Query 028419
Match_columns 209
No_of_seqs 134 out of 1329
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 11:14:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028419.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028419hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF15227 zf-C3HC4_4: zinc fing 99.0 3.3E-10 7.2E-15 74.7 2.4 35 1-50 8-42 (42)
2 TIGR00599 rad18 DNA repair pro 98.9 1.8E-09 3.9E-14 101.1 4.8 60 1-81 36-95 (397)
3 smart00504 Ubox Modified RING 98.8 3.7E-09 8E-14 73.0 4.2 51 1-72 11-61 (63)
4 KOG0287 Postreplication repair 98.8 3.4E-09 7.4E-14 97.7 3.8 62 1-83 33-94 (442)
5 PF04564 U-box: U-box domain; 98.6 2.5E-08 5.3E-13 72.4 3.7 58 1-78 14-71 (73)
6 COG5432 RAD18 RING-finger-cont 98.6 3.7E-08 8.1E-13 89.5 3.9 54 1-75 35-88 (391)
7 PLN03208 E3 ubiquitin-protein 98.5 7.9E-08 1.7E-12 82.5 4.5 52 1-55 28-79 (193)
8 KOG2177 Predicted E3 ubiquitin 98.5 1.1E-07 2.4E-12 78.2 4.7 58 1-81 23-80 (386)
9 PF13923 zf-C3HC4_2: Zinc fing 98.4 1.9E-07 4.1E-12 59.9 1.8 24 1-24 8-32 (39)
10 PF00097 zf-C3HC4: Zinc finger 98.3 2.3E-07 4.9E-12 59.5 1.9 24 1-24 8-32 (41)
11 PF13920 zf-C3HC4_3: Zinc fing 98.3 3.2E-07 6.9E-12 61.7 2.1 35 2-55 13-48 (50)
12 PF13445 zf-RING_UBOX: RING-ty 98.3 3.7E-07 8E-12 60.9 1.4 22 4-25 14-35 (43)
13 PF13639 zf-RING_2: Ring finge 98.2 3.6E-07 7.7E-12 59.8 1.3 23 3-25 15-37 (44)
14 PF14835 zf-RING_6: zf-RING of 98.2 3.6E-07 7.8E-12 66.1 0.8 48 1-71 17-65 (65)
15 PF14634 zf-RING_5: zinc-RING 98.1 2E-06 4.4E-11 56.6 2.8 31 3-52 14-44 (44)
16 KOG0823 Predicted E3 ubiquitin 98.1 2.1E-06 4.6E-11 75.4 2.6 38 2-55 58-95 (230)
17 cd00162 RING RING-finger (Real 98.0 3.9E-06 8.5E-11 52.5 3.0 33 3-53 11-44 (45)
18 smart00184 RING Ring finger. E 98.0 6.1E-06 1.3E-10 49.9 3.5 22 2-23 9-30 (39)
19 KOG4367 Predicted Zn-finger pr 97.9 1.1E-05 2.5E-10 77.0 4.6 38 43-80 121-161 (699)
20 TIGR00570 cdk7 CDK-activating 97.8 2E-05 4.3E-10 72.1 4.8 30 8-55 25-54 (309)
21 KOG2164 Predicted E3 ubiquitin 97.7 1.7E-05 3.6E-10 76.4 1.9 39 3-55 198-236 (513)
22 KOG4159 Predicted E3 ubiquitin 97.7 2.7E-05 6E-10 73.3 2.9 61 1-80 94-157 (398)
23 KOG2660 Locus-specific chromos 97.6 4.3E-05 9.3E-10 70.3 2.8 55 1-74 25-82 (331)
24 KOG1813 Predicted E3 ubiquitin 97.5 3.4E-05 7.5E-10 70.2 1.7 52 1-77 251-302 (313)
25 KOG0824 Predicted E3 ubiquitin 97.4 7.1E-05 1.5E-09 68.3 2.1 45 2-67 18-62 (324)
26 PF12678 zf-rbx1: RING-H2 zinc 97.2 0.00018 3.8E-09 52.4 2.0 27 6-51 47-73 (73)
27 PF12861 zf-Apc11: Anaphase-pr 96.8 0.0014 3E-08 49.9 3.3 36 4-55 46-82 (85)
28 KOG0802 E3 ubiquitin ligase [P 96.7 0.00092 2E-08 64.8 2.2 32 4-54 309-340 (543)
29 KOG1002 Nucleotide excision re 96.4 0.0013 2.9E-08 64.4 1.6 39 3-55 548-586 (791)
30 KOG4185 Predicted E3 ubiquitin 96.4 0.0023 5.1E-08 56.6 2.9 54 3-74 21-77 (296)
31 KOG0311 Predicted E3 ubiquitin 96.4 0.0019 4E-08 60.3 2.3 30 8-55 61-90 (381)
32 PF11789 zf-Nse: Zinc-finger o 96.4 0.0014 3.1E-08 46.0 1.0 23 1-23 21-44 (57)
33 COG5243 HRD1 HRD ubiquitin lig 96.3 0.002 4.3E-08 60.8 2.0 34 3-55 312-345 (491)
34 COG5222 Uncharacterized conser 96.1 0.0058 1.2E-07 56.5 4.0 56 2-76 285-341 (427)
35 KOG1039 Predicted E3 ubiquitin 95.3 0.0093 2E-07 55.5 2.1 38 6-55 184-221 (344)
36 KOG0297 TNF receptor-associate 95.3 0.011 2.4E-07 55.4 2.5 36 1-55 31-67 (391)
37 KOG4172 Predicted E3 ubiquitin 94.8 0.0088 1.9E-07 42.5 0.3 32 6-55 22-54 (62)
38 KOG1785 Tyrosine kinase negati 94.4 0.021 4.6E-07 54.5 2.0 33 6-55 384-416 (563)
39 KOG0825 PHD Zn-finger protein 94.3 0.021 4.7E-07 58.3 1.7 30 7-55 142-171 (1134)
40 KOG1814 Predicted E3 ubiquitin 94.2 0.05 1.1E-06 51.9 4.0 22 5-26 201-222 (445)
41 KOG4628 Predicted E3 ubiquitin 94.1 0.029 6.3E-07 52.4 2.1 33 5-55 246-278 (348)
42 KOG4739 Uncharacterized protei 93.8 0.019 4.1E-07 50.9 0.2 31 4-55 17-48 (233)
43 PF14447 Prok-RING_4: Prokaryo 93.5 0.024 5.2E-07 40.0 0.3 32 3-55 19-50 (55)
44 KOG2932 E3 ubiquitin ligase in 93.0 0.032 6.8E-07 51.8 0.3 29 6-55 106-134 (389)
45 KOG1001 Helicase-like transcri 92.4 0.06 1.3E-06 54.1 1.4 37 2-55 464-500 (674)
46 KOG3800 Predicted E3 ubiquitin 92.2 0.21 4.6E-06 45.7 4.6 30 8-55 22-51 (300)
47 PF03854 zf-P11: P-11 zinc fin 91.0 0.084 1.8E-06 36.4 0.5 31 6-55 15-46 (50)
48 KOG0804 Cytoplasmic Zn-finger 90.2 0.11 2.4E-06 50.1 0.7 19 5-23 193-211 (493)
49 KOG1734 Predicted RING-contain 89.9 0.099 2.2E-06 47.8 0.1 34 5-55 248-281 (328)
50 PF14570 zf-RING_4: RING/Ubox 89.6 0.31 6.6E-06 33.4 2.3 29 8-54 19-47 (48)
51 KOG0827 Predicted E3 ubiquitin 88.6 0.37 8E-06 46.0 2.9 31 8-54 25-55 (465)
52 PF04641 Rtf2: Rtf2 RING-finge 87.5 0.57 1.2E-05 41.5 3.3 29 7-55 133-161 (260)
53 KOG1493 Anaphase-promoting com 87.2 0.28 6.1E-06 37.0 1.0 35 4-54 45-80 (84)
54 COG5236 Uncharacterized conser 86.4 0.47 1E-05 45.0 2.2 33 5-54 75-107 (493)
55 COG5194 APC11 Component of SCF 85.9 0.68 1.5E-05 35.3 2.5 33 4-55 48-81 (88)
56 PHA03096 p28-like protein; Pro 85.0 0.65 1.4E-05 42.3 2.4 20 7-26 202-221 (284)
57 KOG1645 RING-finger-containing 82.6 0.74 1.6E-05 44.2 1.8 33 5-54 23-55 (463)
58 KOG3899 Uncharacterized conser 80.9 0.86 1.9E-05 42.3 1.5 41 9-55 325-365 (381)
59 PF05290 Baculo_IE-1: Baculovi 80.5 1.5 3.4E-05 36.2 2.7 31 9-55 102-132 (140)
60 KOG1941 Acetylcholine receptor 80.1 1 2.3E-05 43.2 1.8 29 7-52 385-413 (518)
61 smart00744 RINGv The RING-vari 79.9 2.2 4.8E-05 28.8 2.9 32 3-51 13-49 (49)
62 KOG3161 Predicted E3 ubiquitin 79.7 1.9 4.2E-05 43.7 3.6 21 3-23 27-47 (861)
63 KOG4362 Transcriptional regula 79.4 0.88 1.9E-05 46.0 1.2 38 2-55 32-69 (684)
64 KOG1812 Predicted E3 ubiquitin 76.7 2.4 5.3E-05 39.9 3.2 20 6-25 165-184 (384)
65 KOG2930 SCF ubiquitin ligase, 75.3 2.6 5.6E-05 33.6 2.5 27 8-53 80-106 (114)
66 KOG3039 Uncharacterized conser 74.0 2.3 5E-05 38.7 2.2 32 5-55 239-270 (303)
67 KOG1428 Inhibitor of type V ad 72.2 4.2 9E-05 45.3 3.8 43 4-55 3502-3544(3738)
68 PF06844 DUF1244: Protein of u 71.0 2.5 5.4E-05 31.0 1.4 15 12-26 11-25 (68)
69 COG5220 TFB3 Cdk activating ki 67.6 3 6.5E-05 37.9 1.5 30 8-55 32-64 (314)
70 KOG3039 Uncharacterized conser 65.7 2.9 6.3E-05 38.0 1.0 26 1-26 53-78 (303)
71 KOG3970 Predicted E3 ubiquitin 64.5 16 0.00034 33.1 5.3 42 3-55 64-105 (299)
72 COG5175 MOT2 Transcriptional r 64.3 7.4 0.00016 37.0 3.4 30 8-55 35-64 (480)
73 PF09538 FYDLN_acid: Protein o 62.8 3.6 7.8E-05 32.4 0.9 28 12-55 10-37 (108)
74 PF10446 DUF2457: Protein of u 62.5 8.5 0.00018 37.4 3.5 8 60-67 25-32 (458)
75 PF10497 zf-4CXXC_R1: Zinc-fin 62.2 5.1 0.00011 31.3 1.7 35 10-54 37-71 (105)
76 KOG3799 Rab3 effector RIM1 and 60.3 4.6 9.9E-05 33.8 1.2 38 9-54 80-117 (169)
77 KOG3002 Zn finger protein [Gen 60.1 6.4 0.00014 36.1 2.2 38 10-74 68-105 (299)
78 PF11793 FANCL_C: FANCL C-term 60.1 2 4.3E-05 30.9 -0.9 40 8-55 27-66 (70)
79 KOG0298 DEAD box-containing he 58.8 7.8 0.00017 42.1 2.8 34 5-57 1168-1201(1394)
80 COG3813 Uncharacterized protei 56.6 11 0.00024 28.3 2.6 25 10-55 28-52 (84)
81 PF05502 Dynactin_p62: Dynacti 56.1 2.7 5.9E-05 40.8 -1.0 37 12-55 27-63 (483)
82 KOG4185 Predicted E3 ubiquitin 54.8 3.5 7.6E-05 36.5 -0.4 33 3-53 225-265 (296)
83 KOG2169 Zn-finger transcriptio 54.3 6.9 0.00015 39.2 1.5 58 5-76 316-375 (636)
84 KOG1815 Predicted E3 ubiquitin 52.6 8.3 0.00018 36.7 1.7 22 5-26 85-106 (444)
85 PF10083 DUF2321: Uncharacteri 52.0 10 0.00022 32.0 2.0 23 11-55 28-50 (158)
86 KOG0825 PHD Zn-finger protein 51.6 8 0.00017 40.4 1.5 35 8-55 120-154 (1134)
87 COG3492 Uncharacterized protei 51.5 9.3 0.0002 29.9 1.5 15 12-26 42-56 (104)
88 KOG1832 HIV-1 Vpr-binding prot 48.3 25 0.00053 37.7 4.4 31 163-199 1478-1508(1516)
89 KOG1940 Zn-finger protein [Gen 46.3 14 0.00031 33.7 2.1 32 2-52 173-204 (276)
90 KOG4445 Uncharacterized conser 45.2 3.7 8E-05 38.3 -1.8 50 5-55 132-186 (368)
91 KOG2114 Vacuolar assembly/sort 40.8 25 0.00055 36.9 3.1 14 6-19 856-869 (933)
92 COG4306 Uncharacterized protei 39.3 20 0.00043 29.7 1.7 22 12-55 29-50 (160)
93 PF04710 Pellino: Pellino; In 37.7 11 0.00024 36.2 0.0 40 6-55 362-401 (416)
94 KOG3842 Adaptor protein Pellin 37.0 24 0.00053 33.3 2.2 39 7-55 376-414 (429)
95 PF02891 zf-MIZ: MIZ/SP-RING z 35.9 25 0.00055 23.7 1.6 9 44-52 41-49 (50)
96 PF06906 DUF1272: Protein of u 34.1 38 0.00082 24.1 2.2 24 11-55 29-52 (57)
97 PF04931 DNA_pol_phi: DNA poly 32.1 54 0.0012 33.5 3.9 10 66-75 624-633 (784)
98 PHA02862 5L protein; Provision 31.5 37 0.00081 28.6 2.2 24 15-55 30-53 (156)
99 PF09297 zf-NADH-PPase: NADH p 31.4 5.2 0.00011 24.4 -2.2 27 11-52 3-29 (32)
100 PF07975 C1_4: TFIIH C1-like d 31.1 28 0.00062 24.0 1.2 12 8-19 26-37 (51)
101 KOG3053 Uncharacterized conser 30.9 39 0.00085 31.0 2.4 31 14-55 52-82 (293)
102 PF06524 NOA36: NOA36 protein; 30.9 43 0.00094 30.9 2.7 13 43-55 208-220 (314)
103 KOG3475 60S ribosomal protein 30.8 25 0.00055 27.0 1.0 27 10-54 15-41 (92)
104 KOG2042 Ubiquitin fusion degra 30.6 71 0.0015 33.9 4.5 59 1-80 880-939 (943)
105 COG4647 AcxC Acetone carboxyla 27.5 27 0.00059 29.1 0.7 11 44-54 120-130 (165)
106 PF10272 Tmpp129: Putative tra 27.1 33 0.00071 32.4 1.3 25 31-55 327-351 (358)
107 PF10235 Cript: Microtubule-as 26.5 25 0.00054 27.1 0.3 23 10-55 58-80 (90)
108 COG2816 NPY1 NTP pyrophosphohy 26.4 13 0.00028 34.0 -1.5 30 10-54 110-139 (279)
109 PRK04179 rpl37e 50S ribosomal 24.7 18 0.00039 26.2 -0.7 25 10-52 16-40 (62)
110 PF06676 DUF1178: Protein of u 23.6 21 0.00044 29.8 -0.7 12 43-54 31-42 (148)
111 smart00647 IBR In Between Ring 23.5 8.5 0.00018 25.8 -2.5 14 8-21 45-58 (64)
112 KOG2068 MOT2 transcription fac 23.3 45 0.00097 31.3 1.4 30 7-55 269-298 (327)
113 PRK09537 pylS pyrolysyl-tRNA s 22.7 22 0.00048 34.2 -0.7 22 32-53 54-75 (417)
114 PF04423 Rad50_zn_hook: Rad50 22.3 30 0.00065 23.3 0.1 10 46-55 22-31 (54)
115 KOG3241 Uncharacterized conser 21.9 1.1E+02 0.0024 26.8 3.4 10 14-23 70-79 (227)
116 KOG1812 Predicted E3 ubiquitin 21.8 41 0.00088 31.8 0.8 21 5-25 325-345 (384)
117 PHA02825 LAP/PHD finger-like p 21.2 74 0.0016 27.1 2.2 24 15-55 36-59 (162)
118 cd00065 FYVE FYVE domain; Zinc 21.1 35 0.00076 22.5 0.2 16 8-23 23-38 (57)
No 1
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.96 E-value=3.3e-10 Score=74.73 Aligned_cols=35 Identities=43% Similarity=1.088 Sum_probs=25.3
Q ss_pred CCCCeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCC
Q 028419 1 MAQPVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSC 50 (209)
Q Consensus 1 f~dPV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~C 50 (209)
|.+||+|+|||+||..||.++|.... ...+.||.|
T Consensus 8 ~~~Pv~l~CGH~FC~~Cl~~~~~~~~---------------~~~~~CP~C 42 (42)
T PF15227_consen 8 FKDPVSLPCGHSFCRSCLERLWKEPS---------------GSGFSCPEC 42 (42)
T ss_dssp -SSEEE-SSSSEEEHHHHHHHHCCSS---------------SST---SSS
T ss_pred hCCccccCCcCHHHHHHHHHHHHccC---------------CcCCCCcCC
Confidence 68999999999999999999998654 112789988
No 2
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.87 E-value=1.8e-09 Score=101.11 Aligned_cols=60 Identities=30% Similarity=0.607 Sum_probs=50.1
Q ss_pred CCCCeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccccCcCCCcccHHHHHHHHHHHhcCCc
Q 028419 1 MAQPVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDISDFLKDPQVNRELMEVIESLKQKTEE 80 (209)
Q Consensus 1 f~dPV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~~~~~~~~~N~~L~~Lve~lk~~~~~ 80 (209)
|..||+++|||+||..||..++... ..||.|+..+. ...+..|+.|.+||+.|+..+..
T Consensus 36 ~~~PvitpCgH~FCs~CI~~~l~~~-------------------~~CP~Cr~~~~--~~~Lr~N~~L~~iVe~~~~~R~~ 94 (397)
T TIGR00599 36 FDVPVLTSCSHTFCSLCIRRCLSNQ-------------------PKCPLCRAEDQ--ESKLRSNWLVSEIVESFKNLRPS 94 (397)
T ss_pred hhCccCCCCCCchhHHHHHHHHhCC-------------------CCCCCCCCccc--cccCccchHHHHHHHHHHHhhHH
Confidence 5689999999999999999998743 27999999887 45788999999999999765544
Q ss_pred c
Q 028419 81 D 81 (209)
Q Consensus 81 ~ 81 (209)
.
T Consensus 95 L 95 (397)
T TIGR00599 95 L 95 (397)
T ss_pred H
Confidence 3
No 3
>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=98.83 E-value=3.7e-09 Score=72.97 Aligned_cols=51 Identities=20% Similarity=0.289 Sum_probs=43.3
Q ss_pred CCCCeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccccCcCCCcccHHHHHHHH
Q 028419 1 MAQPVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDISDFLKDPQVNRELMEVIE 72 (209)
Q Consensus 1 f~dPV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~~~~~~~~~N~~L~~Lve 72 (209)
|.+||+++|||+||+.||..|+... ..||.|+..+. ...+..|..|++.+.
T Consensus 11 ~~~Pv~~~~G~v~~~~~i~~~~~~~-------------------~~cP~~~~~~~--~~~l~~~~~l~~~i~ 61 (63)
T smart00504 11 MKDPVILPSGQTYERRAIEKWLLSH-------------------GTDPVTGQPLT--HEDLIPNLALKSAIQ 61 (63)
T ss_pred CCCCEECCCCCEEeHHHHHHHHHHC-------------------CCCCCCcCCCC--hhhceeCHHHHHHHH
Confidence 5789999999999999999999743 37999999886 467788888888775
No 4
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.79 E-value=3.4e-09 Score=97.70 Aligned_cols=62 Identities=32% Similarity=0.669 Sum_probs=52.4
Q ss_pred CCCCeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccccCcCCCcccHHHHHHHHHHHhcCCc
Q 028419 1 MAQPVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDISDFLKDPQVNRELMEVIESLKQKTEE 80 (209)
Q Consensus 1 f~dPV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~~~~~~~~~N~~L~~Lve~lk~~~~~ 80 (209)
|..|++|||+|+||..||+.++..++ .||.|+..++ ...++-|+.|..||..|...+..
T Consensus 33 f~ip~itpCsHtfCSlCIR~~L~~~p-------------------~CP~C~~~~~--Es~Lr~n~il~Eiv~S~~~~R~~ 91 (442)
T KOG0287|consen 33 FNIPMITPCSHTFCSLCIRKFLSYKP-------------------QCPTCCVTVT--ESDLRNNRILDEIVKSLNFARNH 91 (442)
T ss_pred hcCceeccccchHHHHHHHHHhccCC-------------------CCCceecccc--hhhhhhhhHHHHHHHHHHHHHHH
Confidence 66899999999999999999998776 8999999988 46778899999999888766555
Q ss_pred chh
Q 028419 81 DDE 83 (209)
Q Consensus 81 ~~~ 83 (209)
...
T Consensus 92 Ll~ 94 (442)
T KOG0287|consen 92 LLQ 94 (442)
T ss_pred HHH
Confidence 433
No 5
>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=98.64 E-value=2.5e-08 Score=72.40 Aligned_cols=58 Identities=26% Similarity=0.298 Sum_probs=46.5
Q ss_pred CCCCeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccccCcCCCcccHHHHHHHHHHHhcC
Q 028419 1 MAQPVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDISDFLKDPQVNRELMEVIESLKQKT 78 (209)
Q Consensus 1 f~dPV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~~~~~~~~~N~~L~~Lve~lk~~~ 78 (209)
|.+||+++|||+|++.||..|+... ...||.|+..+. ...+.+|..|+..|..|.+.+
T Consensus 14 M~dPVi~~~G~tyer~~I~~~l~~~------------------~~~~P~t~~~l~--~~~l~pn~~Lk~~I~~~~~~~ 71 (73)
T PF04564_consen 14 MRDPVILPSGHTYERSAIERWLEQN------------------GGTDPFTRQPLS--ESDLIPNRALKSAIEEWCAEN 71 (73)
T ss_dssp -SSEEEETTSEEEEHHHHHHHHCTT------------------SSB-TTT-SB-S--GGGSEE-HHHHHHHHHHHHHC
T ss_pred hhCceeCCcCCEEcHHHHHHHHHcC------------------CCCCCCCCCcCC--cccceECHHHHHHHHHHHHHc
Confidence 6799999999999999999999852 248999999887 568899999999999998765
No 6
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.58 E-value=3.7e-08 Score=89.51 Aligned_cols=54 Identities=26% Similarity=0.549 Sum_probs=41.1
Q ss_pred CCCCeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccccCcCCCcccHHHHHHHHHHH
Q 028419 1 MAQPVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDISDFLKDPQVNRELMEVIESLK 75 (209)
Q Consensus 1 f~dPV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~~~~~~~~~N~~L~~Lve~lk 75 (209)
|..|+.++|||+||..||..++..+. .||+||...+ ...++-+..+..+++.|.
T Consensus 35 i~ip~~TtCgHtFCslCIR~hL~~qp-------------------~CP~Cr~~~~--esrlr~~s~~~ei~es~~ 88 (391)
T COG5432 35 ISIPCETTCGHTFCSLCIRRHLGTQP-------------------FCPVCREDPC--ESRLRGSSGSREINESHA 88 (391)
T ss_pred eecceecccccchhHHHHHHHhcCCC-------------------CCccccccHH--hhhcccchhHHHHHHhhh
Confidence 46799999999999999999998776 7999999876 234444545555555443
No 7
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.54 E-value=7.9e-08 Score=82.50 Aligned_cols=52 Identities=31% Similarity=0.652 Sum_probs=35.9
Q ss_pred CCCCeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 1 MAQPVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 1 f~dPV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
+.+||+++|||.||..||..|+......+++. .+.+..+....||.||..+.
T Consensus 28 ~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~---~~~~~~k~~~~CPvCR~~Is 79 (193)
T PLN03208 28 VRDPVVTLCGHLFCWPCIHKWTYASNNSRQRV---DQYDHKREPPKCPVCKSDVS 79 (193)
T ss_pred CCCcEEcCCCchhHHHHHHHHHHhcccccccc---ccccccCCCCcCCCCCCcCC
Confidence 46899999999999999999886432111111 11122345679999999876
No 8
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.52 E-value=1.1e-07 Score=78.24 Aligned_cols=58 Identities=33% Similarity=0.755 Sum_probs=47.7
Q ss_pred CCCCeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccccCcCCCcccHHHHHHHHHHHhcCCc
Q 028419 1 MAQPVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDISDFLKDPQVNRELMEVIESLKQKTEE 80 (209)
Q Consensus 1 f~dPV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~~~~~~~~~N~~L~~Lve~lk~~~~~ 80 (209)
|.+|++++|||+||..|+..+|. . .+.||.||. .. ..+..|..+.+++..++.....
T Consensus 23 ~~~p~~l~C~H~~c~~C~~~~~~--~-----------------~~~Cp~cr~-~~---~~~~~n~~l~~~~~~~~~~~~~ 79 (386)
T KOG2177|consen 23 FREPVLLPCGHNFCRACLTRSWE--G-----------------PLSCPVCRP-PS---RNLRPNVLLANLVERLRQLRLS 79 (386)
T ss_pred hhcCccccccchHhHHHHHHhcC--C-----------------CcCCcccCC-ch---hccCccHHHHHHHHHHHhcCCc
Confidence 56888999999999999999987 2 368999996 33 2666899999999999887655
Q ss_pred c
Q 028419 81 D 81 (209)
Q Consensus 81 ~ 81 (209)
.
T Consensus 80 ~ 80 (386)
T KOG2177|consen 80 R 80 (386)
T ss_pred c
Confidence 4
No 9
>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=98.36 E-value=1.9e-07 Score=59.91 Aligned_cols=24 Identities=46% Similarity=1.151 Sum_probs=20.5
Q ss_pred CCCC-eEcCCCChhHHHHHHHHHhc
Q 028419 1 MAQP-VTTPCAHNFCKSCLEEAFSG 24 (209)
Q Consensus 1 f~dP-V~LpCGH~FC~~CL~~~~~~ 24 (209)
+.+| +.++|||.||..|+.+++..
T Consensus 8 ~~~~~~~~~CGH~fC~~C~~~~~~~ 32 (39)
T PF13923_consen 8 LRDPVVVTPCGHSFCKECIEKYLEK 32 (39)
T ss_dssp -SSEEEECTTSEEEEHHHHHHHHHC
T ss_pred ccCcCEECCCCCchhHHHHHHHHHC
Confidence 4578 57899999999999999885
No 10
>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=98.34 E-value=2.3e-07 Score=59.47 Aligned_cols=24 Identities=38% Similarity=1.043 Sum_probs=21.1
Q ss_pred CCCCe-EcCCCChhHHHHHHHHHhc
Q 028419 1 MAQPV-TTPCAHNFCKSCLEEAFSG 24 (209)
Q Consensus 1 f~dPV-~LpCGH~FC~~CL~~~~~~ 24 (209)
|..|+ +++|||.||..||..++..
T Consensus 8 ~~~~~~~~~C~H~fC~~C~~~~~~~ 32 (41)
T PF00097_consen 8 FEDPVILLPCGHSFCRDCLRKWLEN 32 (41)
T ss_dssp CSSEEEETTTSEEEEHHHHHHHHHH
T ss_pred ccCCCEEecCCCcchHHHHHHHHHh
Confidence 45677 8999999999999999985
No 11
>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=98.31 E-value=3.2e-07 Score=61.66 Aligned_cols=35 Identities=40% Similarity=0.886 Sum_probs=29.1
Q ss_pred CCCeEcCCCCh-hHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 2 AQPVTTPCAHN-FCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 2 ~dPV~LpCGH~-FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
..++++||||. ||..|+.+++... ..||.||..+.
T Consensus 13 ~~~~~~pCgH~~~C~~C~~~~~~~~-------------------~~CP~Cr~~i~ 48 (50)
T PF13920_consen 13 RDVVLLPCGHLCFCEECAERLLKRK-------------------KKCPICRQPIE 48 (50)
T ss_dssp SSEEEETTCEEEEEHHHHHHHHHTT-------------------SBBTTTTBB-S
T ss_pred CceEEeCCCChHHHHHHhHHhcccC-------------------CCCCcCChhhc
Confidence 45788999999 9999999999843 38999999765
No 12
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.25 E-value=3.7e-07 Score=60.86 Aligned_cols=22 Identities=41% Similarity=1.014 Sum_probs=17.9
Q ss_pred CeEcCCCChhHHHHHHHHHhcC
Q 028419 4 PVTTPCAHNFCKSCLEEAFSGK 25 (209)
Q Consensus 4 PV~LpCGH~FC~~CL~~~~~~~ 25 (209)
|++|+|||+||+.||.+++...
T Consensus 14 P~~L~CGH~~c~~cl~~l~~~~ 35 (43)
T PF13445_consen 14 PMVLPCGHVFCKDCLQKLSKKS 35 (43)
T ss_dssp EEE-SSS-EEEHHHHHHHHHH-
T ss_pred CEEEeCccHHHHHHHHHHHhcC
Confidence 9999999999999999999844
No 13
>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=98.25 E-value=3.6e-07 Score=59.78 Aligned_cols=23 Identities=35% Similarity=0.772 Sum_probs=19.9
Q ss_pred CCeEcCCCChhHHHHHHHHHhcC
Q 028419 3 QPVTTPCAHNFCKSCLEEAFSGK 25 (209)
Q Consensus 3 dPV~LpCGH~FC~~CL~~~~~~~ 25 (209)
.++.++|||.||..||..|+...
T Consensus 15 ~~~~l~C~H~fh~~Ci~~~~~~~ 37 (44)
T PF13639_consen 15 KVVKLPCGHVFHRSCIKEWLKRN 37 (44)
T ss_dssp CEEEETTSEEEEHHHHHHHHHHS
T ss_pred eEEEccCCCeeCHHHHHHHHHhC
Confidence 45778999999999999999754
No 14
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.21 E-value=3.6e-07 Score=66.08 Aligned_cols=48 Identities=38% Similarity=0.852 Sum_probs=25.5
Q ss_pred CCCCeE-cCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccccCcCCCcccHHHHHHH
Q 028419 1 MAQPVT-TPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDISDFLKDPQVNRELMEVI 71 (209)
Q Consensus 1 f~dPV~-LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~~~~~~~~~N~~L~~Lv 71 (209)
|..||. ..|.|.||+.|+...+. ..||+|+.+.. ..+++.|+.|.+||
T Consensus 17 l~~pv~l~~CeH~fCs~Ci~~~~~---------------------~~CPvC~~Paw--~qD~~~NrqLd~~i 65 (65)
T PF14835_consen 17 LKEPVCLGGCEHIFCSSCIRDCIG---------------------SECPVCHTPAW--IQDIQINRQLDSMI 65 (65)
T ss_dssp -SS-B---SSS--B-TTTGGGGTT---------------------TB-SSS--B-S---SS----HHHHHHH
T ss_pred hcCCceeccCccHHHHHHhHHhcC---------------------CCCCCcCChHH--HHHHHhhhhhhccC
Confidence 468986 57999999999976543 25999999876 67899999998875
No 15
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.12 E-value=2e-06 Score=56.58 Aligned_cols=31 Identities=39% Similarity=0.959 Sum_probs=25.6
Q ss_pred CCeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCcc
Q 028419 3 QPVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTT 52 (209)
Q Consensus 3 dPV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~ 52 (209)
.|++|+|||+||..|+..+.. ....||.|++
T Consensus 14 ~~~l~~CgH~~C~~C~~~~~~-------------------~~~~CP~C~k 44 (44)
T PF14634_consen 14 RPRLTSCGHIFCEKCLKKLKG-------------------KSVKCPICRK 44 (44)
T ss_pred CeEEcccCCHHHHHHHHhhcC-------------------CCCCCcCCCC
Confidence 578899999999999998771 2358999974
No 16
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.06 E-value=2.1e-06 Score=75.38 Aligned_cols=38 Identities=34% Similarity=0.824 Sum_probs=33.1
Q ss_pred CCCeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 2 AQPVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 2 ~dPV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
.+||++.|||-||.-||.+|+..+. ....||+|+..+.
T Consensus 58 kdPVvTlCGHLFCWpClyqWl~~~~----------------~~~~cPVCK~~Vs 95 (230)
T KOG0823|consen 58 KDPVVTLCGHLFCWPCLYQWLQTRP----------------NSKECPVCKAEVS 95 (230)
T ss_pred CCCEEeecccceehHHHHHHHhhcC----------------CCeeCCccccccc
Confidence 4899999999999999999998765 4567899999775
No 17
>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=98.05 E-value=3.9e-06 Score=52.54 Aligned_cols=33 Identities=36% Similarity=0.910 Sum_probs=26.1
Q ss_pred CCeEcC-CCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccc
Q 028419 3 QPVTTP-CAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTD 53 (209)
Q Consensus 3 dPV~Lp-CGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~ 53 (209)
.++.++ |||.||..|+..|+... ...||.|+..
T Consensus 11 ~~~~~~~C~H~~c~~C~~~~~~~~------------------~~~Cp~C~~~ 44 (45)
T cd00162 11 EPVVLLPCGHVFCRSCIDKWLKSG------------------KNTCPLCRTP 44 (45)
T ss_pred CceEecCCCChhcHHHHHHHHHhC------------------cCCCCCCCCc
Confidence 456655 99999999999998742 3479999874
No 18
>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=98.03 E-value=6.1e-06 Score=49.87 Aligned_cols=22 Identities=41% Similarity=1.121 Sum_probs=20.0
Q ss_pred CCCeEcCCCChhHHHHHHHHHh
Q 028419 2 AQPVTTPCAHNFCKSCLEEAFS 23 (209)
Q Consensus 2 ~dPV~LpCGH~FC~~CL~~~~~ 23 (209)
..++.++|||.||..|+..|+.
T Consensus 9 ~~~~~~~C~H~~c~~C~~~~~~ 30 (39)
T smart00184 9 KDPVVLPCGHTFCRSCIRKWLK 30 (39)
T ss_pred CCcEEecCCChHHHHHHHHHHH
Confidence 4688899999999999999987
No 19
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=97.90 E-value=1.1e-05 Score=76.97 Aligned_cols=38 Identities=26% Similarity=0.461 Sum_probs=31.1
Q ss_pred CcccCCCCccccc---cCcCCCcccHHHHHHHHHHHhcCCc
Q 028419 43 TIMKCPSCTTDIS---DFLKDPQVNRELMEVIESLKQKTEE 80 (209)
Q Consensus 43 ~~~~CP~CR~~i~---~~~~~~~~N~~L~~Lve~lk~~~~~ 80 (209)
..++||.|.+.+. +++..++.|+.|.++|.+|++....
T Consensus 121 ~~i~c~~c~rs~~~dd~~l~~~p~n~~le~vi~ryq~s~~a 161 (699)
T KOG4367|consen 121 SCITCPQCHRSLILDDRGLRGFPKNRVLEGVIDRYQQSKAA 161 (699)
T ss_pred ceEEcchhhhheEecccccccCchhhHHHHHHHHHhhhhHH
Confidence 3688999998764 5678889999999999999876544
No 20
>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=97.84 E-value=2e-05 Score=72.05 Aligned_cols=30 Identities=33% Similarity=0.883 Sum_probs=25.7
Q ss_pred CCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 8 PCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 8 pCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
+|||.||..|+..+|... ...||.|+..+.
T Consensus 25 ~CGH~~C~sCv~~l~~~~------------------~~~CP~C~~~lr 54 (309)
T TIGR00570 25 VCGHTLCESCVDLLFVRG------------------SGSCPECDTPLR 54 (309)
T ss_pred CCCCcccHHHHHHHhcCC------------------CCCCCCCCCccc
Confidence 799999999999998632 347999999887
No 21
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.68 E-value=1.7e-05 Score=76.41 Aligned_cols=39 Identities=33% Similarity=0.761 Sum_probs=32.1
Q ss_pred CCeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 3 QPVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 3 dPV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
-|+.+.|||.||..||.++|.... ......||.|+..|.
T Consensus 198 ~p~~t~CGHiFC~~CiLqy~~~s~--------------~~~~~~CPiC~s~I~ 236 (513)
T KOG2164|consen 198 VPVRTNCGHIFCGPCILQYWNYSA--------------IKGPCSCPICRSTIT 236 (513)
T ss_pred cccccccCceeeHHHHHHHHhhhc--------------ccCCccCCchhhhcc
Confidence 467788999999999999998653 234578999999876
No 22
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.66 E-value=2.7e-05 Score=73.32 Aligned_cols=61 Identities=28% Similarity=0.746 Sum_probs=42.2
Q ss_pred CCCCeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccccCcC--CCc-ccHHHHHHHHHHHhc
Q 028419 1 MAQPVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDISDFLK--DPQ-VNRELMEVIESLKQK 77 (209)
Q Consensus 1 f~dPV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~~~~~--~~~-~N~~L~~Lve~lk~~ 77 (209)
|..||++||||+||..||.+...... .||.||..+..+.. ... .|+.+..++..|...
T Consensus 94 l~~pv~tpcghs~c~~Cl~r~ld~~~-------------------~cp~Cr~~l~e~~~~~~~~~~~r~~~~li~~F~~~ 154 (398)
T KOG4159|consen 94 LYPPVVTPCGHSFCLECLDRSLDQET-------------------ECPLCRDELVELPALEQALSLNRLLCKLITKFLEG 154 (398)
T ss_pred cCCCccccccccccHHHHHHHhccCC-------------------CCcccccccccchHHHHHHHHHHHHHHHHHHhhhh
Confidence 56899999999999999998776443 79999998763111 111 355566677666554
Q ss_pred CCc
Q 028419 78 TEE 80 (209)
Q Consensus 78 ~~~ 80 (209)
...
T Consensus 155 ~~~ 157 (398)
T KOG4159|consen 155 SSS 157 (398)
T ss_pred hhc
Confidence 433
No 23
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.57 E-value=4.3e-05 Score=70.26 Aligned_cols=55 Identities=29% Similarity=0.652 Sum_probs=40.4
Q ss_pred CCCCeEc-CCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccccC--cCCCcccHHHHHHHHHH
Q 028419 1 MAQPVTT-PCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDISDF--LKDPQVNRELMEVIESL 74 (209)
Q Consensus 1 f~dPV~L-pCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~~~--~~~~~~N~~L~~Lve~l 74 (209)
|.++-++ -|-|+||+.||..++... ..||.|...+... +..+...++|+.|+-.|
T Consensus 25 liDATTI~eCLHTFCkSCivk~l~~~-------------------~~CP~C~i~ih~t~pl~ni~~DrtlqdiVyKL 82 (331)
T KOG2660|consen 25 LIDATTITECLHTFCKSCIVKYLEES-------------------KYCPTCDIVIHKTHPLLNIRSDRTLQDIVYKL 82 (331)
T ss_pred eecchhHHHHHHHHHHHHHHHHHHHh-------------------ccCCccceeccCccccccCCcchHHHHHHHHH
Confidence 3455555 499999999999999853 3899999887632 44566777787777444
No 24
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.54 E-value=3.4e-05 Score=70.15 Aligned_cols=52 Identities=33% Similarity=0.644 Sum_probs=37.8
Q ss_pred CCCCeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccccCcCCCcccHHHHHHHHHHHhc
Q 028419 1 MAQPVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDISDFLKDPQVNRELMEVIESLKQK 77 (209)
Q Consensus 1 f~dPV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~~~~~~~~~N~~L~~Lve~lk~~ 77 (209)
|..||++.|+|+||..|....++... .|++|.+.+. ..+| ....|+.+|...
T Consensus 251 f~~pVvt~c~h~fc~~ca~~~~qk~~-------------------~c~vC~~~t~-----g~~~-~akeL~~~L~~k 302 (313)
T KOG1813|consen 251 FYRPVVTKCGHYFCEVCALKPYQKGE-------------------KCYVCSQQTH-----GSFN-VAKELLVSLKLK 302 (313)
T ss_pred cccchhhcCCceeehhhhccccccCC-------------------cceecccccc-----cccc-hHHHHHHHHHhh
Confidence 67899999999999999988887433 7999988654 2344 334555555443
No 25
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.41 E-value=7.1e-05 Score=68.35 Aligned_cols=45 Identities=24% Similarity=0.609 Sum_probs=35.0
Q ss_pred CCCeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccccCcCCCcccHHH
Q 028419 2 AQPVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDISDFLKDPQVNREL 67 (209)
Q Consensus 2 ~dPV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~~~~~~~~~N~~L 67 (209)
..||.++|+|.||.-||.+.+.... .+|++||.+|. ..+.++..+
T Consensus 18 n~Pv~l~C~HkFCyiCiKGsy~ndk------------------~~CavCR~pid---s~i~~~psl 62 (324)
T KOG0824|consen 18 NCPVNLYCFHKFCYICIKGSYKNDK------------------KTCAVCRFPID---STIDFEPSL 62 (324)
T ss_pred CcCccccccchhhhhhhcchhhcCC------------------CCCceecCCCC---cchhcchhh
Confidence 3689999999999999999887553 57999999886 344455444
No 26
>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=97.23 E-value=0.00018 Score=52.43 Aligned_cols=27 Identities=30% Similarity=0.792 Sum_probs=22.3
Q ss_pred EcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCc
Q 028419 6 TTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCT 51 (209)
Q Consensus 6 ~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR 51 (209)
..+|||.|...||.+|+.... +||+||
T Consensus 47 ~~~C~H~FH~~Ci~~Wl~~~~-------------------~CP~CR 73 (73)
T PF12678_consen 47 WGPCGHIFHFHCISQWLKQNN-------------------TCPLCR 73 (73)
T ss_dssp EETTSEEEEHHHHHHHHTTSS-------------------B-TTSS
T ss_pred ecccCCCEEHHHHHHHHhcCC-------------------cCCCCC
Confidence 358999999999999997553 899997
No 27
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=96.77 E-value=0.0014 Score=49.91 Aligned_cols=36 Identities=31% Similarity=0.664 Sum_probs=28.2
Q ss_pred CeEc-CCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 4 PVTT-PCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 4 PV~L-pCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
|+++ .|+|.|-..||.+|+..+. ....||.||+...
T Consensus 46 plv~g~C~H~FH~hCI~kWl~~~~----------------~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 46 PLVWGKCSHNFHMHCILKWLSTQS----------------SKGQCPMCRQPWK 82 (85)
T ss_pred ceeeccCccHHHHHHHHHHHcccc----------------CCCCCCCcCCeee
Confidence 5554 7999999999999998653 2348999998643
No 28
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.66 E-value=0.00092 Score=64.76 Aligned_cols=32 Identities=41% Similarity=0.941 Sum_probs=28.6
Q ss_pred CeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCcccc
Q 028419 4 PVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDI 54 (209)
Q Consensus 4 PV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i 54 (209)
|..++|+|.||..|+..|+..+. +||.||..+
T Consensus 309 ~~rL~C~Hifh~~CL~~W~er~q-------------------tCP~CR~~~ 340 (543)
T KOG0802|consen 309 PKRLPCGHIFHDSCLRSWFERQQ-------------------TCPTCRTVL 340 (543)
T ss_pred cceeecccchHHHHHHHHHHHhC-------------------cCCcchhhh
Confidence 78899999999999999998665 899999944
No 29
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.43 E-value=0.0013 Score=64.36 Aligned_cols=39 Identities=26% Similarity=0.703 Sum_probs=31.2
Q ss_pred CCeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 3 QPVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 3 dPV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
++|.+.|.|.||+.|+..+...... +...+||+|...+.
T Consensus 548 d~i~s~ChH~FCrlCi~eyv~~f~~--------------~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 548 DYIESSCHHKFCRLCIKEYVESFME--------------NNNVTCPVCHIGLS 586 (791)
T ss_pred hhHhhhhhHHHHHHHHHHHHHhhhc--------------ccCCCCcccccccc
Confidence 6788999999999999998876541 12379999988765
No 30
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.41 E-value=0.0023 Score=56.64 Aligned_cols=54 Identities=26% Similarity=0.574 Sum_probs=41.2
Q ss_pred CCeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc---cCcCCCcccHHHHHHHHHH
Q 028419 3 QPVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS---DFLKDPQVNRELMEVIESL 74 (209)
Q Consensus 3 dPV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~---~~~~~~~~N~~L~~Lve~l 74 (209)
-|-+|.|||+||..|+.....+. ...||.||..+. .....+..|+.+..++...
T Consensus 21 ~p~~l~c~h~~c~~c~~~l~~~~------------------~i~cpfcR~~~~~~~~~~~~l~kNf~ll~~~~~~ 77 (296)
T KOG4185|consen 21 IPRVLKCGHTICQNCASKLLGNS------------------RILCPFCRETTEIPDGDVKSLQKNFALLQAIEHM 77 (296)
T ss_pred CCcccccCceehHhHHHHHhcCc------------------eeeccCCCCcccCCchhHhhhhhhHHHHHHHHHH
Confidence 47788999999999999887754 357899999853 2244557788887777766
No 31
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.40 E-value=0.0019 Score=60.35 Aligned_cols=30 Identities=30% Similarity=0.855 Sum_probs=24.7
Q ss_pred CCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 8 PCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 8 pCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
-|+|.||..||...+... ...||.||+.+.
T Consensus 61 eClhrfc~~ci~~a~r~g------------------n~ecptcRk~l~ 90 (381)
T KOG0311|consen 61 ECLHRFCFDCIWKALRSG------------------NNECPTCRKKLV 90 (381)
T ss_pred HHHHHHHHHHHHHHHHhc------------------CCCCchHHhhcc
Confidence 499999999998877633 358999999986
No 32
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.37 E-value=0.0014 Score=45.98 Aligned_cols=23 Identities=26% Similarity=0.603 Sum_probs=17.9
Q ss_pred CCCCeEc-CCCChhHHHHHHHHHh
Q 028419 1 MAQPVTT-PCAHNFCKSCLEEAFS 23 (209)
Q Consensus 1 f~dPV~L-pCGH~FC~~CL~~~~~ 23 (209)
|.+||.. .|||.|.+..|..++.
T Consensus 21 ~~~PV~s~~C~H~fek~aI~~~i~ 44 (57)
T PF11789_consen 21 FEDPVKSKKCGHTFEKEAILQYIQ 44 (57)
T ss_dssp -SSEEEESSS--EEEHHHHHHHCT
T ss_pred hhCCcCcCCCCCeecHHHHHHHHH
Confidence 6789885 8999999999999994
No 33
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=96.31 E-value=0.002 Score=60.85 Aligned_cols=34 Identities=26% Similarity=0.702 Sum_probs=30.0
Q ss_pred CCeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 3 QPVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 3 dPV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
.|..|||||-|=..|+..|...++ +||.||.++.
T Consensus 312 ~pKrLpCGHilHl~CLknW~ERqQ-------------------TCPICr~p~i 345 (491)
T COG5243 312 TPKRLPCGHILHLHCLKNWLERQQ-------------------TCPICRRPVI 345 (491)
T ss_pred CcccccccceeeHHHHHHHHHhcc-------------------CCCcccCccc
Confidence 478899999999999999998666 8999999854
No 34
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.14 E-value=0.0058 Score=56.49 Aligned_cols=56 Identities=27% Similarity=0.647 Sum_probs=36.5
Q ss_pred CCCeEcC-CCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccccCcCCCcccHHHHHHHHHHHh
Q 028419 2 AQPVTTP-CAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDISDFLKDPQVNRELMEVIESLKQ 76 (209)
Q Consensus 2 ~dPV~Lp-CGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~~~~~~~~~N~~L~~Lve~lk~ 76 (209)
..|+.++ |+|.||..||...+.... |.||.|...-. ++..+.+......-|+.+.+
T Consensus 285 rnp~kT~cC~~~fc~eci~~al~dsD------------------f~CpnC~rkdv-lld~l~pD~dk~~EvE~~lk 341 (427)
T COG5222 285 RNPMKTPCCGHTFCDECIGTALLDSD------------------FKCPNCSRKDV-LLDGLTPDIDKKLEVEKALK 341 (427)
T ss_pred hCcccCccccchHHHHHHhhhhhhcc------------------ccCCCcccccc-hhhccCccHHHHHHHHHHHH
Confidence 4688886 899999999998877543 78999977322 13344444444444444433
No 35
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.35 E-value=0.0093 Score=55.52 Aligned_cols=38 Identities=32% Similarity=0.708 Sum_probs=28.6
Q ss_pred EcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 6 TTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 6 ~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
..+|.|.||..||..|-....+ ..+....||.||.+..
T Consensus 184 lpnC~H~~Cl~Cir~wr~~~q~------------~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 184 LPNCNHSFCLNCIRKWRQATQF------------ESKTSKSCPFCRVPSS 221 (344)
T ss_pred CCCcchhhhhcHhHhhhhhhcc------------ccccccCCCcccCccc
Confidence 3569999999999998754431 2234678999999875
No 36
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=95.29 E-value=0.011 Score=55.44 Aligned_cols=36 Identities=42% Similarity=1.061 Sum_probs=29.7
Q ss_pred CCCCeE-cCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 1 MAQPVT-TPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 1 f~dPV~-LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
+.+|+. +.|||.||..|+..|.... ..||.|+..+.
T Consensus 31 l~~p~~~~~cgh~fC~~C~~~~~~~~-------------------~~cp~~~~~~~ 67 (391)
T KOG0297|consen 31 LRDPVQTTTCGHRFCAGCLLESLSNH-------------------QKCPVCRQELT 67 (391)
T ss_pred ccCCCCCCCCCCcccccccchhhccC-------------------cCCcccccccc
Confidence 357888 4999999999999988753 38999988775
No 37
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.83 E-value=0.0088 Score=42.53 Aligned_cols=32 Identities=25% Similarity=0.501 Sum_probs=25.1
Q ss_pred EcCCCC-hhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 6 TTPCAH-NFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 6 ~LpCGH-~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
...||| -+|..|..+.|... ...||.||++++
T Consensus 22 lYtCGHMCmCy~Cg~rl~~~~------------------~g~CPiCRapi~ 54 (62)
T KOG4172|consen 22 LYTCGHMCMCYACGLRLKKAL------------------HGCCPICRAPIK 54 (62)
T ss_pred HHHcchHHhHHHHHHHHHHcc------------------CCcCcchhhHHH
Confidence 347999 56999999998743 247999999764
No 38
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=94.44 E-value=0.021 Score=54.54 Aligned_cols=33 Identities=33% Similarity=0.779 Sum_probs=26.2
Q ss_pred EcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 6 TTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 6 ~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
+-||||-+|..||..|..... .-+||.||..|.
T Consensus 384 IEPCGHLlCt~CLa~WQ~sd~-----------------gq~CPFCRcEIK 416 (563)
T KOG1785|consen 384 IEPCGHLLCTSCLAAWQDSDE-----------------GQTCPFCRCEIK 416 (563)
T ss_pred cccccchHHHHHHHhhcccCC-----------------CCCCCceeeEec
Confidence 348999999999998875432 237999999876
No 39
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=94.29 E-value=0.021 Score=58.26 Aligned_cols=30 Identities=23% Similarity=0.524 Sum_probs=24.1
Q ss_pred cCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 7 TPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 7 LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
.+|+|+||..||..|-.... +||+||..+.
T Consensus 142 k~c~H~FC~~Ci~sWsR~aq-------------------TCPiDR~EF~ 171 (1134)
T KOG0825|consen 142 KHTAHYFCEECVGSWSRCAQ-------------------TCPVDRGEFG 171 (1134)
T ss_pred cccccccHHHHhhhhhhhcc-------------------cCchhhhhhh
Confidence 37999999999988877554 8999998764
No 40
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.24 E-value=0.05 Score=51.89 Aligned_cols=22 Identities=45% Similarity=0.963 Sum_probs=19.2
Q ss_pred eEcCCCChhHHHHHHHHHhcCc
Q 028419 5 VTTPCAHNFCKSCLEEAFSGKS 26 (209)
Q Consensus 5 V~LpCGH~FC~~CL~~~~~~~~ 26 (209)
+.+||+|.||+.|+..+|....
T Consensus 201 ~~lpC~Hv~Ck~C~kdY~~~~i 222 (445)
T KOG1814|consen 201 KFLPCSHVFCKSCLKDYFTIQI 222 (445)
T ss_pred eecccchHHHHHHHHHHHHHhh
Confidence 4589999999999999998654
No 41
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.13 E-value=0.029 Score=52.37 Aligned_cols=33 Identities=30% Similarity=0.782 Sum_probs=27.5
Q ss_pred eEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 5 VTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 5 V~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
.+|||+|.|=..||-.|+.... ..||+|++.+.
T Consensus 246 RiLPC~H~FH~~CIDpWL~~~r------------------~~CPvCK~di~ 278 (348)
T KOG4628|consen 246 RILPCSHKFHVNCIDPWLTQTR------------------TFCPVCKRDIR 278 (348)
T ss_pred eEecCCCchhhccchhhHhhcC------------------ccCCCCCCcCC
Confidence 3589999999999999998542 36999999876
No 42
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=93.79 E-value=0.019 Score=50.93 Aligned_cols=31 Identities=39% Similarity=0.933 Sum_probs=23.0
Q ss_pred CeE-cCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 4 PVT-TPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 4 PV~-LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
|.. |.|+|.||..|...... -.||.|+..+.
T Consensus 17 ~f~LTaC~HvfC~~C~k~~~~---------------------~~C~lCkk~ir 48 (233)
T KOG4739|consen 17 PFFLTACRHVFCEPCLKASSP---------------------DVCPLCKKSIR 48 (233)
T ss_pred ceeeeechhhhhhhhcccCCc---------------------cccccccceee
Confidence 444 57999999999754321 17999999875
No 43
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=93.50 E-value=0.024 Score=39.96 Aligned_cols=32 Identities=28% Similarity=0.727 Sum_probs=24.0
Q ss_pred CCeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 3 QPVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 3 dPV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
..+++||||..|..|.-..- --.||.|..++.
T Consensus 19 ~~~~~pCgH~I~~~~f~~~r---------------------YngCPfC~~~~~ 50 (55)
T PF14447_consen 19 KGTVLPCGHLICDNCFPGER---------------------YNGCPFCGTPFE 50 (55)
T ss_pred ccccccccceeeccccChhh---------------------ccCCCCCCCccc
Confidence 45788999999999974321 226999998775
No 44
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=93.01 E-value=0.032 Score=51.81 Aligned_cols=29 Identities=31% Similarity=0.803 Sum_probs=22.2
Q ss_pred EcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 6 TTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 6 ~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
.|||.|.||..|.+.-- .+.||.|-..|.
T Consensus 106 mIPCkHvFCl~CAr~~~---------------------dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 106 MIPCKHVFCLECARSDS---------------------DKICPLCDDRVQ 134 (389)
T ss_pred ccccchhhhhhhhhcCc---------------------cccCcCcccHHH
Confidence 36999999999986321 347999988775
No 45
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=92.41 E-value=0.06 Score=54.12 Aligned_cols=37 Identities=27% Similarity=0.708 Sum_probs=30.8
Q ss_pred CCCeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 2 AQPVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 2 ~dPV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
..+++++|+|.||..|+...+.... ...||.||..+.
T Consensus 464 ~~~~it~c~h~~c~~c~~~~i~~~~-----------------~~~~~~cr~~l~ 500 (674)
T KOG1001|consen 464 DSFFITRCGHDFCVECLKKSIQQSE-----------------NAPCPLCRNVLK 500 (674)
T ss_pred ccceeecccchHHHHHHHhcccccc-----------------CCCCcHHHHHHH
Confidence 4678899999999999999888654 237999998775
No 46
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=92.20 E-value=0.21 Score=45.73 Aligned_cols=30 Identities=33% Similarity=0.902 Sum_probs=25.6
Q ss_pred CCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 8 PCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 8 pCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
+|+|++|..|+-..|... ...||.|-..+.
T Consensus 22 ~C~H~lCEsCvd~iF~~g------------------~~~CpeC~~iLR 51 (300)
T KOG3800|consen 22 ECGHRLCESCVDRIFSLG------------------PAQCPECMVILR 51 (300)
T ss_pred cccchHHHHHHHHHHhcC------------------CCCCCcccchhh
Confidence 899999999999999743 468999988765
No 47
>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=90.96 E-value=0.084 Score=36.41 Aligned_cols=31 Identities=29% Similarity=0.814 Sum_probs=21.4
Q ss_pred EcCCC-ChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 6 TTPCA-HNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 6 ~LpCG-H~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
.+.|. |++|..|+...+.... .||.|..++.
T Consensus 15 Li~C~dHYLCl~CLt~ml~~s~-------------------~C~iC~~~LP 46 (50)
T PF03854_consen 15 LIKCSDHYLCLNCLTLMLSRSD-------------------RCPICGKPLP 46 (50)
T ss_dssp EEE-SS-EEEHHHHHHT-SSSS-------------------EETTTTEE--
T ss_pred eeeecchhHHHHHHHHHhcccc-------------------CCCcccCcCc
Confidence 45677 9999999998887554 7999988764
No 48
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=90.16 E-value=0.11 Score=50.10 Aligned_cols=19 Identities=37% Similarity=0.698 Sum_probs=16.6
Q ss_pred eEcCCCChhHHHHHHHHHh
Q 028419 5 VTTPCAHNFCKSCLEEAFS 23 (209)
Q Consensus 5 V~LpCGH~FC~~CL~~~~~ 23 (209)
+++.|.|+|=..|+..||.
T Consensus 193 ~t~~c~Hsfh~~cl~~w~~ 211 (493)
T KOG0804|consen 193 LTILCNHSFHCSCLMKWWD 211 (493)
T ss_pred eeeecccccchHHHhhccc
Confidence 4578999998899999987
No 49
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.86 E-value=0.099 Score=47.77 Aligned_cols=34 Identities=21% Similarity=0.495 Sum_probs=28.4
Q ss_pred eEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 5 VTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 5 V~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
..|.|+|.|=.-||++|..-.+ .-+||.|+..+.
T Consensus 248 y~LsCnHvFHEfCIrGWcivGK-----------------kqtCPYCKekVd 281 (328)
T KOG1734|consen 248 YKLSCNHVFHEFCIRGWCIVGK-----------------KQTCPYCKEKVD 281 (328)
T ss_pred eeeecccchHHHhhhhheeecC-----------------CCCCchHHHHhh
Confidence 3579999999999999987544 458999999886
No 50
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=89.60 E-value=0.31 Score=33.45 Aligned_cols=29 Identities=21% Similarity=0.760 Sum_probs=15.5
Q ss_pred CCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCcccc
Q 028419 8 PCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDI 54 (209)
Q Consensus 8 pCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i 54 (209)
+||+.+|+-|........ ...||.||.+.
T Consensus 19 ~Cgf~IC~~C~~~i~~~~------------------~g~CPgCr~~Y 47 (48)
T PF14570_consen 19 ECGFQICRFCYHDILENE------------------GGRCPGCREPY 47 (48)
T ss_dssp TTS----HHHHHHHTTSS-------------------SB-TTT--B-
T ss_pred cCCCcHHHHHHHHHHhcc------------------CCCCCCCCCCC
Confidence 589999999998877532 24799999853
No 51
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.62 E-value=0.37 Score=46.03 Aligned_cols=31 Identities=32% Similarity=0.794 Sum_probs=25.0
Q ss_pred CCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCcccc
Q 028419 8 PCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDI 54 (209)
Q Consensus 8 pCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i 54 (209)
.|||.|=..|+..||...++ .-.||.|+-.+
T Consensus 25 ~cGhifh~~cl~qwfe~~Ps----------------~R~cpic~ik~ 55 (465)
T KOG0827|consen 25 TCGHIFHTTCLTQWFEGDPS----------------NRGCPICQIKL 55 (465)
T ss_pred chhhHHHHHHHHHHHccCCc----------------cCCCCceeecc
Confidence 49999999999999987761 23799999443
No 52
>PF04641 Rtf2: Rtf2 RING-finger
Probab=87.50 E-value=0.57 Score=41.48 Aligned_cols=29 Identities=34% Similarity=0.721 Sum_probs=23.5
Q ss_pred cCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 7 TPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 7 LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
.+|||.|+..||...- . ...||+|..++.
T Consensus 133 ~~cG~V~s~~alke~k--~------------------~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 133 RPCGCVFSEKALKELK--K------------------SKKCPVCGKPFT 161 (260)
T ss_pred cCCCCEeeHHHHHhhc--c------------------cccccccCCccc
Confidence 3899999999998873 1 136999999886
No 53
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=87.17 E-value=0.28 Score=37.04 Aligned_cols=35 Identities=23% Similarity=0.577 Sum_probs=27.6
Q ss_pred CeEc-CCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCcccc
Q 028419 4 PVTT-PCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDI 54 (209)
Q Consensus 4 PV~L-pCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i 54 (209)
|+++ -|.|.|=..||.+|+..++ ....||.||+..
T Consensus 45 PLv~G~C~h~fh~hCI~~wl~~~t----------------sq~~CPmcRq~~ 80 (84)
T KOG1493|consen 45 PLVWGYCLHAFHAHCILKWLNTPT----------------SQGQCPMCRQTW 80 (84)
T ss_pred ccHHHHHHHHHHHHHHHHHhcCcc----------------ccccCCcchhee
Confidence 4544 4999999999999998665 345899999854
No 54
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=86.44 E-value=0.47 Score=44.98 Aligned_cols=33 Identities=27% Similarity=0.661 Sum_probs=23.5
Q ss_pred eEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCcccc
Q 028419 5 VTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDI 54 (209)
Q Consensus 5 V~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i 54 (209)
.++||+|..|..|..+.-.-- ....||.||...
T Consensus 75 ~~~PC~H~~CH~Ca~RlRALY-----------------~~K~C~~CrTE~ 107 (493)
T COG5236 75 ARYPCGHQICHACAVRLRALY-----------------MQKGCPLCRTET 107 (493)
T ss_pred EeccCCchHHHHHHHHHHHHH-----------------hccCCCcccccc
Confidence 357999999999986543211 135799999864
No 55
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=85.87 E-value=0.68 Score=35.30 Aligned_cols=33 Identities=27% Similarity=0.517 Sum_probs=27.0
Q ss_pred CeEc-CCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 4 PVTT-PCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 4 PV~L-pCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
||+. .|.|.|=..||.+|+..+. .||++|+...
T Consensus 48 ~v~wG~CnHaFH~HCI~rWL~Tk~-------------------~CPld~q~w~ 81 (88)
T COG5194 48 PVVWGVCNHAFHDHCIYRWLDTKG-------------------VCPLDRQTWV 81 (88)
T ss_pred eEEEEecchHHHHHHHHHHHhhCC-------------------CCCCCCceeE
Confidence 3443 6999999999999998654 7999998765
No 56
>PHA03096 p28-like protein; Provisional
Probab=85.00 E-value=0.65 Score=42.27 Aligned_cols=20 Identities=15% Similarity=0.272 Sum_probs=16.5
Q ss_pred cCCCChhHHHHHHHHHhcCc
Q 028419 7 TPCAHNFCKSCLEEAFSGKS 26 (209)
Q Consensus 7 LpCGH~FC~~CL~~~~~~~~ 26 (209)
..|.|.||..|+..|-....
T Consensus 202 ~~c~h~fc~~ci~~wr~~~~ 221 (284)
T PHA03096 202 SEIKHEFNIFCIKIWMTESL 221 (284)
T ss_pred ccCCcHHHHHHHHHHHHhhh
Confidence 46999999999998877543
No 57
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.60 E-value=0.74 Score=44.22 Aligned_cols=33 Identities=36% Similarity=0.805 Sum_probs=26.5
Q ss_pred eEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCcccc
Q 028419 5 VTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDI 54 (209)
Q Consensus 5 V~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i 54 (209)
|++.|||-|=..||.+|+. +. ....||.|....
T Consensus 23 vsl~cghlFgs~cie~wl~-k~----------------~~~~cp~c~~ka 55 (463)
T KOG1645|consen 23 VSLQCGHLFGSQCIEKWLG-KK----------------TKMQCPLCSGKA 55 (463)
T ss_pred eeecccccccHHHHHHHHh-hh----------------hhhhCcccCChh
Confidence 3467999999999999995 32 467999998754
No 58
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=80.86 E-value=0.86 Score=42.29 Aligned_cols=41 Identities=27% Similarity=0.690 Sum_probs=27.0
Q ss_pred CCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 9 CAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 9 CGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
|..-.|..||.+||...+.-..|- -...+...||.||+.++
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~------~~~~~~~~cp~cr~~fc 365 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRY------EYHRGSAQCPTCRKNFC 365 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHH------HHHhcCCCCcchhhceE
Confidence 445669999999998654211111 02335689999999876
No 59
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=80.53 E-value=1.5 Score=36.16 Aligned_cols=31 Identities=23% Similarity=0.652 Sum_probs=27.0
Q ss_pred CCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 9 CAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 9 CGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
||.+.|-.|-..+|+... ....||.|+.++.
T Consensus 102 CgY~iCn~Cya~LWK~~~----------------~ypvCPvCkTSFK 132 (140)
T PF05290_consen 102 CGYSICNACYANLWKFCN----------------LYPVCPVCKTSFK 132 (140)
T ss_pred cchHHHHHHHHHHHHHcc----------------cCCCCCccccccc
Confidence 999999999999999765 4579999999775
No 60
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=80.05 E-value=1 Score=43.23 Aligned_cols=29 Identities=34% Similarity=0.902 Sum_probs=24.2
Q ss_pred cCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCcc
Q 028419 7 TPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTT 52 (209)
Q Consensus 7 LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~ 52 (209)
|||.|.|=.+|+..++.+.. .-.||.||.
T Consensus 385 LpCsHIfH~rCl~e~L~~n~-----------------~rsCP~Crk 413 (518)
T KOG1941|consen 385 LPCSHIFHLRCLQEILENNG-----------------TRSCPNCRK 413 (518)
T ss_pred cchhHHHHHHHHHHHHHhCC-----------------CCCCccHHH
Confidence 79999999999999886443 458999984
No 61
>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=79.91 E-value=2.2 Score=28.76 Aligned_cols=32 Identities=25% Similarity=0.669 Sum_probs=24.6
Q ss_pred CCeEcCCC-----ChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCc
Q 028419 3 QPVTTPCA-----HNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCT 51 (209)
Q Consensus 3 dPV~LpCG-----H~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR 51 (209)
.|+++||. |.|=..||.+|+.... ...||+|+
T Consensus 13 ~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~-----------------~~~C~iC~ 49 (49)
T smart00744 13 DPLVSPCRCKGSLKYVHQECLERWINESG-----------------NKTCEICK 49 (49)
T ss_pred CeeEeccccCCchhHHHHHHHHHHHHHcC-----------------CCcCCCCC
Confidence 57888985 6666899999997553 34899984
No 62
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.65 E-value=1.9 Score=43.72 Aligned_cols=21 Identities=29% Similarity=0.942 Sum_probs=19.4
Q ss_pred CCeEcCCCChhHHHHHHHHHh
Q 028419 3 QPVTTPCAHNFCKSCLEEAFS 23 (209)
Q Consensus 3 dPV~LpCGH~FC~~CL~~~~~ 23 (209)
.||.+-|||+.|..|+...+.
T Consensus 27 ~Pvsl~cghtic~~c~~~lyn 47 (861)
T KOG3161|consen 27 EPVSLQCGHTICGHCVQLLYN 47 (861)
T ss_pred CcccccccchHHHHHHHhHhh
Confidence 699999999999999998876
No 63
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=79.38 E-value=0.88 Score=46.03 Aligned_cols=38 Identities=34% Similarity=0.705 Sum_probs=31.0
Q ss_pred CCCeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 2 AQPVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 2 ~dPV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
..|+.+.|-|.||..|+...|.... +...||+|+..+.
T Consensus 32 ~~p~~~kc~~~~l~~~~n~~f~~~~----------------~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 32 KEPSLLKCDHIFLKFCLNKLFESKK----------------GPKQCALCKSDIE 69 (684)
T ss_pred eccchhhhhHHHHhhhhhceeeccC----------------ccccchhhhhhhh
Confidence 4678899999999999998887554 4678999997664
No 64
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.72 E-value=2.4 Score=39.88 Aligned_cols=20 Identities=35% Similarity=0.918 Sum_probs=17.1
Q ss_pred EcCCCChhHHHHHHHHHhcC
Q 028419 6 TTPCAHNFCKSCLEEAFSGK 25 (209)
Q Consensus 6 ~LpCGH~FC~~CL~~~~~~~ 25 (209)
+..|+|.||..|+.+++..+
T Consensus 165 ~~~C~H~fC~~C~k~~iev~ 184 (384)
T KOG1812|consen 165 VLKCGHRFCKDCVKQHIEVK 184 (384)
T ss_pred HhcccchhhhHHhHHHhhhh
Confidence 35699999999999998854
No 65
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=75.28 E-value=2.6 Score=33.57 Aligned_cols=27 Identities=22% Similarity=0.600 Sum_probs=23.2
Q ss_pred CCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccc
Q 028419 8 PCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTD 53 (209)
Q Consensus 8 pCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~ 53 (209)
.|.|.|=.-||.+|++... .||+|.+.
T Consensus 80 ~CNHaFH~hCisrWlktr~-------------------vCPLdn~e 106 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTRN-------------------VCPLDNKE 106 (114)
T ss_pred ecchHHHHHHHHHHHhhcC-------------------cCCCcCcc
Confidence 6999999999999998655 79999764
No 66
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=74.02 E-value=2.3 Score=38.66 Aligned_cols=32 Identities=25% Similarity=0.436 Sum_probs=26.4
Q ss_pred eEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 5 VTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 5 V~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
|.-||||.||..|+.++.... +.||+|-.++.
T Consensus 239 ~Lr~sg~Vv~~ecvEklir~D-------------------~v~pv~d~plk 270 (303)
T KOG3039|consen 239 VLRPSGHVVTKECVEKLIRKD-------------------MVDPVTDKPLK 270 (303)
T ss_pred EeccCCcEeeHHHHHHhcccc-------------------ccccCCCCcCc
Confidence 345899999999999987644 48999998876
No 67
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=72.25 E-value=4.2 Score=45.29 Aligned_cols=43 Identities=23% Similarity=0.549 Sum_probs=28.5
Q ss_pred CeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 4 PVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 4 PV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
.|.|.|+|.|=..|.++.+. |+|-|+ |-.-+-+.||.|..+|.
T Consensus 3502 ~IqL~C~HiFHlqC~R~vLE-------~RW~GP--RItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3502 AIQLDCSHIFHLQCCRRVLE-------NRWLGP--RITFGFISCPICKNKIN 3544 (3738)
T ss_pred ceecCCccchhHHHHHHHHH-------hcccCC--eeEEeeeecccccchhh
Confidence 46789999998888877665 334332 11223468999988764
No 68
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=70.95 E-value=2.5 Score=31.01 Aligned_cols=15 Identities=27% Similarity=0.902 Sum_probs=10.8
Q ss_pred hhHHHHHHHHHhcCc
Q 028419 12 NFCKSCLEEAFSGKS 26 (209)
Q Consensus 12 ~FC~~CL~~~~~~~~ 26 (209)
.||+.||.+|+....
T Consensus 11 gFCRNCLskWy~~aA 25 (68)
T PF06844_consen 11 GFCRNCLSKWYREAA 25 (68)
T ss_dssp S--HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 499999999998654
No 69
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=67.55 E-value=3 Score=37.89 Aligned_cols=30 Identities=37% Similarity=0.992 Sum_probs=24.3
Q ss_pred C-CCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCC--CCccccc
Q 028419 8 P-CAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCP--SCTTDIS 55 (209)
Q Consensus 8 p-CGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP--~CR~~i~ 55 (209)
| |-|.+|.+|+-+.|+.. ...|| .|..-++
T Consensus 32 PECyHrmCESCvdRIFs~G------------------pAqCP~~gC~kILR 64 (314)
T COG5220 32 PECYHRMCESCVDRIFSRG------------------PAQCPYKGCGKILR 64 (314)
T ss_pred HHHHHHHHHHHHHHHhcCC------------------CCCCCCccHHHHHH
Confidence 5 99999999999999743 35798 8877654
No 70
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=65.71 E-value=2.9 Score=38.03 Aligned_cols=26 Identities=23% Similarity=0.278 Sum_probs=23.1
Q ss_pred CCCCeEcCCCChhHHHHHHHHHhcCc
Q 028419 1 MAQPVTTPCAHNFCKSCLEEAFSGKS 26 (209)
Q Consensus 1 f~dPV~LpCGH~FC~~CL~~~~~~~~ 26 (209)
|.+||+++=||.||+.||..++..+.
T Consensus 53 c~dPvit~~GylfdrEaILe~ilaqK 78 (303)
T KOG3039|consen 53 CRDPVITPDGYLFDREAILEYILAQK 78 (303)
T ss_pred ccCCccCCCCeeeeHHHHHHHHHHHH
Confidence 46899999999999999999988664
No 71
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.52 E-value=16 Score=33.11 Aligned_cols=42 Identities=26% Similarity=0.499 Sum_probs=29.8
Q ss_pred CCeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 3 QPVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 3 dPV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
+-+.|.|-|.|=..|+..+..+.. ++.+. ....||.|...|-
T Consensus 64 dt~RLvCyhlfHW~ClneraA~lP----------anTAP-aGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 64 DTTRLVCYHLFHWKCLNERAANLP----------ANTAP-AGYQCPCCSQEIF 105 (299)
T ss_pred cceeehhhhhHHHHHhhHHHhhCC----------CcCCC-CcccCCCCCCccC
Confidence 346789999999999998876543 11111 2468999988764
No 72
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=64.32 E-value=7.4 Score=37.02 Aligned_cols=30 Identities=23% Similarity=0.723 Sum_probs=22.7
Q ss_pred CCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 8 PCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 8 pCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
+||...|+-|....-... ..+||.||+...
T Consensus 35 ~cgy~ic~fc~~~irq~l------------------ngrcpacrr~y~ 64 (480)
T COG5175 35 PCGYQICQFCYNNIRQNL------------------NGRCPACRRKYD 64 (480)
T ss_pred CcccHHHHHHHHHHHhhc------------------cCCChHhhhhcc
Confidence 799999999986654432 247999999875
No 73
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=62.79 E-value=3.6 Score=32.43 Aligned_cols=28 Identities=25% Similarity=0.640 Sum_probs=19.7
Q ss_pred hhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 12 NFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 12 ~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
..|..|-.++|.-.. ..+.||.|...+.
T Consensus 10 R~Cp~CG~kFYDLnk----------------~PivCP~CG~~~~ 37 (108)
T PF09538_consen 10 RTCPSCGAKFYDLNK----------------DPIVCPKCGTEFP 37 (108)
T ss_pred ccCCCCcchhccCCC----------------CCccCCCCCCccC
Confidence 357777777777443 4578999988654
No 74
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=62.45 E-value=8.5 Score=37.40 Aligned_cols=8 Identities=25% Similarity=0.364 Sum_probs=3.9
Q ss_pred CCcccHHH
Q 028419 60 DPQVNREL 67 (209)
Q Consensus 60 ~~~~N~~L 67 (209)
.+.+|-+|
T Consensus 25 KlTi~Dtl 32 (458)
T PF10446_consen 25 KLTINDTL 32 (458)
T ss_pred cccHHHHH
Confidence 34455554
No 75
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=62.24 E-value=5.1 Score=31.26 Aligned_cols=35 Identities=23% Similarity=0.511 Sum_probs=23.8
Q ss_pred CChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCcccc
Q 028419 10 AHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDI 54 (209)
Q Consensus 10 GH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i 54 (209)
.-.||..||...+....... .....+.||.||...
T Consensus 37 ~~~fC~~CL~~ryge~~~ev----------~~~~~W~CP~CrgiC 71 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEV----------LEDPNWKCPKCRGIC 71 (105)
T ss_pred cceehHhHHHHHHhhhHHHH----------hcCCceECCCCCCee
Confidence 66899999999887532100 012468999998854
No 76
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=60.25 E-value=4.6 Score=33.77 Aligned_cols=38 Identities=34% Similarity=0.717 Sum_probs=25.9
Q ss_pred CCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCcccc
Q 028419 9 CAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDI 54 (209)
Q Consensus 9 CGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i 54 (209)
|||+ |..|-.++.. |-.|+-++|+-+..+.|-.|+...
T Consensus 80 ~GH~-C~YCq~r~CA-------RCGGrv~lrsNKv~wvcnlc~k~q 117 (169)
T KOG3799|consen 80 CGHN-CSYCQTRFCA-------RCGGRVSLRSNKVMWVCNLCRKQQ 117 (169)
T ss_pred cCcc-cchhhhhHHH-------hcCCeeeeccCceEEeccCCcHHH
Confidence 8885 7777766554 223455677777788999998753
No 77
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=60.11 E-value=6.4 Score=36.14 Aligned_cols=38 Identities=32% Similarity=0.617 Sum_probs=26.8
Q ss_pred CChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccccCcCCCcccHHHHHHHHHH
Q 028419 10 AHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDISDFLKDPQVNRELMEVIESL 74 (209)
Q Consensus 10 GH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~~~~~~~~~N~~L~~Lve~l 74 (209)
||.-|..|-.+.. -.||.||..+.. ..++.|..+++..
T Consensus 68 GHlaCssC~~~~~----------------------~~CP~Cr~~~g~-----~R~~amEkV~e~~ 105 (299)
T KOG3002|consen 68 GHLACSSCRTKVS----------------------NKCPTCRLPIGN-----IRCRAMEKVAEAV 105 (299)
T ss_pred CcEehhhhhhhhc----------------------ccCCcccccccc-----HHHHHHHHHHHhc
Confidence 6999999976432 379999997653 3556666666554
No 78
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=60.11 E-value=2 Score=30.94 Aligned_cols=40 Identities=30% Similarity=0.548 Sum_probs=18.8
Q ss_pred CCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 8 PCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 8 pCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
.|++.|=..||..||.... +++... ......||.|+..|.
T Consensus 27 ~C~~~fH~~CL~~wf~~~~-------~~~~~~-~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 27 SCGKKFHLLCLSEWFLSLE-------KSRQSF-IPIFGECPYCSSPIS 66 (70)
T ss_dssp T----B-SGGGHHHHHHHH-------SSS-TT-T--EEE-TTT-SEEE
T ss_pred ccCCHHHHHHHHHHHHHcc-------cCCeee-cccccCCcCCCCeee
Confidence 5777777799999997543 111100 012347999999775
No 79
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=58.79 E-value=7.8 Score=42.09 Aligned_cols=34 Identities=32% Similarity=0.643 Sum_probs=26.5
Q ss_pred eEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccccC
Q 028419 5 VTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDISDF 57 (209)
Q Consensus 5 V~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~~~ 57 (209)
.++-|||.||.+|...|...+. .||.|......|
T Consensus 1168 ~I~~cgh~~c~~c~~~~l~~~s-------------------~~~~~ksi~~df 1201 (1394)
T KOG0298|consen 1168 GIAGCGHEPCCRCDELWLYASS-------------------RCPICKSIKGDF 1201 (1394)
T ss_pred CeeeechhHhhhHHHHHHHHhc-------------------cCcchhhhhhhh
Confidence 3567999999999999887554 799998655443
No 80
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=56.61 E-value=11 Score=28.33 Aligned_cols=25 Identities=28% Similarity=0.826 Sum_probs=20.2
Q ss_pred CChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 10 AHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 10 GH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
.|+||..|....+. ..||-|...+.
T Consensus 28 EcTFCadCae~~l~---------------------g~CPnCGGelv 52 (84)
T COG3813 28 ECTFCADCAENRLH---------------------GLCPNCGGELV 52 (84)
T ss_pred eeehhHhHHHHhhc---------------------CcCCCCCchhh
Confidence 47899999987764 36999998765
No 81
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=56.14 E-value=2.7 Score=40.79 Aligned_cols=37 Identities=30% Similarity=0.681 Sum_probs=23.6
Q ss_pred hhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 12 NFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 12 ~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
+||..||..+-.... | ...+|..+.+|.||.|...+.
T Consensus 27 ~yCp~CL~~~p~~e~----~---~~~nrC~r~Cf~CP~C~~~L~ 63 (483)
T PF05502_consen 27 YYCPNCLFEVPSSEA----R---SEKNRCSRNCFDCPICFSPLS 63 (483)
T ss_pred eECccccccCChhhh----e---eccceeccccccCCCCCCcce
Confidence 578888865443221 1 123456667899999988764
No 82
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=54.82 E-value=3.5 Score=36.46 Aligned_cols=33 Identities=30% Similarity=0.780 Sum_probs=25.7
Q ss_pred CCeEcC--------CCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccc
Q 028419 3 QPVTTP--------CAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTD 53 (209)
Q Consensus 3 dPV~Lp--------CGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~ 53 (209)
.|.++. |||+.|..|+........ ..||.|+..
T Consensus 225 ~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~------------------~~cp~~~~~ 265 (296)
T KOG4185|consen 225 APLVLSLSRLKEKIEGHTLCKECIDTILLQAG------------------IKCPFCTWS 265 (296)
T ss_pred chhHHHHHHHHHHHHHHHHHhcchHHHHHHhh------------------hcCCcccce
Confidence 456666 999999999988776432 589999874
No 83
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=54.25 E-value=6.9 Score=39.25 Aligned_cols=58 Identities=17% Similarity=0.463 Sum_probs=34.5
Q ss_pred eEcCCCChhHH--HHHHHHHhcCccchhcccCccccccCCCcccCCCCccccccCcCCCcccHHHHHHHHHHHh
Q 028419 5 VTTPCAHNFCK--SCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDISDFLKDPQVNRELMEVIESLKQ 76 (209)
Q Consensus 5 V~LpCGH~FC~--~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~~~~~~~~~N~~L~~Lve~lk~ 76 (209)
+.+||.+.+|. .|....|--+. ..++.++.||+|...+. ...+...--+.+++..+..
T Consensus 316 m~~P~r~~~CkHlQcFD~~~~lq~------------n~~~pTW~CPVC~~~~~--~e~l~iD~~~~~iL~~~~~ 375 (636)
T KOG2169|consen 316 MSLPARGHTCKHLQCFDALSYLQM------------NEQKPTWRCPVCQKAAP--FEGLIIDGYFLNILQSCQA 375 (636)
T ss_pred eecCCcccccccceecchhhhHHh------------ccCCCeeeCccCCcccc--ccchhhhHHHHHHHhhccC
Confidence 34677776776 66644443221 12346789999988766 3555555556666655443
No 84
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=52.63 E-value=8.3 Score=36.70 Aligned_cols=22 Identities=27% Similarity=0.680 Sum_probs=18.4
Q ss_pred eEcCCCChhHHHHHHHHHhcCc
Q 028419 5 VTTPCAHNFCKSCLEEAFSGKS 26 (209)
Q Consensus 5 V~LpCGH~FC~~CL~~~~~~~~ 26 (209)
+.+.|||.||..|+..++...-
T Consensus 85 ~~~~c~H~~c~~cw~~yl~~kI 106 (444)
T KOG1815|consen 85 IGLGCGHPFCPPCWTGYLGTKI 106 (444)
T ss_pred hhcCCCcHHHHHHHHHHhhhee
Confidence 4468999999999999888654
No 85
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=51.99 E-value=10 Score=32.02 Aligned_cols=23 Identities=35% Similarity=1.013 Sum_probs=19.0
Q ss_pred ChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 11 HNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 11 H~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
+.||..|-..... .||.|..+|+
T Consensus 28 ~~fC~kCG~~tI~----------------------~Cp~C~~~Ir 50 (158)
T PF10083_consen 28 EKFCSKCGAKTIT----------------------SCPNCSTPIR 50 (158)
T ss_pred HHHHHHhhHHHHH----------------------HCcCCCCCCC
Confidence 5799999887665 6999988886
No 86
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=51.61 E-value=8 Score=40.38 Aligned_cols=35 Identities=14% Similarity=0.260 Sum_probs=25.2
Q ss_pred CCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 8 PCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 8 pCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
.|+|.||..||..|....- .......|+.|.+.|.
T Consensus 120 ~~~~~~CP~Ci~s~~DqL~-------------~~~k~c~H~FC~~Ci~ 154 (1134)
T KOG0825|consen 120 THVENQCPNCLKSCNDQLE-------------ESEKHTAHYFCEECVG 154 (1134)
T ss_pred hhhhhhhhHHHHHHHHHhh-------------ccccccccccHHHHhh
Confidence 4999999999999887332 2234567788877654
No 87
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=51.49 E-value=9.3 Score=29.87 Aligned_cols=15 Identities=27% Similarity=0.895 Sum_probs=12.8
Q ss_pred hhHHHHHHHHHhcCc
Q 028419 12 NFCKSCLEEAFSGKS 26 (209)
Q Consensus 12 ~FC~~CL~~~~~~~~ 26 (209)
.||+.||..|+....
T Consensus 42 gFCRNCLs~Wy~eaa 56 (104)
T COG3492 42 GFCRNCLSNWYREAA 56 (104)
T ss_pred HHHHHHHHHHHHHHH
Confidence 599999999998554
No 88
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=48.34 E-value=25 Score=37.67 Aligned_cols=31 Identities=32% Similarity=0.348 Sum_probs=16.8
Q ss_pred CCCCCCCcccccccccCCcchhHHHHhHhcCCCCCCC
Q 028419 163 PDDGLDVDSEANLKVGSKDTKAEEEMEEENDSPASPL 199 (209)
Q Consensus 163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 199 (209)
-.||-|-|++ --|...+-+|+.+..|+.+|+
T Consensus 1478 GedgdD~ds~------D~Dee~~~~~~d~~ss~~~d~ 1508 (1516)
T KOG1832|consen 1478 GEDGDDGDSE------DEDEEDDGEMQDFMSSGEEDD 1508 (1516)
T ss_pred cCCCCCCCcc------ccchhhhhhhhcccCCCCCch
Confidence 3456666665 233444455666666665554
No 89
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=46.30 E-value=14 Score=33.72 Aligned_cols=32 Identities=25% Similarity=0.621 Sum_probs=24.0
Q ss_pred CCCeEcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCcc
Q 028419 2 AQPVTTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTT 52 (209)
Q Consensus 2 ~dPV~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~ 52 (209)
..|..++|||+.=.+|+..... ..++||.|.+
T Consensus 173 ~~~~~~~CgH~~h~~cf~e~~~-------------------~~y~CP~C~~ 204 (276)
T KOG1940|consen 173 EDAGVLKCGHYMHSRCFEEMIC-------------------EGYTCPICSK 204 (276)
T ss_pred ccCCccCcccchHHHHHHHHhc-------------------cCCCCCcccc
Confidence 4677799999876677766554 2279999987
No 90
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=45.24 E-value=3.7 Score=38.31 Aligned_cols=50 Identities=22% Similarity=0.377 Sum_probs=28.7
Q ss_pred eEcCCCChhHHHHHHHHHhcCccchhcccCc-----cccccCCCcccCCCCccccc
Q 028419 5 VTTPCAHNFCKSCLEEAFSGKSFVRERSRGG-----RALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 5 V~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~-----~~~r~~~~~~~CP~CR~~i~ 55 (209)
++|+|-|+|=..|+.+++..-- ...|..+. ++--.......||+||.+|.
T Consensus 132 t~T~C~Hy~H~~ClaRyl~~~~-~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~ 186 (368)
T KOG4445|consen 132 TVTACDHYMHFACLARYLTECL-TGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK 186 (368)
T ss_pred eeehhHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence 3478999998899988776321 01111110 00112223456999999986
No 91
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=40.78 E-value=25 Score=36.85 Aligned_cols=14 Identities=36% Similarity=0.911 Sum_probs=12.3
Q ss_pred EcCCCChhHHHHHH
Q 028419 6 TTPCAHNFCKSCLE 19 (209)
Q Consensus 6 ~LpCGH~FC~~CL~ 19 (209)
...|||.|=+.|+.
T Consensus 856 hF~CgHsyHqhC~e 869 (933)
T KOG2114|consen 856 HFLCGHSYHQHCLE 869 (933)
T ss_pred eeecccHHHHHhhc
Confidence 36899999999987
No 92
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.28 E-value=20 Score=29.74 Aligned_cols=22 Identities=36% Similarity=1.011 Sum_probs=16.9
Q ss_pred hhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 12 NFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 12 ~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
.||..|-.... ..||.|..+|+
T Consensus 29 afcskcgeati----------------------~qcp~csasir 50 (160)
T COG4306 29 AFCSKCGEATI----------------------TQCPICSASIR 50 (160)
T ss_pred HHHhhhchHHH----------------------hcCCccCCccc
Confidence 68998876543 37999998886
No 93
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=37.66 E-value=11 Score=36.25 Aligned_cols=40 Identities=23% Similarity=0.476 Sum_probs=0.0
Q ss_pred EcCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 6 TTPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 6 ~LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
+.||||. |..=..++|.+-. -+-+.......||.|..++.
T Consensus 362 F~PCGHv-~SekTa~yWs~i~---------lPhGt~~f~a~CPFCa~~L~ 401 (416)
T PF04710_consen 362 FNPCGHV-CSEKTAKYWSQIP---------LPHGTHAFHAACPFCATPLD 401 (416)
T ss_dssp --------------------------------------------------
T ss_pred ecccccc-cchhhhhhhhcCC---------CCCCcccccccCCcccCccc
Confidence 3599994 5555666776443 11223345679999988875
No 94
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=37.02 E-value=24 Score=33.34 Aligned_cols=39 Identities=23% Similarity=0.529 Sum_probs=25.8
Q ss_pred cCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 7 TPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 7 LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
.|||| .|..=...+|.+-. -+-+.......||.|.+.+.
T Consensus 376 ~PCGH-v~sekt~~YWs~ip---------lPhGT~~f~a~CPFC~~~L~ 414 (429)
T KOG3842|consen 376 NPCGH-VCSEKTVKYWSQIP---------LPHGTHAFHAACPFCATQLA 414 (429)
T ss_pred CCccc-ccchhhhhHhhcCc---------CCCccccccccCcchhhhhc
Confidence 48999 57776777887442 11223345678999988764
No 95
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=35.94 E-value=25 Score=23.69 Aligned_cols=9 Identities=44% Similarity=1.091 Sum_probs=3.9
Q ss_pred cccCCCCcc
Q 028419 44 IMKCPSCTT 52 (209)
Q Consensus 44 ~~~CP~CR~ 52 (209)
.+.||.|.+
T Consensus 41 ~W~CPiC~~ 49 (50)
T PF02891_consen 41 KWKCPICNK 49 (50)
T ss_dssp --B-TTT--
T ss_pred CeECcCCcC
Confidence 479999975
No 96
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=34.06 E-value=38 Score=24.14 Aligned_cols=24 Identities=29% Similarity=0.866 Sum_probs=19.2
Q ss_pred ChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 11 HNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 11 H~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
.+||..|....+. ..||-|...+.
T Consensus 29 CTFC~~C~e~~l~---------------------~~CPNCgGelv 52 (57)
T PF06906_consen 29 CTFCADCAETMLN---------------------GVCPNCGGELV 52 (57)
T ss_pred CcccHHHHHHHhc---------------------CcCcCCCCccc
Confidence 4799999998774 26999988765
No 97
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=32.09 E-value=54 Score=33.50 Aligned_cols=10 Identities=20% Similarity=0.341 Sum_probs=5.7
Q ss_pred HHHHHHHHHH
Q 028419 66 ELMEVIESLK 75 (209)
Q Consensus 66 ~L~~Lve~lk 75 (209)
.|..|+..+.
T Consensus 624 ~l~~ll~vl~ 633 (784)
T PF04931_consen 624 GLQLLLDVLD 633 (784)
T ss_pred HHHHHHHHhc
Confidence 4555666655
No 98
>PHA02862 5L protein; Provisional
Probab=31.51 E-value=37 Score=28.60 Aligned_cols=24 Identities=17% Similarity=0.372 Sum_probs=18.7
Q ss_pred HHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 15 KSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 15 ~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
+.||.+|+.... ...|+.|+..+.
T Consensus 30 q~CL~~WIn~S~-----------------k~~CeLCkteY~ 53 (156)
T PHA02862 30 IKCMQLWINYSK-----------------KKECNLCKTKYN 53 (156)
T ss_pred HHHHHHHHhcCC-----------------CcCccCCCCeEE
Confidence 589999996443 568999998764
No 99
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=31.40 E-value=5.2 Score=24.42 Aligned_cols=27 Identities=30% Similarity=0.680 Sum_probs=12.8
Q ss_pred ChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCcc
Q 028419 11 HNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTT 52 (209)
Q Consensus 11 H~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~ 52 (209)
|.||..|-........ .....||.|..
T Consensus 3 ~rfC~~CG~~t~~~~~---------------g~~r~C~~Cg~ 29 (32)
T PF09297_consen 3 HRFCGRCGAPTKPAPG---------------GWARRCPSCGH 29 (32)
T ss_dssp TSB-TTT--BEEE-SS---------------SS-EEESSSS-
T ss_pred CcccCcCCccccCCCC---------------cCEeECCCCcC
Confidence 7788888644333221 12458999875
No 100
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=31.05 E-value=28 Score=24.04 Aligned_cols=12 Identities=33% Similarity=0.982 Sum_probs=7.2
Q ss_pred CCCChhHHHHHH
Q 028419 8 PCAHNFCKSCLE 19 (209)
Q Consensus 8 pCGH~FC~~CL~ 19 (209)
.|++.||..|=.
T Consensus 26 ~C~~~FC~dCD~ 37 (51)
T PF07975_consen 26 KCKNHFCIDCDV 37 (51)
T ss_dssp TTT--B-HHHHH
T ss_pred CCCCccccCcCh
Confidence 599999999953
No 101
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=30.94 E-value=39 Score=30.99 Aligned_cols=31 Identities=32% Similarity=0.683 Sum_probs=21.5
Q ss_pred HHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 14 CKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 14 C~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
=+.||.+|++... +| +......||.|+....
T Consensus 52 HqsCL~rWiDEK~------~~-----n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 52 HQSCLSRWIDEKQ------RG-----NPLQTVSCPQCQTEYI 82 (293)
T ss_pred HHHHHHHHHhHHh------cC-----CCCceeechhhcchhe
Confidence 3689999999665 11 1123578999998764
No 102
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=30.88 E-value=43 Score=30.86 Aligned_cols=13 Identities=23% Similarity=0.754 Sum_probs=10.5
Q ss_pred CcccCCCCccccc
Q 028419 43 TIMKCPSCTTDIS 55 (209)
Q Consensus 43 ~~~~CP~CR~~i~ 55 (209)
..+.||.|...+.
T Consensus 208 k~~PCPKCg~et~ 220 (314)
T PF06524_consen 208 KPIPCPKCGYETQ 220 (314)
T ss_pred CCCCCCCCCCccc
Confidence 3578999998776
No 103
>KOG3475 consensus 60S ribosomal protein L37 [Translation, ribosomal structure and biogenesis]
Probab=30.85 E-value=25 Score=27.05 Aligned_cols=27 Identities=22% Similarity=0.672 Sum_probs=21.5
Q ss_pred CChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCcccc
Q 028419 10 AHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDI 54 (209)
Q Consensus 10 GH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i 54 (209)
.|++|..|-...|.-+. .+|..|.-+.
T Consensus 15 shtlC~RCG~~syH~QK------------------stC~~CGYpa 41 (92)
T KOG3475|consen 15 SHTLCRRCGRRSYHIQK------------------STCSSCGYPA 41 (92)
T ss_pred chHHHHHhCchhhhhhc------------------ccccccCCcc
Confidence 58999999999888665 3788887654
No 104
>KOG2042 consensus Ubiquitin fusion degradation protein-2 [Posttranslational modification, protein turnover, chaperones]
Probab=30.65 E-value=71 Score=33.95 Aligned_cols=59 Identities=19% Similarity=0.221 Sum_probs=46.7
Q ss_pred CCCCeEcC-CCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccccCcCCCcccHHHHHHHHHHHhcCC
Q 028419 1 MAQPVTTP-CAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDISDFLKDPQVNRELMEVIESLKQKTE 79 (209)
Q Consensus 1 f~dPV~Lp-CGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~~~~~~~~~N~~L~~Lve~lk~~~~ 79 (209)
+++||++| =+++.|+.=+.+++.... +=|.||.++. .....+|..++.-|..+...+.
T Consensus 880 m~dPV~LP~Srv~vDRsti~rhlLs~~-------------------tdPFNR~pLt--~d~v~pn~eLK~kI~~~~~ek~ 938 (943)
T KOG2042|consen 880 MSDPVVLPSSRVTVDRSTIERHLLSDC-------------------TDPFNREPLT--EDMVSPNEELKAKIRCWIKEKR 938 (943)
T ss_pred CCCCccCCcccccccHHHHHHHHhcCC-------------------CCccccccCc--hhhcCCCHHHHHHHHHHHHHhh
Confidence 47899999 899999999999887442 5599999887 5667788888888887766554
Q ss_pred c
Q 028419 80 E 80 (209)
Q Consensus 80 ~ 80 (209)
.
T Consensus 939 ~ 939 (943)
T KOG2042|consen 939 N 939 (943)
T ss_pred h
Confidence 3
No 105
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=27.50 E-value=27 Score=29.07 Aligned_cols=11 Identities=27% Similarity=0.597 Sum_probs=8.4
Q ss_pred cccCCCCcccc
Q 028419 44 IMKCPSCTTDI 54 (209)
Q Consensus 44 ~~~CP~CR~~i 54 (209)
.+.||.|..-.
T Consensus 120 eficpecg~l~ 130 (165)
T COG4647 120 EFICPECGILH 130 (165)
T ss_pred HhhCcccccee
Confidence 48899997654
No 106
>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=27.05 E-value=33 Score=32.43 Aligned_cols=25 Identities=16% Similarity=0.336 Sum_probs=17.5
Q ss_pred cccCccccccCCCcccCCCCccccc
Q 028419 31 RSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 31 r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
|+...++..+-.+...||+||+.++
T Consensus 327 rQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 327 RQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred cCCCCChhhhhcCCCCCCCCcccce
Confidence 3333344556677899999999876
No 107
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=26.53 E-value=25 Score=27.08 Aligned_cols=23 Identities=22% Similarity=0.645 Sum_probs=17.1
Q ss_pred CChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 10 AHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 10 GH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
||.||+.|... ...|..|...+.
T Consensus 58 g~~YCq~CAYk-----------------------kGiCamCGKki~ 80 (90)
T PF10235_consen 58 GAKYCQTCAYK-----------------------KGICAMCGKKIL 80 (90)
T ss_pred CCccChhhhcc-----------------------cCcccccCCeec
Confidence 77899999643 136999988764
No 108
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=26.36 E-value=13 Score=34.03 Aligned_cols=30 Identities=23% Similarity=0.673 Sum_probs=20.7
Q ss_pred CChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCcccc
Q 028419 10 AHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDI 54 (209)
Q Consensus 10 GH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i 54 (209)
.|.||..|-.+...... .....||.|+..+
T Consensus 110 ~~RFCg~CG~~~~~~~~---------------g~~~~C~~cg~~~ 139 (279)
T COG2816 110 SHRFCGRCGTKTYPREG---------------GWARVCPKCGHEH 139 (279)
T ss_pred hCcCCCCCCCcCccccC---------------ceeeeCCCCCCcc
Confidence 58899999766554332 2356899998865
No 109
>PRK04179 rpl37e 50S ribosomal protein L37e; Reviewed
Probab=24.65 E-value=18 Score=26.16 Aligned_cols=25 Identities=20% Similarity=0.623 Sum_probs=20.3
Q ss_pred CChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCcc
Q 028419 10 AHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTT 52 (209)
Q Consensus 10 GH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~ 52 (209)
-|++|++|-...|..+. ..|..|.-
T Consensus 16 tHt~CrRCG~~syh~qK------------------~~CasCGy 40 (62)
T PRK04179 16 THIRCRRCGRHSYNVRK------------------KYCAACGF 40 (62)
T ss_pred ccchhcccCcccccccc------------------cchhhcCC
Confidence 59999999988887664 57988866
No 110
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=23.59 E-value=21 Score=29.80 Aligned_cols=12 Identities=25% Similarity=0.852 Sum_probs=9.3
Q ss_pred CcccCCCCcccc
Q 028419 43 TIMKCPSCTTDI 54 (209)
Q Consensus 43 ~~~~CP~CR~~i 54 (209)
+.+.||+|....
T Consensus 31 glv~CP~Cgs~~ 42 (148)
T PF06676_consen 31 GLVSCPVCGSTE 42 (148)
T ss_pred CCccCCCCCCCe
Confidence 568999997653
No 111
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=23.47 E-value=8.5 Score=25.77 Aligned_cols=14 Identities=29% Similarity=0.728 Sum_probs=11.6
Q ss_pred CCCChhHHHHHHHH
Q 028419 8 PCAHNFCKSCLEEA 21 (209)
Q Consensus 8 pCGH~FC~~CL~~~ 21 (209)
.|+|.||..|...|
T Consensus 45 ~C~~~fC~~C~~~~ 58 (64)
T smart00647 45 KCGFSFCFRCKVPW 58 (64)
T ss_pred CCCCeECCCCCCcC
Confidence 58999999997664
No 112
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=23.25 E-value=45 Score=31.29 Aligned_cols=30 Identities=27% Similarity=0.794 Sum_probs=23.4
Q ss_pred cCCCChhHHHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 7 TPCAHNFCKSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 7 LpCGH~FC~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
.||++..|.-|+....... ..||.||..+.
T Consensus 269 ~~~~~~~~l~~~~t~~~~~-------------------~~~~~~rk~~~ 298 (327)
T KOG2068|consen 269 CPCGFRLCLFCHKTISDGD-------------------GRCPGCRKPYE 298 (327)
T ss_pred ccccccchhhhhhcccccC-------------------CCCCccCCccc
Confidence 4789988999988766644 48999997654
No 113
>PRK09537 pylS pyrolysyl-tRNA synthetase; Reviewed
Probab=22.69 E-value=22 Score=34.19 Aligned_cols=22 Identities=41% Similarity=0.655 Sum_probs=17.2
Q ss_pred ccCccccccCCCcccCCCCccc
Q 028419 32 SRGGRALRSQKTIMKCPSCTTD 53 (209)
Q Consensus 32 ~~g~~~~r~~~~~~~CP~CR~~ 53 (209)
+|..|.+|+.+....|+.||-+
T Consensus 54 ~~~~~~~~~~~~~~~~~~~~~~ 75 (417)
T PRK09537 54 SRTARALRHHKYRKTCKRCRVS 75 (417)
T ss_pred cHHHHHHhhchhhccCCCCCCC
Confidence 3455778888889999999874
No 114
>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=22.34 E-value=30 Score=23.29 Aligned_cols=10 Identities=30% Similarity=0.899 Sum_probs=5.3
Q ss_pred cCCCCccccc
Q 028419 46 KCPSCTTDIS 55 (209)
Q Consensus 46 ~CP~CR~~i~ 55 (209)
.||+|.+++.
T Consensus 22 ~CPlC~r~l~ 31 (54)
T PF04423_consen 22 CCPLCGRPLD 31 (54)
T ss_dssp E-TTT--EE-
T ss_pred cCCCCCCCCC
Confidence 7999998775
No 115
>KOG3241 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.90 E-value=1.1e+02 Score=26.83 Aligned_cols=10 Identities=20% Similarity=0.826 Sum_probs=5.1
Q ss_pred HHHHHHHHHh
Q 028419 14 CKSCLEEAFS 23 (209)
Q Consensus 14 C~~CL~~~~~ 23 (209)
|..|..+.+.
T Consensus 70 C~kC~~r~Vk 79 (227)
T KOG3241|consen 70 CQKCTKRNVK 79 (227)
T ss_pred HHHHHHHHHH
Confidence 5555555444
No 116
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.82 E-value=41 Score=31.79 Aligned_cols=21 Identities=29% Similarity=0.626 Sum_probs=16.0
Q ss_pred eEcCCCChhHHHHHHHHHhcC
Q 028419 5 VTTPCAHNFCKSCLEEAFSGK 25 (209)
Q Consensus 5 V~LpCGH~FC~~CL~~~~~~~ 25 (209)
++=.|||-||..|...|....
T Consensus 325 m~CrC~~~fcy~C~~~~~~~~ 345 (384)
T KOG1812|consen 325 MTCRCGHQFCYMCGGDWKTHN 345 (384)
T ss_pred EEeeccccchhhcCcchhhCC
Confidence 333599999999998876543
No 117
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=21.23 E-value=74 Score=27.05 Aligned_cols=24 Identities=29% Similarity=0.541 Sum_probs=18.9
Q ss_pred HHHHHHHHhcCccchhcccCccccccCCCcccCCCCccccc
Q 028419 15 KSCLEEAFSGKSFVRERSRGGRALRSQKTIMKCPSCTTDIS 55 (209)
Q Consensus 15 ~~CL~~~~~~~~~~~~r~~g~~~~r~~~~~~~CP~CR~~i~ 55 (209)
+.|+.+|..... ...|+.|+..+.
T Consensus 36 ~sCL~rWi~~s~-----------------~~~CeiC~~~Y~ 59 (162)
T PHA02825 36 KECLEEWINTSK-----------------NKSCKICNGPYN 59 (162)
T ss_pred HHHHHHHHhcCC-----------------CCcccccCCeEE
Confidence 589999988543 568999998874
No 118
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=21.12 E-value=35 Score=22.54 Aligned_cols=16 Identities=25% Similarity=0.810 Sum_probs=12.8
Q ss_pred CCCChhHHHHHHHHHh
Q 028419 8 PCAHNFCKSCLEEAFS 23 (209)
Q Consensus 8 pCGH~FC~~CL~~~~~ 23 (209)
.||+.||..|+.....
T Consensus 23 ~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 23 NCGRIFCSKCSSNRIP 38 (57)
T ss_pred cCcCCcChHHcCCeee
Confidence 6999999999865433
Done!