQK-GNAFTQVACPQCNT 70 (263)
Q Consensus 6 ~~~ee~~~CrIC~~~eeed~~~~~v~PC-------~C~GS~k~VHq~CL~rWI~esq~-~n~~~~~~CeqCk~ 70 (263)
.+++....|..|+....+ ....| .|.+..+-.=..||.++..|.-. .....+..||-|.-
T Consensus 2 yd~~~g~~CHqCrqKt~~-----~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 2 YDSVNGKTCHQCRQKTLD-----FKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred ccCCCCCCchhhcCCCCC-----CceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 466778899999876543 23345 45333455667999999987532 12345688998775
No 96
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=21.57 E-value=43 Score=24.57 Aligned_cols=15 Identities=33% Similarity=0.844 Sum_probs=12.2
Q ss_pred CCCCcccccCCccee
Q psy16185 59 AFTQVACPQCNTKYF 73 (263)
Q Consensus 59 ~~~~~~CeqCk~eY~ 73 (263)
..+.+.||.|+++|.
T Consensus 18 ~dDiVvCp~CgapyH 32 (54)
T PF14446_consen 18 GDDIVVCPECGAPYH 32 (54)
T ss_pred CCCEEECCCCCCccc
Confidence 345789999999996
No 97
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=21.49 E-value=22 Score=25.61 Aligned_cols=21 Identities=19% Similarity=0.759 Sum_probs=10.7
Q ss_pred HHHHHhccCCCCCCcccccCCcceeec
Q psy16185 49 RWIDEKQKGNAFTQVACPQCNTKYFIV 75 (263)
Q Consensus 49 rWI~esq~~n~~~~~~CeqCk~eY~i~ 75 (263)
.|+.+++ ...|.+|+.+|.+.
T Consensus 2 ~W~~d~~------~~~C~~C~~~F~~~ 22 (69)
T PF01363_consen 2 HWVPDSE------ASNCMICGKKFSLF 22 (69)
T ss_dssp -SSSGGG-------SB-TTT--B-BSS
T ss_pred CcCCCCC------CCcCcCcCCcCCCc
Confidence 4666555 67899999998764
No 98
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=21.25 E-value=46 Score=20.08 Aligned_cols=15 Identities=20% Similarity=0.596 Sum_probs=11.8
Q ss_pred CCCCcccccCCccee
Q psy16185 59 AFTQVACPQCNTKYF 73 (263)
Q Consensus 59 ~~~~~~CeqCk~eY~ 73 (263)
+.....|++|...|.
T Consensus 11 ~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 11 GEKPYKCPYCGKSFS 25 (26)
T ss_dssp SSSSEEESSSSEEES
T ss_pred CCCCCCCCCCcCeeC
Confidence 345789999998874
No 99
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 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. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=21.12 E-value=55 Score=21.76 Aligned_cols=32 Identities=22% Similarity=0.740 Sum_probs=17.5
Q ss_pred HHHHHHHHHHhccCCCCCCcccccCCcceeec
Q psy16185 44 QACLNRWIDEKQKGNAFTQVACPQCNTKYFIV 75 (263)
Q Consensus 44 q~CL~rWI~esq~~n~~~~~~CeqCk~eY~i~ 75 (263)
.+|+....+-..+.-..+...|+.|+=+|.+.
T Consensus 3 ~~C~~Ey~~p~~RR~~~~~isC~~CGPr~~i~ 34 (35)
T PF07503_consen 3 DDCLKEYFDPSNRRFHYQFISCTNCGPRYSII 34 (35)
T ss_dssp HHHHHHHCSTTSTTTT-TT--BTTCC-SCCCE
T ss_pred HHHHHHHcCCCCCcccCcCccCCCCCCCEEEe
Confidence 36776544433333345788999999988764
No 100
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=20.99 E-value=36 Score=22.00 Aligned_cols=13 Identities=31% Similarity=0.843 Sum_probs=3.9
Q ss_pred cccccCCcceeec
Q psy16185 63 VACPQCNTKYFIV 75 (263)
Q Consensus 63 ~~CeqCk~eY~i~ 75 (263)
-+||+|+.+|...
T Consensus 3 p~Cp~C~se~~y~ 15 (30)
T PF08274_consen 3 PKCPLCGSEYTYE 15 (30)
T ss_dssp ---TTT-----EE
T ss_pred CCCCCCCCcceec
Confidence 4799999999763
No 101
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=20.90 E-value=49 Score=29.72 Aligned_cols=15 Identities=20% Similarity=0.791 Sum_probs=13.1
Q ss_pred CCcccccCCcceeec
Q psy16185 61 TQVACPQCNTKYFIV 75 (263)
Q Consensus 61 ~~~~CeqCk~eY~i~ 75 (263)
++..||+|+++|...
T Consensus 4 k~~~CPvC~~~F~~~ 18 (214)
T PF09986_consen 4 KKITCPVCGKEFKTK 18 (214)
T ss_pred CceECCCCCCeeeee
Confidence 478999999999866
No 102
>KOG2177|consensus
Probab=20.84 E-value=47 Score=28.05 Aligned_cols=49 Identities=22% Similarity=0.501 Sum_probs=34.8
Q ss_pred cCCCCeeeEecccCcCCCCCcceeccCCCCCCccccHHHHHHHHHHhccCCCCCCcccccCCccee
Q psy16185 8 SSDLKYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLNRWIDEKQKGNAFTQVACPQCNTKYF 73 (263)
Q Consensus 8 ~ee~~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~rWI~esq~~n~~~~~~CeqCk~eY~ 73 (263)
.+++-.|.||++.-.+ +-+.||.=+ .=..|+..+.+ ....||.|+..+.
T Consensus 10 ~~~~~~C~iC~~~~~~----p~~l~C~H~-----~c~~C~~~~~~--------~~~~Cp~cr~~~~ 58 (386)
T KOG2177|consen 10 LQEELTCPICLEYFRE----PVLLPCGHN-----FCRACLTRSWE--------GPLSCPVCRPPSR 58 (386)
T ss_pred ccccccChhhHHHhhc----Cccccccch-----HhHHHHHHhcC--------CCcCCcccCCchh
Confidence 4567899999887654 266776532 44578888887 2699999995333
No 103
>KOG0956|consensus
Probab=20.53 E-value=61 Score=34.94 Aligned_cols=60 Identities=28% Similarity=0.407 Sum_probs=34.2
Q ss_pred CeeeEecccCcCCCCCcceeccCCCCCCccccHHHHH-------HHHHHh-ccCCCCCCcccccCCccee
Q psy16185 12 KYCWVCFATHEDDRNALWVQPCLCRGTSKWVHQACLN-------RWIDEK-QKGNAFTQVACPQCNTKYF 73 (263)
Q Consensus 12 ~~CrIC~~~eeed~~~~~v~PC~C~GS~k~VHq~CL~-------rWI~es-q~~n~~~~~~CeqCk~eY~ 73 (263)
--|-+|-++.. =.+++|+. |.=-+-.--|||.|-- -|.=.| ++......++||+|-+++-
T Consensus 6 GGCCVCSDErG-WaeNPLVY-CDG~nCsVAVHQaCYGIvqVPtGpWfCrKCesqeraarvrCeLCP~kdG 73 (900)
T KOG0956|consen 6 GGCCVCSDERG-WAENPLVY-CDGHNCSVAVHQACYGIVQVPTGPWFCRKCESQERAARVRCELCPHKDG 73 (900)
T ss_pred cceeeecCcCC-CccCceee-ecCCCceeeeehhcceeEecCCCchhhhhhhhhhhhccceeecccCccc
Confidence 45888844331 13477874 3211112459999973 476322 1122345689999998874
No 104
>PRK05978 hypothetical protein; Provisional
Probab=20.51 E-value=1e+02 Score=26.72 Aligned_cols=21 Identities=10% Similarity=0.101 Sum_probs=16.1
Q ss_pred CCcccccCCcceeeccCCcch
Q psy16185 61 TQVACPQCNTKYFIVYPYRGL 81 (263)
Q Consensus 61 ~~~~CeqCk~eY~i~~P~~~~ 81 (263)
-...|+.|+.+|.......++
T Consensus 51 v~~~C~~CG~~~~~~~a~Dgp 71 (148)
T PRK05978 51 PVDHCAACGEDFTHHRADDLP 71 (148)
T ss_pred cCCCccccCCccccCCccccC
Confidence 367999999999988654444
No 105
>KOG4770|consensus
Probab=20.21 E-value=1.1e+02 Score=29.55 Aligned_cols=34 Identities=18% Similarity=0.278 Sum_probs=28.1
Q ss_pred hcCChhhHHHHHhhhhhhcccCCCCCchhhHhhh
Q psy16185 195 LGLPAIPVVLILGWCHIHRHQGHPQDLPQAAEVR 228 (263)
Q Consensus 195 ~glp~ip~~lil~r~~~~~~~~~~~~~~~~~~~~ 228 (263)
.++|.+|+.+++---.+|...-.|-|+|++.+--
T Consensus 177 ~li~~~P~~~m~~issLAEtnR~PFDl~EgE~EL 210 (315)
T KOG4770|consen 177 LLIILFPFAIMFFISSLAETNRAPFDLPEGESEL 210 (315)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCCcccHHHH
Confidence 6678888888887788999999999999986543
Done!