Query 023944
Match_columns 275
No_of_seqs 23 out of 25
Neff 2.0
Searched_HMMs 46136
Date Fri Mar 29 07:46:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023944.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023944hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04564 U-box: U-box domain; 99.3 8.5E-13 1.8E-17 96.4 2.1 54 222-275 3-58 (73)
2 smart00504 Ubox Modified RING 99.1 4.6E-11 1E-15 81.7 2.8 52 224-275 2-54 (63)
3 PF11789 zf-Nse: Zinc-finger o 97.6 3.1E-05 6.7E-10 56.0 1.4 39 223-261 11-53 (57)
4 PLN03208 E3 ubiquitin-protein 97.5 4.6E-05 1E-09 67.3 2.1 49 227-275 22-87 (193)
5 TIGR00599 rad18 DNA repair pro 97.2 0.00021 4.5E-09 68.4 2.7 52 224-275 27-79 (397)
6 PF15227 zf-C3HC4_4: zinc fing 96.8 0.00094 2E-08 45.2 2.1 36 227-262 2-42 (42)
7 PF13920 zf-C3HC4_3: Zinc fing 96.8 0.00096 2.1E-08 45.2 2.1 36 233-268 12-49 (50)
8 PF13923 zf-C3HC4_2: Zinc fing 96.7 0.0013 2.7E-08 42.9 2.2 33 230-262 5-39 (39)
9 PF13445 zf-RING_UBOX: RING-ty 96.7 0.00092 2E-08 46.3 1.6 30 227-257 2-35 (43)
10 smart00184 RING Ring finger. E 96.6 0.0016 3.4E-08 38.6 2.3 30 233-262 8-39 (39)
11 cd00162 RING RING-finger (Real 96.4 0.0036 7.8E-08 38.4 2.7 32 235-266 12-45 (45)
12 PF13639 zf-RING_2: Ring finge 96.2 0.0028 6.1E-08 41.8 1.7 30 233-262 13-43 (44)
13 KOG2177 Predicted E3 ubiquitin 96.2 0.0022 4.7E-08 49.7 1.3 56 217-274 7-63 (386)
14 KOG0287 Postreplication repair 95.9 0.0029 6.2E-08 61.6 1.1 45 230-274 30-75 (442)
15 PF04641 Rtf2: Rtf2 RING-finge 95.9 0.0048 1E-07 54.6 2.1 56 218-273 108-167 (260)
16 PF00097 zf-C3HC4: Zinc finger 95.8 0.0077 1.7E-07 38.7 2.3 32 231-262 6-41 (41)
17 PHA02929 N1R/p28-like protein; 94.9 0.013 2.9E-07 52.9 1.8 32 236-267 195-227 (238)
18 PF14634 zf-RING_5: zinc-RING 94.3 0.022 4.7E-07 38.1 1.3 29 236-264 15-44 (44)
19 PF12678 zf-rbx1: RING-H2 zinc 93.9 0.032 6.9E-07 41.3 1.6 27 237-263 46-73 (73)
20 TIGR00570 cdk7 CDK-activating 93.9 0.037 8E-07 52.1 2.4 38 236-273 21-60 (309)
21 KOG0978 E3 ubiquitin ligase in 93.7 0.026 5.6E-07 58.0 1.0 56 218-273 638-695 (698)
22 PF14835 zf-RING_6: zf-RING of 93.2 0.063 1.4E-06 41.2 2.1 55 219-274 3-58 (65)
23 KOG0823 Predicted E3 ubiquitin 92.7 0.061 1.3E-06 49.2 1.8 45 231-275 55-103 (230)
24 KOG3113 Uncharacterized conser 91.8 0.099 2.2E-06 49.3 2.1 57 216-273 104-164 (293)
25 KOG0320 Predicted E3 ubiquitin 91.1 0.095 2.1E-06 46.9 1.1 36 239-274 149-185 (187)
26 COG5243 HRD1 HRD ubiquitin lig 90.2 0.16 3.5E-06 50.3 1.9 29 238-266 315-344 (491)
27 KOG2042 Ubiquitin fusion degra 89.3 0.27 5.9E-06 52.3 2.8 51 224-274 871-923 (943)
28 COG5152 Uncharacterized conser 89.1 0.12 2.6E-06 47.8 0.1 34 233-266 206-240 (259)
29 KOG0802 E3 ubiquitin ligase [P 87.7 0.28 6E-06 47.7 1.6 32 236-267 309-341 (543)
30 PHA02926 zinc finger-like prot 87.3 0.34 7.3E-06 44.9 1.8 35 237-273 193-234 (242)
31 KOG1813 Predicted E3 ubiquitin 87.2 0.18 4E-06 48.0 0.0 46 222-267 232-286 (313)
32 PF14447 Prok-RING_4: Prokaryo 85.8 0.45 9.8E-06 35.5 1.4 35 236-271 20-54 (55)
33 KOG4628 Predicted E3 ubiquitin 85.7 0.57 1.2E-05 45.0 2.4 37 236-272 245-283 (348)
34 COG5432 RAD18 RING-finger-cont 84.9 0.5 1.1E-05 45.9 1.6 48 218-269 24-72 (391)
35 KOG1645 RING-finger-containing 84.6 0.37 8E-06 47.9 0.7 38 236-273 22-62 (463)
36 KOG4692 Predicted E3 ubiquitin 77.2 0.97 2.1E-05 44.9 0.7 34 235-268 434-468 (489)
37 COG5222 Uncharacterized conser 76.9 1.3 2.9E-05 43.3 1.5 52 224-275 275-330 (427)
38 KOG0297 TNF receptor-associate 76.1 1.6 3.6E-05 41.3 1.9 54 220-273 18-73 (391)
39 PF14311 DUF4379: Domain of un 75.2 1.4 2.9E-05 30.8 0.8 23 240-262 33-55 (55)
40 COG5540 RING-finger-containing 75.2 2.3 5E-05 41.5 2.6 34 234-267 337-372 (374)
41 KOG1734 Predicted RING-contain 72.9 0.83 1.8E-05 43.8 -0.9 43 233-275 244-289 (328)
42 PF02891 zf-MIZ: MIZ/SP-RING z 67.1 5.1 0.00011 28.2 2.3 42 224-265 3-50 (50)
43 COG4647 AcxC Acetone carboxyla 66.4 4.6 9.9E-05 35.6 2.3 22 254-275 118-139 (165)
44 KOG4159 Predicted E3 ubiquitin 62.5 5 0.00011 39.1 2.0 39 230-268 91-130 (398)
45 smart00834 CxxC_CXXC_SSSS Puta 60.8 2.3 5.1E-05 27.2 -0.4 29 239-267 9-37 (41)
46 PF06524 NOA36: NOA36 protein; 59.5 7.2 0.00016 37.5 2.5 9 15-23 190-198 (314)
47 KOG4172 Predicted E3 ubiquitin 57.2 2.2 4.8E-05 32.8 -1.0 32 235-267 19-54 (62)
48 PF04423 Rad50_zn_hook: Rad50 56.6 3.6 7.7E-05 28.7 -0.0 12 258-269 22-33 (54)
49 KOG4275 Predicted E3 ubiquitin 55.1 2.5 5.5E-05 41.0 -1.3 43 217-266 299-341 (350)
50 smart00744 RINGv The RING-vari 55.0 7.6 0.00016 27.2 1.4 31 233-263 11-49 (49)
51 KOG4265 Predicted E3 ubiquitin 54.4 7.7 0.00017 37.7 1.8 35 234-268 301-337 (349)
52 KOG0317 Predicted E3 ubiquitin 52.8 8.3 0.00018 36.8 1.7 42 230-271 246-288 (293)
53 smart00734 ZnF_Rad18 Rad18-lik 51.7 4.8 0.0001 25.4 -0.0 16 256-271 1-16 (26)
54 KOG3039 Uncharacterized conser 50.3 10 0.00022 36.4 1.8 41 233-273 235-276 (303)
55 KOG1002 Nucleotide excision re 49.4 6.7 0.00015 41.0 0.6 41 233-273 546-592 (791)
56 KOG0828 Predicted E3 ubiquitin 48.2 6 0.00013 40.8 0.0 63 205-267 568-634 (636)
57 PF12861 zf-Apc11: Anaphase-pr 48.1 11 0.00025 30.0 1.6 31 237-267 48-82 (85)
58 PF04931 DNA_pol_phi: DNA poly 47.6 9.6 0.00021 38.9 1.3 8 184-191 740-747 (784)
59 KOG3130 Uncharacterized conser 47.2 11 0.00024 38.2 1.6 6 34-39 203-208 (514)
60 KOG1001 Helicase-like transcri 46.1 4 8.8E-05 41.9 -1.5 39 233-271 463-504 (674)
61 PF03066 Nucleoplasmin: Nucleo 45.6 6.9 0.00015 33.1 0.0 17 51-67 75-91 (149)
62 KOG4642 Chaperone-dependent E3 44.7 11 0.00024 35.9 1.2 52 224-275 212-265 (284)
63 COG5113 UFD2 Ubiquitin fusion 42.8 20 0.00043 38.4 2.8 54 221-274 852-907 (929)
64 KOG2164 Predicted E3 ubiquitin 42.7 13 0.00027 38.0 1.3 38 236-273 199-242 (513)
65 KOG2979 Protein involved in DN 42.6 11 0.00025 35.4 0.9 38 224-261 177-218 (262)
66 KOG2023 Nuclear transport rece 42.2 14 0.0003 39.6 1.5 7 124-130 370-376 (885)
67 PF01764 Lipase_3: Lipase (cla 40.9 6.1 0.00013 29.7 -0.9 15 235-249 63-77 (140)
68 KOG2660 Locus-specific chromos 40.6 11 0.00023 36.6 0.4 51 219-269 11-63 (331)
69 TIGR03847 conserved hypothetic 39.6 24 0.00052 31.7 2.4 23 251-273 149-174 (177)
70 TIGR02605 CxxC_CxxC_SSSS putat 39.0 8.3 0.00018 26.2 -0.4 26 239-264 9-34 (52)
71 KOG1571 Predicted E3 ubiquitin 38.6 10 0.00023 36.9 0.0 53 208-267 295-347 (355)
72 KOG2930 SCF ubiquitin ligase, 38.3 16 0.00036 30.9 1.1 27 240-266 80-107 (114)
73 cd00350 rubredoxin_like Rubred 37.1 18 0.00039 23.4 0.9 21 240-265 6-26 (33)
74 KOG4140 Nuclear protein Ataxin 36.7 49 0.0011 34.5 4.3 43 42-84 87-132 (659)
75 PF03403 PAF-AH_p_II: Platelet 36.4 12 0.00025 35.3 -0.0 20 238-257 230-249 (379)
76 KOG1940 Zn-finger protein [Gen 35.4 20 0.00044 33.7 1.4 34 231-264 170-204 (276)
77 PF05097 DUF688: Protein of un 33.8 40 0.00086 33.8 3.1 23 65-87 195-217 (446)
78 KOG3130 Uncharacterized conser 32.7 38 0.00082 34.5 2.8 7 184-190 367-373 (514)
79 PF13248 zf-ribbon_3: zinc-rib 32.1 28 0.00061 21.5 1.2 14 257-270 3-16 (26)
80 KOG4185 Predicted E3 ubiquitin 31.6 28 0.0006 30.7 1.5 29 238-266 24-54 (296)
81 PRK10349 carboxylesterase BioH 29.8 21 0.00045 29.2 0.4 19 233-253 73-91 (256)
82 KOG4032 Uncharacterized conser 28.0 32 0.0007 31.1 1.3 19 94-112 133-151 (184)
83 KOG3555 Ca2+-binding proteogly 27.2 37 0.00081 34.0 1.7 6 42-47 332-337 (434)
84 PF08595 RXT2_N: RXT2-like, N- 27.0 57 0.0012 28.1 2.6 6 184-189 138-143 (149)
85 PF11290 DUF3090: Protein of u 26.6 34 0.00073 30.5 1.2 13 256-268 154-166 (171)
86 PF04710 Pellino: Pellino; In 25.5 23 0.0005 35.4 0.0 29 237-265 305-337 (416)
87 PTZ00415 transmission-blocking 24.9 37 0.00079 40.1 1.3 12 129-140 200-211 (2849)
88 KOG3268 Predicted E3 ubiquitin 24.6 46 0.00099 30.9 1.7 30 239-268 188-229 (234)
89 KOG1039 Predicted E3 ubiquitin 24.6 42 0.0009 32.4 1.5 54 207-267 160-221 (344)
90 KOG4363 Putative growth respon 23.7 43 0.00093 31.9 1.4 22 80-103 38-59 (270)
91 PF10571 UPF0547: Uncharacteri 23.6 44 0.00095 21.3 1.0 13 257-269 1-13 (26)
92 PF12773 DZR: Double zinc ribb 23.4 45 0.00097 22.3 1.1 26 241-270 18-43 (50)
93 KOG0943 Predicted ubiquitin-pr 22.7 41 0.00088 39.0 1.2 14 74-87 1700-1713(3015)
94 TIGR00100 hypA hydrogenase nic 22.5 53 0.0012 26.4 1.5 45 216-265 40-95 (115)
95 PF15135 UPF0515: Uncharacteri 22.3 65 0.0014 30.8 2.3 60 201-273 129-191 (278)
96 COG1592 Rubrerythrin [Energy p 22.3 54 0.0012 28.8 1.6 39 217-265 119-158 (166)
97 PRK01343 zinc-binding protein; 22.1 40 0.00086 25.4 0.7 15 254-268 7-21 (57)
98 PF12924 APP_Cu_bd: Copper-bin 22.0 30 0.00065 26.2 0.0 12 233-244 35-46 (58)
99 PF13365 Trypsin_2: Trypsin-li 21.1 25 0.00053 25.1 -0.6 20 229-248 2-22 (120)
100 cd00729 rubredoxin_SM Rubredox 20.9 47 0.001 21.9 0.8 22 240-266 7-28 (34)
101 COG2819 Predicted hydrolase of 20.6 44 0.00095 31.3 0.8 58 211-268 107-170 (264)
102 cd08201 plant_peroxidase_like_ 20.6 42 0.00091 31.4 0.6 32 216-249 143-175 (264)
103 KOG0827 Predicted E3 ubiquitin 20.6 44 0.00095 33.8 0.8 28 236-263 21-52 (465)
104 PF11485 DUF3211: Protein of u 20.4 42 0.0009 28.8 0.5 12 217-228 13-24 (136)
105 PF00975 Thioesterase: Thioest 20.2 23 0.00049 28.4 -1.0 11 238-248 68-78 (229)
106 PTZ00415 transmission-blocking 20.0 46 0.001 39.4 0.9 7 224-230 337-343 (2849)
No 1
>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=99.30 E-value=8.5e-13 Score=96.35 Aligned_cols=54 Identities=28% Similarity=0.519 Sum_probs=45.3
Q ss_pred hhhcCcccccccccceeccCCcccCchhHHHHHhc--cccccCCCccccCCCCCCC
Q 023944 222 AILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRM--KACYTCSRPVLEDSIAPNL 275 (275)
Q Consensus 222 aILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~m--k~C~lCs~~Ite~sL~PNl 275 (275)
.-|.+|||+.+|.|+||++|||+|.+..|++|++. .+||+|.+++++..|+||.
T Consensus 3 ~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~ 58 (73)
T PF04564_consen 3 DEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNR 58 (73)
T ss_dssp GGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-H
T ss_pred cccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECH
Confidence 35889999999999999999999999999999987 9999999999999999984
No 2
>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=99.10 E-value=4.6e-11 Score=81.75 Aligned_cols=52 Identities=21% Similarity=0.469 Sum_probs=48.3
Q ss_pred hcCcccccccccceeccCCcccCchhHHHHHh-ccccccCCCccccCCCCCCC
Q 023944 224 LSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSIAPNL 275 (275)
Q Consensus 224 LSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~PNl 275 (275)
|..|||+.+|+|+|+++|||+|....|+++++ ...||.|.++++..+|+||+
T Consensus 2 ~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~~ 54 (63)
T smart00504 2 FLCPISLEVMKDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPNL 54 (63)
T ss_pred cCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeCH
Confidence 67899999999999999999999999999766 77899999999999999984
No 3
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.57 E-value=3.1e-05 Score=55.96 Aligned_cols=39 Identities=28% Similarity=0.522 Sum_probs=28.8
Q ss_pred hhcCcccccccccceec-cCCcccCchhHHHHHh---cccccc
Q 023944 223 ILSDPVTGNLMDDAMIL-PCGHSFGAAGVQHVIR---MKACYT 261 (275)
Q Consensus 223 ILSDPlSGalMEDAMIl-~CGHSFG~~giq~Vi~---mk~C~l 261 (275)
-|.+|||+..|+|+|.. .|||+|....|..+++ ...||.
T Consensus 11 ~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 37899999999999997 6999999999999883 667887
No 4
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=97.51 E-value=4.6e-05 Score=67.25 Aligned_cols=49 Identities=20% Similarity=0.385 Sum_probs=41.8
Q ss_pred cccccccccceeccCCcccCchhHHHHHh-----------------ccccccCCCccccCCCCCCC
Q 023944 227 PVTGNLMDDAMILPCGHSFGAAGVQHVIR-----------------MKACYTCSRPVLEDSIAPNL 275 (275)
Q Consensus 227 PlSGalMEDAMIl~CGHSFG~~giq~Vi~-----------------mk~C~lCs~~Ite~sL~PNl 275 (275)
||-...+.|++|++|||+|=..=|.+|+. ...||.|.++|+...|+|.|
T Consensus 22 pICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiy 87 (193)
T PLN03208 22 NICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIY 87 (193)
T ss_pred ccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEee
Confidence 45555678999999999999999999864 35899999999999999975
No 5
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.20 E-value=0.00021 Score=68.36 Aligned_cols=52 Identities=17% Similarity=0.399 Sum_probs=42.2
Q ss_pred hcCcccccccccceeccCCcccCchhHHHHHhc-cccccCCCccccCCCCCCC
Q 023944 224 LSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRM-KACYTCSRPVLEDSIAPNL 275 (275)
Q Consensus 224 LSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~m-k~C~lCs~~Ite~sL~PNl 275 (275)
|.=||=..++.++++++|||.|-..=|+++++. ..||+|.+++....|.+|+
T Consensus 27 l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N~ 79 (397)
T TIGR00599 27 LRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSNW 79 (397)
T ss_pred cCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccccCccch
Confidence 333444556678889999999999999998874 5699999999988888874
No 6
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=96.75 E-value=0.00094 Score=45.24 Aligned_cols=36 Identities=33% Similarity=0.791 Sum_probs=26.4
Q ss_pred cccccccccceeccCCcccCchhHHHHHhcc-----ccccC
Q 023944 227 PVTGNLMDDAMILPCGHSFGAAGVQHVIRMK-----ACYTC 262 (275)
Q Consensus 227 PlSGalMEDAMIl~CGHSFG~~giq~Vi~mk-----~C~lC 262 (275)
||=-.++.|+|.|+|||||=..=|+++.+.. .||.|
T Consensus 2 piC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 2 PICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp TTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 4556789999999999999999999977643 68877
No 7
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=96.75 E-value=0.00096 Score=45.23 Aligned_cols=36 Identities=33% Similarity=0.786 Sum_probs=29.5
Q ss_pred cccceeccCCcc-cCchhHHHHH-hccccccCCCcccc
Q 023944 233 MDDAMILPCGHS-FGAAGVQHVI-RMKACYTCSRPVLE 268 (275)
Q Consensus 233 MEDAMIl~CGHS-FG~~giq~Vi-~mk~C~lCs~~Ite 268 (275)
..+++++||||. |=..=+++++ ..+.||+|.++|+.
T Consensus 12 ~~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 12 PRDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIES 49 (50)
T ss_dssp BSSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred CCceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence 567999999999 8777777765 48999999999973
No 8
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=96.67 E-value=0.0013 Score=42.86 Aligned_cols=33 Identities=27% Similarity=0.673 Sum_probs=25.6
Q ss_pred ccccccc-eeccCCcccCchhHHHHHh-ccccccC
Q 023944 230 GNLMDDA-MILPCGHSFGAAGVQHVIR-MKACYTC 262 (275)
Q Consensus 230 GalMEDA-MIl~CGHSFG~~giq~Vi~-mk~C~lC 262 (275)
-.++.++ ++++|||+|=..=|+++++ .+.||.|
T Consensus 5 ~~~~~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 5 LDELRDPVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp TSB-SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCcccCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 3456678 6889999999999999777 7888887
No 9
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=96.66 E-value=0.00092 Score=46.26 Aligned_cols=30 Identities=30% Similarity=0.704 Sum_probs=20.4
Q ss_pred ccccccccc----ceeccCCcccCchhHHHHHhcc
Q 023944 227 PVTGNLMDD----AMILPCGHSFGAAGVQHVIRMK 257 (275)
Q Consensus 227 PlSGalMED----AMIl~CGHSFG~~giq~Vi~mk 257 (275)
||+-. +.+ +|+|+|||.|-..-|+++.+.+
T Consensus 2 pIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~ 35 (43)
T PF13445_consen 2 PICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS 35 (43)
T ss_dssp TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-
T ss_pred Ccccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC
Confidence 56666 566 9999999999999999988854
No 10
>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=96.64 E-value=0.0016 Score=38.61 Aligned_cols=30 Identities=30% Similarity=0.892 Sum_probs=26.0
Q ss_pred cccceeccCCcccCchhHHHHHh--ccccccC
Q 023944 233 MDDAMILPCGHSFGAAGVQHVIR--MKACYTC 262 (275)
Q Consensus 233 MEDAMIl~CGHSFG~~giq~Vi~--mk~C~lC 262 (275)
..++++++|||.|-..=++++++ ...||.|
T Consensus 8 ~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 8 LKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 67899999999999999999876 6678887
No 11
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=96.37 E-value=0.0036 Score=38.44 Aligned_cols=32 Identities=28% Similarity=0.816 Sum_probs=25.4
Q ss_pred cceeccCCcccCchhHHHHHhc--cccccCCCcc
Q 023944 235 DAMILPCGHSFGAAGVQHVIRM--KACYTCSRPV 266 (275)
Q Consensus 235 DAMIl~CGHSFG~~giq~Vi~m--k~C~lCs~~I 266 (275)
..++.+|||.|-..=++++++. ..||.|.+++
T Consensus 12 ~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 12 PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred ceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 3444559999999999998874 6799999864
No 12
>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=96.19 E-value=0.0028 Score=41.81 Aligned_cols=30 Identities=27% Similarity=0.729 Sum_probs=25.2
Q ss_pred cccceeccCCcccCchhHHHHHh-ccccccC
Q 023944 233 MDDAMILPCGHSFGAAGVQHVIR-MKACYTC 262 (275)
Q Consensus 233 MEDAMIl~CGHSFG~~giq~Vi~-mk~C~lC 262 (275)
-+.+++++|||.|-..=|+.|++ ...||+|
T Consensus 13 ~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~C 43 (44)
T PF13639_consen 13 GEKVVKLPCGHVFHRSCIKEWLKRNNSCPVC 43 (44)
T ss_dssp TSCEEEETTSEEEEHHHHHHHHHHSSB-TTT
T ss_pred CCeEEEccCCCeeCHHHHHHHHHhCCcCCcc
Confidence 35677889999999999999877 7889998
No 13
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.19 E-value=0.0022 Score=49.70 Aligned_cols=56 Identities=25% Similarity=0.510 Sum_probs=43.9
Q ss_pred hhhHhhhhcCcccccccccceeccCCcccCchhHHHHHh-ccccccCCCccccCCCCCC
Q 023944 217 GDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSIAPN 274 (275)
Q Consensus 217 ~eSLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~PN 274 (275)
...+...|..||--..+.+++|++|||+|=..-|+.+.. .-.||.|.. ... .|.||
T Consensus 7 ~~~~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~-~~~-~~~~n 63 (386)
T KOG2177|consen 7 LEVLQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWEGPLSCPVCRP-PSR-NLRPN 63 (386)
T ss_pred hhhccccccChhhHHHhhcCccccccchHhHHHHHHhcCCCcCCcccCC-chh-ccCcc
Confidence 345567788999999999999999999999999988665 568999985 222 44454
No 14
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=95.94 E-value=0.0029 Score=61.60 Aligned_cols=45 Identities=27% Similarity=0.527 Sum_probs=39.7
Q ss_pred ccccccceeccCCcccCchhHHHHHh-ccccccCCCccccCCCCCC
Q 023944 230 GNLMDDAMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSIAPN 274 (275)
Q Consensus 230 GalMEDAMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~PN 274 (275)
-.|+.=+||.||||.|=+.-|+..++ ...||+|-.+++|..|.-|
T Consensus 30 ~eyf~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n 75 (442)
T KOG0287|consen 30 FEYFNIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNN 75 (442)
T ss_pred HHHhcCceeccccchHHHHHHHHHhccCCCCCceecccchhhhhhh
Confidence 45778899999999999999999666 9999999999999877654
No 15
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.86 E-value=0.0048 Score=54.56 Aligned_cols=56 Identities=29% Similarity=0.637 Sum_probs=46.2
Q ss_pred hhHhhhhcCccccccccc----ceeccCCcccCchhHHHHHhccccccCCCccccCCCCC
Q 023944 218 DSLRAILSDPVTGNLMDD----AMILPCGHSFGAAGVQHVIRMKACYTCSRPVLEDSIAP 273 (275)
Q Consensus 218 eSLRaILSDPlSGalMED----AMIl~CGHSFG~~giq~Vi~mk~C~lCs~~Ite~sL~P 273 (275)
+.....+.-|||+.-|.. +.|.||||=|....|+.+.....|+.|++|.++..|+|
T Consensus 108 ~~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k~~~~Cp~c~~~f~~~DiI~ 167 (260)
T PF04641_consen 108 DNSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELKKSKKCPVCGKPFTEEDIIP 167 (260)
T ss_pred ccCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhcccccccccCCccccCCEEE
Confidence 345677889999988865 35668999999999999964568999999999887765
No 16
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=95.80 E-value=0.0077 Score=38.71 Aligned_cols=32 Identities=31% Similarity=0.749 Sum_probs=25.2
Q ss_pred cccccce-eccCCcccCchhHHHHHh---ccccccC
Q 023944 231 NLMDDAM-ILPCGHSFGAAGVQHVIR---MKACYTC 262 (275)
Q Consensus 231 alMEDAM-Il~CGHSFG~~giq~Vi~---mk~C~lC 262 (275)
..+++++ +++|||+|-..=|+++++ ...||+|
T Consensus 6 ~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 6 EPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp SBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred ccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 3445555 999999999999999776 5668877
No 17
>PHA02929 N1R/p28-like protein; Provisional
Probab=94.95 E-value=0.013 Score=52.87 Aligned_cols=32 Identities=19% Similarity=0.539 Sum_probs=28.6
Q ss_pred ceeccCCcccCchhHHHHHh-ccccccCCCccc
Q 023944 236 AMILPCGHSFGAAGVQHVIR-MKACYTCSRPVL 267 (275)
Q Consensus 236 AMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~It 267 (275)
+++.+|||.|=..=|.+|++ ...||+|.+++.
T Consensus 195 ~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 195 GILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred eecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 57788999999999999887 678999999886
No 18
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=94.34 E-value=0.022 Score=38.11 Aligned_cols=29 Identities=21% Similarity=0.575 Sum_probs=24.6
Q ss_pred ceeccCCcccCchhHHHHH-hccccccCCC
Q 023944 236 AMILPCGHSFGAAGVQHVI-RMKACYTCSR 264 (275)
Q Consensus 236 AMIl~CGHSFG~~giq~Vi-~mk~C~lCs~ 264 (275)
++|++|||+|=..=|+.+. ....||+|.+
T Consensus 15 ~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 15 PRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred eEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 7899999999888887776 5679999975
No 19
>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=93.93 E-value=0.032 Score=41.32 Aligned_cols=27 Identities=26% Similarity=0.627 Sum_probs=22.6
Q ss_pred eeccCCcccCchhHHHHHh-ccccccCC
Q 023944 237 MILPCGHSFGAAGVQHVIR-MKACYTCS 263 (275)
Q Consensus 237 MIl~CGHSFG~~giq~Vi~-mk~C~lCs 263 (275)
++.+|||.|...=|++|++ ..+||+|.
T Consensus 46 ~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 46 VWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp EEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred EecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 5567999999999999887 77999994
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=93.93 E-value=0.037 Score=52.13 Aligned_cols=38 Identities=21% Similarity=0.510 Sum_probs=31.3
Q ss_pred ceeccCCcccCchhHHHHHh--ccccccCCCccccCCCCC
Q 023944 236 AMILPCGHSFGAAGVQHVIR--MKACYTCSRPVLEDSIAP 273 (275)
Q Consensus 236 AMIl~CGHSFG~~giq~Vi~--mk~C~lCs~~Ite~sL~P 273 (275)
.||.+|||+|=..=|.++.. ...||.|.+++....+.|
T Consensus 21 l~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr~ 60 (309)
T TIGR00570 21 LMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFRV 60 (309)
T ss_pred cccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhhccc
Confidence 46778999999999999654 568999999999877544
No 21
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=93.66 E-value=0.026 Score=58.02 Aligned_cols=56 Identities=23% Similarity=0.422 Sum_probs=47.0
Q ss_pred hhHhhhhcCcccccccccceeccCCcccCchhHHHHHh--ccccccCCCccccCCCCC
Q 023944 218 DSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR--MKACYTCSRPVLEDSIAP 273 (275)
Q Consensus 218 eSLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~--mk~C~lCs~~Ite~sL~P 273 (275)
.-+|.+|.=|+=-.=--|++|+.|||=|=-.=|+.-++ +..||+|+.+...-.+.|
T Consensus 638 k~yK~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~ 695 (698)
T KOG0978|consen 638 KEYKELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHR 695 (698)
T ss_pred HHHHhceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccc
Confidence 34677777777777778999999999999999999665 899999999998766655
No 22
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=93.18 E-value=0.063 Score=41.16 Aligned_cols=55 Identities=20% Similarity=0.437 Sum_probs=30.0
Q ss_pred hHhhhhcCcccccccccce-eccCCcccCchhHHHHHhccccccCCCccccCCCCCC
Q 023944 219 SLRAILSDPVTGNLMDDAM-ILPCGHSFGAAGVQHVIRMKACYTCSRPVLEDSIAPN 274 (275)
Q Consensus 219 SLRaILSDPlSGalMEDAM-Il~CGHSFG~~giq~Vi~mk~C~lCs~~Ite~sL~PN 274 (275)
-|+++|.=+.-..+|..++ +-.|.|.|=+.=|.+-+.. .||.|+.|..+..+.=|
T Consensus 3 ~le~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~-~CPvC~~Paw~qD~~~N 58 (65)
T PF14835_consen 3 RLEELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGS-ECPVCHTPAWIQDIQIN 58 (65)
T ss_dssp HHHHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTTT-B-SSS--B-S-SS----
T ss_pred HHHHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcCC-CCCCcCChHHHHHHHhh
Confidence 4778888888999999996 5669999999999886665 49999999988877543
No 23
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.71 E-value=0.061 Score=49.20 Aligned_cols=45 Identities=27% Similarity=0.520 Sum_probs=39.6
Q ss_pred cccccceeccCCcccCchhHHHHHh----ccccccCCCccccCCCCCCC
Q 023944 231 NLMDDAMILPCGHSFGAAGVQHVIR----MKACYTCSRPVLEDSIAPNL 275 (275)
Q Consensus 231 alMEDAMIl~CGHSFG~~giq~Vi~----mk~C~lCs~~Ite~sL~PNl 275 (275)
.+-+|+||..|||=|==.=|-+|+. .+-||.|+..|+.+.|+|=|
T Consensus 55 d~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlY 103 (230)
T KOG0823|consen 55 DLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLY 103 (230)
T ss_pred cccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeee
Confidence 4568999999999999888999887 56789999999999999854
No 24
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=91.85 E-value=0.099 Score=49.33 Aligned_cols=57 Identities=26% Similarity=0.464 Sum_probs=47.4
Q ss_pred ChhhHhhhhcCccccccccc----ceeccCCcccCchhHHHHHhccccccCCCccccCCCCC
Q 023944 216 SGDSLRAILSDPVTGNLMDD----AMILPCGHSFGAAGVQHVIRMKACYTCSRPVLEDSIAP 273 (275)
Q Consensus 216 s~eSLRaILSDPlSGalMED----AMIl~CGHSFG~~giq~Vi~mk~C~lCs~~Ite~sL~P 273 (275)
+-+--++-+.=||||--|.+ +.|.+|||=|..--|+.|. .+.|..|+++..++.+++
T Consensus 104 ~~D~~~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik-as~C~~C~a~y~~~dvIv 164 (293)
T KOG3113|consen 104 HDDTQRARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK-ASVCHVCGAAYQEDDVIV 164 (293)
T ss_pred ccccccceeecccccceecceEEEEEEeccceeccHHHHHHhh-hccccccCCcccccCeEe
Confidence 34444667788999999988 5788999999999999887 789999999999877654
No 25
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.14 E-value=0.095 Score=46.94 Aligned_cols=36 Identities=19% Similarity=0.549 Sum_probs=32.1
Q ss_pred ccCCcccCchhHHHHHh-ccccccCCCccccCCCCCC
Q 023944 239 LPCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSIAPN 274 (275)
Q Consensus 239 l~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~PN 274 (275)
..|||=|=..=|+.+++ +-.||+|++-|+...++|=
T Consensus 149 TkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~~rI 185 (187)
T KOG0320|consen 149 TKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQFHRI 185 (187)
T ss_pred cccchhHHHHHHHHHHHhCCCCCCcccccchhhheec
Confidence 56999999999999777 8899999999999988763
No 26
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=90.21 E-value=0.16 Score=50.31 Aligned_cols=29 Identities=34% Similarity=0.794 Sum_probs=26.7
Q ss_pred eccCCcccCchhHHHHHh-ccccccCCCcc
Q 023944 238 ILPCGHSFGAAGVQHVIR-MKACYTCSRPV 266 (275)
Q Consensus 238 Il~CGHSFG~~giq~Vi~-mk~C~lCs~~I 266 (275)
=|||||=|==.-|+-|+| +++||+|..|+
T Consensus 315 rLpCGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 315 RLPCGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred cccccceeeHHHHHHHHHhccCCCcccCcc
Confidence 478999999999999998 99999999995
No 27
>KOG2042 consensus Ubiquitin fusion degradation protein-2 [Posttranslational modification, protein turnover, chaperones]
Probab=89.27 E-value=0.27 Score=52.28 Aligned_cols=51 Identities=24% Similarity=0.443 Sum_probs=47.6
Q ss_pred hcCcccccccccceecc-CCcccCchhHHH-HHhccccccCCCccccCCCCCC
Q 023944 224 LSDPVTGNLMDDAMILP-CGHSFGAAGVQH-VIRMKACYTCSRPVLEDSIAPN 274 (275)
Q Consensus 224 LSDPlSGalMEDAMIl~-CGHSFG~~giq~-Vi~mk~C~lCs~~Ite~sL~PN 274 (275)
.-|||++++|-|.+++| =|+...+..|++ .+...+=|-|-+|++++.++||
T Consensus 871 f~DPlm~Tlm~dPV~LP~Srv~vDRsti~rhlLs~~tdPFNR~pLt~d~v~pn 923 (943)
T KOG2042|consen 871 FLDPLMSTLMSDPVVLPSSRVTVDRSTIERHLLSDCTDPFNREPLTEDMVSPN 923 (943)
T ss_pred hhCccccccCCCCccCCcccccccHHHHHHHHhcCCCCccccccCchhhcCCC
Confidence 45999999999999999 999999999998 6668888999999999999998
No 28
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=89.06 E-value=0.12 Score=47.76 Aligned_cols=34 Identities=21% Similarity=0.610 Sum_probs=27.0
Q ss_pred cccceeccCCcccCch-hHHHHHhccccccCCCcc
Q 023944 233 MDDAMILPCGHSFGAA-GVQHVIRMKACYTCSRPV 266 (275)
Q Consensus 233 MEDAMIl~CGHSFG~~-giq~Vi~mk~C~lCs~~I 266 (275)
.+.+++..|||||=+. -|++......|..|++.+
T Consensus 206 y~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 206 YESPVVTECGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred ccchhhhhcchhHHHHHHHHHhccCCcceecchhh
Confidence 3567788899999765 466677789999999875
No 29
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.72 E-value=0.28 Score=47.72 Aligned_cols=32 Identities=28% Similarity=0.623 Sum_probs=28.6
Q ss_pred ceeccCCcccCchhHHHHHh-ccccccCCCccc
Q 023944 236 AMILPCGHSFGAAGVQHVIR-MKACYTCSRPVL 267 (275)
Q Consensus 236 AMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~It 267 (275)
+-+++|||-|-..-|+.|.| .++||+|...+.
T Consensus 309 ~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 309 PKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred cceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 67899999999999999888 999999998544
No 30
>PHA02926 zinc finger-like protein; Provisional
Probab=87.29 E-value=0.34 Score=44.93 Aligned_cols=35 Identities=20% Similarity=0.413 Sum_probs=28.9
Q ss_pred eeccCCcccCchhHHHHHhcc-------ccccCCCccccCCCCC
Q 023944 237 MILPCGHSFGAAGVQHVIRMK-------ACYTCSRPVLEDSIAP 273 (275)
Q Consensus 237 MIl~CGHSFG~~giq~Vi~mk-------~C~lCs~~Ite~sL~P 273 (275)
++.+|+|+|=-.=|++|.+.+ .||+|-+++. .++|
T Consensus 193 IL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~--~I~p 234 (242)
T PHA02926 193 LLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR--NITM 234 (242)
T ss_pred ccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee--eecc
Confidence 566899999999999999853 4999999876 5555
No 31
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.22 E-value=0.18 Score=48.04 Aligned_cols=46 Identities=20% Similarity=0.444 Sum_probs=36.2
Q ss_pred hhhcCccc--------ccccccceeccCCcccC-chhHHHHHhccccccCCCccc
Q 023944 222 AILSDPVT--------GNLMDDAMILPCGHSFG-AAGVQHVIRMKACYTCSRPVL 267 (275)
Q Consensus 222 aILSDPlS--------GalMEDAMIl~CGHSFG-~~giq~Vi~mk~C~lCs~~It 267 (275)
.|..|+-. .....+.|+..|||.|= .-.|++..+...|++|++.+-
T Consensus 232 ~~~~D~~~~Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 232 VKIEDIELLPFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTH 286 (313)
T ss_pred eecCCcccCCccccccccccccchhhcCCceeehhhhccccccCCcceecccccc
Confidence 66676544 45567889999999995 446777888899999999874
No 32
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=85.75 E-value=0.45 Score=35.52 Aligned_cols=35 Identities=29% Similarity=0.517 Sum_probs=26.4
Q ss_pred ceeccCCcccCchhHHHHHhccccccCCCccccCCC
Q 023944 236 AMILPCGHSFGAAGVQHVIRMKACYTCSRPVLEDSI 271 (275)
Q Consensus 236 AMIl~CGHSFG~~giq~Vi~mk~C~lCs~~Ite~sL 271 (275)
-+++||||-.=...-. .-+-..||.|+++++.+++
T Consensus 20 ~~~~pCgH~I~~~~f~-~~rYngCPfC~~~~~~~~~ 54 (55)
T PF14447_consen 20 GTVLPCGHLICDNCFP-GERYNGCPFCGTPFEFDDP 54 (55)
T ss_pred cccccccceeeccccC-hhhccCCCCCCCcccCCCC
Confidence 4689999975444432 3467899999999998875
No 33
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.68 E-value=0.57 Score=45.01 Aligned_cols=37 Identities=30% Similarity=0.560 Sum_probs=31.0
Q ss_pred ceeccCCcccCchhHHHHHhc--cccccCCCccccCCCC
Q 023944 236 AMILPCGHSFGAAGVQHVIRM--KACYTCSRPVLEDSIA 272 (275)
Q Consensus 236 AMIl~CGHSFG~~giq~Vi~m--k~C~lCs~~Ite~sL~ 272 (275)
..||||.|=|=..=|..|+-. +.||+|++.|.++.-.
T Consensus 245 lRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~~ 283 (348)
T KOG4628|consen 245 LRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSGS 283 (348)
T ss_pred eeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCCCC
Confidence 358999999999999998874 4599999998876543
No 34
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=84.90 E-value=0.5 Score=45.88 Aligned_cols=48 Identities=21% Similarity=0.376 Sum_probs=35.8
Q ss_pred hhHhhhhcCcccccccccceeccCCcccCchhHHHHHh-ccccccCCCccccC
Q 023944 218 DSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLED 269 (275)
Q Consensus 218 eSLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~ 269 (275)
.+||-.+.| -++-=.++.+|||.|=..-|++-+. +..||.|-.+--+-
T Consensus 24 s~lrC~IC~----~~i~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~es 72 (391)
T COG5432 24 SMLRCRICD----CRISIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCES 72 (391)
T ss_pred hHHHhhhhh----heeecceecccccchhHHHHHHHhcCCCCCccccccHHhh
Confidence 345555554 3455578899999999999999555 99999998875543
No 35
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.56 E-value=0.37 Score=47.94 Aligned_cols=38 Identities=29% Similarity=0.606 Sum_probs=31.9
Q ss_pred ceeccCCcccCchhHHHHHh---ccccccCCCccccCCCCC
Q 023944 236 AMILPCGHSFGAAGVQHVIR---MKACYTCSRPVLEDSIAP 273 (275)
Q Consensus 236 AMIl~CGHSFG~~giq~Vi~---mk~C~lCs~~Ite~sL~P 273 (275)
.+++-|||=||..-|++|+- .++|+.|+..-+.-+|+|
T Consensus 22 ~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i~~ 62 (463)
T KOG1645|consen 22 IVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIRP 62 (463)
T ss_pred EeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHHHH
Confidence 35667999999999999875 568999999888777766
No 36
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.23 E-value=0.97 Score=44.92 Aligned_cols=34 Identities=32% Similarity=0.737 Sum_probs=28.3
Q ss_pred cceeccCCc-ccCchhHHHHHhccccccCCCcccc
Q 023944 235 DAMILPCGH-SFGAAGVQHVIRMKACYTCSRPVLE 268 (275)
Q Consensus 235 DAMIl~CGH-SFG~~giq~Vi~mk~C~lCs~~Ite 268 (275)
-||+.|||| |--+--.||++.-|+|+-|+..|..
T Consensus 434 ~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 434 NAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred hhhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 489999999 4445567889999999999998863
No 37
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=76.93 E-value=1.3 Score=43.29 Aligned_cols=52 Identities=33% Similarity=0.668 Sum_probs=44.3
Q ss_pred hcCcccccccccceecc-CCcccCchhHHH-HHh-ccccccCCC-ccccCCCCCCC
Q 023944 224 LSDPVTGNLMDDAMILP-CGHSFGAAGVQH-VIR-MKACYTCSR-PVLEDSIAPNL 275 (275)
Q Consensus 224 LSDPlSGalMEDAMIl~-CGHSFG~~giq~-Vi~-mk~C~lCs~-~Ite~sL~PNl 275 (275)
|.=||++-|+-.+|=.+ |||-|--.-|+- +++ -..|+-|+. .|..++|+|.+
T Consensus 275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld~l~pD~ 330 (427)
T COG5222 275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDGLTPDI 330 (427)
T ss_pred ccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCcccccchhhccCccH
Confidence 55699999999999996 999999999997 444 689999986 77888898864
No 38
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=76.11 E-value=1.6 Score=41.31 Aligned_cols=54 Identities=22% Similarity=0.453 Sum_probs=46.2
Q ss_pred HhhhhcCccccccccccee-ccCCcccCchhHHHHHh-ccccccCCCccccCCCCC
Q 023944 220 LRAILSDPVTGNLMDDAMI-LPCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSIAP 273 (275)
Q Consensus 220 LRaILSDPlSGalMEDAMI-l~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~P 273 (275)
|+.=|+.|+=.+.+.|+.. +.|||.|.+.-|..+.+ ...|+-|-++++...+.|
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~ 73 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEELP 73 (391)
T ss_pred CcccccCccccccccCCCCCCCCCCcccccccchhhccCcCCcccccccchhhccC
Confidence 6666889999999999999 49999999999998666 599999999888666554
No 39
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=75.18 E-value=1.4 Score=30.83 Aligned_cols=23 Identities=35% Similarity=0.670 Sum_probs=20.9
Q ss_pred cCCcccCchhHHHHHhccccccC
Q 023944 240 PCGHSFGAAGVQHVIRMKACYTC 262 (275)
Q Consensus 240 ~CGHSFG~~giq~Vi~mk~C~lC 262 (275)
.|||+|-..--.|+.+...||.|
T Consensus 33 ~Cgh~w~~~v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKASVNDRTRRGKGCPYC 55 (55)
T ss_pred CCCCeeEccHhhhccCCCCCCCC
Confidence 49999999888889889999998
No 40
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=75.16 E-value=2.3 Score=41.50 Aligned_cols=34 Identities=26% Similarity=0.592 Sum_probs=30.4
Q ss_pred ccceeccCCcccCchhHHHHHh--ccccccCCCccc
Q 023944 234 DDAMILPCGHSFGAAGVQHVIR--MKACYTCSRPVL 267 (275)
Q Consensus 234 EDAMIl~CGHSFG~~giq~Vi~--mk~C~lCs~~It 267 (275)
+-.|++||-|=|=..-+.+|+- .-+||.|..+|.
T Consensus 337 d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 337 DRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred ceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence 3479999999999999999887 789999999875
No 41
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.94 E-value=0.83 Score=43.81 Aligned_cols=43 Identities=19% Similarity=0.348 Sum_probs=35.8
Q ss_pred cccceeccCCcccCchhHHHH---HhccccccCCCccccCCCCCCC
Q 023944 233 MDDAMILPCGHSFGAAGVQHV---IRMKACYTCSRPVLEDSIAPNL 275 (275)
Q Consensus 233 MEDAMIl~CGHSFG~~giq~V---i~mk~C~lCs~~Ite~sL~PNl 275 (275)
+|-.-=|+|+|+|=---|+.| =+.++||-|++.|+.++++-|.
T Consensus 244 ienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmfsnp 289 (328)
T KOG1734|consen 244 IENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMFSNP 289 (328)
T ss_pred hhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhhhccCc
Confidence 355566899999999999994 3589999999999998887663
No 42
>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=67.13 E-value=5.1 Score=28.21 Aligned_cols=42 Identities=21% Similarity=0.377 Sum_probs=20.5
Q ss_pred hcCcccccccccceecc-CCcc--cCchh-HHHHHh--ccccccCCCc
Q 023944 224 LSDPVTGNLMDDAMILP-CGHS--FGAAG-VQHVIR--MKACYTCSRP 265 (275)
Q Consensus 224 LSDPlSGalMEDAMIl~-CGHS--FG~~g-iq~Vi~--mk~C~lCs~~ 265 (275)
|.+|||...|+=++=.. |-|- |.... |+.-.+ .-.||+|++|
T Consensus 3 L~CPls~~~i~~P~Rg~~C~H~~CFDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIPVRGKNCKHLQCFDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSEEEETT--SS--EEHHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeCccCCcCcccceECHHHHHHHhhccCCeECcCCcCc
Confidence 67899998887666443 9996 66533 333333 3359999986
No 43
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=66.39 E-value=4.6 Score=35.64 Aligned_cols=22 Identities=27% Similarity=0.377 Sum_probs=15.4
Q ss_pred HhccccccCCCccccCCCCCCC
Q 023944 254 IRMKACYTCSRPVLEDSIAPNL 275 (275)
Q Consensus 254 i~mk~C~lCs~~Ite~sL~PNl 275 (275)
||--.||-|+--..-+.-+|-|
T Consensus 118 ~reficpecg~l~eveaaap~y 139 (165)
T COG4647 118 IREFICPECGILHEVEAAAPGY 139 (165)
T ss_pred HHHhhCccccceeeeccCCCCC
Confidence 5566799998777766666643
No 44
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.46 E-value=5 Score=39.12 Aligned_cols=39 Identities=23% Similarity=0.564 Sum_probs=30.7
Q ss_pred ccccccceeccCCcccCchhHHHHHh-ccccccCCCcccc
Q 023944 230 GNLMDDAMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLE 268 (275)
Q Consensus 230 GalMEDAMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite 268 (275)
-.++...+.+||||||-..=|.+.+. -.-|++|-.++-+
T Consensus 91 ~~~l~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 91 SRALYPPVVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred HhhcCCCccccccccccHHHHHHHhccCCCCccccccccc
Confidence 34567778889999999988777554 6779999887753
No 45
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=60.78 E-value=2.3 Score=27.20 Aligned_cols=29 Identities=24% Similarity=0.432 Sum_probs=19.4
Q ss_pred ccCCcccCchhHHHHHhccccccCCCccc
Q 023944 239 LPCGHSFGAAGVQHVIRMKACYTCSRPVL 267 (275)
Q Consensus 239 l~CGHSFG~~giq~Vi~mk~C~lCs~~It 267 (275)
..|||.|=.......-+..+||.|++++.
T Consensus 9 ~~Cg~~fe~~~~~~~~~~~~CP~Cg~~~~ 37 (41)
T smart00834 9 EDCGHTFEVLQKISDDPLATCPECGGDVR 37 (41)
T ss_pred CCCCCEEEEEEecCCCCCCCCCCCCCcce
Confidence 35999886443322245788999999653
No 46
>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=59.48 E-value=7.2 Score=37.47 Aligned_cols=9 Identities=44% Similarity=0.822 Sum_probs=4.3
Q ss_pred eeecCCCCc
Q 023944 15 LVFQDDPLR 23 (275)
Q Consensus 15 lvfqd~~lr 23 (275)
+-|=|+-.|
T Consensus 190 ~cfCddHvr 198 (314)
T PF06524_consen 190 ICFCDDHVR 198 (314)
T ss_pred eeehhhhhh
Confidence 345455444
No 47
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=57.20 E-value=2.2 Score=32.75 Aligned_cols=32 Identities=25% Similarity=0.691 Sum_probs=22.5
Q ss_pred cceeccCCcc---cCchhHHHHH-hccccccCCCccc
Q 023944 235 DAMILPCGHS---FGAAGVQHVI-RMKACYTCSRPVL 267 (275)
Q Consensus 235 DAMIl~CGHS---FG~~giq~Vi-~mk~C~lCs~~It 267 (275)
|.+|.+|||= |.. +|+.+. -...||+|.+||.
T Consensus 19 dsVlYtCGHMCmCy~C-g~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 19 DSVLYTCGHMCMCYAC-GLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred hHHHHHcchHHhHHHH-HHHHHHccCCcCcchhhHHH
Confidence 5678899994 333 344444 3778999999984
No 48
>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=56.56 E-value=3.6 Score=28.71 Aligned_cols=12 Identities=42% Similarity=0.996 Sum_probs=6.9
Q ss_pred ccccCCCccccC
Q 023944 258 ACYTCSRPVLED 269 (275)
Q Consensus 258 ~C~lCs~~Ite~ 269 (275)
.||+|..+++++
T Consensus 22 ~CPlC~r~l~~e 33 (54)
T PF04423_consen 22 CCPLCGRPLDEE 33 (54)
T ss_dssp E-TTT--EE-HH
T ss_pred cCCCCCCCCCHH
Confidence 999999999864
No 49
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=55.07 E-value=2.5 Score=40.96 Aligned_cols=43 Identities=30% Similarity=0.502 Sum_probs=27.1
Q ss_pred hhhHhhhhcCcccccccccceeccCCcccCchhHHHHHhccccccCCCcc
Q 023944 217 GDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRMKACYTCSRPV 266 (275)
Q Consensus 217 ~eSLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~mk~C~lCs~~I 266 (275)
.+.|=+|--|-- -|-++|+|||+.-.--- =++|.-||+|-|-|
T Consensus 299 ~~~LC~ICmDaP-----~DCvfLeCGHmVtCt~C--Gkrm~eCPICRqyi 341 (350)
T KOG4275|consen 299 TRRLCAICMDAP-----RDCVFLECGHMVTCTKC--GKRMNECPICRQYI 341 (350)
T ss_pred HHHHHHHHhcCC-----cceEEeecCcEEeehhh--ccccccCchHHHHH
Confidence 366777766521 37899999998654321 24555777776644
No 50
>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=55.01 E-value=7.6 Score=27.18 Aligned_cols=31 Identities=19% Similarity=0.479 Sum_probs=25.3
Q ss_pred cccceeccCC-----cccCchhHHHHHhcc---ccccCC
Q 023944 233 MDDAMILPCG-----HSFGAAGVQHVIRMK---ACYTCS 263 (275)
Q Consensus 233 MEDAMIl~CG-----HSFG~~giq~Vi~mk---~C~lCs 263 (275)
-++.+|.||. |-+=..=|++|+..+ .|++|+
T Consensus 11 ~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 11 EGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4678999995 777888899999755 699995
No 51
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=54.44 E-value=7.7 Score=37.73 Aligned_cols=35 Identities=31% Similarity=0.739 Sum_probs=27.8
Q ss_pred ccceeccCCcccCchhHHHHHh--ccccccCCCcccc
Q 023944 234 DDAMILPCGHSFGAAGVQHVIR--MKACYTCSRPVLE 268 (275)
Q Consensus 234 EDAMIl~CGHSFG~~giq~Vi~--mk~C~lCs~~Ite 268 (275)
-|.+||||=|===+.+=-+.++ .-+||+|-++|.+
T Consensus 301 rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 301 RDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred cceEEecchhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 4789999999766666666666 6679999999974
No 52
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=52.79 E-value=8.3 Score=36.82 Aligned_cols=42 Identities=17% Similarity=0.302 Sum_probs=35.5
Q ss_pred ccccccceeccCCcccCchhHHHHHh-ccccccCCCccccCCC
Q 023944 230 GNLMDDAMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSI 271 (275)
Q Consensus 230 GalMEDAMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL 271 (275)
...+.+.--+||||=|=-.=|..|.. ...||+|-++.....+
T Consensus 246 Le~~~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 246 LENRSNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKV 288 (293)
T ss_pred ecCCCCCCcCcCcchHHHHHHHHHHccccCCCcccccCCCcce
Confidence 45678889999999999998988766 7889999998877654
No 53
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=51.74 E-value=4.8 Score=25.36 Aligned_cols=16 Identities=38% Similarity=0.646 Sum_probs=12.1
Q ss_pred ccccccCCCccccCCC
Q 023944 256 MKACYTCSRPVLEDSI 271 (275)
Q Consensus 256 mk~C~lCs~~Ite~sL 271 (275)
|-.||+|++.++...|
T Consensus 1 ~v~CPiC~~~v~~~~i 16 (26)
T smart00734 1 LVQCPVCFREVPENLI 16 (26)
T ss_pred CCcCCCCcCcccHHHH
Confidence 4579999999865543
No 54
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=50.26 E-value=10 Score=36.38 Aligned_cols=41 Identities=22% Similarity=0.295 Sum_probs=36.1
Q ss_pred cccceeccCCcccCchhHHHHHh-ccccccCCCccccCCCCC
Q 023944 233 MDDAMILPCGHSFGAAGVQHVIR-MKACYTCSRPVLEDSIAP 273 (275)
Q Consensus 233 MEDAMIl~CGHSFG~~giq~Vi~-mk~C~lCs~~Ite~sL~P 273 (275)
|-=|++-||||=|--.-.+++|+ -..|++|.+|+.+..|++
T Consensus 235 ~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~ 276 (303)
T KOG3039|consen 235 TPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIG 276 (303)
T ss_pred cceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEe
Confidence 34467889999999999999888 789999999999998875
No 55
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=49.44 E-value=6.7 Score=40.99 Aligned_cols=41 Identities=20% Similarity=0.369 Sum_probs=28.2
Q ss_pred cccceeccCCcccCchhHHHHHh------ccccccCCCccccCCCCC
Q 023944 233 MDDAMILPCGHSFGAAGVQHVIR------MKACYTCSRPVLEDSIAP 273 (275)
Q Consensus 233 MEDAMIl~CGHSFG~~giq~Vi~------mk~C~lCs~~Ite~sL~P 273 (275)
-+|++..+|-|-|-++-|+..++ --+||.|+.+++.+--.|
T Consensus 546 aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~ 592 (791)
T KOG1002|consen 546 AEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEP 592 (791)
T ss_pred hhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccccch
Confidence 36777778888888877766443 246888888877664444
No 56
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=48.21 E-value=6 Score=40.81 Aligned_cols=63 Identities=29% Similarity=0.433 Sum_probs=45.7
Q ss_pred eeccCCCCCCCChhhHhhhhcCccccccccc--ceeccCCcccCchhHHHHHh-cc-ccccCCCccc
Q 023944 205 VAVDNGCGISGSGDSLRAILSDPVTGNLMDD--AMILPCGHSFGAAGVQHVIR-MK-ACYTCSRPVL 267 (275)
Q Consensus 205 v~~~ngcg~sgs~eSLRaILSDPlSGalMED--AMIl~CGHSFG~~giq~Vi~-mk-~C~lCs~~It 267 (275)
|...+-|..-=+.=.||.--||=.--+.|-- -|+.||-|=|-+.-|++|++ -| -||.|-.|+-
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 4455566655555666666665444444433 69999999999999999999 45 8999999874
No 57
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=48.06 E-value=11 Score=30.03 Aligned_cols=31 Identities=19% Similarity=0.425 Sum_probs=26.7
Q ss_pred eeccCCcccCchhHHHHHhc----cccccCCCccc
Q 023944 237 MILPCGHSFGAAGVQHVIRM----KACYTCSRPVL 267 (275)
Q Consensus 237 MIl~CGHSFG~~giq~Vi~m----k~C~lCs~~It 267 (275)
++-.|+|.|=.-=|.+++++ +.||.|-++..
T Consensus 48 v~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 48 VWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred eeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 55569999999999999984 78999999865
No 58
>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=47.59 E-value=9.6 Score=38.85 Aligned_cols=8 Identities=0% Similarity=0.156 Sum_probs=4.1
Q ss_pred hHHHhhhc
Q 023944 184 YYSQYLQQ 191 (275)
Q Consensus 184 yyS~~l~q 191 (275)
+-++.+++
T Consensus 740 ~La~~Fk~ 747 (784)
T PF04931_consen 740 QLAAIFKE 747 (784)
T ss_pred HHHHHHHH
Confidence 44555554
No 59
>KOG3130 consensus Uncharacterized conserved protein [Function unknown]
Probab=47.24 E-value=11 Score=38.19 Aligned_cols=6 Identities=50% Similarity=0.811 Sum_probs=2.9
Q ss_pred CCCCcc
Q 023944 34 DPGPKT 39 (275)
Q Consensus 34 dp~pkt 39 (275)
+|-|+|
T Consensus 203 ~skP~~ 208 (514)
T KOG3130|consen 203 DSKPDT 208 (514)
T ss_pred CCCchh
Confidence 444544
No 60
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=46.07 E-value=4 Score=41.89 Aligned_cols=39 Identities=26% Similarity=0.569 Sum_probs=32.8
Q ss_pred cccceeccCCcccCchhHHHHHh---ccccccCCCccccCCC
Q 023944 233 MDDAMILPCGHSFGAAGVQHVIR---MKACYTCSRPVLEDSI 271 (275)
Q Consensus 233 MEDAMIl~CGHSFG~~giq~Vi~---mk~C~lCs~~Ite~sL 271 (275)
.++++|..|||.|...-+..+++ ..-|++|..-+.+..|
T Consensus 463 ~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l 504 (674)
T KOG1001|consen 463 LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKL 504 (674)
T ss_pred cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHH
Confidence 89999999999999999999887 4469999877765543
No 61
>PF03066 Nucleoplasmin: Nucleoplasmin; InterPro: IPR004301 The nucleophosmin/nucleoplasmin family of chaperones includes nucleophosmin, nucleoplasmin and nucleoplasmin-like proteins. They function as nuclear chaperones which are needed for the proper assembly of nucleosomes and the attainment of proper higher order chromatin structures [].; GO: 0003676 nucleic acid binding; PDB: 2P1B_E 1XB9_I 1XE0_C 1NLQ_A 2VTX_E 1K5J_D 1EJY_N 1EE5_B 3T30_J.
Probab=45.56 E-value=6.9 Score=33.05 Aligned_cols=17 Identities=24% Similarity=0.251 Sum_probs=9.3
Q ss_pred eeeccccccCCCCCccc
Q 023944 51 FSVDRDRYFRPQPTMFT 67 (275)
Q Consensus 51 f~v~rdryf~~q~~ef~ 67 (275)
-.|.-|-||...+-.|+
T Consensus 75 ~~vsL~~~~~~ppVtf~ 91 (149)
T PF03066_consen 75 PMVSLDGFEITPPVTFR 91 (149)
T ss_dssp SEEEEEEEEESSSEEEE
T ss_pred ceEEcCCcccCCCEEEE
Confidence 34455566643466666
No 62
>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]
Probab=44.71 E-value=11 Score=35.92 Aligned_cols=52 Identities=27% Similarity=0.418 Sum_probs=43.2
Q ss_pred hcCcccccccccceeccCCcccCchhHHHHH-h-ccccccCCCccccCCCCCCC
Q 023944 224 LSDPVTGNLMDDAMILPCGHSFGAAGVQHVI-R-MKACYTCSRPVLEDSIAPNL 275 (275)
Q Consensus 224 LSDPlSGalMEDAMIl~CGHSFG~~giq~Vi-~-mk~C~lCs~~Ite~sL~PNl 275 (275)
|.==||-++|.|.+|.|=|=.+.+.-|...+ + ...=|.=..++++..|+|||
T Consensus 212 lcgkIt~el~~~pvi~psgIty~ra~I~Ehl~rvghfdpvtr~~Lte~q~ipN~ 265 (284)
T KOG4642|consen 212 LCGKITLELMREPVITPSGITYDRADIEEHLQRVGHFDPVTRWPLTEYQLIPNL 265 (284)
T ss_pred hhhhhhHHhhcCCccCccccchhHHHHHHHHHHhccCCchhcccCCHHhhccch
Confidence 3335789999999999999999999887644 4 55667788899999999997
No 63
>COG5113 UFD2 Ubiquitin fusion degradation protein 2 [Posttranslational modification, protein turnover, chaperones]
Probab=42.85 E-value=20 Score=38.39 Aligned_cols=54 Identities=19% Similarity=0.282 Sum_probs=48.9
Q ss_pred hhhhcCcccccccccceecc-CCcccCchhHHH-HHhccccccCCCccccCCCCCC
Q 023944 221 RAILSDPVTGNLMDDAMILP-CGHSFGAAGVQH-VIRMKACYTCSRPVLEDSIAPN 274 (275)
Q Consensus 221 RaILSDPlSGalMEDAMIl~-CGHSFG~~giq~-Vi~mk~C~lCs~~Ite~sL~PN 274 (275)
..-.-|||.=.+|-|+|+|| -|-+..+.+|+- ++.-++=|-=..|++.+.++||
T Consensus 852 PDeFlDPLmftimkdPV~Lp~S~i~IDRSTikahllsd~tDPFNRmPLtlddVtpn 907 (929)
T COG5113 852 PDEFLDPLMFTIMKDPVKLPTSRITIDRSTIKAHLLSDGTDPFNRMPLTLDDVTPN 907 (929)
T ss_pred chhhhCchhhhcccCCeecccccccccHHHHHHHHhcCCCCccccCCCchhhcCCC
Confidence 34567999999999999999 899999999986 7788889999999999999998
No 64
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.75 E-value=13 Score=37.97 Aligned_cols=38 Identities=18% Similarity=0.419 Sum_probs=29.6
Q ss_pred ceeccCCcccCchhHHHHHh------ccccccCCCccccCCCCC
Q 023944 236 AMILPCGHSFGAAGVQHVIR------MKACYTCSRPVLEDSIAP 273 (275)
Q Consensus 236 AMIl~CGHSFG~~giq~Vi~------mk~C~lCs~~Ite~sL~P 273 (275)
|.+..|||=|=..=|=+-.. -+.||+|-..|+...|.|
T Consensus 199 p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~p 242 (513)
T KOG2164|consen 199 PVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLP 242 (513)
T ss_pred ccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceee
Confidence 56667999998877666433 458999999999888776
No 65
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=42.62 E-value=11 Score=35.42 Aligned_cols=38 Identities=18% Similarity=0.492 Sum_probs=33.0
Q ss_pred hcCcccccccccceecc-CCcccCchhHHHHHh---cccccc
Q 023944 224 LSDPVTGNLMDDAMILP-CGHSFGAAGVQHVIR---MKACYT 261 (275)
Q Consensus 224 LSDPlSGalMEDAMIl~-CGHSFG~~giq~Vi~---mk~C~l 261 (275)
+.||+|-+.+.-.||.. |||=|.+.+|+.++- .-+||.
T Consensus 177 ~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv 218 (262)
T KOG2979|consen 177 NRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDEITIRCPV 218 (262)
T ss_pred ccCchhhhhhhchhhhcCcCcchhhhhHHHHhccCceeeccc
Confidence 46999999999999998 999999999999765 456775
No 66
>KOG2023 consensus Nuclear transport receptor Karyopherin-beta2/Transportin (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=42.24 E-value=14 Score=39.60 Aligned_cols=7 Identities=29% Similarity=0.871 Sum_probs=3.6
Q ss_pred CcccccC
Q 023944 124 NVTNCNN 130 (275)
Q Consensus 124 nv~~~~~ 130 (275)
|+.+|.+
T Consensus 370 NLRkCSA 376 (885)
T KOG2023|consen 370 NLRKCSA 376 (885)
T ss_pred cHhhccH
Confidence 5555543
No 67
>PF01764 Lipase_3: Lipase (class 3); InterPro: IPR002921 Triglyceride lipases are lipolytic enzymes that hydrolyse ester linkages of triglycerides []. Lipases are widely distributed in animals, plants and prokaryotes. This family of lipases have been called Class 3 as they are not closely related to other lipase families.; GO: 0004806 triglyceride lipase activity, 0006629 lipid metabolic process; PDB: 1LGY_A 1DTE_A 1DT5_F 4DYH_B 1DU4_C 4EA6_B 1GT6_B 1EIN_A 1DT3_A 1TIB_A ....
Probab=40.93 E-value=6.1 Score=29.67 Aligned_cols=15 Identities=47% Similarity=0.572 Sum_probs=11.6
Q ss_pred cceeccCCcccCchh
Q 023944 235 DAMILPCGHSFGAAG 249 (275)
Q Consensus 235 DAMIl~CGHSFG~~g 249 (275)
+.=|+-+|||.|+..
T Consensus 63 ~~~i~itGHSLGGal 77 (140)
T PF01764_consen 63 DYSIVITGHSLGGAL 77 (140)
T ss_dssp TSEEEEEEETHHHHH
T ss_pred CccchhhccchHHHH
Confidence 355777999999874
No 68
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=40.59 E-value=11 Score=36.62 Aligned_cols=51 Identities=22% Similarity=0.391 Sum_probs=41.1
Q ss_pred hHhhhhcCcccccccccceecc-CCcccCchhHHH-HHhccccccCCCccccC
Q 023944 219 SLRAILSDPVTGNLMDDAMILP-CGHSFGAAGVQH-VIRMKACYTCSRPVLED 269 (275)
Q Consensus 219 SLRaILSDPlSGalMEDAMIl~-CGHSFG~~giq~-Vi~mk~C~lCs~~Ite~ 269 (275)
.+..+++.+|=+-+|=||.-++ |=|||=..=|=+ +.+-+.||.|..-|-..
T Consensus 11 ~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 11 ELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKT 63 (331)
T ss_pred hcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence 4567788999988888887766 999999887655 66699999998777544
No 69
>TIGR03847 conserved hypothetical protein. The conserved hypothetical protein described here occurs as part of the trio of uncharacterized proteins common in the Actinobacteria.
Probab=39.60 E-value=24 Score=31.73 Aligned_cols=23 Identities=30% Similarity=0.741 Sum_probs=17.2
Q ss_pred HHHHh--ccccccCCCccc-cCCCCC
Q 023944 251 QHVIR--MKACYTCSRPVL-EDSIAP 273 (275)
Q Consensus 251 q~Vi~--mk~C~lCs~~It-e~sL~P 273 (275)
++|+. -+.|++|++||+ ++++-|
T Consensus 149 ~~VVaAGRP~CPlCg~PldP~GH~Cp 174 (177)
T TIGR03847 149 RRVVAAGRPPCPLCGRPIDPDGHICP 174 (177)
T ss_pred HHHHhCCCCCCCCCCCCCCCCCccCC
Confidence 33554 578999999999 677655
No 70
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=39.00 E-value=8.3 Score=26.18 Aligned_cols=26 Identities=23% Similarity=0.497 Sum_probs=16.4
Q ss_pred ccCCcccCchhHHHHHhccccccCCC
Q 023944 239 LPCGHSFGAAGVQHVIRMKACYTCSR 264 (275)
Q Consensus 239 l~CGHSFG~~giq~Vi~mk~C~lCs~ 264 (275)
..|||.|-....-+--....||.|+.
T Consensus 9 ~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (52)
T TIGR02605 9 TACGHRFEVLQKMSDDPLATCPECGG 34 (52)
T ss_pred CCCCCEeEEEEecCCCCCCCCCCCCC
Confidence 35999887542111123567999998
No 71
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.57 E-value=10 Score=36.94 Aligned_cols=53 Identities=21% Similarity=0.357 Sum_probs=30.5
Q ss_pred cCCCCCCCChhhHhhhhcCcccccccccceeccCCcccCchhHHHHHhccccccCCCccc
Q 023944 208 DNGCGISGSGDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVIRMKACYTCSRPVL 267 (275)
Q Consensus 208 ~ngcg~sgs~eSLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi~mk~C~lCs~~It 267 (275)
+||-....+-++|--|-.|= -.+|+.+||||=-=+.-..+.+.+ ||.|-+.|.
T Consensus 295 ~~~~~~~~~~p~lcVVcl~e-----~~~~~fvpcGh~ccct~cs~~l~~--CPvCR~rI~ 347 (355)
T KOG1571|consen 295 ENGTFRELPQPDLCVVCLDE-----PKSAVFVPCGHVCCCTLCSKHLPQ--CPVCRQRIR 347 (355)
T ss_pred ccCcccccCCCCceEEecCC-----ccceeeecCCcEEEchHHHhhCCC--CchhHHHHH
Confidence 44444444444444443331 246999999997554444333333 999988775
No 72
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=38.34 E-value=16 Score=30.92 Aligned_cols=27 Identities=15% Similarity=0.348 Sum_probs=23.8
Q ss_pred cCCcccCchhHHHHHh-ccccccCCCcc
Q 023944 240 PCGHSFGAAGVQHVIR-MKACYTCSRPV 266 (275)
Q Consensus 240 ~CGHSFG~~giq~Vi~-mk~C~lCs~~I 266 (275)
-|-|+|=---|-+|++ ..+||+|.++-
T Consensus 80 ~CNHaFH~hCisrWlktr~vCPLdn~eW 107 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTRNVCPLDNKEW 107 (114)
T ss_pred ecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence 3999999999999887 78999999874
No 73
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=37.08 E-value=18 Score=23.42 Aligned_cols=21 Identities=24% Similarity=0.605 Sum_probs=15.6
Q ss_pred cCCcccCchhHHHHHhccccccCCCc
Q 023944 240 PCGHSFGAAGVQHVIRMKACYTCSRP 265 (275)
Q Consensus 240 ~CGHSFG~~giq~Vi~mk~C~lCs~~ 265 (275)
-|||-+-... .-.+||+|+++
T Consensus 6 ~CGy~y~~~~-----~~~~CP~Cg~~ 26 (33)
T cd00350 6 VCGYIYDGEE-----APWVCPVCGAP 26 (33)
T ss_pred CCCCEECCCc-----CCCcCcCCCCc
Confidence 4888865543 67799999875
No 74
>KOG4140 consensus Nuclear protein Ataxin-7 [Chromatin structure and dynamics]
Probab=36.69 E-value=49 Score=34.53 Aligned_cols=43 Identities=19% Similarity=0.118 Sum_probs=31.1
Q ss_pred cccccccceeeeccccccCCCCCccccCCCC---CCCCcccccCCC
Q 023944 42 LTGFIDDKMFSVDRDRYFRPQPTMFTEHHPE---RRDPPQAREWSG 84 (275)
Q Consensus 42 l~~fiddkmf~v~rdryf~~q~~ef~r~~~~---~~~~p~~rnw~g 84 (275)
++..+|...+..-|--||-|...+|-..++. ++--.++|+=+-
T Consensus 87 ~T~Ild~~~~~~c~G~~~~p~~d~~D~vvc~~c~~~v~S~~~~~h~ 132 (659)
T KOG4140|consen 87 DTTILDEEVMGLCRGDMFCPAHDDFDLVVCNDCNQVVKSQAFQSHY 132 (659)
T ss_pred cceeccHhhhccccccccCCCCCcchhhhhhhhcccchhhhhcccc
Confidence 4567787666677888999999999877744 566667766443
No 75
>PF03403 PAF-AH_p_II: Platelet-activating factor acetylhydrolase, isoform II; PDB: 3F98_B 3F97_B 3D59_A 3F96_A 3D5E_B 3F9C_A.
Probab=36.38 E-value=12 Score=35.26 Aligned_cols=20 Identities=40% Similarity=0.581 Sum_probs=15.4
Q ss_pred eccCCcccCchhHHHHHhcc
Q 023944 238 ILPCGHSFGAAGVQHVIRMK 257 (275)
Q Consensus 238 Il~CGHSFG~~giq~Vi~mk 257 (275)
|.-.|||||+.+.-.+++..
T Consensus 230 i~~~GHSFGGATa~~~l~~d 249 (379)
T PF03403_consen 230 IGLAGHSFGGATALQALRQD 249 (379)
T ss_dssp EEEEEETHHHHHHHHHHHH-
T ss_pred eeeeecCchHHHHHHHHhhc
Confidence 66689999999988766543
No 76
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=35.44 E-value=20 Score=33.68 Aligned_cols=34 Identities=26% Similarity=0.530 Sum_probs=25.6
Q ss_pred cccccceeccCCcccCchhHHH-HHhccccccCCC
Q 023944 231 NLMDDAMILPCGHSFGAAGVQH-VIRMKACYTCSR 264 (275)
Q Consensus 231 alMEDAMIl~CGHSFG~~giq~-Vi~mk~C~lCs~ 264 (275)
-.+++|-+++|||.--..=++. ..+--+||+|++
T Consensus 170 ~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 170 LSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred cccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 4578899999999876554555 333579999999
No 77
>PF05097 DUF688: Protein of unknown function (DUF688); InterPro: IPR007789 This entry consists of uncharacterised proteins.
Probab=33.77 E-value=40 Score=33.75 Aligned_cols=23 Identities=22% Similarity=0.277 Sum_probs=13.9
Q ss_pred ccccCCCCCCCCcccccCCCCCC
Q 023944 65 MFTEHHPERRDPPQAREWSGNAT 87 (275)
Q Consensus 65 ef~r~~~~~~~~p~~rnw~gn~~ 87 (275)
+.++-+..+..||..+.|.-...
T Consensus 195 q~~~~~~~~~~~~~~~~~~~~~p 217 (446)
T PF05097_consen 195 QIRKAVSGRKKPPQNRYRQHIIP 217 (446)
T ss_pred hhHhhccccCCCCCCccccccCc
Confidence 33444455777888888854333
No 78
>KOG3130 consensus Uncharacterized conserved protein [Function unknown]
Probab=32.74 E-value=38 Score=34.51 Aligned_cols=7 Identities=14% Similarity=0.690 Sum_probs=3.0
Q ss_pred hHHHhhh
Q 023944 184 YYSQYLQ 190 (275)
Q Consensus 184 yyS~~l~ 190 (275)
+|..|-+
T Consensus 367 ~y~~F~~ 373 (514)
T KOG3130|consen 367 IYRAFVD 373 (514)
T ss_pred hhhhhee
Confidence 4444444
No 79
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=32.10 E-value=28 Score=21.51 Aligned_cols=14 Identities=21% Similarity=0.486 Sum_probs=8.9
Q ss_pred cccccCCCccccCC
Q 023944 257 KACYTCSRPVLEDS 270 (275)
Q Consensus 257 k~C~lCs~~Ite~s 270 (275)
..|+.|+++|..+.
T Consensus 3 ~~Cp~Cg~~~~~~~ 16 (26)
T PF13248_consen 3 MFCPNCGAEIDPDA 16 (26)
T ss_pred CCCcccCCcCCccc
Confidence 46777777666543
No 80
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.57 E-value=28 Score=30.72 Aligned_cols=29 Identities=21% Similarity=0.531 Sum_probs=24.5
Q ss_pred eccCCcccCchhHHHHHh--ccccccCCCcc
Q 023944 238 ILPCGHSFGAAGVQHVIR--MKACYTCSRPV 266 (275)
Q Consensus 238 Il~CGHSFG~~giq~Vi~--mk~C~lCs~~I 266 (275)
||.|||+|=-..+.+++. ...||.|-.++
T Consensus 24 ~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 24 VLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred ccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 344999999999999877 77899999885
No 81
>PRK10349 carboxylesterase BioH; Provisional
Probab=29.79 E-value=21 Score=29.18 Aligned_cols=19 Identities=32% Similarity=0.426 Sum_probs=13.3
Q ss_pred cccceeccCCcccCchhHHHH
Q 023944 233 MDDAMILPCGHSFGAAGVQHV 253 (275)
Q Consensus 233 MEDAMIl~CGHSFG~~giq~V 253 (275)
.+.+ ++ +|||+|+.-..++
T Consensus 73 ~~~~-~l-vGhS~Gg~ia~~~ 91 (256)
T PRK10349 73 PDKA-IW-LGWSLGGLVASQI 91 (256)
T ss_pred CCCe-EE-EEECHHHHHHHHH
Confidence 3444 44 8999999876654
No 82
>KOG4032 consensus Uncharacterized conserved protein [Function unknown]
Probab=27.99 E-value=32 Score=31.07 Aligned_cols=19 Identities=47% Similarity=0.783 Sum_probs=8.3
Q ss_pred CCCCCCCCCCCCCCchhhh
Q 023944 94 SDGEDDDVDDDEDDDDVDE 112 (275)
Q Consensus 94 ~d~~~~~dddd~~d~~v~~ 112 (275)
+.+||+||.|+++|.+|+.
T Consensus 133 ~~dEDdedvd~~dd~evda 151 (184)
T KOG4032|consen 133 ESDEDDEDVDEEDDEEVDA 151 (184)
T ss_pred cccccccccccchhhhhcc
Confidence 3334444444444444443
No 83
>KOG3555 consensus Ca2+-binding proteoglycan Testican [General function prediction only]
Probab=27.17 E-value=37 Score=33.98 Aligned_cols=6 Identities=50% Similarity=0.761 Sum_probs=4.2
Q ss_pred cccccc
Q 023944 42 LTGFID 47 (275)
Q Consensus 42 l~~fid 47 (275)
|+.||-
T Consensus 332 lG~fiP 337 (434)
T KOG3555|consen 332 LGAFIP 337 (434)
T ss_pred cccccC
Confidence 677875
No 84
>PF08595 RXT2_N: RXT2-like, N-terminal; InterPro: IPR013904 The entry represents the N-terminal region of RXT2-like proteins. In Saccharomyces cerevisiae (Baker's yeast), RXT2 has been demonstrated to be involved in conjugation with cellular fusion (mating) and invasive growth []. A high throughput localisation study has localised RXT2 to the nucleus [].
Probab=27.02 E-value=57 Score=28.09 Aligned_cols=6 Identities=17% Similarity=0.213 Sum_probs=2.3
Q ss_pred hHHHhh
Q 023944 184 YYSQYL 189 (275)
Q Consensus 184 yyS~~l 189 (275)
.|+++|
T Consensus 138 ~~~kLl 143 (149)
T PF08595_consen 138 RLKKLL 143 (149)
T ss_pred HHHHHH
Confidence 333333
No 85
>PF11290 DUF3090: Protein of unknown function (DUF3090); InterPro: IPR021441 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=26.65 E-value=34 Score=30.52 Aligned_cols=13 Identities=23% Similarity=0.572 Sum_probs=10.2
Q ss_pred ccccccCCCcccc
Q 023944 256 MKACYTCSRPVLE 268 (275)
Q Consensus 256 mk~C~lCs~~Ite 268 (275)
-+.|++|++||+.
T Consensus 154 RP~CPlCg~PlDP 166 (171)
T PF11290_consen 154 RPPCPLCGEPLDP 166 (171)
T ss_pred CCCCCCCCCCCCC
Confidence 5678888888883
No 86
>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=25.54 E-value=23 Score=35.35 Aligned_cols=29 Identities=28% Similarity=0.543 Sum_probs=0.0
Q ss_pred eeccCCcccCchhHH----HHHhccccccCCCc
Q 023944 237 MILPCGHSFGAAGVQ----HVIRMKACYTCSRP 265 (275)
Q Consensus 237 MIl~CGHSFG~~giq----~Vi~mk~C~lCs~~ 265 (275)
+.|.|||=+|--.-- .--.+..||+|.+.
T Consensus 305 VYl~CGHVhG~h~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 305 VYLNCGHVHGYHNWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp ---------------------------------
T ss_pred eeccccceeeecccccccccccccccCCCcccc
Confidence 567899966544321 12248899999864
No 87
>PTZ00415 transmission-blocking target antigen s230; Provisional
Probab=24.86 E-value=37 Score=40.12 Aligned_cols=12 Identities=17% Similarity=0.379 Sum_probs=5.0
Q ss_pred cCCCCCcccccc
Q 023944 129 NNNNNSTNCGIL 140 (275)
Q Consensus 129 ~~~~~s~~~~~~ 140 (275)
++.-.-|.|-.+
T Consensus 200 ~~~~~~~d~f~~ 211 (2849)
T PTZ00415 200 KSEVDKTDCFKF 211 (2849)
T ss_pred cccccccceeee
Confidence 333344445433
No 88
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.64 E-value=46 Score=30.91 Aligned_cols=30 Identities=27% Similarity=0.594 Sum_probs=25.4
Q ss_pred ccCCcccCchhHHHHHhc------------cccccCCCcccc
Q 023944 239 LPCGHSFGAAGVQHVIRM------------KACYTCSRPVLE 268 (275)
Q Consensus 239 l~CGHSFG~~giq~Vi~m------------k~C~lCs~~Ite 268 (275)
+.||.+|-..-|-.|+|- ..||-|++||+-
T Consensus 188 ~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 188 IQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred cccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 469999999999888872 469999999974
No 89
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.61 E-value=42 Score=32.39 Aligned_cols=54 Identities=20% Similarity=0.404 Sum_probs=34.6
Q ss_pred ccCCCCCCCChhhHhhhhcCcccccccccceeccCCcccCchhHHHHH--hc------cccccCCCccc
Q 023944 207 VDNGCGISGSGDSLRAILSDPVTGNLMDDAMILPCGHSFGAAGVQHVI--RM------KACYTCSRPVL 267 (275)
Q Consensus 207 ~~ngcg~sgs~eSLRaILSDPlSGalMEDAMIl~CGHSFG~~giq~Vi--~m------k~C~lCs~~It 267 (275)
.+.-||+=. +.+.++. ++..-=..+.+|=|+|.-.=|+.|. .. +.||.|-.+++
T Consensus 160 ~~k~CGICm------e~i~ek~-~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 160 SEKECGICM------ETINEKA-ASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred ccccceehh------hhccccc-hhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 356666432 2334444 3322223345599999999999998 34 78999987654
No 90
>KOG4363 consensus Putative growth response protein [Signal transduction mechanisms]
Probab=23.74 E-value=43 Score=31.94 Aligned_cols=22 Identities=23% Similarity=0.451 Sum_probs=9.9
Q ss_pred ccCCCCCCCCCCCCCCCCCCCCCC
Q 023944 80 REWSGNATSPSTDESDGEDDDVDD 103 (275)
Q Consensus 80 rnw~gn~~~~~~~e~d~~~~~ddd 103 (275)
-+|+- .|+..||++|||+++.+
T Consensus 38 ~~~sa--~g~~de~d~g~d~e~~~ 59 (270)
T KOG4363|consen 38 DPFSA--KGTGDEEDYGEDEEWPN 59 (270)
T ss_pred Ccccc--cCCchhhhcCCccccCC
Confidence 34552 23444555555544433
No 91
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=23.62 E-value=44 Score=21.31 Aligned_cols=13 Identities=38% Similarity=0.720 Sum_probs=8.2
Q ss_pred cccccCCCccccC
Q 023944 257 KACYTCSRPVLED 269 (275)
Q Consensus 257 k~C~lCs~~Ite~ 269 (275)
|.||.|.+.|...
T Consensus 1 K~CP~C~~~V~~~ 13 (26)
T PF10571_consen 1 KTCPECGAEVPES 13 (26)
T ss_pred CcCCCCcCCchhh
Confidence 4577777776543
No 92
>PF12773 DZR: Double zinc ribbon
Probab=23.44 E-value=45 Score=22.33 Aligned_cols=26 Identities=19% Similarity=0.402 Sum_probs=18.6
Q ss_pred CCcccCchhHHHHHhccccccCCCccccCC
Q 023944 241 CGHSFGAAGVQHVIRMKACYTCSRPVLEDS 270 (275)
Q Consensus 241 CGHSFG~~giq~Vi~mk~C~lCs~~Ite~s 270 (275)
||+... .....+..|+.|++++....
T Consensus 18 CG~~l~----~~~~~~~~C~~Cg~~~~~~~ 43 (50)
T PF12773_consen 18 CGTPLP----PPDQSKKICPNCGAENPPNA 43 (50)
T ss_pred hcCChh----hccCCCCCCcCCcCCCcCCc
Confidence 777766 33445778999999887654
No 93
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=22.73 E-value=41 Score=38.96 Aligned_cols=14 Identities=43% Similarity=0.563 Sum_probs=8.1
Q ss_pred CCCcccccCCCCCC
Q 023944 74 RDPPQAREWSGNAT 87 (275)
Q Consensus 74 ~~~p~~rnw~gn~~ 87 (275)
+.|-..|-.|||.+
T Consensus 1700 ptprrrrllsgntt 1713 (3015)
T KOG0943|consen 1700 PTPRRRRLLSGNTT 1713 (3015)
T ss_pred CCchhhhhccCCcc
Confidence 33444566777765
No 94
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=22.52 E-value=53 Score=26.38 Aligned_cols=45 Identities=13% Similarity=0.232 Sum_probs=27.4
Q ss_pred ChhhHhhhhcCcccccccccceec-----------cCCcccCchhHHHHHhccccccCCCc
Q 023944 216 SGDSLRAILSDPVTGNLMDDAMIL-----------PCGHSFGAAGVQHVIRMKACYTCSRP 265 (275)
Q Consensus 216 s~eSLRaILSDPlSGalMEDAMIl-----------~CGHSFG~~giq~Vi~mk~C~lCs~~ 265 (275)
-.++|+..+.==..|.++++|-+. .||+-|..... ...||.|+.+
T Consensus 40 ~p~~L~faf~~~~~~t~~ega~L~I~~~p~~~~C~~Cg~~~~~~~~-----~~~CP~Cgs~ 95 (115)
T TIGR00100 40 NPSQLQFAFEVVREGTVAEGAKLNIEDEPVECECEDCSEEVSPEID-----LYRCPKCHGI 95 (115)
T ss_pred CHHHHHHHHHHHhCCCccCCCEEEEEeeCcEEEcccCCCEEecCCc-----CccCcCCcCC
Confidence 455665544211225556665443 69999987543 3579999975
No 95
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=22.32 E-value=65 Score=30.85 Aligned_cols=60 Identities=32% Similarity=0.515 Sum_probs=42.7
Q ss_pred CceeeeccCCCCCCCChhhHhhhhcCcccccccccceec---cCCcccCchhHHHHHhccccccCCCccccCCCCC
Q 023944 201 QKECVAVDNGCGISGSGDSLRAILSDPVTGNLMDDAMIL---PCGHSFGAAGVQHVIRMKACYTCSRPVLEDSIAP 273 (275)
Q Consensus 201 ~k~~v~~~ngcg~sgs~eSLRaILSDPlSGalMEDAMIl---~CGHSFG~~giq~Vi~mk~C~lCs~~Ite~sL~P 273 (275)
.|+ |+.=.+|. .-=|||-+.-|--.--. .|+|.|=+-+...| .+-|+.|+.++...-|.|
T Consensus 129 rKe-VSRCr~C~----------~rYDPVP~dkmwG~aef~C~~C~h~F~G~~qm~v--~sPCy~C~~~v~P~~IlP 191 (278)
T PF15135_consen 129 RKE-VSRCRKCR----------KRYDPVPCDKMWGIAEFHCPKCRHNFRGFAQMGV--PSPCYGCGNPVYPSRILP 191 (278)
T ss_pred ccc-cccccccc----------cccCCCccccccceeeeecccccccchhhhhcCC--CCCccCCCCccCcccccC
Confidence 444 66667776 23599998887665544 58999976643333 567999999999877776
No 96
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=22.32 E-value=54 Score=28.84 Aligned_cols=39 Identities=23% Similarity=0.568 Sum_probs=28.3
Q ss_pred hhhHhhhhcCcccccccccceecc-CCcccCchhHHHHHhccccccCCCc
Q 023944 217 GDSLRAILSDPVTGNLMDDAMILP-CGHSFGAAGVQHVIRMKACYTCSRP 265 (275)
Q Consensus 217 ~eSLRaILSDPlSGalMEDAMIl~-CGHSFG~~giq~Vi~mk~C~lCs~~ 265 (275)
..-|+.+|.=|-.|. .-|-+ |||.+=+ .--..||+|++|
T Consensus 119 ~~~~~~~Le~~~~~~----~~vC~vCGy~~~g------e~P~~CPiCga~ 158 (166)
T COG1592 119 AEMFRGLLERLEEGK----VWVCPVCGYTHEG------EAPEVCPICGAP 158 (166)
T ss_pred HHHHHHHHHhhhcCC----EEEcCCCCCcccC------CCCCcCCCCCCh
Confidence 455777787777777 55555 9998754 236789999986
No 97
>PRK01343 zinc-binding protein; Provisional
Probab=22.13 E-value=40 Score=25.39 Aligned_cols=15 Identities=20% Similarity=0.616 Sum_probs=12.2
Q ss_pred HhccccccCCCcccc
Q 023944 254 IRMKACYTCSRPVLE 268 (275)
Q Consensus 254 i~mk~C~lCs~~Ite 268 (275)
+.++.|++|++++..
T Consensus 7 ~p~~~CP~C~k~~~~ 21 (57)
T PRK01343 7 RPTRPCPECGKPSTR 21 (57)
T ss_pred CCCCcCCCCCCcCcC
Confidence 357899999999764
No 98
>PF12924 APP_Cu_bd: Copper-binding of amyloid precursor, CuBD; InterPro: IPR011178 Amyloid-beta precursor protein (APP, or A4) is associated with Alzheimer's disease (AD), because one of its breakdown products, amyloid-beta (A-beta), aggregates to form amyloid or senile plaques [, ]. Mutations in APP or in proteins that process APP have been linked with early-onset, familial AD. Individuals with Down's syndrome carry an extra copy of chromosome 21, which contains the APP gene, and almost invariably develop amyloid plaques and Alzheimer's symptoms. APP is important for the neurogenesis and neuronal regeneration, either through the intact protein, or through its many breakdown products []. APP consists of a large N-terminal extracellular region containing heparin-binding and copper-binding sites, a short hydrophobic transmembrane domain, and a short C-terminal intracellular domain. The N-terminal region is similar in structure to cysteine-rich growth factors and appears to function as a cell surface receptor, contributing to neurite growth, neuronal adhesion, axonogenesis and cell mobility []. APP acts as a kinesin I membrane receptor to mediate the axonal transport of beta-secretase and presenilin 1. The N-terminal domain can regulate neurite outgrowth through its binding to heparin and collagen I and IV, which are components of the extracellular matrix. APP is also coupled to apoptosis-inducing pathways, and is involved in copper homeostasis/oxidative stress through copper ion reduction, where copper-metallated APP induces neuronal death []. The C-terminal intracellular domain appears to be involved in transcription regulation through protein-protein interactions. APP can promote transcription activation through binding to APBB1/Tip60, and may bind to the adaptor protein FE65 to transactivate a wide variety of different promoters. APP can be processed by different sets of enzymes: In the non-amyloidogenic (non-plaque-forming) pathway, APP is cleaved by alpha-secretase to yield a soluble N-terminal sAPP-alpha (neuroprotective) and a membrane-bound CTF-alpha. CTF-alpha is broken-down by presenilin-containing gamma-secretase to yield soluble p3 and membrane-bound AICD (nuclear signalling). In the amyloidogenic pathway (plaque-forming), APP is broken down by beta-secretase to yield soluble sAPP-beta and membrane-bound CTF-beta. CTF-beta is broken down by gamma-secretase to yield soluble amyloid-beta and membrane-bound AICD. Amyloid-beta is required for neuronal function, but can aggregate to form amyloid plaques that seem to disrupt brain cells by clogging points of cell-cell contact. This entry represents a copper-binding domain found within the extracellular domain, which is at the N-terminal of amyloidogenic glycoproteins such as amyloid-beta precursor protein (APP, or A4). The copper-binding domain has a dodecin-like fold consisting of a 2-layer alpha/beta topology []. More information about these protein can be found at Protein of the Month: Amyloid-beta Precursor Protein [].; GO: 0005488 binding, 0016021 integral to membrane; PDB: 3KTM_E 2FK3_D 2FK1_A 2FMA_A 2FJZ_A 2FKL_A 1OWT_A 2FK2_A.
Probab=21.98 E-value=30 Score=26.24 Aligned_cols=12 Identities=42% Similarity=0.841 Sum_probs=9.2
Q ss_pred cccceeccCCcc
Q 023944 233 MDDAMILPCGHS 244 (275)
Q Consensus 233 MEDAMIl~CGHS 244 (275)
-.=||++|||..
T Consensus 35 ~s~~mLlPCg~D 46 (58)
T PF12924_consen 35 HSFGMLLPCGID 46 (58)
T ss_dssp EEEEEEEEEETT
T ss_pred eccccccccccc
Confidence 345899999964
No 99
>PF13365 Trypsin_2: Trypsin-like peptidase domain; PDB: 1Y8T_A 2Z9I_A 3QO6_A 1L1J_A 1QY6_A 2O8L_A 3OTP_E 2ZLE_I 1KY9_A 3CS0_A ....
Probab=21.09 E-value=25 Score=25.12 Aligned_cols=20 Identities=30% Similarity=0.350 Sum_probs=16.2
Q ss_pred cccccccc-eeccCCcccCch
Q 023944 229 TGNLMDDA-MILPCGHSFGAA 248 (275)
Q Consensus 229 SGalMEDA-MIl~CGHSFG~~ 248 (275)
||-|+.+- .||+|.|-+...
T Consensus 2 TGf~i~~~g~ilT~~Hvv~~~ 22 (120)
T PF13365_consen 2 TGFLIGPDGYILTAAHVVEDW 22 (120)
T ss_dssp EEEEEETTTEEEEEHHHHTCC
T ss_pred EEEEEcCCceEEEchhheecc
Confidence 67777777 999999988754
No 100
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=20.91 E-value=47 Score=21.88 Aligned_cols=22 Identities=23% Similarity=0.514 Sum_probs=15.2
Q ss_pred cCCcccCchhHHHHHhccccccCCCcc
Q 023944 240 PCGHSFGAAGVQHVIRMKACYTCSRPV 266 (275)
Q Consensus 240 ~CGHSFG~~giq~Vi~mk~C~lCs~~I 266 (275)
-|||-+-+.. .-.+||+|+++-
T Consensus 7 ~CG~i~~g~~-----~p~~CP~Cg~~~ 28 (34)
T cd00729 7 VCGYIHEGEE-----APEKCPICGAPK 28 (34)
T ss_pred CCCCEeECCc-----CCCcCcCCCCch
Confidence 4888765432 246999999864
No 101
>COG2819 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]
Probab=20.64 E-value=44 Score=31.31 Aligned_cols=58 Identities=19% Similarity=0.319 Sum_probs=39.6
Q ss_pred CCCCCChhhHhhhhcCcccccccccceecc-----CCcccCchhHHH-HHhccccccCCCcccc
Q 023944 211 CGISGSGDSLRAILSDPVTGNLMDDAMILP-----CGHSFGAAGVQH-VIRMKACYTCSRPVLE 268 (275)
Q Consensus 211 cg~sgs~eSLRaILSDPlSGalMEDAMIl~-----CGHSFG~~giq~-Vi~mk~C~lCs~~Ite 268 (275)
-.+.|..+.+++.|.+=|.=.+=+..-+.+ =|||||++=..+ ++..+.|+-|-..++.
T Consensus 107 ~~~gGg~~~f~~fL~~~lkP~Ie~~y~~~~~~~~i~GhSlGGLfvl~aLL~~p~~F~~y~~~SP 170 (264)
T COG2819 107 YQFGGGGDAFREFLTEQLKPFIEARYRTNSERTAIIGHSLGGLFVLFALLTYPDCFGRYGLISP 170 (264)
T ss_pred CCCCCChHHHHHHHHHhhHHHHhcccccCcccceeeeecchhHHHHHHHhcCcchhceeeeecc
Confidence 457778888988888766543333222222 299999998777 5556699999877664
No 102
>cd08201 plant_peroxidase_like_1 Uncharacterized family of plant peroxidase-like proteins. This is a subgroup of heme-dependent peroxidases similar to plant peroxidases. Along with animal peroxidases, these enzymes belong to a group of peroxidases containing a heme prosthetic group (ferriprotoporphyrin IX) which catalyzes a multistep oxidative reaction involving hydrogen peroxide as the electron acceptor. The plant peroxidase-like superfamily is found in all three kingdoms of life and carries out a variety of biosynthetic and degradative functions.
Probab=20.59 E-value=42 Score=31.42 Aligned_cols=32 Identities=19% Similarity=0.381 Sum_probs=24.9
Q ss_pred ChhhHhhhhcCcccccccccceecc-CCcccCchh
Q 023944 216 SGDSLRAILSDPVTGNLMDDAMILP-CGHSFGAAG 249 (275)
Q Consensus 216 s~eSLRaILSDPlSGalMEDAMIl~-CGHSFG~~g 249 (275)
+-+.|++++.+ -|---+|.|.|+ ||||+|+.-
T Consensus 143 ~v~~l~~~Fa~--~Gfs~~DmVaLsggaHTiG~ah 175 (264)
T cd08201 143 DLGTTTESFRR--QGFSTSEMIALVACGHTLGGVH 175 (264)
T ss_pred CHHHHHHHHHH--cCCChHHHheeecCCeeeeecc
Confidence 46778877776 466667889999 999999863
No 103
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.58 E-value=44 Score=33.82 Aligned_cols=28 Identities=25% Similarity=0.547 Sum_probs=24.3
Q ss_pred ceeccCCcccCchhHHHHHhc----cccccCC
Q 023944 236 AMILPCGHSFGAAGVQHVIRM----KACYTCS 263 (275)
Q Consensus 236 AMIl~CGHSFG~~giq~Vi~m----k~C~lCs 263 (275)
+-|-+|||-|--.-|+.|.+. -.||+|.
T Consensus 21 ~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 21 GPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred ccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence 457789999999999999982 4899998
No 104
>PF11485 DUF3211: Protein of unknown function (DUF3211); InterPro: IPR021578 This archaeal family of proteins has no known function. ; PDB: 2EJX_A.
Probab=20.43 E-value=42 Score=28.81 Aligned_cols=12 Identities=42% Similarity=0.501 Sum_probs=9.9
Q ss_pred hhhHhhhhcCcc
Q 023944 217 GDSLRAILSDPV 228 (275)
Q Consensus 217 ~eSLRaILSDPl 228 (275)
+++|..|||||-
T Consensus 13 ~e~v~~ILSDP~ 24 (136)
T PF11485_consen 13 IEVVLTILSDPE 24 (136)
T ss_dssp HHHHHHHHT-HH
T ss_pred hHheEEEecCCc
Confidence 889999999993
No 105
>PF00975 Thioesterase: Thioesterase domain; InterPro: IPR001031 Thioesterase domains often occur integrated in or associated with peptide synthetases which are involved in the non-ribosomal synthesis of peptide antibiotics []. Thioesterases are required for the addition of the last amino acid to the peptide antibiotic, thereby forming a cyclic antibiotic. Next to the operons encoding these enzymes, in almost all cases, are genes that encode proteins that have similarity to the type II fatty acid thioesterases of vertebrates.; GO: 0016788 hydrolase activity, acting on ester bonds, 0009058 biosynthetic process; PDB: 2RON_A 2K2Q_B 3LCR_B 2HFJ_B 1MNQ_A 1MN6_B 1MNA_B 2HFK_B 2H7Y_B 2H7X_A ....
Probab=20.20 E-value=23 Score=28.44 Aligned_cols=11 Identities=36% Similarity=0.625 Sum_probs=8.5
Q ss_pred eccCCcccCch
Q 023944 238 ILPCGHSFGAA 248 (275)
Q Consensus 238 Il~CGHSFG~~ 248 (275)
+.=+|||||+.
T Consensus 68 ~~L~G~S~Gg~ 78 (229)
T PF00975_consen 68 YVLAGWSFGGI 78 (229)
T ss_dssp EEEEEETHHHH
T ss_pred eeehccCccHH
Confidence 34489999985
No 106
>PTZ00415 transmission-blocking target antigen s230; Provisional
Probab=20.01 E-value=46 Score=39.36 Aligned_cols=7 Identities=29% Similarity=0.567 Sum_probs=2.7
Q ss_pred hcCcccc
Q 023944 224 LSDPVTG 230 (275)
Q Consensus 224 LSDPlSG 230 (275)
|+|=|-|
T Consensus 337 l~~li~g 343 (2849)
T PTZ00415 337 LAALIHG 343 (2849)
T ss_pred HHHHhhc
Confidence 3443333
Done!