Query 024764
Match_columns 263
No_of_seqs 146 out of 486
Neff 3.4
Searched_HMMs 46136
Date Fri Mar 29 07:13:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024764.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024764hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 98.9 7.1E-10 1.5E-14 105.6 3.4 67 186-252 204-284 (348)
2 PF13639 zf-RING_2: Ring finge 98.6 5.3E-09 1.1E-13 70.6 -0.2 36 207-242 1-44 (44)
3 PHA02929 N1R/p28-like protein; 98.5 6.4E-08 1.4E-12 88.1 3.5 57 190-246 151-227 (238)
4 COG5243 HRD1 HRD ubiquitin lig 98.2 5.6E-07 1.2E-11 87.6 2.8 61 190-250 268-349 (491)
5 PF12678 zf-rbx1: RING-H2 zinc 98.2 8E-07 1.7E-11 66.9 2.2 38 205-242 18-73 (73)
6 COG5540 RING-finger-containing 97.9 4.6E-06 9.9E-11 79.6 1.8 44 204-247 321-373 (374)
7 KOG0802 E3 ubiquitin ligase [P 97.7 9.2E-06 2E-10 80.3 1.1 43 204-246 289-341 (543)
8 PF12861 zf-Apc11: Anaphase-pr 97.4 9.7E-05 2.1E-09 58.6 2.2 42 205-246 20-82 (85)
9 cd00162 RING RING-finger (Real 96.9 0.00049 1.1E-08 43.8 1.8 38 208-245 1-45 (45)
10 PF13920 zf-C3HC4_3: Zinc fing 96.9 0.00038 8.3E-09 48.1 1.1 40 206-246 2-48 (50)
11 smart00504 Ubox Modified RING 96.9 0.00076 1.7E-08 47.4 2.6 41 207-249 2-49 (63)
12 KOG0317 Predicted E3 ubiquitin 96.8 0.0007 1.5E-08 63.9 2.4 47 203-250 236-288 (293)
13 PLN03208 E3 ubiquitin-protein 96.7 0.001 2.2E-08 59.6 2.8 46 204-250 16-83 (193)
14 TIGR00599 rad18 DNA repair pro 96.3 0.0015 3.3E-08 63.8 1.5 52 198-249 18-74 (397)
15 PF13923 zf-C3HC4_2: Zinc fing 96.3 0.0015 3.3E-08 43.2 0.9 32 209-241 1-39 (39)
16 PHA02926 zinc finger-like prot 96.2 0.0026 5.7E-08 58.7 2.2 42 204-246 168-230 (242)
17 COG5194 APC11 Component of SCF 96.1 0.0028 6E-08 50.7 1.6 44 206-249 31-84 (88)
18 KOG4265 Predicted E3 ubiquitin 96.0 0.0027 5.8E-08 61.4 1.2 49 206-257 290-347 (349)
19 PF14634 zf-RING_5: zinc-RING 95.5 0.0091 2E-07 40.6 2.0 36 208-243 1-44 (44)
20 KOG1493 Anaphase-promoting com 95.2 0.0095 2E-07 47.3 1.6 42 205-246 19-81 (84)
21 KOG0823 Predicted E3 ubiquitin 95.2 0.0086 1.9E-07 55.1 1.4 46 203-250 44-99 (230)
22 KOG0320 Predicted E3 ubiquitin 95.0 0.013 2.9E-07 52.4 1.8 41 206-247 131-179 (187)
23 smart00184 RING Ring finger. E 94.7 0.021 4.6E-07 34.8 1.8 33 209-241 1-39 (39)
24 PF04564 U-box: U-box domain; 94.5 0.018 3.9E-07 43.0 1.4 45 206-250 4-54 (73)
25 smart00744 RINGv The RING-vari 94.5 0.021 4.6E-07 40.4 1.6 35 208-242 1-49 (49)
26 PF00097 zf-C3HC4: Zinc finger 93.9 0.029 6.2E-07 36.8 1.2 32 209-241 1-41 (41)
27 KOG0804 Cytoplasmic Zn-finger 93.3 0.028 6.1E-07 56.3 0.6 39 206-246 175-222 (493)
28 PF11793 FANCL_C: FANCL C-term 93.2 0.025 5.3E-07 42.5 -0.0 43 206-248 2-68 (70)
29 KOG2930 SCF ubiquitin ligase, 93.1 0.043 9.3E-07 45.8 1.2 24 222-245 80-107 (114)
30 COG5219 Uncharacterized conser 92.5 0.042 9.1E-07 59.6 0.6 42 205-246 1468-1523(1525)
31 COG5574 PEX10 RING-finger-cont 92.5 0.058 1.3E-06 50.8 1.3 55 193-249 204-265 (271)
32 KOG0287 Postreplication repair 91.6 0.026 5.6E-07 55.3 -2.1 64 197-260 14-82 (442)
33 KOG4172 Predicted E3 ubiquitin 91.5 0.052 1.1E-06 41.0 -0.2 39 206-246 7-54 (62)
34 COG5432 RAD18 RING-finger-cont 90.5 0.062 1.3E-06 51.9 -0.6 53 196-248 15-72 (391)
35 KOG0801 Predicted E3 ubiquitin 90.1 0.12 2.6E-06 46.4 0.8 21 205-225 176-196 (205)
36 KOG0828 Predicted E3 ubiquitin 88.2 0.24 5.1E-06 50.7 1.5 42 206-247 571-635 (636)
37 PHA02862 5L protein; Provision 88.1 0.3 6.5E-06 42.9 1.9 42 206-247 2-54 (156)
38 KOG2164 Predicted E3 ubiquitin 88.1 0.25 5.4E-06 50.2 1.6 53 196-250 177-240 (513)
39 TIGR00570 cdk7 CDK-activating 86.3 0.6 1.3E-05 44.8 3.0 45 205-249 2-57 (309)
40 KOG2177 Predicted E3 ubiquitin 85.7 0.4 8.8E-06 39.5 1.3 39 204-243 11-55 (386)
41 KOG1734 Predicted RING-contain 85.3 0.28 6E-06 47.0 0.2 51 196-248 216-283 (328)
42 PHA02825 LAP/PHD finger-like p 84.1 0.8 1.7E-05 40.5 2.5 46 203-248 5-61 (162)
43 PF15227 zf-C3HC4_4: zinc fing 82.7 0.6 1.3E-05 31.9 0.9 32 209-241 1-42 (42)
44 KOG3002 Zn finger protein [Gen 82.7 0.7 1.5E-05 43.9 1.6 46 205-250 47-95 (299)
45 KOG0311 Predicted E3 ubiquitin 80.3 0.32 6.8E-06 47.8 -1.5 44 205-248 42-92 (381)
46 KOG0825 PHD Zn-finger protein 78.2 0.53 1.2E-05 50.6 -0.7 54 206-259 123-184 (1134)
47 PF12906 RINGv: RING-variant d 76.8 1.2 2.7E-05 31.2 1.0 33 209-241 1-47 (47)
48 KOG1645 RING-finger-containing 76.6 1.2 2.7E-05 44.6 1.3 45 205-249 3-59 (463)
49 PF13445 zf-RING_UBOX: RING-ty 76.0 1.1 2.3E-05 31.2 0.5 26 209-235 1-35 (43)
50 COG5175 MOT2 Transcriptional r 74.8 0.99 2.1E-05 44.7 0.1 46 205-252 13-70 (480)
51 KOG0827 Predicted E3 ubiquitin 74.0 1.7 3.6E-05 43.6 1.4 40 206-246 4-56 (465)
52 KOG1785 Tyrosine kinase negati 73.2 1.4 3E-05 44.5 0.6 43 207-250 370-420 (563)
53 KOG1039 Predicted E3 ubiquitin 66.3 3.6 7.8E-05 40.0 1.8 41 204-245 159-220 (344)
54 KOG0297 TNF receptor-associate 66.1 5 0.00011 39.1 2.8 47 205-251 20-72 (391)
55 PF10272 Tmpp129: Putative tra 64.9 3.3 7.1E-05 40.5 1.3 23 228-250 333-355 (358)
56 PF11789 zf-Nse: Zinc-finger o 62.5 2.8 6E-05 30.7 0.2 34 206-240 11-53 (57)
57 KOG4445 Uncharacterized conser 60.9 2.2 4.7E-05 41.6 -0.7 44 206-249 115-189 (368)
58 KOG1571 Predicted E3 ubiquitin 60.0 3.1 6.7E-05 40.8 0.1 46 206-252 305-353 (355)
59 KOG0824 Predicted E3 ubiquitin 57.8 7.2 0.00016 37.9 2.2 51 206-257 7-69 (324)
60 KOG0827 Predicted E3 ubiquitin 57.1 0.71 1.5E-05 46.1 -4.7 49 206-254 196-253 (465)
61 KOG2660 Locus-specific chromos 53.5 4.4 9.6E-05 39.5 0.0 43 205-247 14-62 (331)
62 PF14446 Prok-RING_1: Prokaryo 50.8 10 0.00022 28.1 1.6 20 205-224 4-23 (54)
63 PF06750 DiS_P_DiS: Bacterial 50.7 16 0.00035 28.9 2.8 44 205-254 32-77 (92)
64 PF05605 zf-Di19: Drought indu 50.0 4.4 9.5E-05 28.6 -0.4 39 206-246 2-42 (54)
65 PF14570 zf-RING_4: RING/Ubox 47.6 9.8 0.00021 27.5 1.0 36 209-244 1-46 (48)
66 PF05290 Baculo_IE-1: Baculovi 46.9 12 0.00026 32.6 1.6 47 205-251 79-137 (140)
67 PF02591 DUF164: Putative zinc 45.9 12 0.00027 26.5 1.3 29 235-263 22-50 (56)
68 PF10571 UPF0547: Uncharacteri 44.4 11 0.00025 23.8 0.8 14 237-250 2-15 (26)
69 PF08746 zf-RING-like: RING-li 43.9 13 0.00028 25.7 1.1 33 209-241 1-43 (43)
70 KOG3899 Uncharacterized conser 43.0 8.2 0.00018 37.8 0.1 25 228-252 347-371 (381)
71 KOG0802 E3 ubiquitin ligase [P 42.8 9.4 0.0002 38.4 0.5 48 204-253 477-527 (543)
72 KOG4218 Nuclear hormone recept 42.0 11 0.00024 37.6 0.8 11 234-244 66-76 (475)
73 TIGR02661 MauD methylamine deh 41.7 7 0.00015 33.5 -0.6 27 235-261 83-109 (189)
74 PF09986 DUF2225: Uncharacteri 40.9 12 0.00025 33.6 0.7 44 206-249 5-62 (214)
75 PF04423 Rad50_zn_hook: Rad50 40.7 7.3 0.00016 27.5 -0.5 15 236-250 21-35 (54)
76 KOG4275 Predicted E3 ubiquitin 39.9 5.2 0.00011 38.9 -1.7 40 207-247 301-343 (350)
77 COG5183 SSM4 Protein involved 39.8 16 0.00034 40.1 1.5 54 202-255 8-75 (1175)
78 COG4068 Uncharacterized protei 38.6 9.7 0.00021 29.2 -0.2 27 233-259 6-32 (64)
79 TIGR01206 lysW lysine biosynth 38.2 16 0.00036 26.8 1.0 11 208-218 4-14 (54)
80 TIGR02738 TrbB type-F conjugat 38.1 6.6 0.00014 33.4 -1.2 26 236-261 60-85 (153)
81 PF14835 zf-RING_6: zf-RING of 36.6 23 0.00051 27.3 1.6 42 206-250 7-55 (65)
82 KOG1940 Zn-finger protein [Gen 36.3 12 0.00025 35.7 -0.0 54 205-260 157-219 (276)
83 cd02967 mauD Methylamine utili 35.0 12 0.00026 28.2 -0.2 21 235-255 30-50 (114)
84 PF03854 zf-P11: P-11 zinc fin 34.0 12 0.00027 27.5 -0.2 21 228-248 28-48 (50)
85 PF14447 Prok-RING_4: Prokaryo 33.1 24 0.00052 26.4 1.2 43 207-250 8-54 (55)
86 PRK15351 type III secretion sy 32.7 21 0.00046 30.3 1.0 45 167-214 29-76 (124)
87 COG5236 Uncharacterized conser 31.0 26 0.00055 35.3 1.3 40 206-245 61-107 (493)
88 PF12756 zf-C2H2_2: C2H2 type 30.9 16 0.00035 26.7 -0.0 45 208-252 1-67 (100)
89 KOG4185 Predicted E3 ubiquitin 30.8 36 0.00078 30.9 2.2 44 207-250 4-61 (296)
90 PF04641 Rtf2: Rtf2 RING-finge 30.5 32 0.00069 31.5 1.8 53 205-257 112-172 (260)
91 KOG0978 E3 ubiquitin ligase in 28.9 24 0.00052 37.6 0.8 45 205-250 642-693 (698)
92 KOG0826 Predicted E3 ubiquitin 27.2 40 0.00086 33.4 1.9 46 203-249 297-349 (357)
93 cd02970 PRX_like2 Peroxiredoxi 26.9 11 0.00025 29.3 -1.5 20 235-254 33-52 (149)
94 COG0526 TrxA Thiol-disulfide i 26.0 20 0.00043 24.6 -0.3 22 235-256 41-62 (127)
95 PF09889 DUF2116: Uncharacteri 23.0 53 0.0011 24.6 1.5 18 233-250 1-18 (59)
96 PF13764 E3_UbLigase_R4: E3 ub 22.4 47 0.001 35.9 1.5 33 184-217 447-479 (802)
97 PF05883 Baculo_RING: Baculovi 21.9 26 0.00056 30.3 -0.4 15 206-220 26-40 (134)
98 KOG1609 Protein involved in mR 21.7 39 0.00084 30.2 0.6 43 206-248 78-136 (323)
99 PF14327 CSTF2_hinge: Hinge do 21.0 51 0.0011 25.6 1.1 50 5-54 17-66 (84)
100 TIGR01367 pyrE_Therm orotate p 20.7 37 0.00081 29.6 0.3 17 235-251 169-185 (187)
101 cd03011 TlpA_like_ScsD_MtbDsbE 20.6 36 0.00079 25.9 0.2 20 235-254 29-48 (123)
102 KOG2041 WD40 repeat protein [G 20.0 72 0.0016 35.1 2.3 52 56-113 903-954 (1189)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.91 E-value=7.1e-10 Score=105.64 Aligned_cols=67 Identities=15% Similarity=0.194 Sum_probs=55.1
Q ss_pred CchhhHHHHHcCCceecCCCCc-----cCccccccccCCCccccc------cc--chhhhhcCCC-CCCCCCCCCCchhh
Q 024764 186 DVAAAVAAVVRLPSVDGAGADQ-----CCVICKEEMGGGRDVCSG------SL--LMMFLERSNG-CGTLSLKRAAAAVL 251 (263)
Q Consensus 186 ~pPASkaaI~aLP~V~i~~~~~-----eCaIClEEf~~Ge~v~~L------H~--I~pWL~~~nT-CPvCR~eLptdD~~ 251 (263)
.-...|..+.++|..++.+++. .|+||+|+|+.||+++.| |. |.+||.++.+ ||+|+.+++++...
T Consensus 204 ~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~~ 283 (348)
T KOG4628|consen 204 RNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSGS 283 (348)
T ss_pred hhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCCCC
Confidence 3467899999999999965433 899999999999987666 55 9999988755 99999999887664
Q ss_pred h
Q 024764 252 M 252 (263)
Q Consensus 252 ~ 252 (263)
.
T Consensus 284 ~ 284 (348)
T KOG4628|consen 284 E 284 (348)
T ss_pred C
Confidence 3
No 2
>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=98.63 E-value=5.3e-09 Score=70.64 Aligned_cols=36 Identities=31% Similarity=0.589 Sum_probs=30.3
Q ss_pred ccCccccccccCCCccccc---cc-----chhhhhcCCCCCCCC
Q 024764 207 QCCVICKEEMGGGRDVCSG---SL-----LMMFLERSNGCGTLS 242 (263)
Q Consensus 207 ~eCaIClEEf~~Ge~v~~L---H~-----I~pWL~~~nTCPvCR 242 (263)
.+|+||+++|..++.+..+ |. |..|++++++||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 3799999999988877666 44 999999999999998
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.52 E-value=6.4e-08 Score=88.11 Aligned_cols=57 Identities=19% Similarity=0.347 Sum_probs=44.9
Q ss_pred hHHHHHcCCceecC-------CCCccCccccccccCCC---------ccccc--cc--chhhhhcCCCCCCCCCCCC
Q 024764 190 AVAAVVRLPSVDGA-------GADQCCVICKEEMGGGR---------DVCSG--SL--LMMFLERSNGCGTLSLKRA 246 (263)
Q Consensus 190 SkaaI~aLP~V~i~-------~~~~eCaIClEEf~~Ge---------~v~~L--H~--I~pWL~~~nTCPvCR~eLp 246 (263)
++..++++|++... ..+.+|+||+|++...+ ..|.| |. |.+|++.+++||+||..+.
T Consensus 151 ~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 151 YKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred hHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 78889999998532 24689999999987543 13665 33 9999999999999999875
No 4
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.24 E-value=5.6e-07 Score=87.64 Aligned_cols=61 Identities=23% Similarity=0.372 Sum_probs=42.6
Q ss_pred hHHHHHcCCceec---CCCCccCcccccc-ccCC-------------Cccccc--cc--chhhhhcCCCCCCCCCCCCCc
Q 024764 190 AVAAVVRLPSVDG---AGADQCCVICKEE-MGGG-------------RDVCSG--SL--LMMFLERSNGCGTLSLKRAAA 248 (263)
Q Consensus 190 SkaaI~aLP~V~i---~~~~~eCaIClEE-f~~G-------------e~v~~L--H~--I~pWL~~~nTCPvCR~eLptd 248 (263)
.|.-=+-+|+++. +.+|..|.||+|| |+.| +..|.+ |+ +..|+||+.|||+||..+--|
T Consensus 268 ~kdl~~~~~t~t~eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ifd 347 (491)
T COG5243 268 TKDLNAMYPTATEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIFD 347 (491)
T ss_pred hhHHHhhcchhhhhhhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccccc
Confidence 3333344565554 4678899999999 5554 123444 54 999999999999999996555
Q ss_pred hh
Q 024764 249 AV 250 (263)
Q Consensus 249 D~ 250 (263)
..
T Consensus 348 ~~ 349 (491)
T COG5243 348 QS 349 (491)
T ss_pred cC
Confidence 43
No 5
>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=98.19 E-value=8e-07 Score=66.89 Aligned_cols=38 Identities=26% Similarity=0.617 Sum_probs=27.7
Q ss_pred CCccCccccccccCC--------C--c----cccc--cc--chhhhhcCCCCCCCC
Q 024764 205 ADQCCVICKEEMGGG--------R--D----VCSG--SL--LMMFLERSNGCGTLS 242 (263)
Q Consensus 205 ~~~eCaIClEEf~~G--------e--~----v~~L--H~--I~pWL~~~nTCPvCR 242 (263)
.+..|+||+++|... + . .|++ |. |.+||+.+++||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 345699999999422 1 1 2554 55 999999999999998
No 6
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.90 E-value=4.6e-06 Score=79.58 Aligned_cols=44 Identities=18% Similarity=0.319 Sum_probs=37.6
Q ss_pred CCCccCccccccccCCCcc----ccc--cc--chhhhh-cCCCCCCCCCCCCC
Q 024764 204 GADQCCVICKEEMGGGRDV----CSG--SL--LMMFLE-RSNGCGTLSLKRAA 247 (263)
Q Consensus 204 ~~~~eCaIClEEf~~Ge~v----~~L--H~--I~pWL~-~~nTCPvCR~eLpt 247 (263)
+.+-+|+||++.|-.|+++ |.+ |. |.+|+- -++.||+||.++|.
T Consensus 321 ~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 4578999999999988875 444 65 999997 79999999999985
No 7
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.74 E-value=9.2e-06 Score=80.33 Aligned_cols=43 Identities=28% Similarity=0.461 Sum_probs=34.9
Q ss_pred CCCccCccccccccCCCc--cccc---cc-----chhhhhcCCCCCCCCCCCC
Q 024764 204 GADQCCVICKEEMGGGRD--VCSG---SL-----LMMFLERSNGCGTLSLKRA 246 (263)
Q Consensus 204 ~~~~eCaIClEEf~~Ge~--v~~L---H~-----I~pWL~~~nTCPvCR~eLp 246 (263)
..+..|+||.|++..|.. +++| |. +..|+++.+|||+||..+-
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 347899999999998754 4555 43 9999999999999999443
No 8
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=97.38 E-value=9.7e-05 Score=58.63 Aligned_cols=42 Identities=26% Similarity=0.607 Sum_probs=31.5
Q ss_pred CCccCccccccccC--------CCc------cccc--cc--chhhhhc---CCCCCCCCCCCC
Q 024764 205 ADQCCVICKEEMGG--------GRD------VCSG--SL--LMMFLER---SNGCGTLSLKRA 246 (263)
Q Consensus 205 ~~~eCaIClEEf~~--------Ge~------v~~L--H~--I~pWL~~---~nTCPvCR~eLp 246 (263)
+++.|.||+..|.. |+. .|.+ |. |.+||+. +++||+||++..
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 47889999999973 332 2444 44 9999985 589999998753
No 9
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=96.94 E-value=0.00049 Score=43.78 Aligned_cols=38 Identities=24% Similarity=0.339 Sum_probs=27.8
Q ss_pred cCccccccccCCC--ccccc--cc--chhhhhc-CCCCCCCCCCC
Q 024764 208 CCVICKEEMGGGR--DVCSG--SL--LMMFLER-SNGCGTLSLKR 245 (263)
Q Consensus 208 eCaIClEEf~~Ge--~v~~L--H~--I~pWL~~-~nTCPvCR~eL 245 (263)
+|+||++.+...- ..|.+ |. +..|++. +..||+||..+
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 5999999993211 12554 33 9999998 88899999864
No 10
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=96.89 E-value=0.00038 Score=48.13 Aligned_cols=40 Identities=25% Similarity=0.342 Sum_probs=29.2
Q ss_pred CccCccccccccCCC-ccccccc------chhhhhcCCCCCCCCCCCC
Q 024764 206 DQCCVICKEEMGGGR-DVCSGSL------LMMFLERSNGCGTLSLKRA 246 (263)
Q Consensus 206 ~~eCaIClEEf~~Ge-~v~~LH~------I~pWL~~~nTCPvCR~eLp 246 (263)
+..|.||++++..-- ..|. |. +..|++.+..||+||.++.
T Consensus 2 ~~~C~iC~~~~~~~~~~pCg-H~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDVVLLPCG-HLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSEEEETTC-EEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCceEEeCCC-ChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 468999999876411 1233 65 9999999999999999874
No 11
>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=96.89 E-value=0.00076 Score=47.42 Aligned_cols=41 Identities=15% Similarity=0.011 Sum_probs=32.1
Q ss_pred ccCccccccccCCCccccc--cc-----chhhhhcCCCCCCCCCCCCCch
Q 024764 207 QCCVICKEEMGGGRDVCSG--SL-----LMMFLERSNGCGTLSLKRAAAA 249 (263)
Q Consensus 207 ~eCaIClEEf~~Ge~v~~L--H~-----I~pWL~~~nTCPvCR~eLptdD 249 (263)
..|+||++.|..- |..- |. |..|++.+++||+|+.++..+|
T Consensus 2 ~~Cpi~~~~~~~P--v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~ 49 (63)
T smart00504 2 FLCPISLEVMKDP--VILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHED 49 (63)
T ss_pred cCCcCCCCcCCCC--EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhh
Confidence 4699999999752 2212 55 9999999999999999986544
No 12
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=96.80 E-value=0.0007 Score=63.94 Aligned_cols=47 Identities=17% Similarity=0.363 Sum_probs=38.9
Q ss_pred CCCCccCcccccccc-CCCccccccc-----chhhhhcCCCCCCCCCCCCCchh
Q 024764 203 AGADQCCVICKEEMG-GGRDVCSGSL-----LMMFLERSNGCGTLSLKRAAAAV 250 (263)
Q Consensus 203 ~~~~~eCaIClEEf~-~Ge~v~~LH~-----I~pWL~~~nTCPvCR~eLptdD~ 250 (263)
.....+|++|+|... ..-..|. |+ |+.|++.+.-||+||.+....+.
T Consensus 236 ~~a~~kC~LCLe~~~~pSaTpCG-HiFCWsCI~~w~~ek~eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 236 PEATRKCSLCLENRSNPSATPCG-HIFCWSCILEWCSEKAECPLCREKFQPSKV 288 (293)
T ss_pred CCCCCceEEEecCCCCCCcCcCc-chHHHHHHHHHHccccCCCcccccCCCcce
Confidence 455789999999995 4456777 55 99999999999999999887664
No 13
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=96.73 E-value=0.001 Score=59.62 Aligned_cols=46 Identities=20% Similarity=0.407 Sum_probs=33.7
Q ss_pred CCCccCccccccccCCC-ccccccc-----chhhhhc----------------CCCCCCCCCCCCCchh
Q 024764 204 GADQCCVICKEEMGGGR-DVCSGSL-----LMMFLER----------------SNGCGTLSLKRAAAAV 250 (263)
Q Consensus 204 ~~~~eCaIClEEf~~Ge-~v~~LH~-----I~pWL~~----------------~nTCPvCR~eLptdD~ 250 (263)
+++.+|+||++.++..- ..|. |. |..|+.. ...||+||.++...+.
T Consensus 16 ~~~~~CpICld~~~dPVvT~CG-H~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~L 83 (193)
T PLN03208 16 GGDFDCNICLDQVRDPVVTLCG-HLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATL 83 (193)
T ss_pred CCccCCccCCCcCCCcEEcCCC-chhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcE
Confidence 35789999999987542 2244 65 9999863 3589999999976443
No 14
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=96.35 E-value=0.0015 Score=63.78 Aligned_cols=52 Identities=19% Similarity=0.310 Sum_probs=37.8
Q ss_pred CceecCCCCccCccccccccCC-Cccccccc----chhhhhcCCCCCCCCCCCCCch
Q 024764 198 PSVDGAGADQCCVICKEEMGGG-RDVCSGSL----LMMFLERSNGCGTLSLKRAAAA 249 (263)
Q Consensus 198 P~V~i~~~~~eCaIClEEf~~G-e~v~~LH~----I~pWL~~~nTCPvCR~eLptdD 249 (263)
|.++--.....|+||++.|..= -..|.|++ |..|+.....||+||..+..++
T Consensus 18 ~~l~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~ 74 (397)
T TIGR00599 18 PSLYPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESK 74 (397)
T ss_pred ccccccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCCCCCCCCCcccccc
Confidence 3443334578999999999642 23455423 9999999999999999987653
No 15
>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=96.32 E-value=0.0015 Score=43.18 Aligned_cols=32 Identities=25% Similarity=0.600 Sum_probs=23.4
Q ss_pred CccccccccCCC--ccccccc-----chhhhhcCCCCCCC
Q 024764 209 CVICKEEMGGGR--DVCSGSL-----LMMFLERSNGCGTL 241 (263)
Q Consensus 209 CaIClEEf~~Ge--~v~~LH~-----I~pWL~~~nTCPvC 241 (263)
|+||++++..-- ..|. |. |.+|++.+.+||+|
T Consensus 1 C~iC~~~~~~~~~~~~CG-H~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCG-HSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTS-EEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCcCEECCCC-CchhHHHHHHHHHCcCCCcCC
Confidence 899999998721 1233 66 99999999999998
No 16
>PHA02926 zinc finger-like protein; Provisional
Probab=96.21 E-value=0.0026 Score=58.71 Aligned_cols=42 Identities=14% Similarity=0.389 Sum_probs=30.0
Q ss_pred CCCccCccccccccC----CCc------cccccc-----chhhhhcC------CCCCCCCCCCC
Q 024764 204 GADQCCVICKEEMGG----GRD------VCSGSL-----LMMFLERS------NGCGTLSLKRA 246 (263)
Q Consensus 204 ~~~~eCaIClEEf~~----Ge~------v~~LH~-----I~pWL~~~------nTCPvCR~eLp 246 (263)
..+.+|+||+|.... +++ -|. |. |..|-+.+ ++||+||....
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~Cn-HsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCN-HIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCC-chHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 457899999998732 222 244 54 99999853 56999998764
No 17
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=96.12 E-value=0.0028 Score=50.66 Aligned_cols=44 Identities=20% Similarity=0.339 Sum_probs=31.2
Q ss_pred CccCccccccccCCCc------cccc----ccchhhhhcCCCCCCCCCCCCCch
Q 024764 206 DQCCVICKEEMGGGRD------VCSG----SLLMMFLERSNGCGTLSLKRAAAA 249 (263)
Q Consensus 206 ~~eCaIClEEf~~Ge~------v~~L----H~I~pWL~~~nTCPvCR~eLptdD 249 (263)
...|+-|+-.+..|++ +|.+ |.|.+||..++.||+||++..-.|
T Consensus 31 m~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~ 84 (88)
T COG5194 31 MGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLAD 84 (88)
T ss_pred cCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEec
Confidence 3456666666655553 4555 449999999999999999865544
No 18
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.00 E-value=0.0027 Score=61.37 Aligned_cols=49 Identities=20% Similarity=0.307 Sum_probs=34.7
Q ss_pred CccCccccccccCCC-ccccccc--------chhhhhcCCCCCCCCCCCCCchhhhhcCCC
Q 024764 206 DQCCVICKEEMGGGR-DVCSGSL--------LMMFLERSNGCGTLSLKRAAAAVLMENDNN 257 (263)
Q Consensus 206 ~~eCaIClEEf~~Ge-~v~~LH~--------I~pWL~~~nTCPvCR~eLptdD~~~E~~~~ 257 (263)
+.||+||+.|-+.-- ..|+ |. +.+ -.+|.||+||+.+..-=..|-++.+
T Consensus 290 gkeCVIClse~rdt~vLPCR-HLCLCs~Ca~~Lr--~q~n~CPICRqpi~~ll~i~~~~~~ 347 (349)
T KOG4265|consen 290 GKECVICLSESRDTVVLPCR-HLCLCSGCAKSLR--YQTNNCPICRQPIEELLEIYVNKED 347 (349)
T ss_pred CCeeEEEecCCcceEEecch-hhehhHhHHHHHH--HhhcCCCccccchHhhheecccccc
Confidence 789999999877522 3455 65 444 5689999999988766665555543
No 19
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=95.54 E-value=0.0091 Score=40.59 Aligned_cols=36 Identities=22% Similarity=0.287 Sum_probs=27.4
Q ss_pred cCccccccccCCCccccc---cc-----chhhhhcCCCCCCCCC
Q 024764 208 CCVICKEEMGGGRDVCSG---SL-----LMMFLERSNGCGTLSL 243 (263)
Q Consensus 208 eCaIClEEf~~Ge~v~~L---H~-----I~pWL~~~nTCPvCR~ 243 (263)
+|.||.++|...+....+ |. |..+......||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 599999999443443333 76 7887788999999985
No 20
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=95.25 E-value=0.0095 Score=47.34 Aligned_cols=42 Identities=19% Similarity=0.420 Sum_probs=29.6
Q ss_pred CCccCccccccccCCCcc-------ccc-----------ccchhhhhc---CCCCCCCCCCCC
Q 024764 205 ADQCCVICKEEMGGGRDV-------CSG-----------SLLMMFLER---SNGCGTLSLKRA 246 (263)
Q Consensus 205 ~~~eCaIClEEf~~Ge~v-------~~L-----------H~I~pWL~~---~nTCPvCR~eLp 246 (263)
.++.|-||+.+|..--.- |.| |.|.+||.. +..||+||++..
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 366899999999743222 222 339999974 678999998753
No 21
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.21 E-value=0.0086 Score=55.12 Aligned_cols=46 Identities=24% Similarity=0.329 Sum_probs=36.3
Q ss_pred CCCCccCccccccccCCCccccc--cc-----chhhhhc---CCCCCCCCCCCCCchh
Q 024764 203 AGADQCCVICKEEMGGGRDVCSG--SL-----LMMFLER---SNGCGTLSLKRAAAAV 250 (263)
Q Consensus 203 ~~~~~eCaIClEEf~~Ge~v~~L--H~-----I~pWL~~---~nTCPvCR~eLptdD~ 250 (263)
.++..+|-||+|--+ |.|..+ |+ |.+||.. ++.||||+.++..+..
T Consensus 44 ~~~~FdCNICLd~ak--dPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~v 99 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAK--DPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTV 99 (230)
T ss_pred CCCceeeeeeccccC--CCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceE
Confidence 456789999999754 456555 87 9999985 6678999999877654
No 22
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.95 E-value=0.013 Score=52.43 Aligned_cols=41 Identities=24% Similarity=0.414 Sum_probs=34.0
Q ss_pred CccCccccccccCCCcc---ccccc-----chhhhhcCCCCCCCCCCCCC
Q 024764 206 DQCCVICKEEMGGGRDV---CSGSL-----LMMFLERSNGCGTLSLKRAA 247 (263)
Q Consensus 206 ~~eCaIClEEf~~Ge~v---~~LH~-----I~pWL~~~nTCPvCR~eLpt 247 (263)
-..|+||++.+.+-..| |. |+ |..=|+..+.||+||+++..
T Consensus 131 ~~~CPiCl~~~sek~~vsTkCG-HvFC~~Cik~alk~~~~CP~C~kkIt~ 179 (187)
T KOG0320|consen 131 TYKCPICLDSVSEKVPVSTKCG-HVFCSQCIKDALKNTNKCPTCRKKITH 179 (187)
T ss_pred ccCCCceecchhhccccccccc-hhHHHHHHHHHHHhCCCCCCcccccch
Confidence 47899999999876544 44 76 99999999999999987654
No 23
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=94.69 E-value=0.021 Score=34.78 Aligned_cols=33 Identities=27% Similarity=0.506 Sum_probs=22.1
Q ss_pred CccccccccCC-Cccccc--cc--chhhhh-cCCCCCCC
Q 024764 209 CVICKEEMGGG-RDVCSG--SL--LMMFLE-RSNGCGTL 241 (263)
Q Consensus 209 CaIClEEf~~G-e~v~~L--H~--I~pWL~-~~nTCPvC 241 (263)
|+||++....- ...|.+ |. +..|++ .+.+||+|
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 88999983211 122443 22 999998 78889998
No 24
>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=94.54 E-value=0.018 Score=43.01 Aligned_cols=45 Identities=18% Similarity=0.119 Sum_probs=28.9
Q ss_pred CccCccccccccCCCccccccc-----chhhhhc-CCCCCCCCCCCCCchh
Q 024764 206 DQCCVICKEEMGGGRDVCSGSL-----LMMFLER-SNGCGTLSLKRAAAAV 250 (263)
Q Consensus 206 ~~eCaIClEEf~~Ge~v~~LH~-----I~pWL~~-~nTCPvCR~eLptdD~ 250 (263)
...|+||.+-|..=-.+..-|. |..||+. +++||+||..+..++.
T Consensus 4 ~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l 54 (73)
T PF04564_consen 4 EFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDL 54 (73)
T ss_dssp GGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGS
T ss_pred ccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccc
Confidence 5689999999974211111144 9999999 9999999998887654
No 25
>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=94.52 E-value=0.021 Score=40.36 Aligned_cols=35 Identities=23% Similarity=0.504 Sum_probs=23.7
Q ss_pred cCccccccccCCCc---ccc----c---cc--chhhhhc--CCCCCCCC
Q 024764 208 CCVICKEEMGGGRD---VCS----G---SL--LMMFLER--SNGCGTLS 242 (263)
Q Consensus 208 eCaIClEEf~~Ge~---v~~----L---H~--I~pWL~~--~nTCPvCR 242 (263)
.|.||+++...++. +|. + |. +.+|+.. +++||+|.
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 48999994444442 221 1 66 9999955 55999995
No 26
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=93.89 E-value=0.029 Score=36.76 Aligned_cols=32 Identities=31% Similarity=0.463 Sum_probs=25.8
Q ss_pred CccccccccCCC--ccccccc-----chhhhh--cCCCCCCC
Q 024764 209 CVICKEEMGGGR--DVCSGSL-----LMMFLE--RSNGCGTL 241 (263)
Q Consensus 209 CaIClEEf~~Ge--~v~~LH~-----I~pWL~--~~nTCPvC 241 (263)
|+||.+.+.... ..|. |. |..|++ ....||.|
T Consensus 1 C~iC~~~~~~~~~~~~C~-H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCG-HSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTS-EEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCCEEecCC-CcchHHHHHHHHHhcCCccCCcC
Confidence 899999998765 3344 55 999998 78899998
No 27
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=93.31 E-value=0.028 Score=56.29 Aligned_cols=39 Identities=21% Similarity=0.457 Sum_probs=29.9
Q ss_pred CccCccccccccCCC-----ccccc--cc--chhhhhcCCCCCCCCCCCC
Q 024764 206 DQCCVICKEEMGGGR-----DVCSG--SL--LMMFLERSNGCGTLSLKRA 246 (263)
Q Consensus 206 ~~eCaIClEEf~~Ge-----~v~~L--H~--I~pWL~~~nTCPvCR~eLp 246 (263)
-..|+||+|.|-..- ..|.+ |. ++.|= .++||+||+-..
T Consensus 175 LPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~ 222 (493)
T KOG0804|consen 175 LPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS 222 (493)
T ss_pred CCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence 456999999997432 34665 55 99995 689999999877
No 28
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=93.20 E-value=0.025 Score=42.54 Aligned_cols=43 Identities=23% Similarity=0.277 Sum_probs=21.6
Q ss_pred CccCcccccccc-CCC---cccc-----c--cc--chhhhhc-----------CCCCCCCCCCCCCc
Q 024764 206 DQCCVICKEEMG-GGR---DVCS-----G--SL--LMMFLER-----------SNGCGTLSLKRAAA 248 (263)
Q Consensus 206 ~~eCaIClEEf~-~Ge---~v~~-----L--H~--I~pWL~~-----------~nTCPvCR~eLptd 248 (263)
+.+|.||.+.+. .++ .+|. . |. +..||.. ..+||.|+.++...
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~ 68 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS 68 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence 468999999876 443 3343 2 77 9999973 23599999987654
No 29
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=93.08 E-value=0.043 Score=45.79 Aligned_cols=24 Identities=21% Similarity=0.387 Sum_probs=19.7
Q ss_pred cccc--cc--chhhhhcCCCCCCCCCCC
Q 024764 222 VCSG--SL--LMMFLERSNGCGTLSLKR 245 (263)
Q Consensus 222 v~~L--H~--I~pWL~~~nTCPvCR~eL 245 (263)
+|.+ |+ |.+||+.+|.||+|-++-
T Consensus 80 ~CNHaFH~hCisrWlktr~vCPLdn~eW 107 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTRNVCPLDNKEW 107 (114)
T ss_pred ecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence 4666 54 999999999999998763
No 30
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=92.54 E-value=0.042 Score=59.61 Aligned_cols=42 Identities=17% Similarity=0.400 Sum_probs=31.9
Q ss_pred CCccCcccccccc-CCC-------ccccc--cc--chhhhh--cCCCCCCCCCCCC
Q 024764 205 ADQCCVICKEEMG-GGR-------DVCSG--SL--LMMFLE--RSNGCGTLSLKRA 246 (263)
Q Consensus 205 ~~~eCaIClEEf~-~Ge-------~v~~L--H~--I~pWL~--~~nTCPvCR~eLp 246 (263)
+-+||+||-.-.. ..+ ..|+. |- +.+|.+ .+++||+||-+++
T Consensus 1468 G~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1468 GHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 4689999987765 222 34665 65 999997 4889999998876
No 31
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.47 E-value=0.058 Score=50.80 Aligned_cols=55 Identities=24% Similarity=0.327 Sum_probs=36.6
Q ss_pred HHHcCCceecCCCCccCccccccccC-CCccccc----ccchh-hhhcCCC-CCCCCCCCCCch
Q 024764 193 AVVRLPSVDGAGADQCCVICKEEMGG-GRDVCSG----SLLMM-FLERSNG-CGTLSLKRAAAA 249 (263)
Q Consensus 193 aI~aLP~V~i~~~~~eCaIClEEf~~-Ge~v~~L----H~I~p-WL~~~nT-CPvCR~eLptdD 249 (263)
....+|... ..+.+|+||+|+... -...|.+ |.|.. |=+++.- ||+||...-..+
T Consensus 204 ~kn~~pfip--~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 204 KKNGLPFIP--LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred ccccCCccc--ccccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 344445443 357899999999874 3455664 44555 9766655 999998865443
No 32
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=91.56 E-value=0.026 Score=55.31 Aligned_cols=64 Identities=23% Similarity=0.301 Sum_probs=45.9
Q ss_pred CCceecCCCCccCccccccccCCC-ccccc---cc-chhhhhcCCCCCCCCCCCCCchhhhhcCCCcee
Q 024764 197 LPSVDGAGADQCCVICKEEMGGGR-DVCSG---SL-LMMFLERSNGCGTLSLKRAAAAVLMENDNNAII 260 (263)
Q Consensus 197 LP~V~i~~~~~eCaIClEEf~~Ge-~v~~L---H~-I~pWL~~~nTCPvCR~eLptdD~~~E~~~~~~~ 260 (263)
+|...--++-..|-||+|-|..-- ..|.+ -+ |..+|..+..||.|++++...+--.+.-+.+||
T Consensus 14 ipslk~lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~il~Eiv 82 (442)
T KOG0287|consen 14 IPSLKTLDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNRILDEIV 82 (442)
T ss_pred CchhhhhHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCCCCCceecccchhhhhhhhHHHHHH
Confidence 444433345688999999998743 34775 12 999999999999999999877765554444443
No 33
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.47 E-value=0.052 Score=40.99 Aligned_cols=39 Identities=18% Similarity=0.193 Sum_probs=29.0
Q ss_pred CccCccccccccCCCccccc--cc-------chhhhhcCCCCCCCCCCCC
Q 024764 206 DQCCVICKEEMGGGRDVCSG--SL-------LMMFLERSNGCGTLSLKRA 246 (263)
Q Consensus 206 ~~eCaIClEEf~~Ge~v~~L--H~-------I~pWL~~~nTCPvCR~eLp 246 (263)
+.||.||.|.-.. .|--+ |. +..|=..+..||+||..+.
T Consensus 7 ~dECTICye~pvd--sVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVD--SVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcch--HHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 4799999986433 23222 54 9999999999999998753
No 34
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=90.54 E-value=0.062 Score=51.93 Aligned_cols=53 Identities=21% Similarity=0.361 Sum_probs=39.3
Q ss_pred cCCceecCCCCccCccccccccCC-Cccccc---cc-chhhhhcCCCCCCCCCCCCCc
Q 024764 196 RLPSVDGAGADQCCVICKEEMGGG-RDVCSG---SL-LMMFLERSNGCGTLSLKRAAA 248 (263)
Q Consensus 196 aLP~V~i~~~~~eCaIClEEf~~G-e~v~~L---H~-I~pWL~~~nTCPvCR~eLptd 248 (263)
++|...--+....|-||.+-|+.- +..|.+ -+ |...|..+..||+||++.-..
T Consensus 15 ~IPSL~~LDs~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~es 72 (391)
T COG5432 15 KIPSLKGLDSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCES 72 (391)
T ss_pred cCcchhcchhHHHhhhhhheeecceecccccchhHHHHHHHhcCCCCCccccccHHhh
Confidence 345554444567899999999864 456775 12 999999999999999875433
No 35
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.10 E-value=0.12 Score=46.44 Aligned_cols=21 Identities=29% Similarity=0.613 Sum_probs=17.8
Q ss_pred CCccCccccccccCCCccccc
Q 024764 205 ADQCCVICKEEMGGGRDVCSG 225 (263)
Q Consensus 205 ~~~eCaIClEEf~~Ge~v~~L 225 (263)
+..||+||+|+++.|+.+.+|
T Consensus 176 dkGECvICLEdL~~GdtIARL 196 (205)
T KOG0801|consen 176 DKGECVICLEDLEAGDTIARL 196 (205)
T ss_pred cCCcEEEEhhhccCCCceecc
Confidence 467899999999999988776
No 36
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.22 E-value=0.24 Score=50.72 Aligned_cols=42 Identities=21% Similarity=0.371 Sum_probs=30.6
Q ss_pred CccCccccccccC---C--Ccc-------------ccc--cc--chhhhh-cCCCCCCCCCCCCC
Q 024764 206 DQCCVICKEEMGG---G--RDV-------------CSG--SL--LMMFLE-RSNGCGTLSLKRAA 247 (263)
Q Consensus 206 ~~eCaIClEEf~~---G--e~v-------------~~L--H~--I~pWL~-~~nTCPvCR~eLpt 247 (263)
...|+||+..... | +.+ |.+ |. +.+|.+ .+--||+||..+|.
T Consensus 571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 5679999998752 2 122 222 44 999999 55599999999985
No 37
>PHA02862 5L protein; Provisional
Probab=88.12 E-value=0.3 Score=42.88 Aligned_cols=42 Identities=14% Similarity=0.491 Sum_probs=31.0
Q ss_pred CccCccccccccCCCccccc-------cc--chhhhh--cCCCCCCCCCCCCC
Q 024764 206 DQCCVICKEEMGGGRDVCSG-------SL--LMMFLE--RSNGCGTLSLKRAA 247 (263)
Q Consensus 206 ~~eCaIClEEf~~Ge~v~~L-------H~--I~pWL~--~~nTCPvCR~eLpt 247 (263)
+..|-||+++-+++...|.= |. +.+|+. ++.+||.|+++...
T Consensus 2 ~diCWIC~~~~~e~~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I 54 (156)
T PHA02862 2 SDICWICNDVCDERNNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI 54 (156)
T ss_pred CCEEEEecCcCCCCcccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence 45799999986544344322 77 999996 57899999998653
No 38
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.10 E-value=0.25 Score=50.16 Aligned_cols=53 Identities=21% Similarity=0.291 Sum_probs=35.7
Q ss_pred cCCceecCCCCccCccccccccCC-Cccccccc------chhhhh----cCCCCCCCCCCCCCchh
Q 024764 196 RLPSVDGAGADQCCVICKEEMGGG-RDVCSGSL------LMMFLE----RSNGCGTLSLKRAAAAV 250 (263)
Q Consensus 196 aLP~V~i~~~~~eCaIClEEf~~G-e~v~~LH~------I~pWL~----~~nTCPvCR~eLptdD~ 250 (263)
.++.|-+.. +..|+||+++...- ...|. |+ |.-|.- ....||+||..+-..|.
T Consensus 177 ~i~qv~~~t-~~~CPICL~~~~~p~~t~CG-HiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl 240 (513)
T KOG2164|consen 177 DIFQVYGST-DMQCPICLEPPSVPVRTNCG-HIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDL 240 (513)
T ss_pred HhhhhhcCc-CCcCCcccCCCCcccccccC-ceeeHHHHHHHHhhhcccCCccCCchhhhccccce
Confidence 334444444 78999999998743 34477 55 555543 46899999988876443
No 39
>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=86.34 E-value=0.6 Score=44.80 Aligned_cols=45 Identities=24% Similarity=0.379 Sum_probs=30.2
Q ss_pred CCccCccccccccCCCc------cccc----ccchh-hhhcCCCCCCCCCCCCCch
Q 024764 205 ADQCCVICKEEMGGGRD------VCSG----SLLMM-FLERSNGCGTLSLKRAAAA 249 (263)
Q Consensus 205 ~~~eCaIClEEf~~Ge~------v~~L----H~I~p-WL~~~nTCPvCR~eLptdD 249 (263)
++..|+||+.+--..-. .|.| .+|.. |-.....||.|+..+...+
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 35689999996332222 4664 22655 6667789999998887655
No 40
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.67 E-value=0.4 Score=39.47 Aligned_cols=39 Identities=21% Similarity=0.265 Sum_probs=28.3
Q ss_pred CCCccCccccccccCCCcc-ccccc-----chhhhhcCCCCCCCCC
Q 024764 204 GADQCCVICKEEMGGGRDV-CSGSL-----LMMFLERSNGCGTLSL 243 (263)
Q Consensus 204 ~~~~eCaIClEEf~~Ge~v-~~LH~-----I~pWL~~~nTCPvCR~ 243 (263)
.+...|.||+++|..-... |. |. |..|....-.||.||.
T Consensus 11 ~~~~~C~iC~~~~~~p~~l~C~-H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREPVLLPCG-HNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcCcccccc-chHhHHHHHHhcCCCcCCcccCC
Confidence 4568899999999875222 44 54 6666657789999993
No 41
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.32 E-value=0.28 Score=47.02 Aligned_cols=51 Identities=16% Similarity=0.364 Sum_probs=35.5
Q ss_pred cCCceecCCCCccCccccccccCCC-------c----cccc--cc--chhh--hhcCCCCCCCCCCCCCc
Q 024764 196 RLPSVDGAGADQCCVICKEEMGGGR-------D----VCSG--SL--LMMF--LERSNGCGTLSLKRAAA 248 (263)
Q Consensus 196 aLP~V~i~~~~~eCaIClEEf~~Ge-------~----v~~L--H~--I~pW--L~~~nTCPvCR~eLptd 248 (263)
.+|+-. -++..|+||-..+-..+ . .|.+ |. |.-| +.+..|||-|+.++...
T Consensus 216 glPtkh--l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 216 GLPTKH--LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK 283 (328)
T ss_pred CCCCCC--CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence 345442 34678999998885432 2 3444 54 9999 68999999999877543
No 42
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=84.10 E-value=0.8 Score=40.53 Aligned_cols=46 Identities=22% Similarity=0.474 Sum_probs=33.1
Q ss_pred CCCCccCccccccccCCCcccc--c-----cc--chhhhh--cCCCCCCCCCCCCCc
Q 024764 203 AGADQCCVICKEEMGGGRDVCS--G-----SL--LMMFLE--RSNGCGTLSLKRAAA 248 (263)
Q Consensus 203 ~~~~~eCaIClEEf~~Ge~v~~--L-----H~--I~pWL~--~~nTCPvCR~eLptd 248 (263)
...+.+|-||.++-.....+|. . |. +.+|+. +..+|+.|+++....
T Consensus 5 s~~~~~CRIC~~~~~~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 5 SLMDKCCWICKDEYDVVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCCCeeEecCCCCCCccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 3457899999999654333332 2 76 999996 478999999987654
No 43
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=82.74 E-value=0.6 Score=31.89 Aligned_cols=32 Identities=19% Similarity=0.345 Sum_probs=19.0
Q ss_pred CccccccccCCC-ccccccc-----chhhhhcC----CCCCCC
Q 024764 209 CVICKEEMGGGR-DVCSGSL-----LMMFLERS----NGCGTL 241 (263)
Q Consensus 209 CaIClEEf~~Ge-~v~~LH~-----I~pWL~~~----nTCPvC 241 (263)
|+||++-|+.=- ..|. |. |..|.+.. -.||.|
T Consensus 1 CpiC~~~~~~Pv~l~CG-H~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCG-HSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-SSS-SEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCccccCCc-CHHHHHHHHHHHHccCCcCCCCcCC
Confidence 899999997521 2233 65 88888654 369988
No 44
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=82.68 E-value=0.7 Score=43.89 Aligned_cols=46 Identities=20% Similarity=0.189 Sum_probs=33.7
Q ss_pred CCccCccccccccCCCccccc-cc--chhhhhcCCCCCCCCCCCCCchh
Q 024764 205 ADQCCVICKEEMGGGRDVCSG-SL--LMMFLERSNGCGTLSLKRAAAAV 250 (263)
Q Consensus 205 ~~~eCaIClEEf~~Ge~v~~L-H~--I~pWL~~~nTCPvCR~eLptdD~ 250 (263)
+-.+|+||.+.+..=..-|.. |+ -.==-+.+|.||.||.++..--.
T Consensus 47 ~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~~~CP~Cr~~~g~~R~ 95 (299)
T KOG3002|consen 47 DLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKVSNKCPTCRLPIGNIRC 95 (299)
T ss_pred hhccCchhhccCcccceecCCCcEehhhhhhhhcccCCccccccccHHH
Confidence 357899999999876666665 76 11112789999999999985433
No 45
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.33 E-value=0.32 Score=47.79 Aligned_cols=44 Identities=18% Similarity=0.187 Sum_probs=32.1
Q ss_pred CCccCccccccccCCCccccc-cc-----chhhh-hcCCCCCCCCCCCCCc
Q 024764 205 ADQCCVICKEEMGGGRDVCSG-SL-----LMMFL-ERSNGCGTLSLKRAAA 248 (263)
Q Consensus 205 ~~~eCaIClEEf~~Ge~v~~L-H~-----I~pWL-~~~nTCPvCR~eLptd 248 (263)
.+..|.||++-++.-..+.+= |. |..=+ ..+|+||.||+.+.+.
T Consensus 42 ~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 42 IQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK 92 (381)
T ss_pred hhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence 468899999999875544332 65 55555 5689999999987653
No 46
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=78.25 E-value=0.53 Score=50.58 Aligned_cols=54 Identities=11% Similarity=0.078 Sum_probs=37.9
Q ss_pred CccCccccccccCCC----ccccc----ccchhhhhcCCCCCCCCCCCCCchhhhhcCCCce
Q 024764 206 DQCCVICKEEMGGGR----DVCSG----SLLMMFLERSNGCGTLSLKRAAAAVLMENDNNAI 259 (263)
Q Consensus 206 ~~eCaIClEEf~~Ge----~v~~L----H~I~pWL~~~nTCPvCR~eLptdD~~~E~~~~~~ 259 (263)
...|++|+.-|..+. ..|.+ |.|..|=+.-+|||+||.++..-++..--++-.|
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V~eS~~~~~~ 184 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVKVLESTGIEAN 184 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhheeeeeccccccce
Confidence 456888888776543 33443 3399999999999999999877666544444333
No 47
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=76.81 E-value=1.2 Score=31.17 Aligned_cols=33 Identities=21% Similarity=0.442 Sum_probs=20.6
Q ss_pred CccccccccCCCcc-----cc----c-cc--chhhhh--cCCCCCCC
Q 024764 209 CVICKEEMGGGRDV-----CS----G-SL--LMMFLE--RSNGCGTL 241 (263)
Q Consensus 209 CaIClEEf~~Ge~v-----~~----L-H~--I~pWL~--~~nTCPvC 241 (263)
|-||+++-..++.. |. . |. +.+|+. .+++|++|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 67888887765521 11 1 77 999997 56789988
No 48
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.58 E-value=1.2 Score=44.61 Aligned_cols=45 Identities=22% Similarity=0.366 Sum_probs=32.1
Q ss_pred CCccCcccccccc-CCC-ccccc---cc-----chhhhhc--CCCCCCCCCCCCCch
Q 024764 205 ADQCCVICKEEMG-GGR-DVCSG---SL-----LMMFLER--SNGCGTLSLKRAAAA 249 (263)
Q Consensus 205 ~~~eCaIClEEf~-~Ge-~v~~L---H~-----I~pWL~~--~nTCPvCR~eLptdD 249 (263)
.+..|+||++++. .|+ ....+ |. |..||.+ ...||.|..+--..+
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~ 59 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQ 59 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHH
Confidence 4678999999997 454 33333 65 9999953 567999987654433
No 49
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=76.02 E-value=1.1 Score=31.24 Aligned_cols=26 Identities=27% Similarity=0.423 Sum_probs=12.0
Q ss_pred CccccccccCCC-ccccc---cc-----chhhhhcC
Q 024764 209 CVICKEEMGGGR-DVCSG---SL-----LMMFLERS 235 (263)
Q Consensus 209 CaIClEEf~~Ge-~v~~L---H~-----I~pWL~~~ 235 (263)
|+||+| |...+ ....| |. |..|++.+
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~ 35 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS 35 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC
Confidence 899999 86544 33444 76 88888854
No 50
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=74.83 E-value=0.99 Score=44.73 Aligned_cols=46 Identities=17% Similarity=0.275 Sum_probs=32.6
Q ss_pred CCccCccccccccCCCc----------cccc--ccchhhhhcCCCCCCCCCCCCCchhhh
Q 024764 205 ADQCCVICKEEMGGGRD----------VCSG--SLLMMFLERSNGCGTLSLKRAAAAVLM 252 (263)
Q Consensus 205 ~~~eCaIClEEf~~Ge~----------v~~L--H~I~pWL~~~nTCPvCR~eLptdD~~~ 252 (263)
++..|+.|.|+|...++ +|+. |-|.+= .+..||-||.....+++.|
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~--lngrcpacrr~y~denv~~ 70 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQN--LNGRCPACRRKYDDENVRY 70 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhh--ccCCChHhhhhccccceeE
Confidence 45669999999987653 3333 337665 4788999999877666543
No 51
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.98 E-value=1.7 Score=43.61 Aligned_cols=40 Identities=25% Similarity=0.502 Sum_probs=27.0
Q ss_pred CccCcccccccc-CCCcc-----ccc--cc--chhhhhc--C-CCCCCCCCCCC
Q 024764 206 DQCCVICKEEMG-GGRDV-----CSG--SL--LMMFLER--S-NGCGTLSLKRA 246 (263)
Q Consensus 206 ~~eCaIClEEf~-~Ge~v-----~~L--H~--I~pWL~~--~-nTCPvCR~eLp 246 (263)
..+|.|| +++. ..+++ |.+ |. +.+|++. . .+||.||-+++
T Consensus 4 ~A~C~Ic-~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~ 56 (465)
T KOG0827|consen 4 MAECHIC-IDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQ 56 (465)
T ss_pred cceeeEe-ccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccc
Confidence 4689999 5554 33333 554 55 9999985 3 48999994443
No 52
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=73.17 E-value=1.4 Score=44.54 Aligned_cols=43 Identities=19% Similarity=0.356 Sum_probs=31.8
Q ss_pred ccCccccccccCC-Cccccccc-----chhhhhc--CCCCCCCCCCCCCchh
Q 024764 207 QCCVICKEEMGGG-RDVCSGSL-----LMMFLER--SNGCGTLSLKRAAAAV 250 (263)
Q Consensus 207 ~eCaIClEEf~~G-e~v~~LH~-----I~pWL~~--~nTCPvCR~eLptdD~ 250 (263)
+-|-||-|.=+.= -+.|. |+ +..|=.. .++||.||.|+..-+.
T Consensus 370 eLCKICaendKdvkIEPCG-HLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~ 420 (563)
T KOG1785|consen 370 ELCKICAENDKDVKIEPCG-HLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEP 420 (563)
T ss_pred HHHHHhhccCCCccccccc-chHHHHHHHhhcccCCCCCCCceeeEeccccc
Confidence 4599998876532 25666 55 9999843 6999999999876544
No 53
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=66.33 E-value=3.6 Score=40.02 Aligned_cols=41 Identities=17% Similarity=0.399 Sum_probs=28.8
Q ss_pred CCCccCccccccccCCC---------ccccccc-----chhhh--hc-----CCCCCCCCCCC
Q 024764 204 GADQCCVICKEEMGGGR---------DVCSGSL-----LMMFL--ER-----SNGCGTLSLKR 245 (263)
Q Consensus 204 ~~~~eCaIClEEf~~Ge---------~v~~LH~-----I~pWL--~~-----~nTCPvCR~eL 245 (263)
..+.+|.||+|-...-- .-|. |. |..|= .+ +..||.||...
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~-H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCN-HSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcc-hhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 34789999999764321 1133 55 99997 44 68999999764
No 54
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=66.13 E-value=5 Score=39.06 Aligned_cols=47 Identities=19% Similarity=0.350 Sum_probs=36.9
Q ss_pred CCccCccccccccCCCc--cccccc----chhhhhcCCCCCCCCCCCCCchhh
Q 024764 205 ADQCCVICKEEMGGGRD--VCSGSL----LMMFLERSNGCGTLSLKRAAAAVL 251 (263)
Q Consensus 205 ~~~eCaIClEEf~~Ge~--v~~LH~----I~pWL~~~nTCPvCR~eLptdD~~ 251 (263)
.+..|++|..-+..--. .|.+.+ |..|+..+..||.||.++..+...
T Consensus 20 ~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~ 72 (391)
T KOG0297|consen 20 ENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEEL 72 (391)
T ss_pred ccccCccccccccCCCCCCCCCCcccccccchhhccCcCCcccccccchhhcc
Confidence 46789999998876433 455422 999999999999999998877665
No 55
>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=64.87 E-value=3.3 Score=40.52 Aligned_cols=23 Identities=22% Similarity=0.143 Sum_probs=18.2
Q ss_pred chhhhhcCCCCCCCCCCCCCchh
Q 024764 228 LMMFLERSNGCGTLSLKRAAAAV 250 (263)
Q Consensus 228 I~pWL~~~nTCPvCR~eLptdD~ 250 (263)
-..||..+-+||+||...=.-|+
T Consensus 333 ~~~Wl~~~~~CPtCRa~FCilDV 355 (358)
T PF10272_consen 333 PETWLSGKCPCPTCRAKFCILDV 355 (358)
T ss_pred hhhhhcCCCCCCCCcccceeeee
Confidence 56799999999999998654443
No 56
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=62.49 E-value=2.8 Score=30.68 Aligned_cols=34 Identities=15% Similarity=0.403 Sum_probs=20.6
Q ss_pred CccCccccccccCC--Cccccccc-----chhhh--hcCCCCCC
Q 024764 206 DQCCVICKEEMGGG--RDVCSGSL-----LMMFL--ERSNGCGT 240 (263)
Q Consensus 206 ~~eCaIClEEf~~G--e~v~~LH~-----I~pWL--~~~nTCPv 240 (263)
...|+|.+..|+.= ...|. |. |+.|| .....||+
T Consensus 11 ~~~CPiT~~~~~~PV~s~~C~-H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPFEDPVKSKKCG-HTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB-SSEEEESSS---EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChhhCCcCcCCCC-CeecHHHHHHHHHhcCCCCCCC
Confidence 57899999999842 23455 65 99999 55778998
No 57
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=60.88 E-value=2.2 Score=41.63 Aligned_cols=44 Identities=14% Similarity=0.240 Sum_probs=31.9
Q ss_pred CccCccccccccCCCc----cccc--cc--------------------chhhhhc-----CCCCCCCCCCCCCch
Q 024764 206 DQCCVICKEEMGGGRD----VCSG--SL--------------------LMMFLER-----SNGCGTLSLKRAAAA 249 (263)
Q Consensus 206 ~~eCaIClEEf~~Ge~----v~~L--H~--------------------I~pWL~~-----~nTCPvCR~eLptdD 249 (263)
...|+||+=-|..|+. .|-+ |+ ...|++. .-.||+||..+.-+.
T Consensus 115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~ 189 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE 189 (368)
T ss_pred CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence 5679999999999884 3444 43 4567753 456999999886544
No 58
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=59.97 E-value=3.1 Score=40.84 Aligned_cols=46 Identities=13% Similarity=0.239 Sum_probs=26.5
Q ss_pred CccCccccccccCCC-ccccccc--chhhhhcCCCCCCCCCCCCCchhhh
Q 024764 206 DQCCVICKEEMGGGR-DVCSGSL--LMMFLERSNGCGTLSLKRAAAAVLM 252 (263)
Q Consensus 206 ~~eCaIClEEf~~Ge-~v~~LH~--I~pWL~~~nTCPvCR~eLptdD~~~ 252 (263)
..-|+||.+|.+.-. -.|. |. -..==+...+||+||..+...-..|
T Consensus 305 p~lcVVcl~e~~~~~fvpcG-h~ccct~cs~~l~~CPvCR~rI~~~~k~y 353 (355)
T KOG1571|consen 305 PDLCVVCLDEPKSAVFVPCG-HVCCCTLCSKHLPQCPVCRQRIRLVRKRY 353 (355)
T ss_pred CCceEEecCCccceeeecCC-cEEEchHHHhhCCCCchhHHHHHHHHHHh
Confidence 467999999998632 2233 33 1111122334999998876544433
No 59
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=57.80 E-value=7.2 Score=37.91 Aligned_cols=51 Identities=12% Similarity=0.139 Sum_probs=31.7
Q ss_pred CccCccccccccCC-Cccccc-----cc-chhhhhcCCCCCCCCCCCCCchh-----hhhcCCC
Q 024764 206 DQCCVICKEEMGGG-RDVCSG-----SL-LMMFLERSNGCGTLSLKRAAAAV-----LMENDNN 257 (263)
Q Consensus 206 ~~eCaIClEEf~~G-e~v~~L-----H~-I~pWL~~~nTCPvCR~eLptdD~-----~~E~~~~ 257 (263)
..+|+||......- ...|.| |+ =.-|+. ..+|++||++++.+=. .|+.|.|
T Consensus 7 ~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~nd-k~~CavCR~pids~i~~~psl~~~LK~n 69 (324)
T KOG0824|consen 7 KKECLICYNTGNCPVNLYCFHKFCYICIKGSYKND-KKTCAVCRFPIDSTIDFEPSLKYRLKPN 69 (324)
T ss_pred CCcceeeeccCCcCccccccchhhhhhhcchhhcC-CCCCceecCCCCcchhcchhhhhhhcCC
Confidence 56899999876532 223332 33 345554 4579999999987532 4555544
No 60
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=57.06 E-value=0.71 Score=46.13 Aligned_cols=49 Identities=14% Similarity=0.123 Sum_probs=39.0
Q ss_pred CccCccccccccCC-Cc----cccc--cc--chhhhhcCCCCCCCCCCCCCchhhhhc
Q 024764 206 DQCCVICKEEMGGG-RD----VCSG--SL--LMMFLERSNGCGTLSLKRAAAAVLMEN 254 (263)
Q Consensus 206 ~~eCaIClEEf~~G-e~----v~~L--H~--I~pWL~~~nTCPvCR~eLptdD~~~E~ 254 (263)
-..|+||.+.++.. +. +|.. |. |.+||+...-||.||.+++-.-.+.++
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~~e~k~ 253 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKNGFEEKL 253 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhhhHHHHH
Confidence 46799999999865 33 3443 33 999999999999999999987766655
No 61
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=53.46 E-value=4.4 Score=39.46 Aligned_cols=43 Identities=16% Similarity=0.308 Sum_probs=33.8
Q ss_pred CCccCccccccccCCCccccc-cc-----chhhhhcCCCCCCCCCCCCC
Q 024764 205 ADQCCVICKEEMGGGRDVCSG-SL-----LMMFLERSNGCGTLSLKRAA 247 (263)
Q Consensus 205 ~~~eCaIClEEf~~Ge~v~~L-H~-----I~pWL~~~nTCPvCR~eLpt 247 (263)
.-..|.+|..=|-.-..+.+= |- |..-|+..++||+|.-.+-.
T Consensus 14 ~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~ 62 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHK 62 (331)
T ss_pred cceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccC
Confidence 467899999988876665443 54 99999999999999876643
No 62
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=50.79 E-value=10 Score=28.14 Aligned_cols=20 Identities=20% Similarity=0.571 Sum_probs=15.6
Q ss_pred CCccCccccccccCCCcccc
Q 024764 205 ADQCCVICKEEMGGGRDVCS 224 (263)
Q Consensus 205 ~~~eCaIClEEf~~Ge~v~~ 224 (263)
.+..|.+|.+.|+.|+++..
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVv 23 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVV 23 (54)
T ss_pred cCccChhhCCcccCCCCEEE
Confidence 35679999999997776544
No 63
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=50.66 E-value=16 Score=28.88 Aligned_cols=44 Identities=16% Similarity=0.231 Sum_probs=35.1
Q ss_pred CCccCccccccccCCCccccccc--chhhhhcCCCCCCCCCCCCCchhhhhc
Q 024764 205 ADQCCVICKEEMGGGRDVCSGSL--LMMFLERSNGCGTLSLKRAAAAVLMEN 254 (263)
Q Consensus 205 ~~~eCaIClEEf~~Ge~v~~LH~--I~pWL~~~nTCPvCR~eLptdD~~~E~ 254 (263)
....|.-|....+- .+. |.-||-.+..|..|+++++..-...|-
T Consensus 32 ~rS~C~~C~~~L~~------~~lIPi~S~l~lrGrCr~C~~~I~~~y~l~El 77 (92)
T PF06750_consen 32 PRSHCPHCGHPLSW------WDLIPILSYLLLRGRCRYCGAPIPPRYPLIEL 77 (92)
T ss_pred CCCcCcCCCCcCcc------cccchHHHHHHhCCCCcccCCCCChHHHHHHH
Confidence 35679999876654 133 899999999999999999988777763
No 64
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=50.02 E-value=4.4 Score=28.57 Aligned_cols=39 Identities=10% Similarity=0.147 Sum_probs=22.7
Q ss_pred CccCccccccccCCCcccccccchhhh--hcCCCCCCCCCCCC
Q 024764 206 DQCCVICKEEMGGGRDVCSGSLLMMFL--ERSNGCGTLSLKRA 246 (263)
Q Consensus 206 ~~eCaIClEEf~~Ge~v~~LH~I~pWL--~~~nTCPvCR~eLp 246 (263)
...|+.|.++|... ..+. |+...=- .....||+|...+.
T Consensus 2 ~f~CP~C~~~~~~~-~L~~-H~~~~H~~~~~~v~CPiC~~~~~ 42 (54)
T PF05605_consen 2 SFTCPYCGKGFSES-SLVE-HCEDEHRSESKNVVCPICSSRVT 42 (54)
T ss_pred CcCCCCCCCccCHH-HHHH-HHHhHCcCCCCCccCCCchhhhh
Confidence 45799999976653 2333 4311111 23578999997533
No 65
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=47.63 E-value=9.8 Score=27.54 Aligned_cols=36 Identities=25% Similarity=0.525 Sum_probs=13.8
Q ss_pred CccccccccCCC-c--cccc-ccchhh-----h-hcCCCCCCCCCC
Q 024764 209 CVICKEEMGGGR-D--VCSG-SLLMMF-----L-ERSNGCGTLSLK 244 (263)
Q Consensus 209 CaIClEEf~~Ge-~--v~~L-H~I~pW-----L-~~~nTCPvCR~e 244 (263)
|++|.|++...+ . .|.= +.|=.| + ...+.||-||.+
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~ 46 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREP 46 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence 789999994322 1 2222 113333 2 358899999975
No 66
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=46.90 E-value=12 Score=32.62 Aligned_cols=47 Identities=19% Similarity=0.259 Sum_probs=32.4
Q ss_pred CCccCccccccccCCC-----cccccc-----cchhh--hhcCCCCCCCCCCCCCchhh
Q 024764 205 ADQCCVICKEEMGGGR-----DVCSGS-----LLMMF--LERSNGCGTLSLKRAAAAVL 251 (263)
Q Consensus 205 ~~~eCaIClEEf~~Ge-----~v~~LH-----~I~pW--L~~~nTCPvCR~eLptdD~~ 251 (263)
.--||-||+|-..+.+ +.|+.- +..-| =..+..||+|+....++...
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~~~ 137 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSSSA 137 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccccc
Confidence 3578999999876643 334431 14444 56799999999998877553
No 67
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=45.91 E-value=12 Score=26.54 Aligned_cols=29 Identities=10% Similarity=0.279 Sum_probs=20.8
Q ss_pred CCCCCCCCCCCCCchhhhhcCCCceeccC
Q 024764 235 SNGCGTLSLKRAAAAVLMENDNNAIIACD 263 (263)
Q Consensus 235 ~nTCPvCR~eLptdD~~~E~~~~~~~~~~ 263 (263)
..+|--|+.++|......-.+.++|+-|+
T Consensus 22 ~~~C~gC~~~l~~~~~~~i~~~~~i~~Cp 50 (56)
T PF02591_consen 22 GGTCSGCHMELPPQELNEIRKGDEIVFCP 50 (56)
T ss_pred CCccCCCCEEcCHHHHHHHHcCCCeEECc
Confidence 46777777777777776666667777764
No 68
>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=44.40 E-value=11 Score=23.83 Aligned_cols=14 Identities=14% Similarity=0.185 Sum_probs=9.2
Q ss_pred CCCCCCCCCCCchh
Q 024764 237 GCGTLSLKRAAAAV 250 (263)
Q Consensus 237 TCPvCR~eLptdD~ 250 (263)
+||-|+.+++.+..
T Consensus 2 ~CP~C~~~V~~~~~ 15 (26)
T PF10571_consen 2 TCPECGAEVPESAK 15 (26)
T ss_pred cCCCCcCCchhhcC
Confidence 57777777765543
No 69
>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=43.90 E-value=13 Score=25.71 Aligned_cols=33 Identities=21% Similarity=0.519 Sum_probs=18.4
Q ss_pred CccccccccCCCcc----cc--ccc--chhhhhcCC--CCCCC
Q 024764 209 CVICKEEMGGGRDV----CS--GSL--LMMFLERSN--GCGTL 241 (263)
Q Consensus 209 CaIClEEf~~Ge~v----~~--LH~--I~pWL~~~n--TCPvC 241 (263)
|.+|+|-.-.|..- |. +|. +..++..+. .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 77888888877532 33 377 888887655 79988
No 70
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=42.98 E-value=8.2 Score=37.76 Aligned_cols=25 Identities=16% Similarity=0.065 Sum_probs=20.3
Q ss_pred chhhhhcCCCCCCCCCCCCCchhhh
Q 024764 228 LMMFLERSNGCGTLSLKRAAAAVLM 252 (263)
Q Consensus 228 I~pWL~~~nTCPvCR~eLptdD~~~ 252 (263)
=..|++.+-+||+||+..-.-|+-|
T Consensus 347 r~~~~~~~~~cp~cr~~fci~dv~~ 371 (381)
T KOG3899|consen 347 RYEYHRGSAQCPTCRKNFCIRDVHC 371 (381)
T ss_pred HHHHHhcCCCCcchhhceEEeeeeE
Confidence 3579999999999999887766544
No 71
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.82 E-value=9.4 Score=38.40 Aligned_cols=48 Identities=19% Similarity=0.297 Sum_probs=36.7
Q ss_pred CCCccCccccccccCCCccccc-cc--chhhhhcCCCCCCCCCCCCCchhhhh
Q 024764 204 GADQCCVICKEEMGGGRDVCSG-SL--LMMFLERSNGCGTLSLKRAAAAVLME 253 (263)
Q Consensus 204 ~~~~eCaIClEEf~~Ge~v~~L-H~--I~pWL~~~nTCPvCR~eLptdD~~~E 253 (263)
+....|.||.+++ ..+++.- |. ...|+..+.+||.|+..+.-++....
T Consensus 477 ~~~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~pl~~~~~~~~~~~~~ 527 (543)
T KOG0802|consen 477 EPNDVCAICYQEM--SARITPCSHALCLRKWLYVQEVCPLCHTYMKEDDFLSK 527 (543)
T ss_pred cccCcchHHHHHH--HhccccccchhHHHhhhhhccccCCCchhhhcccccCc
Confidence 3467899999999 3333332 76 99999999999999988877766443
No 72
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=41.97 E-value=11 Score=37.64 Aligned_cols=11 Identities=9% Similarity=0.434 Sum_probs=9.3
Q ss_pred cCCCCCCCCCC
Q 024764 234 RSNGCGTLSLK 244 (263)
Q Consensus 234 ~~nTCPvCR~e 244 (263)
.++.||.||++
T Consensus 66 qRKRCP~CRFQ 76 (475)
T KOG4218|consen 66 QRKRCPSCRFQ 76 (475)
T ss_pred hhccCCchhHH
Confidence 47889999986
No 73
>TIGR02661 MauD methylamine dehydrogenase accessory protein MauD. This protein, MauD, appears critical to proper formation of the small subunit of methylamine dehydrogenase, which has both an unusual tryptophan tryptophylquinone cofactor and multiple disulfide bonds. MauD shares sequence similarity, including a CPxC motif, with a number of thiol:disulfide interchange proteins. In MauD mutants, the small subunit apparently does not form properly and is rapidly degraded.
Probab=41.66 E-value=7 Score=33.49 Aligned_cols=27 Identities=4% Similarity=0.137 Sum_probs=20.7
Q ss_pred CCCCCCCCCCCCCchhhhhcCCCceec
Q 024764 235 SNGCGTLSLKRAAAAVLMENDNNAIIA 261 (263)
Q Consensus 235 ~nTCPvCR~eLptdD~~~E~~~~~~~~ 261 (263)
...||.||.++|.-...+++.+-.+++
T Consensus 83 atwCp~C~~~lp~l~~~~~~~~~~vv~ 109 (189)
T TIGR02661 83 APSCPVCDKLFPIIKSIARAEETDVVM 109 (189)
T ss_pred CCCChhHHHHHHHHHHHHHhcCCcEEE
Confidence 789999999999888777765444443
No 74
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=40.88 E-value=12 Score=33.60 Aligned_cols=44 Identities=11% Similarity=0.181 Sum_probs=31.0
Q ss_pred CccCccccccccCCC------ccccc------cc--chhhhhcCCCCCCCCCCCCCch
Q 024764 206 DQCCVICKEEMGGGR------DVCSG------SL--LMMFLERSNGCGTLSLKRAAAA 249 (263)
Q Consensus 206 ~~eCaIClEEf~~Ge------~v~~L------H~--I~pWL~~~nTCPvCR~eLptdD 249 (263)
...|+||..+|..-. ++.+. |+ |.|-+=.-.+||-|-+.....|
T Consensus 5 ~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~~ 62 (214)
T PF09986_consen 5 KITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEED 62 (214)
T ss_pred ceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCcccccc
Confidence 468999999997522 11111 33 7777777889999998876654
No 75
>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=40.73 E-value=7.3 Score=27.51 Aligned_cols=15 Identities=7% Similarity=-0.046 Sum_probs=7.7
Q ss_pred CCCCCCCCCCCCchh
Q 024764 236 NGCGTLSLKRAAAAV 250 (263)
Q Consensus 236 nTCPvCR~eLptdD~ 250 (263)
+.||+|..++..+..
T Consensus 21 ~~CPlC~r~l~~e~~ 35 (54)
T PF04423_consen 21 GCCPLCGRPLDEEHR 35 (54)
T ss_dssp EE-TTT--EE-HHHH
T ss_pred CcCCCCCCCCCHHHH
Confidence 388888888876554
No 76
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.88 E-value=5.2 Score=38.95 Aligned_cols=40 Identities=18% Similarity=0.247 Sum_probs=21.0
Q ss_pred ccCccccccccCCC-ccccccc--chhhhhcCCCCCCCCCCCCC
Q 024764 207 QCCVICKEEMGGGR-DVCSGSL--LMMFLERSNGCGTLSLKRAA 247 (263)
Q Consensus 207 ~eCaIClEEf~~Ge-~v~~LH~--I~pWL~~~nTCPvCR~eLpt 247 (263)
.-|+||++.-..== ..|. |. -.+-=++-|.||+||+.+-.
T Consensus 301 ~LC~ICmDaP~DCvfLeCG-HmVtCt~CGkrm~eCPICRqyi~r 343 (350)
T KOG4275|consen 301 RLCAICMDAPRDCVFLECG-HMVTCTKCGKRMNECPICRQYIVR 343 (350)
T ss_pred HHHHHHhcCCcceEEeecC-cEEeehhhccccccCchHHHHHHH
Confidence 44777776543200 0011 44 22222455699999987643
No 77
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=39.75 E-value=16 Score=40.11 Aligned_cols=54 Identities=19% Similarity=0.329 Sum_probs=41.2
Q ss_pred cCCCCccCccccccccCCCcc---ccc-------cc--chhhhhc--CCCCCCCCCCCCCchhhhhcC
Q 024764 202 GAGADQCCVICKEEMGGGRDV---CSG-------SL--LMMFLER--SNGCGTLSLKRAAAAVLMEND 255 (263)
Q Consensus 202 i~~~~~eCaIClEEf~~Ge~v---~~L-------H~--I~pWL~~--~nTCPvCR~eLptdD~~~E~~ 255 (263)
.++++..|-||..|=..|+.. |+= |. ++.|++- ...|-+|.++..=.|...|+-
T Consensus 8 mN~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY~e~m 75 (1175)
T COG5183 8 MNEDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIYKEDM 75 (1175)
T ss_pred CCccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeecccCC
Confidence 356678899999998877754 222 76 9999974 567999999988777666653
No 78
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=38.56 E-value=9.7 Score=29.21 Aligned_cols=27 Identities=7% Similarity=0.054 Sum_probs=21.0
Q ss_pred hcCCCCCCCCCCCCCchhhhhcCCCce
Q 024764 233 ERSNGCGTLSLKRAAAAVLMENDNNAI 259 (263)
Q Consensus 233 ~~~nTCPvCR~eLptdD~~~E~~~~~~ 259 (263)
.-|..||+|-+.+|.|+..-.++-++|
T Consensus 6 ~PH~HC~VCg~aIp~de~~CSe~C~ei 32 (64)
T COG4068 6 VPHRHCVVCGKAIPPDEQVCSEECGEI 32 (64)
T ss_pred CCCccccccCCcCCCccchHHHHHHHH
Confidence 458899999999999987766655554
No 79
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=38.22 E-value=16 Score=26.80 Aligned_cols=11 Identities=27% Similarity=0.431 Sum_probs=6.3
Q ss_pred cCccccccccC
Q 024764 208 CCVICKEEMGG 218 (263)
Q Consensus 208 eCaIClEEf~~ 218 (263)
+|++|-+++..
T Consensus 4 ~CP~CG~~iev 14 (54)
T TIGR01206 4 ECPDCGAEIEL 14 (54)
T ss_pred CCCCCCCEEec
Confidence 56666665554
No 80
>TIGR02738 TrbB type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB. This protein is part of a large group of proteins involved in conjugative transfer of plasmid DNA, specifically the F-type system. This protein has been predicted to contain a thioredoxin fold, contains a conserved pair of cysteines and has been shown to function as a thiol disulfide isomerase by complementation of an Ecoli DsbA defect. The protein is believed to be involved in pilin assembly. The protein is closely related to TraF (TIGR02739) which is somewhat longer, lacks the cysteine motif and is apparently not functional as a disulfide bond isomerase.
Probab=38.09 E-value=6.6 Score=33.38 Aligned_cols=26 Identities=8% Similarity=-0.018 Sum_probs=17.0
Q ss_pred CCCCCCCCCCCCchhhhhcCCCceec
Q 024764 236 NGCGTLSLKRAAAAVLMENDNNAIIA 261 (263)
Q Consensus 236 nTCPvCR~eLptdD~~~E~~~~~~~~ 261 (263)
..||-||.++|.=...+++.+-.|++
T Consensus 60 sWCppCr~e~P~L~~l~~~~~~~Vi~ 85 (153)
T TIGR02738 60 STCPYCHQFAPVLKRFSQQFGLPVYA 85 (153)
T ss_pred CCChhHHHHHHHHHHHHHHcCCcEEE
Confidence 35777777777777777665445543
No 81
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=36.64 E-value=23 Score=27.26 Aligned_cols=42 Identities=12% Similarity=0.203 Sum_probs=18.8
Q ss_pred CccCccccccccCC--Cccccccc-----chhhhhcCCCCCCCCCCCCCchh
Q 024764 206 DQCCVICKEEMGGG--RDVCSGSL-----LMMFLERSNGCGTLSLKRAAAAV 250 (263)
Q Consensus 206 ~~eCaIClEEf~~G--e~v~~LH~-----I~pWL~~~nTCPvCR~eLptdD~ 250 (263)
...|++|.+-|+.- -..|+ |. |.+-+.. -||+|+.+.-..|.
T Consensus 7 lLrCs~C~~~l~~pv~l~~Ce-H~fCs~Ci~~~~~~--~CPvC~~Paw~qD~ 55 (65)
T PF14835_consen 7 LLRCSICFDILKEPVCLGGCE-HIFCSSCIRDCIGS--ECPVCHTPAWIQDI 55 (65)
T ss_dssp TTS-SSS-S--SS-B---SSS---B-TTTGGGGTTT--B-SSS--B-S-SS-
T ss_pred hcCCcHHHHHhcCCceeccCc-cHHHHHHhHHhcCC--CCCCcCChHHHHHH
Confidence 35799999998752 12344 65 8886663 49999987655543
No 82
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=36.32 E-value=12 Score=35.67 Aligned_cols=54 Identities=15% Similarity=0.063 Sum_probs=34.4
Q ss_pred CCccCccccccccCCCcc-ccc---cc-chhhhh----cCCCCCCCCCCCCCchhhhhcCCCcee
Q 024764 205 ADQCCVICKEEMGGGRDV-CSG---SL-LMMFLE----RSNGCGTLSLKRAAAAVLMENDNNAII 260 (263)
Q Consensus 205 ~~~eCaIClEEf~~Ge~v-~~L---H~-I~pWL~----~~nTCPvCR~eLptdD~~~E~~~~~~~ 260 (263)
....|+||+|.+-.+... ..+ |. =..|++ .+-+||+|.. +.|-..+=++.+.+|
T Consensus 157 ~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~--~~d~~~~~~~~d~~l 219 (276)
T KOG1940|consen 157 SEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK--PGDMSHYFRKLDKEL 219 (276)
T ss_pred ccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc--hHHHHHHHHHHHHHH
Confidence 355699999999876543 222 54 366765 4699999998 555544444444333
No 83
>cd02967 mauD Methylamine utilization (mau) D family; mauD protein is the translation product of the mauD gene found in methylotrophic bacteria, which are able to use methylamine as a sole carbon source and a nitrogen source. mauD is an essential accessory protein for the biosynthesis of methylamine dehydrogenase (MADH), the enzyme that catalyzes the oxidation of methylamine and other primary amines. MADH possesses an alpha2beta2 subunit structure; the alpha subunit is also referred to as the large subunit. Each beta (small) subunit contains a tryptophan tryptophylquinone (TTQ) prosthetic group. Accessory proteins are essential for the proper transport of MADH to the periplasm, TTQ synthesis and the formation of several structural disulfide bonds. Bacterial mutants containing an insertion on the mauD gene were unable to grow on methylamine as a sole carbon source, were found to lack the MADH small subunit and had decreased amounts of the MADH large subunit.
Probab=35.00 E-value=12 Score=28.19 Aligned_cols=21 Identities=10% Similarity=0.085 Sum_probs=16.7
Q ss_pred CCCCCCCCCCCCCchhhhhcC
Q 024764 235 SNGCGTLSLKRAAAAVLMEND 255 (263)
Q Consensus 235 ~nTCPvCR~eLptdD~~~E~~ 255 (263)
...||.||.++|.-...+++.
T Consensus 30 ~~wC~~C~~~~p~l~~~~~~~ 50 (114)
T cd02967 30 SPTCPVCKKLLPVIRSIARAE 50 (114)
T ss_pred CCCCcchHhHhHHHHHHHHHh
Confidence 678999999998877766543
No 84
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 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 RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=33.97 E-value=12 Score=27.52 Aligned_cols=21 Identities=24% Similarity=0.381 Sum_probs=14.7
Q ss_pred chhhhhcCCCCCCCCCCCCCc
Q 024764 228 LMMFLERSNGCGTLSLKRAAA 248 (263)
Q Consensus 228 I~pWL~~~nTCPvCR~eLptd 248 (263)
+.--|.+++.||+|.+++|+.
T Consensus 28 Lt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 28 LTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp HHHT-SSSSEETTTTEE----
T ss_pred HHHHhccccCCCcccCcCccc
Confidence 777789999999999999974
No 85
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=33.06 E-value=24 Score=26.40 Aligned_cols=43 Identities=30% Similarity=0.310 Sum_probs=25.7
Q ss_pred ccCccccccccCCC-ccccccc--chhh-hhcCCCCCCCCCCCCCchh
Q 024764 207 QCCVICKEEMGGGR-DVCSGSL--LMMF-LERSNGCGTLSLKRAAAAV 250 (263)
Q Consensus 207 ~eCaIClEEf~~Ge-~v~~LH~--I~pW-L~~~nTCPvCR~eLptdD~ 250 (263)
..|..|-.+=..|. ..|. |+ -.-| +++-|.||.|-..+..+|.
T Consensus 8 ~~~~~~~~~~~~~~~~pCg-H~I~~~~f~~~rYngCPfC~~~~~~~~~ 54 (55)
T PF14447_consen 8 QPCVFCGFVGTKGTVLPCG-HLICDNCFPGERYNGCPFCGTPFEFDDP 54 (55)
T ss_pred eeEEEcccccccccccccc-ceeeccccChhhccCCCCCCCcccCCCC
Confidence 34445544433332 2233 55 3444 5889999999998887764
No 86
>PRK15351 type III secretion system protein SsaP; Provisional
Probab=32.73 E-value=21 Score=30.28 Aligned_cols=45 Identities=22% Similarity=0.187 Sum_probs=22.0
Q ss_pred HHHHhhCCCCCCCCCCCCCCchhhHHHHHcCCceecCC---CCccCccccc
Q 024764 167 RFVNAMGGGGVRGGEKEGRDVAAAVAAVVRLPSVDGAG---ADQCCVICKE 214 (263)
Q Consensus 167 rFv~a~g~~g~dgg~keGg~pPASkaaI~aLP~V~i~~---~~~eCaIClE 214 (263)
+|...++++.- ..+|+++.|-.+-|.---.-.+.| ++.+|-||-.
T Consensus 29 ~F~qLM~Q~aP---~gegn~~~aln~n~~~t~rYrv~GG~adGl~Cei~~~ 76 (124)
T PRK15351 29 DFEQLMHQALP---IGENNPPAALNKNVVFTQRYRVSGGYLDGVECEVCES 76 (124)
T ss_pred hHHHHHhhcCC---CCCCChHHHhhcccceeeEEEeecccccceEEEEEEC
Confidence 47777776542 233454433332222222223333 4788999854
No 87
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=30.95 E-value=26 Score=35.28 Aligned_cols=40 Identities=20% Similarity=0.357 Sum_probs=29.1
Q ss_pred CccCcccccccc-CCCccccc---cc---chhhhhcCCCCCCCCCCC
Q 024764 206 DQCCVICKEEMG-GGRDVCSG---SL---LMMFLERSNGCGTLSLKR 245 (263)
Q Consensus 206 ~~eCaIClEEf~-~Ge~v~~L---H~---I~pWL~~~nTCPvCR~eL 245 (263)
...|.||-+... .-...|.+ |. =.+=|-....||+||.|-
T Consensus 61 n~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 61 NMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred cceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 566999988775 33455665 66 445577899999999874
No 88
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=30.86 E-value=16 Score=26.68 Aligned_cols=45 Identities=18% Similarity=0.218 Sum_probs=12.9
Q ss_pred cCccccccccCCCccccc----cc--------------c-h--hh-hhcCCCCCCCCCCCCCchhhh
Q 024764 208 CCVICKEEMGGGRDVCSG----SL--------------L-M--MF-LERSNGCGTLSLKRAAAAVLM 252 (263)
Q Consensus 208 eCaIClEEf~~Ge~v~~L----H~--------------I-~--pW-L~~~nTCPvCR~eLptdD~~~ 252 (263)
+|.+|.+.|..=+...++ |- + . .+ +.....|+.|.....+.....
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~ 67 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIPDQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQ 67 (100)
T ss_dssp ------------------------------------------------SSEEBSSSS-EESSHHHHH
T ss_pred CccccccccccccccccccccccccccccccccccccccccccccccCCCCCCCccCCCCcCHHHHH
Confidence 588898888754444333 32 1 1 11 123578999999877665543
No 89
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.80 E-value=36 Score=30.93 Aligned_cols=44 Identities=16% Similarity=0.103 Sum_probs=29.4
Q ss_pred ccCccccccccCCC--cc-ccc---cc----chhhhhc--CCCCCCCCCC--CCCchh
Q 024764 207 QCCVICKEEMGGGR--DV-CSG---SL----LMMFLER--SNGCGTLSLK--RAAAAV 250 (263)
Q Consensus 207 ~eCaIClEEf~~Ge--~v-~~L---H~----I~pWL~~--~nTCPvCR~e--LptdD~ 250 (263)
.+|-||-++|..++ .+ +.+ |. -..||-. ...||.||.. ++..+.
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~~~~~~~ 61 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETTEIPDGDV 61 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcccCCchhH
Confidence 57999999998663 32 333 44 4456543 5679999999 554444
No 90
>PF04641 Rtf2: Rtf2 RING-finger
Probab=30.52 E-value=32 Score=31.45 Aligned_cols=53 Identities=13% Similarity=0.190 Sum_probs=35.4
Q ss_pred CCccCccccccccCCCccccc----cc----chhhhhcCCCCCCCCCCCCCchhhhhcCCC
Q 024764 205 ADQCCVICKEEMGGGRDVCSG----SL----LMMFLERSNGCGTLSLKRAAAAVLMENDNN 257 (263)
Q Consensus 205 ~~~eCaIClEEf~~Ge~v~~L----H~----I~pWL~~~nTCPvCR~eLptdD~~~E~~~~ 257 (263)
+...|+|...+|......+-+ |+ ...=+...+.||+|-.++...|...=|+.+
T Consensus 112 ~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k~~~~Cp~c~~~f~~~DiI~Lnp~~ 172 (260)
T PF04641_consen 112 GRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELKKSKKCPVCGKPFTEEDIIPLNPPE 172 (260)
T ss_pred ceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhcccccccccCCccccCCEEEecCCc
Confidence 357899999999554444444 66 111123466899999999888776555544
No 91
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=28.87 E-value=24 Score=37.60 Aligned_cols=45 Identities=18% Similarity=0.278 Sum_probs=33.7
Q ss_pred CCccCccccccccCCCc-cccccc-----chhhhh-cCCCCCCCCCCCCCchh
Q 024764 205 ADQCCVICKEEMGGGRD-VCSGSL-----LMMFLE-RSNGCGTLSLKRAAAAV 250 (263)
Q Consensus 205 ~~~eCaIClEEf~~Ge~-v~~LH~-----I~pWL~-~~nTCPvCR~eLptdD~ 250 (263)
+-..|++|.+.++.-=- -|. |+ |.+-++ ++..||.|-..+.+.|.
T Consensus 642 ~~LkCs~Cn~R~Kd~vI~kC~-H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv 693 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDAVITKCG-HVFCEECVQTRYETRQRKCPKCNAAFGANDV 693 (698)
T ss_pred hceeCCCccCchhhHHHHhcc-hHHHHHHHHHHHHHhcCCCCCCCCCCCcccc
Confidence 45789999988875211 133 76 888886 68899999999888774
No 92
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=27.18 E-value=40 Score=33.37 Aligned_cols=46 Identities=9% Similarity=0.235 Sum_probs=33.1
Q ss_pred CCCCccCccccccccCCCccccc-------ccchhhhhcCCCCCCCCCCCCCch
Q 024764 203 AGADQCCVICKEEMGGGRDVCSG-------SLLMMFLERSNGCGTLSLKRAAAA 249 (263)
Q Consensus 203 ~~~~~eCaIClEEf~~Ge~v~~L-------H~I~pWL~~~nTCPvCR~eLptdD 249 (263)
..+...|+||+..-.. +.|+.. -+|...+..++.||+=-++...++
T Consensus 297 ~~~~~~CpvClk~r~N-ptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v~~ 349 (357)
T KOG0826|consen 297 PPDREVCPVCLKKRQN-PTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASVDH 349 (357)
T ss_pred CCccccChhHHhccCC-CceEEecceEEeHHHHHHHHHhcCCCCccCCcchHHH
Confidence 3457889999987654 444444 129999999999999776665544
No 93
>cd02970 PRX_like2 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these proteins do not contain the other two residues of the catalytic triad of PRX. PRXs confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. TRXs alter the redox state of target proteins by catalyzing the reduction of their disulfide bonds via the CXXC motif using reducing equivalents derived from either NADPH or ferredoxins.
Probab=26.85 E-value=11 Score=29.27 Aligned_cols=20 Identities=20% Similarity=0.169 Sum_probs=13.2
Q ss_pred CCCCCCCCCCCCCchhhhhc
Q 024764 235 SNGCGTLSLKRAAAAVLMEN 254 (263)
Q Consensus 235 ~nTCPvCR~eLptdD~~~E~ 254 (263)
...||.|+.+++.=...+++
T Consensus 33 ~~~Cp~C~~~~~~l~~~~~~ 52 (149)
T cd02970 33 GFGCPFCREYLRALSKLLPE 52 (149)
T ss_pred CCCChhHHHHHHHHHHHHHH
Confidence 45677777777776665544
No 94
>COG0526 TrxA Thiol-disulfide isomerase and thioredoxins [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]
Probab=26.02 E-value=20 Score=24.64 Aligned_cols=22 Identities=14% Similarity=0.083 Sum_probs=17.3
Q ss_pred CCCCCCCCCCCCCchhhhhcCC
Q 024764 235 SNGCGTLSLKRAAAAVLMENDN 256 (263)
Q Consensus 235 ~nTCPvCR~eLptdD~~~E~~~ 256 (263)
...||.|+...|.-+...+...
T Consensus 41 ~~~C~~C~~~~~~l~~~~~~~~ 62 (127)
T COG0526 41 APWCPPCRAEAPLLEELAEEYG 62 (127)
T ss_pred cCcCHHHHhhchhHHHHHHHhc
Confidence 7889999988888777776654
No 95
>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=22.96 E-value=53 Score=24.64 Aligned_cols=18 Identities=11% Similarity=0.093 Sum_probs=14.8
Q ss_pred hcCCCCCCCCCCCCCchh
Q 024764 233 ERSNGCGTLSLKRAAAAV 250 (263)
Q Consensus 233 ~~~nTCPvCR~eLptdD~ 250 (263)
|.|..||+|-.++|.+..
T Consensus 1 e~HkHC~~CG~~Ip~~~~ 18 (59)
T PF09889_consen 1 EPHKHCPVCGKPIPPDES 18 (59)
T ss_pred CCCCcCCcCCCcCCcchh
Confidence 468999999999997643
No 96
>PF13764 E3_UbLigase_R4: E3 ubiquitin-protein ligase UBR4
Probab=22.41 E-value=47 Score=35.91 Aligned_cols=33 Identities=15% Similarity=0.393 Sum_probs=26.3
Q ss_pred CCCchhhHHHHHcCCceecCCCCccCcccccccc
Q 024764 184 GRDVAAAVAAVVRLPSVDGAGADQCCVICKEEMG 217 (263)
Q Consensus 184 Gg~pPASkaaI~aLP~V~i~~~~~eCaIClEEf~ 217 (263)
+|..-++...++.++.+. .+++..|.||+|-|.
T Consensus 447 ~G~v~~~~~~l~~~~~l~-ee~gl~C~ICrEGy~ 479 (802)
T PF13764_consen 447 KGQVVVSSSILQNMEDLE-EEDGLTCCICREGYK 479 (802)
T ss_pred ccceecCchhhcCccccc-ccCCCeEEEcCCccc
Confidence 356667778888888886 366889999999995
No 97
>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=21.87 E-value=26 Score=30.27 Aligned_cols=15 Identities=20% Similarity=0.532 Sum_probs=12.6
Q ss_pred CccCccccccccCCC
Q 024764 206 DQCCVICKEEMGGGR 220 (263)
Q Consensus 206 ~~eCaIClEEf~~Ge 220 (263)
..||+||.+....++
T Consensus 26 ~~EC~IC~~~I~~~~ 40 (134)
T PF05883_consen 26 TVECQICFDRIDNND 40 (134)
T ss_pred CeeehhhhhhhhcCC
Confidence 679999999998833
No 98
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=21.65 E-value=39 Score=30.21 Aligned_cols=43 Identities=21% Similarity=0.305 Sum_probs=31.1
Q ss_pred CccCccccccccCCC--c---c--ccc-----cc--chhhhh--cCCCCCCCCCCCCCc
Q 024764 206 DQCCVICKEEMGGGR--D---V--CSG-----SL--LMMFLE--RSNGCGTLSLKRAAA 248 (263)
Q Consensus 206 ~~eCaIClEEf~~Ge--~---v--~~L-----H~--I~pWL~--~~nTCPvCR~eLptd 248 (263)
+..|-||.++..... . . |.- |. +..|+. ..++|.+|.......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 578999999876432 1 1 111 66 999998 889999999866554
No 99
>PF14327 CSTF2_hinge: Hinge domain of cleavage stimulation factor subunit 2; PDB: 4EBA_G.
Probab=21.04 E-value=51 Score=25.59 Aligned_cols=50 Identities=18% Similarity=0.283 Sum_probs=38.9
Q ss_pred HHHHHHhhccCCccchhhHHHHHHhhHHhhhhhhhhhcchhhHHHHHHHh
Q 024764 5 TIIISALSTLTPNKLKDLTHTILSLSDHWRRRLSAVISSPILFSLTLHHL 54 (263)
Q Consensus 5 ~~i~~als~l~~~~~~~l~~~~~s~~~~~~~rl~~~l~sp~~fs~~l~~l 54 (263)
-.|-..|++++++|+-++...+=....+...+.-.+|..=+-++.+|-|.
T Consensus 17 ~~Is~~l~~l~~~ql~ell~~mK~l~~~~p~~ar~lL~~nPqLa~Al~qa 66 (84)
T PF14327_consen 17 DAISQTLSSLPPEQLYELLSQMKQLAQQNPEQARQLLQQNPQLAYALFQA 66 (84)
T ss_dssp HHHHTTSSTSHHHHHHHHHHHHHHHHC----HHHHHHHS-THHHHHHHHH
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHHHHHhCHHHHHHHHHHCcHHHHHHHHH
Confidence 46888999999999999999998888888888888998888888887663
No 100
>TIGR01367 pyrE_Therm orotate phosphoribosyltransferase, Thermus family. This model represents a distinct clade of orotate phosphoribosyltransferases. Members include the experimentally determined example from Thermus aquaticus and additional examples from Caulobacter crescentus, Helicobacter pylori, Mesorhizobium loti, and related species.
Probab=20.71 E-value=37 Score=29.64 Aligned_cols=17 Identities=18% Similarity=-0.017 Sum_probs=14.4
Q ss_pred CCCCCCCCCCCCCchhh
Q 024764 235 SNGCGTLSLKRAAAAVL 251 (263)
Q Consensus 235 ~nTCPvCR~eLptdD~~ 251 (263)
..-||.|++.+|-+++.
T Consensus 169 ~~~c~~~~~~~~~~~~~ 185 (187)
T TIGR01367 169 SHECPLCLAGIPAEKPG 185 (187)
T ss_pred cccCChhhcCCCCcCCC
Confidence 56799999999988764
No 101
>cd03011 TlpA_like_ScsD_MtbDsbE TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif. The Salmonella typhimurium ScsD is a thioredoxin-like protein which confers copper tolerance to copper-sensitive mutants of E. coli. MtbDsbE has been characterized as an oxidase in vitro, catalyzing the disulfide bond formation of substrates like hirudin. The reduced form of MtbDsbE is more stable than its oxidized form, consistent with an oxidase function. This is in contrast to the function of DsbE from gram-negative bacteria which is a specific reductase of apocytochrome c.
Probab=20.63 E-value=36 Score=25.89 Aligned_cols=20 Identities=10% Similarity=0.208 Sum_probs=15.4
Q ss_pred CCCCCCCCCCCCCchhhhhc
Q 024764 235 SNGCGTLSLKRAAAAVLMEN 254 (263)
Q Consensus 235 ~nTCPvCR~eLptdD~~~E~ 254 (263)
.+.||.|+..++.-...+++
T Consensus 29 ~~~C~~C~~~~~~l~~~~~~ 48 (123)
T cd03011 29 ATWCPVCRFTSPTVNQLAAD 48 (123)
T ss_pred CCcChhhhhhChHHHHHHhh
Confidence 56799999888877766665
No 102
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=20.03 E-value=72 Score=35.12 Aligned_cols=52 Identities=29% Similarity=0.280 Sum_probs=29.0
Q ss_pred cCCCchhhHHHHHHHHHHhHHhhhcCCCCCCCCCCcccccCCChhHHHHHHHHHHhhc
Q 024764 56 SLSLPNKTLLIARHLLFSLQLLTQCFPRAPPPHSSTYQIKRRDHDAVLLLLLLCEVHQ 113 (263)
Q Consensus 56 s~~lp~k~~l~~~~ll~sl~~l~~~~~~~~~~~~~~~~~~~~dlda~llll~~c~~~~ 113 (263)
..+||+-.-||||+-- |+|-..-+-+ --..|+---|-+||+=||--|-|--|
T Consensus 903 ~~~l~qv~tliak~aa---qll~~~~~~e---aIe~~Rka~~~~daarll~qmae~e~ 954 (1189)
T KOG2041|consen 903 RFQLPQVQTLIAKQAA---QLLADANHME---AIEKDRKAGRHLDAARLLSQMAEREQ 954 (1189)
T ss_pred hccchhHHHHHHHHHH---HHHhhcchHH---HHHHhhhcccchhHHHHHHHHhHHHh
Confidence 3478888888988743 3332222100 01123334567888888776666544
Done!