Query 024019
Match_columns 274
No_of_seqs 122 out of 275
Neff 3.5
Searched_HMMs 46136
Date Fri Mar 29 08:19:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024019.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024019hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.6 1E-14 2.2E-19 139.0 8.7 61 212-272 207-271 (348)
2 PF13639 zf-RING_2: Ring finge 98.5 9.2E-09 2E-13 69.9 -1.6 39 234-272 2-41 (44)
3 PHA02929 N1R/p28-like protein; 98.0 1.8E-06 3.9E-11 79.2 1.3 61 213-273 151-221 (238)
4 COG5540 RING-finger-containing 98.0 1.7E-06 3.6E-11 82.9 1.1 40 233-272 324-365 (374)
5 PF12678 zf-rbx1: RING-H2 zinc 97.6 9.6E-06 2.1E-10 61.4 -0.8 40 233-272 20-70 (73)
6 KOG0801 Predicted E3 ubiquitin 97.1 0.00018 3.9E-09 64.3 0.8 29 231-259 176-205 (205)
7 cd00162 RING RING-finger (Real 96.9 0.00025 5.5E-09 45.4 0.1 38 234-273 1-40 (45)
8 KOG0802 E3 ubiquitin ligase [P 96.4 0.00056 1.2E-08 68.3 -1.4 41 232-272 291-334 (543)
9 smart00184 RING Ring finger. E 95.9 0.0016 3.6E-08 40.1 -0.6 36 235-273 1-38 (39)
10 COG5243 HRD1 HRD ubiquitin lig 95.7 0.0033 7.2E-08 62.3 0.4 61 212-272 267-338 (491)
11 KOG1734 Predicted RING-contain 95.6 0.07 1.5E-06 51.2 8.9 35 231-265 223-265 (328)
12 smart00744 RINGv The RING-vari 95.3 0.0032 6.9E-08 44.8 -0.9 38 234-272 1-46 (49)
13 PF13923 zf-C3HC4_2: Zinc fing 95.0 0.0042 9.1E-08 41.3 -0.8 37 235-273 1-38 (39)
14 PF00097 zf-C3HC4: Zinc finger 94.0 0.0098 2.1E-07 39.2 -0.9 36 235-272 1-39 (41)
15 PF14634 zf-RING_5: zinc-RING 93.0 0.032 7E-07 38.1 0.3 39 234-272 1-40 (44)
16 PHA02926 zinc finger-like prot 90.8 0.068 1.5E-06 49.9 -0.1 42 232-273 170-224 (242)
17 PF10367 Vps39_2: Vacuolar sor 89.2 0.56 1.2E-05 35.9 3.8 29 233-262 79-108 (109)
18 PF11793 FANCL_C: FANCL C-term 86.0 0.21 4.6E-06 37.7 -0.2 37 233-269 3-45 (70)
19 PF14446 Prok-RING_1: Prokaryo 84.7 0.39 8.5E-06 35.7 0.7 31 233-263 6-38 (54)
20 PF12861 zf-Apc11: Anaphase-pr 84.4 0.23 5E-06 39.9 -0.7 38 233-270 22-70 (85)
21 PF13920 zf-C3HC4_3: Zinc fing 83.6 0.2 4.2E-06 34.8 -1.2 37 233-272 3-41 (50)
22 TIGR00599 rad18 DNA repair pro 83.3 0.44 9.6E-06 47.2 0.6 39 232-273 26-65 (397)
23 smart00504 Ubox Modified RING 82.0 0.41 8.8E-06 33.7 -0.1 37 233-272 2-39 (63)
24 KOG0804 Cytoplasmic Zn-finger 78.3 0.81 1.7E-05 46.5 0.5 35 231-265 174-210 (493)
25 PF05883 Baculo_RING: Baculovi 76.1 0.49 1.1E-05 40.9 -1.5 32 233-264 27-65 (134)
26 KOG0825 PHD Zn-finger protein 76.0 0.49 1.1E-05 51.1 -1.8 40 233-272 124-164 (1134)
27 PF06196 DUF997: Protein of un 75.8 8.8 0.00019 30.3 5.6 54 92-149 10-68 (80)
28 KOG4445 Uncharacterized conser 75.1 0.94 2E-05 44.3 0.0 35 232-266 115-150 (368)
29 PF13445 zf-RING_UBOX: RING-ty 67.6 0.76 1.7E-05 32.2 -1.8 33 235-268 1-35 (43)
30 KOG1952 Transcription factor N 66.2 2.2 4.7E-05 46.4 0.4 36 231-266 190-227 (950)
31 PF15227 zf-C3HC4_4: zinc fing 63.6 1.7 3.8E-05 29.8 -0.6 31 235-268 1-32 (42)
32 COG0225 MsrA Peptide methionin 61.3 4.2 9.1E-05 36.6 1.2 43 179-222 76-122 (174)
33 PF12906 RINGv: RING-variant d 61.2 2.6 5.7E-05 29.7 -0.1 32 235-267 1-38 (47)
34 PF00628 PHD: PHD-finger; Int 61.1 5.4 0.00012 27.2 1.5 32 235-266 2-34 (51)
35 KOG0320 Predicted E3 ubiquitin 59.9 2.3 5E-05 38.6 -0.7 40 231-272 130-171 (187)
36 COG5219 Uncharacterized conser 58.1 1.4 2.9E-05 48.9 -2.8 34 231-266 1468-1508(1525)
37 KOG2071 mRNA cleavage and poly 55.7 6.1 0.00013 41.3 1.4 60 209-271 492-563 (579)
38 COG0598 CorA Mg2+ and Co2+ tra 52.7 77 0.0017 29.8 8.1 88 45-152 232-319 (322)
39 PF12273 RCR: Chitin synthesis 47.9 18 0.00038 29.9 2.7 13 150-162 24-36 (130)
40 TIGR00383 corA magnesium Mg(2+ 47.4 51 0.0011 30.2 5.9 45 84-133 257-301 (318)
41 PRK10633 hypothetical protein; 46.5 74 0.0016 25.4 5.9 51 92-149 15-68 (80)
42 KOG1039 Predicted E3 ubiquitin 42.8 12 0.00026 36.7 1.2 42 232-273 161-215 (344)
43 PF10003 DUF2244: Integral mem 42.2 69 0.0015 26.9 5.5 17 202-218 121-137 (140)
44 smart00249 PHD PHD zinc finger 42.0 17 0.00037 23.1 1.5 32 235-266 2-34 (47)
45 PF04564 U-box: U-box domain; 41.9 6.8 0.00015 29.3 -0.5 37 233-272 5-43 (73)
46 KOG0317 Predicted E3 ubiquitin 40.5 14 0.0003 35.8 1.2 38 232-272 239-277 (293)
47 KOG1571 Predicted E3 ubiquitin 40.4 12 0.00025 37.2 0.7 35 233-272 306-340 (355)
48 KOG2930 SCF ubiquitin ligase, 39.9 5.4 0.00012 33.7 -1.5 27 246-272 73-101 (114)
49 smart00132 LIM Zinc-binding do 39.3 24 0.00053 21.8 1.8 28 234-261 1-28 (39)
50 PRK09546 zntB zinc transporter 38.6 97 0.0021 28.9 6.4 43 85-132 264-306 (324)
51 KOG3970 Predicted E3 ubiquitin 37.8 9.5 0.00021 36.4 -0.4 51 216-267 28-85 (299)
52 COG5194 APC11 Component of SCF 36.2 9.2 0.0002 31.1 -0.6 40 233-272 32-74 (88)
53 PF13832 zf-HC5HC2H_2: PHD-zin 35.8 12 0.00026 29.5 -0.1 29 233-263 56-87 (110)
54 PF05393 Hum_adeno_E3A: Human 35.1 57 0.0012 27.0 3.7 51 104-156 11-63 (94)
55 PF01544 CorA: CorA-like Mg2+ 34.2 34 0.00074 30.0 2.6 43 84-131 233-275 (292)
56 PF11669 WBP-1: WW domain-bind 33.7 92 0.002 25.3 4.8 8 128-135 24-31 (102)
57 KOG1941 Acetylcholine receptor 33.0 7.1 0.00015 39.7 -2.1 41 233-273 366-410 (518)
58 KOG2034 Vacuolar sorting prote 32.9 17 0.00038 39.8 0.6 44 217-263 804-848 (911)
59 KOG1493 Anaphase-promoting com 29.1 7.6 0.00017 31.3 -2.1 17 251-267 48-66 (84)
60 PF14002 YniB: YniB-like prote 27.7 4.7E+02 0.01 23.7 8.6 90 53-159 15-106 (166)
61 PF12326 EOS1: N-glycosylation 27.0 74 0.0016 28.1 3.4 29 37-65 68-96 (148)
62 KOG0828 Predicted E3 ubiquitin 26.5 12 0.00026 39.1 -1.8 40 233-272 572-627 (636)
63 PRK14054 methionine sulfoxide 26.0 41 0.00088 29.9 1.6 37 184-221 80-118 (172)
64 PF13965 SID-1_RNA_chan: dsRNA 25.3 1.2E+02 0.0027 31.6 5.1 75 35-115 263-365 (570)
65 KOG2164 Predicted E3 ubiquitin 24.4 23 0.00049 36.7 -0.3 34 232-268 186-220 (513)
66 PRK13014 methionine sulfoxide 24.2 42 0.0009 30.3 1.4 37 184-221 85-123 (186)
67 PRK10582 cytochrome o ubiquino 23.4 1.3E+02 0.0027 25.2 3.9 81 12-112 20-100 (109)
68 PHA02782 hypothetical protein; 22.6 75 0.0016 32.8 2.9 66 191-258 397-477 (503)
69 PRK14584 hmsS hemin storage sy 22.3 5.6E+02 0.012 22.8 8.2 66 91-162 24-94 (153)
70 PRK05528 methionine sulfoxide 21.9 57 0.0012 28.6 1.7 37 184-221 73-111 (156)
71 KOG0823 Predicted E3 ubiquitin 21.7 26 0.00056 33.0 -0.5 32 232-267 47-80 (230)
72 PHA02902 putative IMV membrane 21.1 3.2E+02 0.0068 21.6 5.4 25 138-162 11-35 (70)
73 TIGR02847 CyoD cytochrome o ub 20.7 1.7E+02 0.0037 23.8 4.1 80 13-112 10-89 (96)
74 PRK02654 putative inner membra 20.7 78 0.0017 31.8 2.5 29 49-78 271-299 (375)
75 PF08114 PMP1_2: ATPase proteo 20.7 1.5E+02 0.0033 21.4 3.3 24 130-153 12-38 (43)
76 PF02810 SEC-C: SEC-C motif; 20.2 32 0.00069 21.1 -0.1 11 31-41 11-21 (21)
77 KOG1609 Protein involved in mR 20.1 24 0.00052 31.7 -1.0 34 233-266 79-119 (323)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.55 E-value=1e-14 Score=139.01 Aligned_cols=61 Identities=25% Similarity=0.419 Sum_probs=54.1
Q ss_pred HHHHHHhcCCceeeecCCCCC--cccccccccccccceeeecccC-cCCcCCcccccccccC-CC
Q 024019 212 AVEALIQELPKFRLKAVPTDC--SECPICLEEFHVGNEVKISFLS-IFYSSCSVSDFTYLRC-GI 272 (274)
Q Consensus 212 avEa~IqaLP~~~~t~~~~d~--~eCsICLedFe~GEevR~LPcC-~FH~~CI~~w~~~~~~-~~ 272 (274)
+.|++++++|..+++...++. ..|+||||||++||.+|.|||. .||..|||||++++|. ||
T Consensus 207 ~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CP 271 (348)
T KOG4628|consen 207 LIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCP 271 (348)
T ss_pred hHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCC
Confidence 456789999999998765432 3899999999999999999999 9999999999999987 88
No 2
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=98.51 E-value=9.2e-09 Score=69.87 Aligned_cols=39 Identities=36% Similarity=0.524 Sum_probs=36.2
Q ss_pred ccccccccccccceeeecccC-cCCcCCcccccccccCCC
Q 024019 234 ECPICLEEFHVGNEVKISFLS-IFYSSCSVSDFTYLRCGI 272 (274)
Q Consensus 234 eCsICLedFe~GEevR~LPcC-~FH~~CI~~w~~~~~~~~ 272 (274)
+|+||+++|++++.+..|||- .||.+|+..|++.++.||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP 41 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCP 41 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-T
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCC
Confidence 699999999999999999955 999999999999999998
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.01 E-value=1.8e-06 Score=79.20 Aligned_cols=61 Identities=15% Similarity=0.147 Sum_probs=47.7
Q ss_pred HHHHHhcCCceeeecCC----CCCcccccccccccccce----eeecccC--cCCcCCcccccccccCCCC
Q 024019 213 VEALIQELPKFRLKAVP----TDCSECPICLEEFHVGNE----VKISFLS--IFYSSCSVSDFTYLRCGIE 273 (274)
Q Consensus 213 vEa~IqaLP~~~~t~~~----~d~~eCsICLedFe~GEe----vR~LPcC--~FH~~CI~~w~~~~~~~~~ 273 (274)
.+++|+++|.+....+. .+..+|+||++++.+.+. +..+|.| .||.+||..|++....||-
T Consensus 151 ~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPl 221 (238)
T PHA02929 151 YKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPV 221 (238)
T ss_pred hHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCC
Confidence 67899999999755332 234799999999887652 3456656 9999999999999999984
No 4
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.01 E-value=1.7e-06 Score=82.93 Aligned_cols=40 Identities=20% Similarity=0.370 Sum_probs=37.0
Q ss_pred cccccccccccccceeeecccC-cCCcCCcccccc-cccCCC
Q 024019 233 SECPICLEEFHVGNEVKISFLS-IFYSSCSVSDFT-YLRCGI 272 (274)
Q Consensus 233 ~eCsICLedFe~GEevR~LPcC-~FH~~CI~~w~~-~~~~~~ 272 (274)
.+|+||+++|-.||.++.|||. .||.+|++.|+- |--.||
T Consensus 324 veCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CP 365 (374)
T COG5540 324 VECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCP 365 (374)
T ss_pred ceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCC
Confidence 7999999999999999999988 999999999987 766676
No 5
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=97.61 E-value=9.6e-06 Score=61.42 Aligned_cols=40 Identities=18% Similarity=0.195 Sum_probs=30.5
Q ss_pred cccccccccccc----------cceeeecccC-cCCcCCcccccccccCCC
Q 024019 233 SECPICLEEFHV----------GNEVKISFLS-IFYSSCSVSDFTYLRCGI 272 (274)
Q Consensus 233 ~eCsICLedFe~----------GEevR~LPcC-~FH~~CI~~w~~~~~~~~ 272 (274)
..|+||++++.+ +-.+...+|- .||..||..|++.++.||
T Consensus 20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP 70 (73)
T PF12678_consen 20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCP 70 (73)
T ss_dssp SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-T
T ss_pred CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCC
Confidence 359999999932 2344445655 999999999999999998
No 6
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.07 E-value=0.00018 Score=64.33 Aligned_cols=29 Identities=31% Similarity=0.582 Sum_probs=25.7
Q ss_pred CCcccccccccccccceeeecccC-cCCcC
Q 024019 231 DCSECPICLEEFHVGNEVKISFLS-IFYSS 259 (274)
Q Consensus 231 d~~eCsICLedFe~GEevR~LPcC-~FH~~ 259 (274)
++.||.|||||.+.||++.+|||- .||+.
T Consensus 176 dkGECvICLEdL~~GdtIARLPCLCIYHK~ 205 (205)
T KOG0801|consen 176 DKGECVICLEDLEAGDTIARLPCLCIYHKQ 205 (205)
T ss_pred cCCcEEEEhhhccCCCceeccceEEEeecC
Confidence 347999999999999999999975 99973
No 7
>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=96.88 E-value=0.00025 Score=45.43 Aligned_cols=38 Identities=34% Similarity=0.502 Sum_probs=30.6
Q ss_pred ccccccccccccceeeecccC-cCCcCCccccccc-ccCCCC
Q 024019 234 ECPICLEEFHVGNEVKISFLS-IFYSSCSVSDFTY-LRCGIE 273 (274)
Q Consensus 234 eCsICLedFe~GEevR~LPcC-~FH~~CI~~w~~~-~~~~~~ 273 (274)
+|+||++++ .+.+...||- .||.+|+..|++. ++.||.
T Consensus 1 ~C~iC~~~~--~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~ 40 (45)
T cd00162 1 ECPICLEEF--REPVVLLPCGHVFCRSCIDKWLKSGKNTCPL 40 (45)
T ss_pred CCCcCchhh--hCceEecCCCChhcHHHHHHHHHhCcCCCCC
Confidence 599999998 4555566655 9999999999998 777874
No 8
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.37 E-value=0.00056 Score=68.33 Aligned_cols=41 Identities=37% Similarity=0.434 Sum_probs=38.5
Q ss_pred Ccccccccccccccce--eeecccC-cCCcCCcccccccccCCC
Q 024019 232 CSECPICLEEFHVGNE--VKISFLS-IFYSSCSVSDFTYLRCGI 272 (274)
Q Consensus 232 ~~eCsICLedFe~GEe--vR~LPcC-~FH~~CI~~w~~~~~~~~ 272 (274)
+..|+||.|+...|+. .++|||- .||.+|+-.|+++...||
T Consensus 291 ~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP 334 (543)
T KOG0802|consen 291 DELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCP 334 (543)
T ss_pred CCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCC
Confidence 3689999999999988 9999988 999999999999999998
No 9
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=95.86 E-value=0.0016 Score=40.10 Aligned_cols=36 Identities=28% Similarity=0.331 Sum_probs=29.2
Q ss_pred cccccccccccceeeecccC-cCCcCCcccccc-cccCCCC
Q 024019 235 CPICLEEFHVGNEVKISFLS-IFYSSCSVSDFT-YLRCGIE 273 (274)
Q Consensus 235 CsICLedFe~GEevR~LPcC-~FH~~CI~~w~~-~~~~~~~ 273 (274)
|+||++. .+....+||. .||.+|+..|++ ....||.
T Consensus 1 C~iC~~~---~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~ 38 (39)
T smart00184 1 CPICLEE---LKDPVVLPCGHTFCRSCIRKWLKSGNNTCPI 38 (39)
T ss_pred CCcCccC---CCCcEEecCCChHHHHHHHHHHHhCcCCCCC
Confidence 7899888 5568888977 999999999998 4455764
No 10
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=95.67 E-value=0.0033 Score=62.26 Aligned_cols=61 Identities=21% Similarity=0.270 Sum_probs=48.4
Q ss_pred HHHHHHhcCCceeeecCCCCCccccccccc-ccccce---------eeecccC-cCCcCCcccccccccCCC
Q 024019 212 AVEALIQELPKFRLKAVPTDCSECPICLEE-FHVGNE---------VKISFLS-IFYSSCSVSDFTYLRCGI 272 (274)
Q Consensus 212 avEa~IqaLP~~~~t~~~~d~~eCsICLed-Fe~GEe---------vR~LPcC-~FH~~CI~~w~~~~~~~~ 272 (274)
+-|++=+.+|+++..+-..++..|.||.+| |+.+.+ -++|||- .+|.+|..-|.|--..||
T Consensus 267 ~~kdl~~~~~t~t~eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCP 338 (491)
T COG5243 267 ATKDLNAMYPTATEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCP 338 (491)
T ss_pred HhhHHHhhcchhhhhhhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCC
Confidence 344555667777776655566899999999 887733 4899977 999999999999988887
No 11
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.61 E-value=0.07 Score=51.22 Aligned_cols=35 Identities=17% Similarity=0.236 Sum_probs=30.2
Q ss_pred CCcccccccccccccc-------eeeecccC-cCCcCCccccc
Q 024019 231 DCSECPICLEEFHVGN-------EVKISFLS-IFYSSCSVSDF 265 (274)
Q Consensus 231 d~~eCsICLedFe~GE-------evR~LPcC-~FH~~CI~~w~ 265 (274)
+++-|+||.+.+.+.+ ..-+|-|. .||..||--|-
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWc 265 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWC 265 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhhe
Confidence 3478999999998776 78899988 99999999884
No 12
>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=95.27 E-value=0.0032 Score=44.82 Aligned_cols=38 Identities=13% Similarity=0.041 Sum_probs=29.0
Q ss_pred ccccccccccccceeeecccC------cCCcCCccccccccc--CCC
Q 024019 234 ECPICLEEFHVGNEVKISFLS------IFYSSCSVSDFTYLR--CGI 272 (274)
Q Consensus 234 eCsICLedFe~GEevR~LPcC------~FH~~CI~~w~~~~~--~~~ 272 (274)
.|.||++ ++++++....||. .+|.+|+..|+...+ .||
T Consensus 1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~ 46 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCE 46 (49)
T ss_pred CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCC
Confidence 3899998 5555666689974 599999999996554 554
No 13
>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=95.05 E-value=0.0042 Score=41.30 Aligned_cols=37 Identities=24% Similarity=0.381 Sum_probs=30.0
Q ss_pred cccccccccccceeeecccC-cCCcCCcccccccccCCCC
Q 024019 235 CPICLEEFHVGNEVKISFLS-IFYSSCSVSDFTYLRCGIE 273 (274)
Q Consensus 235 CsICLedFe~GEevR~LPcC-~FH~~CI~~w~~~~~~~~~ 273 (274)
|+||++++.+ .+..+||- .|..+|+..|++.+..||.
T Consensus 1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP~ 38 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCPV 38 (39)
T ss_dssp ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-TT
T ss_pred CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCcC
Confidence 8999998887 55678766 9999999999999888873
No 14
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=93.98 E-value=0.0098 Score=39.25 Aligned_cols=36 Identities=25% Similarity=0.277 Sum_probs=29.7
Q ss_pred cccccccccccceeeecccC-cCCcCCcccccc--cccCCC
Q 024019 235 CPICLEEFHVGNEVKISFLS-IFYSSCSVSDFT--YLRCGI 272 (274)
Q Consensus 235 CsICLedFe~GEevR~LPcC-~FH~~CI~~w~~--~~~~~~ 272 (274)
|+||++.+++.. +.+||- .|+.+|+..|++ ....||
T Consensus 1 C~iC~~~~~~~~--~~~~C~H~fC~~C~~~~~~~~~~~~CP 39 (41)
T PF00097_consen 1 CPICLEPFEDPV--ILLPCGHSFCRDCLRKWLENSGSVKCP 39 (41)
T ss_dssp ETTTSSBCSSEE--EETTTSEEEEHHHHHHHHHHTSSSBTT
T ss_pred CCcCCccccCCC--EEecCCCcchHHHHHHHHHhcCCccCC
Confidence 899999988865 778866 999999999998 455555
No 15
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=92.97 E-value=0.032 Score=38.11 Aligned_cols=39 Identities=18% Similarity=0.293 Sum_probs=33.0
Q ss_pred ccccccccccccceeeecccC-cCCcCCcccccccccCCC
Q 024019 234 ECPICLEEFHVGNEVKISFLS-IFYSSCSVSDFTYLRCGI 272 (274)
Q Consensus 234 eCsICLedFe~GEevR~LPcC-~FH~~CI~~w~~~~~~~~ 272 (274)
+|+||.++|.+.+..+.++|- .|..+|+....+....||
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP 40 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCP 40 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCc
Confidence 599999999777788889877 999999998886666666
No 16
>PHA02926 zinc finger-like protein; Provisional
Probab=90.84 E-value=0.068 Score=49.88 Aligned_cols=42 Identities=19% Similarity=0.108 Sum_probs=30.7
Q ss_pred Cccccccccccccc----c-eeeecccC--cCCcCCccccccc------ccCCCC
Q 024019 232 CSECPICLEEFHVG----N-EVKISFLS--IFYSSCSVSDFTY------LRCGIE 273 (274)
Q Consensus 232 ~~eCsICLedFe~G----E-evR~LPcC--~FH~~CI~~w~~~------~~~~~~ 273 (274)
+.+|+||+|.--+. | .--.||.| .|..+||..|.+. .|.||.
T Consensus 170 E~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPi 224 (242)
T PHA02926 170 EKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPI 224 (242)
T ss_pred CCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCC
Confidence 37999999886432 2 12357667 9999999999974 366885
No 17
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=89.17 E-value=0.56 Score=35.88 Aligned_cols=29 Identities=14% Similarity=0.300 Sum_probs=25.1
Q ss_pred cccccccccccccceeeecccC-cCCcCCcc
Q 024019 233 SECPICLEEFHVGNEVKISFLS-IFYSSCSV 262 (274)
Q Consensus 233 ~eCsICLedFe~GEevR~LPcC-~FH~~CI~ 262 (274)
..|++|-+.+.. ...-..|+. .||..|+.
T Consensus 79 ~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 79 TKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 579999999987 677788988 99999974
No 18
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=86.03 E-value=0.21 Score=37.71 Aligned_cols=37 Identities=24% Similarity=0.205 Sum_probs=18.2
Q ss_pred cccccccccccccceeeec----ccC--cCCcCCccccccccc
Q 024019 233 SECPICLEEFHVGNEVKIS----FLS--IFYSSCSVSDFTYLR 269 (274)
Q Consensus 233 ~eCsICLedFe~GEevR~L----PcC--~FH~~CI~~w~~~~~ 269 (274)
.+|.||-+...++++.-.+ |.| .||..|.-.||..++
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~ 45 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLE 45 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHH
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcc
Confidence 5899998887644433222 245 999999999997543
No 19
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=84.67 E-value=0.39 Score=35.74 Aligned_cols=31 Identities=19% Similarity=0.584 Sum_probs=28.1
Q ss_pred cccccccccccccceeeecccC--cCCcCCccc
Q 024019 233 SECPICLEEFHVGNEVKISFLS--IFYSSCSVS 263 (274)
Q Consensus 233 ~eCsICLedFe~GEevR~LPcC--~FH~~CI~~ 263 (274)
..|++|-+.|++||.+-+=|-| .+|.+|-+.
T Consensus 6 ~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred ccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 5799999999999999999999 999999654
No 20
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=84.40 E-value=0.23 Score=39.86 Aligned_cols=38 Identities=18% Similarity=0.296 Sum_probs=26.3
Q ss_pred ccccccccccc--------cccee-eecccC--cCCcCCcccccccccC
Q 024019 233 SECPICLEEFH--------VGNEV-KISFLS--IFYSSCSVSDFTYLRC 270 (274)
Q Consensus 233 ~eCsICLedFe--------~GEev-R~LPcC--~FH~~CI~~w~~~~~~ 270 (274)
..|.||-..|+ .||.- ..+-.| .||..||..|++..++
T Consensus 22 d~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~ 70 (85)
T PF12861_consen 22 DVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSS 70 (85)
T ss_pred CceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccC
Confidence 46888877777 35442 122345 9999999999997543
No 21
>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=83.61 E-value=0.2 Score=34.78 Aligned_cols=37 Identities=24% Similarity=0.415 Sum_probs=30.5
Q ss_pred cccccccccccccceeeecccC-c-CCcCCcccccccccCCC
Q 024019 233 SECPICLEEFHVGNEVKISFLS-I-FYSSCSVSDFTYLRCGI 272 (274)
Q Consensus 233 ~eCsICLedFe~GEevR~LPcC-~-FH~~CI~~w~~~~~~~~ 272 (274)
.+|+||++...+ +..+||- . |..+|...|....+.||
T Consensus 3 ~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~~~CP 41 (50)
T PF13920_consen 3 EECPICFENPRD---VVLLPCGHLCFCEECAERLLKRKKKCP 41 (50)
T ss_dssp SB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTTSBBT
T ss_pred CCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccCCCCC
Confidence 589999998765 7788977 5 99999999998888777
No 22
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=83.31 E-value=0.44 Score=47.18 Aligned_cols=39 Identities=26% Similarity=0.314 Sum_probs=32.4
Q ss_pred CcccccccccccccceeeecccC-cCCcCCcccccccccCCCC
Q 024019 232 CSECPICLEEFHVGNEVKISFLS-IFYSSCSVSDFTYLRCGIE 273 (274)
Q Consensus 232 ~~eCsICLedFe~GEevR~LPcC-~FH~~CI~~w~~~~~~~~~ 273 (274)
...|+||++.|.. .+ .+||. .|...||..|++..+.||.
T Consensus 26 ~l~C~IC~d~~~~--Pv-itpCgH~FCs~CI~~~l~~~~~CP~ 65 (397)
T TIGR00599 26 SLRCHICKDFFDV--PV-LTSCSHTFCSLCIRRCLSNQPKCPL 65 (397)
T ss_pred ccCCCcCchhhhC--cc-CCCCCCchhHHHHHHHHhCCCCCCC
Confidence 3789999998864 33 67877 9999999999998888884
No 23
>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=82.00 E-value=0.41 Score=33.71 Aligned_cols=37 Identities=19% Similarity=0.064 Sum_probs=30.5
Q ss_pred cccccccccccccceeeecccC-cCCcCCcccccccccCCC
Q 024019 233 SECPICLEEFHVGNEVKISFLS-IFYSSCSVSDFTYLRCGI 272 (274)
Q Consensus 233 ~eCsICLedFe~GEevR~LPcC-~FH~~CI~~w~~~~~~~~ 272 (274)
..|+||++-+++- | .+|+. .|-.+||..|+..+..||
T Consensus 2 ~~Cpi~~~~~~~P--v-~~~~G~v~~~~~i~~~~~~~~~cP 39 (63)
T smart00504 2 FLCPISLEVMKDP--V-ILPSGQTYERRAIEKWLLSHGTDP 39 (63)
T ss_pred cCCcCCCCcCCCC--E-ECCCCCEEeHHHHHHHHHHCCCCC
Confidence 3699999998863 3 56877 999999999998777777
No 24
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=78.29 E-value=0.81 Score=46.51 Aligned_cols=35 Identities=23% Similarity=0.563 Sum_probs=26.9
Q ss_pred CCcccccccccccccc-eeeecccC-cCCcCCccccc
Q 024019 231 DCSECPICLEEFHVGN-EVKISFLS-IFYSSCSVSDF 265 (274)
Q Consensus 231 d~~eCsICLedFe~GE-evR~LPcC-~FH~~CI~~w~ 265 (274)
+..+|+||||+-...- -++.-+|. .||.+|...|-
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~ 210 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW 210 (493)
T ss_pred cCCCcchhHhhcCccccceeeeecccccchHHHhhcc
Confidence 4478999999987532 34566666 99999999994
No 25
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=76.12 E-value=0.49 Score=40.89 Aligned_cols=32 Identities=22% Similarity=0.472 Sum_probs=28.2
Q ss_pred cccccccccccccceeeecccC-------cCCcCCcccc
Q 024019 233 SECPICLEEFHVGNEVKISFLS-------IFYSSCSVSD 264 (274)
Q Consensus 233 ~eCsICLedFe~GEevR~LPcC-------~FH~~CI~~w 264 (274)
.||.||+++-.+++=|--+++. .||.+|+..|
T Consensus 27 ~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw 65 (134)
T PF05883_consen 27 VECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRW 65 (134)
T ss_pred eeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHH
Confidence 6999999999996677778866 8999999999
No 26
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=76.04 E-value=0.49 Score=51.14 Aligned_cols=40 Identities=20% Similarity=0.254 Sum_probs=36.2
Q ss_pred cccccccccccccceeeecccC-cCCcCCcccccccccCCC
Q 024019 233 SECPICLEEFHVGNEVKISFLS-IFYSSCSVSDFTYLRCGI 272 (274)
Q Consensus 233 ~eCsICLedFe~GEevR~LPcC-~FH~~CI~~w~~~~~~~~ 272 (274)
..|++||+.|.++.+.-.-||- +||.+|+++|-...-.||
T Consensus 124 ~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCP 164 (1134)
T KOG0825|consen 124 NQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCP 164 (1134)
T ss_pred hhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCc
Confidence 5899999999999999999976 999999999988777776
No 27
>PF06196 DUF997: Protein of unknown function (DUF997); InterPro: IPR010398 This is a family of predicted bacterial membrane protein with unknown function.
Probab=75.75 E-value=8.8 Score=30.26 Aligned_cols=54 Identities=24% Similarity=0.374 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHhhheeeeccCCCCCCCCCCc--hhHHHHHHHHHHHH---HHHHHHHHHHHH
Q 024019 92 SLLLYPFLWAWTIIGTLWFTSARDCLPEEGQK--WGFLIWLLFSYCGL---LCIACMSMGKWL 149 (274)
Q Consensus 92 ~~il~PF~~~WtIiGt~Wf~~t~~cLp~~~~~--W~fl~Wlv~sy~gl---lciaci~~~~~~ 149 (274)
.++++-+.++|++.+.+-+.+++. ++.+ +|+=.|...|.++. ..+++..+.|+.
T Consensus 10 tl~l~l~yf~~W~~~ay~~~~~~~----~~y~~i~GlPlWF~~SCi~~~il~~~l~~~~vk~~ 68 (80)
T PF06196_consen 10 TLGLTLIYFAWWYGFAYGLGNGDG----EEYKYIFGLPLWFFYSCIGGPILFIILVWLMVKFF 68 (80)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCCc----cccccccCCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456777889999999988877643 2333 78888888888863 366776767655
No 28
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=75.08 E-value=0.94 Score=44.30 Aligned_cols=35 Identities=20% Similarity=0.384 Sum_probs=29.9
Q ss_pred CcccccccccccccceeeecccC-cCCcCCcccccc
Q 024019 232 CSECPICLEEFHVGNEVKISFLS-IFYSSCSVSDFT 266 (274)
Q Consensus 232 ~~eCsICLedFe~GEevR~LPcC-~FH~~CI~~w~~ 266 (274)
..+|+|||--|.+|++..+-||- +||..|.---++
T Consensus 115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~ 150 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLT 150 (368)
T ss_pred CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHH
Confidence 37999999999999999999966 999999765443
No 29
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=67.60 E-value=0.76 Score=32.17 Aligned_cols=33 Identities=24% Similarity=0.432 Sum_probs=19.2
Q ss_pred cccccccccccc-eeeecccC-cCCcCCcccccccc
Q 024019 235 CPICLEEFHVGN-EVKISFLS-IFYSSCSVSDFTYL 268 (274)
Q Consensus 235 CsICLedFe~GE-evR~LPcC-~FH~~CI~~w~~~~ 268 (274)
|+||.| |...| .-+.|||- .|=.+|+......+
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~ 35 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS 35 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC
Confidence 899999 85433 45789955 99999998877644
No 30
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=66.22 E-value=2.2 Score=46.39 Aligned_cols=36 Identities=22% Similarity=0.220 Sum_probs=29.8
Q ss_pred CCcccccccccccccceeeecccC--cCCcCCcccccc
Q 024019 231 DCSECPICLEEFHVGNEVKISFLS--IFYSSCSVSDFT 266 (274)
Q Consensus 231 d~~eCsICLedFe~GEevR~LPcC--~FH~~CI~~w~~ 266 (274)
+..+|.||.+.-+.-+.+-.=--| +||..||-.|-.
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WAr 227 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWAR 227 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHH
Confidence 346999999999988777766556 999999999954
No 31
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=63.56 E-value=1.7 Score=29.78 Aligned_cols=31 Identities=29% Similarity=0.427 Sum_probs=24.0
Q ss_pred cccccccccccceeeecccC-cCCcCCcccccccc
Q 024019 235 CPICLEEFHVGNEVKISFLS-IFYSSCSVSDFTYL 268 (274)
Q Consensus 235 CsICLedFe~GEevR~LPcC-~FH~~CI~~w~~~~ 268 (274)
|+||++-|++ =..|||- .|=.+||..+.+..
T Consensus 1 CpiC~~~~~~---Pv~l~CGH~FC~~Cl~~~~~~~ 32 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLPCGHSFCRSCLERLWKEP 32 (42)
T ss_dssp ETTTTSB-SS---EEE-SSSSEEEHHHHHHHHCCS
T ss_pred CCccchhhCC---ccccCCcCHHHHHHHHHHHHcc
Confidence 8999999987 4578866 99999999887655
No 32
>COG0225 MsrA Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=61.34 E-value=4.2 Score=36.60 Aligned_cols=43 Identities=33% Similarity=0.463 Sum_probs=34.3
Q ss_pred hhhHH--hhhhhhcccCCCcc-ccCCCC-ccChhhHHHHHHHHhcCCc
Q 024019 179 EWAFE--AAGQEMRGIGQDTA-AYHPGL-YLTAAQREAVEALIQELPK 222 (274)
Q Consensus 179 ~w~f~--~~~~~~r~~~~D~~-~~~~G~-~ltPaqreavEa~IqaLP~ 222 (274)
+-.|+ ||-+.+|- |+|-| .||.|. |.+++|+++.++.++++-+
T Consensus 76 ~~ff~ihDPT~~nrQ-GnD~GtqYRs~Iy~~~~~q~~~a~~~~~~~q~ 122 (174)
T COG0225 76 EVFFEIHDPTSLNRQ-GNDRGTQYRSAIYYTNEEQKAIAEASIEELQA 122 (174)
T ss_pred HHHheecCCCCCCcc-CCcccccceeEEEEcCHHHHHHHHHHHHHHHH
Confidence 34455 88888874 79999 899998 6779999998888887744
No 33
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=61.17 E-value=2.6 Score=29.68 Aligned_cols=32 Identities=28% Similarity=0.259 Sum_probs=23.7
Q ss_pred cccccccccccceeeecccC------cCCcCCccccccc
Q 024019 235 CPICLEEFHVGNEVKISFLS------IFYSSCSVSDFTY 267 (274)
Q Consensus 235 CsICLedFe~GEevR~LPcC------~FH~~CI~~w~~~ 267 (274)
|-||+++-.+.+ -...||- .-|.+|...|+..
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~ 38 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRE 38 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHH
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHh
Confidence 679998888776 4567865 6899999999984
No 34
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=61.12 E-value=5.4 Score=27.25 Aligned_cols=32 Identities=16% Similarity=0.378 Sum_probs=22.8
Q ss_pred cccccccccccceeeecccC-cCCcCCcccccc
Q 024019 235 CPICLEEFHVGNEVKISFLS-IFYSSCSVSDFT 266 (274)
Q Consensus 235 CsICLedFe~GEevR~LPcC-~FH~~CI~~w~~ 266 (274)
|.||.+.-.+++.+.=--|. .||..|+.+-.+
T Consensus 2 C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~ 34 (51)
T PF00628_consen 2 CPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEK 34 (51)
T ss_dssp BTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHS
T ss_pred CcCCCCcCCCCCeEEcCCCChhhCcccCCCChh
Confidence 88998855555555544333 999999998765
No 35
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=59.87 E-value=2.3 Score=38.65 Aligned_cols=40 Identities=23% Similarity=0.388 Sum_probs=31.0
Q ss_pred CCcccccccccccccceeeecccC--cCCcCCcccccccccCCC
Q 024019 231 DCSECPICLEEFHVGNEVKISFLS--IFYSSCSVSDFTYLRCGI 272 (274)
Q Consensus 231 d~~eCsICLedFe~GEevR~LPcC--~FH~~CI~~w~~~~~~~~ 272 (274)
++..|+|||++|.+...+- -.| .|=+.||.--+.--+.||
T Consensus 130 ~~~~CPiCl~~~sek~~vs--TkCGHvFC~~Cik~alk~~~~CP 171 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVPVS--TKCGHVFCSQCIKDALKNTNKCP 171 (187)
T ss_pred cccCCCceecchhhccccc--cccchhHHHHHHHHHHHhCCCCC
Confidence 4478999999999833221 246 999999998888888887
No 36
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=58.06 E-value=1.4 Score=48.86 Aligned_cols=34 Identities=21% Similarity=0.354 Sum_probs=24.5
Q ss_pred CCcccccccccccccceeeecc-----cC--cCCcCCcccccc
Q 024019 231 DCSECPICLEEFHVGNEVKISF-----LS--IFYSSCSVSDFT 266 (274)
Q Consensus 231 d~~eCsICLedFe~GEevR~LP-----cC--~FH~~CI~~w~~ 266 (274)
+..||+||-.-... .=|.|| -| .||.+|+..||.
T Consensus 1468 G~eECaICYsvL~~--vdr~lPskrC~TCknKFH~~CLyKWf~ 1508 (1525)
T COG5219 1468 GHEECAICYSVLDM--VDRSLPSKRCATCKNKFHTRCLYKWFA 1508 (1525)
T ss_pred CcchhhHHHHHHHH--HhccCCccccchhhhhhhHHHHHHHHH
Confidence 44699999544432 236777 24 999999999995
No 37
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=55.73 E-value=6.1 Score=41.31 Aligned_cols=60 Identities=28% Similarity=0.439 Sum_probs=38.0
Q ss_pred hHHHHHHHHhcCCceeeecCCCCCcccccccccccc-----------cceeeecccC-cCCcCCcccccccccCC
Q 024019 209 QREAVEALIQELPKFRLKAVPTDCSECPICLEEFHV-----------GNEVKISFLS-IFYSSCSVSDFTYLRCG 271 (274)
Q Consensus 209 qreavEa~IqaLP~~~~t~~~~d~~eCsICLedFe~-----------GEevR~LPcC-~FH~~CI~~w~~~~~~~ 271 (274)
|++..++++.+++.+..+.+ ....|+||.|+|++ -|.|+.= -- .||..|..----++|.+
T Consensus 492 ~~~~~~s~~~k~~~Vp~d~e--~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le-~G~ifH~~Cl~e~~~~l~~~ 563 (579)
T KOG2071|consen 492 QIKKELSLRSKYELVPADSE--RQASCPICQEKFEVVFDQEEDLWMYKDAVYLE-FGRIFHSKCLSEKRAQLREG 563 (579)
T ss_pred cchhhhhhhccceecccCcc--cccCCcccccccceeecchhhheeecceeeec-cCceeeccccchHHHhhhcc
Confidence 55555667777777776643 23589999999985 2222222 23 89999987544444444
No 38
>COG0598 CorA Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]
Probab=52.75 E-value=77 Score=29.83 Aligned_cols=88 Identities=19% Similarity=0.320 Sum_probs=54.8
Q ss_pred ehhhHHHHHHHHHHHHhhhhccCCCCccchhhhccccccchHHHHHHHHHHHHHHHHHHhhheeeeccCCCCCCCCCCch
Q 024019 45 VVDYTTVFVFRLLMFVDNGLASGMGLDLGWQQRYARFCGRVVVLSILSLLLYPFLWAWTIIGTLWFTSARDCLPEEGQKW 124 (274)
Q Consensus 45 vv~y~tv~~fRl~~f~~~~la~~~~~d~~~~~r~~~f~~~~~vls~l~~il~PF~~~WtIiGt~Wf~~t~~cLp~~~~~W 124 (274)
+++++...-=|+.--.|.++|- ...+.| ...-.+++++.++.|- |+|.++|=-|-+. .|+-+.||
T Consensus 232 ~~~~~~~~~~~l~~l~d~~~s~------is~~~N----~imk~LTi~s~iflPp----TlIagiyGMNf~~-mPel~~~~ 296 (322)
T COG0598 232 LIEMLEALRERLSSLLDAYLSL------INNNQN----EIMKILTIVSTIFLPP----TLITGFYGMNFKG-MPELDWPY 296 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH------HHHHHH----HHHHHHHHHHHHHHhh----HHHHcccccCCCC-CcCCCCcc
Confidence 4566666666666666666655 233444 5566788776666665 6778888788655 89988888
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024019 125 GFLIWLLFSYCGLLCIACMSMGKWLTRR 152 (274)
Q Consensus 125 ~fl~Wlv~sy~gllciaci~~~~~~~rR 152 (274)
|+.+-++ ++-+.++.+..|+.|+
T Consensus 297 Gy~~~l~-----~m~~~~~~~~~~frrk 319 (322)
T COG0598 297 GYPIALI-----LMLLLALLLYLYFRRK 319 (322)
T ss_pred cHHHHHH-----HHHHHHHHHHHHHHhc
Confidence 7655444 2333444445555443
No 39
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=47.91 E-value=18 Score=29.89 Aligned_cols=13 Identities=23% Similarity=0.480 Sum_probs=5.3
Q ss_pred HHHHHHHHhhhcC
Q 024019 150 TRRQAHSIRAQQG 162 (274)
Q Consensus 150 ~rR~~~~~~~~qg 162 (274)
+||.++-++...|
T Consensus 24 rRR~r~G~~P~~g 36 (130)
T PF12273_consen 24 RRRRRRGLQPIYG 36 (130)
T ss_pred HHHhhcCCCCcCC
Confidence 3444433444444
No 40
>TIGR00383 corA magnesium Mg(2+) and cobalt Co(2+) transport protein (corA). The article in Microb Comp Genomics 1998;3(3):151-69 (Medline:98448512) discusses this family and suggests that some members may have functions other than Mg2+ transport.
Probab=47.43 E-value=51 Score=30.19 Aligned_cols=45 Identities=22% Similarity=0.459 Sum_probs=29.9
Q ss_pred chHHHHHHHHHHHHHHHHHHhhheeeeccCCCCCCCCCCchhHHHHHHHH
Q 024019 84 RVVVLSILSLLLYPFLWAWTIIGTLWFTSARDCLPEEGQKWGFLIWLLFS 133 (274)
Q Consensus 84 ~~~vls~l~~il~PF~~~WtIiGt~Wf~~t~~cLp~~~~~W~fl~Wlv~s 133 (274)
..-+|++++.++.|- |+|+++|--|.+ -+|+-..+||+.+.++++
T Consensus 257 ~mk~LTvvt~IflP~----t~IaGiyGMNf~-~mP~l~~~~gy~~~l~~m 301 (318)
T TIGR00383 257 IMKILTVVSTIFIPL----TFIAGIYGMNFK-FMPELNWKYGYPAVLIVM 301 (318)
T ss_pred HHHHHHHHHHHHHHH----HHHHHHHhCCcc-cCccccchhHHHHHHHHH
Confidence 344566666666664 566666666643 389878889988777754
No 41
>PRK10633 hypothetical protein; Provisional
Probab=46.53 E-value=74 Score=25.40 Aligned_cols=51 Identities=20% Similarity=0.221 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHhhheeeeccCCCCCCCCCCchhHHHHHHHHHHH--H-HHHHHHHHHHHH
Q 024019 92 SLLLYPFLWAWTIIGTLWFTSARDCLPEEGQKWGFLIWLLFSYCG--L-LCIACMSMGKWL 149 (274)
Q Consensus 92 ~~il~PF~~~WtIiGt~Wf~~t~~cLp~~~~~W~fl~Wlv~sy~g--l-lciaci~~~~~~ 149 (274)
++.|+-+.++||.+.++...+++. -+|+=.|..+|.+. + +.+.|..+.|+.
T Consensus 15 al~L~l~y~~~W~~~aY~~~~~~~-------i~GlP~WF~~sCi~~p~lfi~l~~~~Vk~v 68 (80)
T PRK10633 15 ALGLTLLYLAAWLVAAYLPGNAPG-------FTGLPHWFEMACLLLPLLFILLCWLMVKFI 68 (80)
T ss_pred HHHHHHHHHHHHHHHHhccCCCCc-------ccCCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556777778999999886555542 23444555555443 2 456666666655
No 42
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.81 E-value=12 Score=36.70 Aligned_cols=42 Identities=21% Similarity=0.188 Sum_probs=29.9
Q ss_pred Ccccccccccccccc-eee---ecccC--cCCcCCccccc--cc-----ccCCCC
Q 024019 232 CSECPICLEEFHVGN-EVK---ISFLS--IFYSSCSVSDF--TY-----LRCGIE 273 (274)
Q Consensus 232 ~~eCsICLedFe~GE-evR---~LPcC--~FH~~CI~~w~--~~-----~~~~~~ 273 (274)
+.+|.||.+---+-- ..| .||-| .|=..||..|- ++ .|.||+
T Consensus 161 ~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~ 215 (344)
T KOG1039|consen 161 EKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPF 215 (344)
T ss_pred cccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCc
Confidence 468999987543311 123 34756 99999999998 66 788986
No 43
>PF10003 DUF2244: Integral membrane protein (DUF2244); InterPro: IPR019253 This entry consists of various bacterial putative membrane proteins with no known function.
Probab=42.18 E-value=69 Score=26.94 Aligned_cols=17 Identities=24% Similarity=0.530 Sum_probs=12.4
Q ss_pred CCccChhhHHHHHHHHh
Q 024019 202 GLYLTAAQREAVEALIQ 218 (274)
Q Consensus 202 G~~ltPaqreavEa~Iq 218 (274)
|-+|+|++|++..+.++
T Consensus 121 G~fL~~~eR~~la~~L~ 137 (140)
T PF10003_consen 121 GRFLNPEEREELARELR 137 (140)
T ss_pred ccCCCHHHHHHHHHHHH
Confidence 34599999987666554
No 44
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the 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=41.92 E-value=6.8 Score=29.35 Aligned_cols=37 Identities=16% Similarity=-0.064 Sum_probs=28.9
Q ss_pred cccccccccccccceeeecccC-cCCcCCccccccc-ccCCC
Q 024019 233 SECPICLEEFHVGNEVKISFLS-IFYSSCSVSDFTY-LRCGI 272 (274)
Q Consensus 233 ~eCsICLedFe~GEevR~LPcC-~FH~~CI~~w~~~-~~~~~ 272 (274)
..|+|+.+=+++ =-.+|++ .|-.+||..|+.. ++.||
T Consensus 5 f~CpIt~~lM~d---PVi~~~G~tyer~~I~~~l~~~~~~~P 43 (73)
T PF04564_consen 5 FLCPITGELMRD---PVILPSGHTYERSAIERWLEQNGGTDP 43 (73)
T ss_dssp GB-TTTSSB-SS---EEEETTSEEEEHHHHHHHHCTTSSB-T
T ss_pred cCCcCcCcHhhC---ceeCCcCCEEcHHHHHHHHHcCCCCCC
Confidence 579999888876 3367988 9999999999999 77777
No 46
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=40.51 E-value=14 Score=35.79 Aligned_cols=38 Identities=21% Similarity=0.241 Sum_probs=30.5
Q ss_pred CcccccccccccccceeeecccC-cCCcCCcccccccccCCC
Q 024019 232 CSECPICLEEFHVGNEVKISFLS-IFYSSCSVSDFTYLRCGI 272 (274)
Q Consensus 232 ~~eCsICLedFe~GEevR~LPcC-~FH~~CI~~w~~~~~~~~ 272 (274)
.-+|++||+.=+. --..||- .|=-+||..|.+---.||
T Consensus 239 ~~kC~LCLe~~~~---pSaTpCGHiFCWsCI~~w~~ek~eCP 277 (293)
T KOG0317|consen 239 TRKCSLCLENRSN---PSATPCGHIFCWSCILEWCSEKAECP 277 (293)
T ss_pred CCceEEEecCCCC---CCcCcCcchHHHHHHHHHHccccCCC
Confidence 3689999987655 3367866 999999999998877777
No 47
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=40.43 E-value=12 Score=37.16 Aligned_cols=35 Identities=17% Similarity=0.154 Sum_probs=25.4
Q ss_pred cccccccccccccceeeecccCcCCcCCcccccccccCCC
Q 024019 233 SECPICLEEFHVGNEVKISFLSIFYSSCSVSDFTYLRCGI 272 (274)
Q Consensus 233 ~eCsICLedFe~GEevR~LPcC~FH~~CI~~w~~~~~~~~ 272 (274)
.-|.||+++.+. ..-+||- |.-|...=-+.|+.||
T Consensus 306 ~lcVVcl~e~~~---~~fvpcG--h~ccct~cs~~l~~CP 340 (355)
T KOG1571|consen 306 DLCVVCLDEPKS---AVFVPCG--HVCCCTLCSKHLPQCP 340 (355)
T ss_pred CceEEecCCccc---eeeecCC--cEEEchHHHhhCCCCc
Confidence 469999999988 5677854 5566566666677776
No 48
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=39.91 E-value=5.4 Score=33.74 Aligned_cols=27 Identities=7% Similarity=-0.160 Sum_probs=21.1
Q ss_pred ceeeecccC--cCCcCCcccccccccCCC
Q 024019 246 NEVKISFLS--IFYSSCSVSDFTYLRCGI 272 (274)
Q Consensus 246 EevR~LPcC--~FH~~CI~~w~~~~~~~~ 272 (274)
|-.-.---| .||-.||..|+..+-+||
T Consensus 73 EC~VaWG~CNHaFH~hCisrWlktr~vCP 101 (114)
T KOG2930|consen 73 ECTVAWGVCNHAFHFHCISRWLKTRNVCP 101 (114)
T ss_pred ceEEEeeecchHHHHHHHHHHHhhcCcCC
Confidence 333333345 999999999999999998
No 49
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=39.32 E-value=24 Score=21.79 Aligned_cols=28 Identities=18% Similarity=0.368 Sum_probs=19.3
Q ss_pred ccccccccccccceeeecccCcCCcCCc
Q 024019 234 ECPICLEEFHVGNEVKISFLSIFYSSCS 261 (274)
Q Consensus 234 eCsICLedFe~GEevR~LPcC~FH~~CI 261 (274)
.|+.|-+....++.....+--.||.+|-
T Consensus 1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf 28 (39)
T smart00132 1 KCAGCGKPIRGGELVLRALGKVWHPECF 28 (39)
T ss_pred CccccCCcccCCcEEEEeCCccccccCC
Confidence 3788888887775554444239999884
No 50
>PRK09546 zntB zinc transporter; Reviewed
Probab=38.59 E-value=97 Score=28.94 Aligned_cols=43 Identities=23% Similarity=0.495 Sum_probs=27.5
Q ss_pred hHHHHHHHHHHHHHHHHHHhhheeeeccCCCCCCCCCCchhHHHHHHH
Q 024019 85 VVVLSILSLLLYPFLWAWTIIGTLWFTSARDCLPEEGQKWGFLIWLLF 132 (274)
Q Consensus 85 ~~vls~l~~il~PF~~~WtIiGt~Wf~~t~~cLp~~~~~W~fl~Wlv~ 132 (274)
..+++++.-++.| -|+|..+|=-|-+ -+|+-..+|||.+.+++
T Consensus 264 m~~Ltilt~IflP----lT~IaGiyGMNf~-~mPel~~~~gy~~~l~i 306 (324)
T PRK09546 264 TYTMSLMAMVFLP----TTFLTGLFGVNLG-GIPGGGWPFGFSIFCLL 306 (324)
T ss_pred HHHHHHHHHHHHH----HHHHHhhhccccC-CCCCcCCcchHHHHHHH
Confidence 4467766544444 4566666666743 39998888888766553
No 51
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=37.81 E-value=9.5 Score=36.38 Aligned_cols=51 Identities=16% Similarity=0.340 Sum_probs=36.2
Q ss_pred HHhcCCceeeec------CCCCCcccccccccccccceeeecccC-cCCcCCccccccc
Q 024019 216 LIQELPKFRLKA------VPTDCSECPICLEEFHVGNEVKISFLS-IFYSSCSVSDFTY 267 (274)
Q Consensus 216 ~IqaLP~~~~t~------~~~d~~eCsICLedFe~GEevR~LPcC-~FH~~CI~~w~~~ 267 (274)
++++-|+..+.+ ++.-..-|+.|....+.||.+|-. |- .||-+|.+-|-.+
T Consensus 28 lV~nHpkCiVQSYLqWL~DsDY~pNC~LC~t~La~gdt~RLv-CyhlfHW~ClneraA~ 85 (299)
T KOG3970|consen 28 LVANHPKCIVQSYLQWLQDSDYNPNCRLCNTPLASGDTTRLV-CYHLFHWKCLNERAAN 85 (299)
T ss_pred HhccCchhhHHHHHHHHhhcCCCCCCceeCCccccCcceeeh-hhhhHHHHHhhHHHhh
Confidence 355666655532 222226899999999999999865 33 9999999877543
No 52
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=36.17 E-value=9.2 Score=31.11 Aligned_cols=40 Identities=18% Similarity=0.267 Sum_probs=28.7
Q ss_pred cccccccccccccceeeec-ccC--cCCcCCcccccccccCCC
Q 024019 233 SECPICLEEFHVGNEVKIS-FLS--IFYSSCSVSDFTYLRCGI 272 (274)
Q Consensus 233 ~eCsICLedFe~GEevR~L-PcC--~FH~~CI~~w~~~~~~~~ 272 (274)
..|+-|...-..||+-... -.| .||..||..|+.---.||
T Consensus 32 ~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CP 74 (88)
T COG5194 32 GTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCP 74 (88)
T ss_pred CcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCC
Confidence 4677776655666654432 245 999999999998877777
No 53
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=35.85 E-value=12 Score=29.48 Aligned_cols=29 Identities=28% Similarity=0.496 Sum_probs=20.6
Q ss_pred cccccccccccccceeeecc-cC--cCCcCCccc
Q 024019 233 SECPICLEEFHVGNEVKISF-LS--IFYSSCSVS 263 (274)
Q Consensus 233 ~eCsICLedFe~GEevR~LP-cC--~FH~~CI~~ 263 (274)
..|.||.+. .|-.++--- .| .||..|...
T Consensus 56 ~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 56 LKCSICGKS--GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred CcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHH
Confidence 689999887 555555433 24 999999754
No 54
>PF05393 Hum_adeno_E3A: Human adenovirus early E3A glycoprotein; InterPro: IPR008652 This family consists of several early glycoproteins (E3A), from human adenovirus type 2.; GO: 0016021 integral to membrane
Probab=35.07 E-value=57 Score=26.97 Aligned_cols=51 Identities=10% Similarity=0.178 Sum_probs=24.9
Q ss_pred hhheeeeccCCCCCCC-CCCchhHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHH
Q 024019 104 IIGTLWFTSARDCLPE-EGQKWGFLIWLLFSYCGL-LCIACMSMGKWLTRRQAHS 156 (274)
Q Consensus 104 IiGt~Wf~~t~~cLp~-~~~~W~fl~Wlv~sy~gl-lciaci~~~~~~~rR~~~~ 156 (274)
..|.-|.+++|+-..- +..+ ++=+| -++.||+ +|+..+-+.=+++||.+|.
T Consensus 11 ~TsLtst~~~p~~~~~~n~~~-~Lgm~-~lvI~~iFil~VilwfvCC~kRkrsRr 63 (94)
T PF05393_consen 11 LTSLTSTTETPVVSMFVNNWP-NLGMW-FLVICGIFILLVILWFVCCKKRKRSRR 63 (94)
T ss_pred eeeeeeecccceeEeecCCCC-ccchh-HHHHHHHHHHHHHHHHHHHHHhhhccC
Confidence 3566777788877743 2222 11122 1223332 3444444444677766654
No 55
>PF01544 CorA: CorA-like Mg2+ transporter protein; InterPro: IPR002523 The CorA transport system is the primary Mg2+ influx system of Salmonella typhimurium and Escherichia coli [, ]. CorA is virtually ubiquitous in the Bacteria and Archaea. There are also eukaryotic relatives of this protein. Transporter ZntB mediates efflux of zinc ions [].; GO: 0046873 metal ion transmembrane transporter activity, 0030001 metal ion transport, 0055085 transmembrane transport, 0016020 membrane; PDB: 2HN1_A 3NWI_D 3NVO_B 3CK6_A 2IUB_E 2BBJ_E 2HN2_A 2BBH_A.
Probab=34.21 E-value=34 Score=30.03 Aligned_cols=43 Identities=21% Similarity=0.484 Sum_probs=23.8
Q ss_pred chHHHHHHHHHHHHHHHHHHhhheeeeccCCCCCCCCCCchhHHHHHH
Q 024019 84 RVVVLSILSLLLYPFLWAWTIIGTLWFTSARDCLPEEGQKWGFLIWLL 131 (274)
Q Consensus 84 ~~~vls~l~~il~PF~~~WtIiGt~Wf~~t~~cLp~~~~~W~fl~Wlv 131 (274)
..-+++++..++.|. |++.++|--|.. -+|+...+||..+|++
T Consensus 233 ~m~~LT~~t~iflPl----t~i~g~fGMN~~-~~p~~~~~~g~~~~~~ 275 (292)
T PF01544_consen 233 VMKVLTIVTAIFLPL----TFITGIFGMNFK-GMPELDWPYGYFFVII 275 (292)
T ss_dssp HHHHHHHHHHHHHHH----HHHTTSTTS-SS----SSSSSS-SHHH--
T ss_pred HHHHHHHHHHHHHHH----HHHHHHhhCCcc-CCCccCCccHHHHHHH
Confidence 344577666676775 445555555654 3898889998888754
No 56
>PF11669 WBP-1: WW domain-binding protein 1; InterPro: IPR021684 This family of proteins represents WBP-1, a ligand of the WW domain of Yes-associated protein. This protein has a proline-rich domain. WBP-1 does not bind to the SH3 domain [].
Probab=33.67 E-value=92 Score=25.34 Aligned_cols=8 Identities=25% Similarity=0.937 Sum_probs=3.6
Q ss_pred HHHHHHHH
Q 024019 128 IWLLFSYC 135 (274)
Q Consensus 128 ~Wlv~sy~ 135 (274)
+|++...+
T Consensus 24 FWlv~~li 31 (102)
T PF11669_consen 24 FWLVWVLI 31 (102)
T ss_pred HHHHHHHH
Confidence 45554433
No 57
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=33.03 E-value=7.1 Score=39.69 Aligned_cols=41 Identities=20% Similarity=0.234 Sum_probs=34.8
Q ss_pred cccccccccccc-cceeeecccC-cCCcCCcccccccc--cCCCC
Q 024019 233 SECPICLEEFHV-GNEVKISFLS-IFYSSCSVSDFTYL--RCGIE 273 (274)
Q Consensus 233 ~eCsICLedFe~-GEevR~LPcC-~FH~~CI~~w~~~~--~~~~~ 273 (274)
.-|-.|.|.+.. .|.+-.|||. .||..|.-.-+++| |+||.
T Consensus 366 L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~ 410 (518)
T KOG1941|consen 366 LYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPN 410 (518)
T ss_pred hhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCcc
Confidence 569999999975 5667889988 99999999888887 88884
No 58
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=32.89 E-value=17 Score=39.83 Aligned_cols=44 Identities=16% Similarity=0.210 Sum_probs=29.1
Q ss_pred HhcCCceeeecCCCCCcccccccccccccceeeecccC-cCCcCCccc
Q 024019 217 IQELPKFRLKAVPTDCSECPICLEEFHVGNEVKISFLS-IFYSSCSVS 263 (274)
Q Consensus 217 IqaLP~~~~t~~~~d~~eCsICLedFe~GEevR~LPcC-~FH~~CI~~ 263 (274)
|++|-.....-++. .+|.+|-..+. +...-..||- .||.+|+..
T Consensus 804 ~~~l~~ry~v~ep~--d~C~~C~~~ll-~~pF~vf~CgH~FH~~Cl~~ 848 (911)
T KOG2034|consen 804 ISKLRQRYRVLEPQ--DSCDHCGRPLL-IKPFYVFPCGHCFHRDCLIR 848 (911)
T ss_pred HHHhhcceEEecCc--cchHHhcchhh-cCcceeeeccchHHHHHHHH
Confidence 45554444444443 38999965554 4577788977 999999853
No 59
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=29.08 E-value=7.6 Score=31.32 Aligned_cols=17 Identities=12% Similarity=0.071 Sum_probs=13.5
Q ss_pred cccC--cCCcCCccccccc
Q 024019 251 SFLS--IFYSSCSVSDFTY 267 (274)
Q Consensus 251 LPcC--~FH~~CI~~w~~~ 267 (274)
+=.| .||..||+.|+..
T Consensus 48 ~G~C~h~fh~hCI~~wl~~ 66 (84)
T KOG1493|consen 48 WGYCLHAFHAHCILKWLNT 66 (84)
T ss_pred HHHHHHHHHHHHHHHHhcC
Confidence 3345 8999999999864
No 60
>PF14002 YniB: YniB-like protein
Probab=27.70 E-value=4.7e+02 Score=23.75 Aligned_cols=90 Identities=23% Similarity=0.324 Sum_probs=43.6
Q ss_pred HHHHHHHHhhhhccCCCCccchhhhccccccchHHHHHHHHHHHHHHHHHHhhheeeecc-CCCCCCC-CCCchhHHHHH
Q 024019 53 VFRLLMFVDNGLASGMGLDLGWQQRYARFCGRVVVLSILSLLLYPFLWAWTIIGTLWFTS-ARDCLPE-EGQKWGFLIWL 130 (274)
Q Consensus 53 ~fRl~~f~~~~la~~~~~d~~~~~r~~~f~~~~~vls~l~~il~PF~~~WtIiGt~Wf~~-t~~cLp~-~~~~W~fl~Wl 130 (274)
+.-++.++-.+..+|.|.+...++= .=++.-..=.++||+ +..|..+ +|+=.-- .+..+.|.+=-
T Consensus 15 ~iS~lk~~y~~~~~~~ginav~~df-------i~~mv~mvrfnTpFL------n~FW~nSPvP~~~~~f~~~ni~F~vIy 81 (166)
T PF14002_consen 15 LISLLKFIYFHSEKGDGINAVMNDF-------IHVMVEMVRFNTPFL------NFFWNNSPVPDFDNGFSGSNIMFWVIY 81 (166)
T ss_pred HHHHHHHHHHhcccccchhHHHHHH-------HHHHHHHHHhCCchh------hhhccCCCCCCcccccccccHHHHHHH
Confidence 3456777777777877765543321 111222244678886 5667765 3322110 12223322211
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 024019 131 LFSYCGLLCIACMSMGKWLTRRQAHSIRA 159 (274)
Q Consensus 131 v~sy~gllciaci~~~~~~~rR~~~~~~~ 159 (274)
.+-+ +.+|.-..+. .+.||.+..|.
T Consensus 82 ~liF---vGlAL~aSG~-rm~rqvk~ire 106 (166)
T PF14002_consen 82 LLIF---VGLALQASGA-RMSRQVKFIRE 106 (166)
T ss_pred HHHH---HHHHHHHhhh-HHHHHHHHHHH
Confidence 1222 3444433344 66777776654
No 61
>PF12326 EOS1: N-glycosylation protein; InterPro: IPR021100 This entry represents a family, containing several predicted transmembrane helices, which includes the fungal N-glycosylation protein EOS1. EOS1 is not essential for cell growth, but is necessary for tolerance to oxidative stress, and appears to be involved the N-glycosylation of cellular proteins [].
Probab=26.99 E-value=74 Score=28.06 Aligned_cols=29 Identities=28% Similarity=0.623 Sum_probs=23.0
Q ss_pred ccceeeeeehhhHHHHHHHHHHHHhhhhc
Q 024019 37 TYPLHIWIVVDYTTVFVFRLLMFVDNGLA 65 (274)
Q Consensus 37 ~~Pi~iWlvv~y~tv~~fRl~~f~~~~la 65 (274)
.+|||.|++++.++=+.+=+-.||-.-|.
T Consensus 68 ~~~L~~WI~Is~~lt~~yivq~~vTSNl~ 96 (148)
T PF12326_consen 68 RYPLPAWILISCTLTISYIVQNWVTSNLK 96 (148)
T ss_pred cccchHHHHHHHHHHHHHHHHHHHhcchh
Confidence 46999999999999888877777765443
No 62
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=26.51 E-value=12 Score=39.06 Aligned_cols=40 Identities=20% Similarity=0.468 Sum_probs=28.3
Q ss_pred cccccccccccc---cceeeec-----------ccC-cCCcCCcccccc-cccCCC
Q 024019 233 SECPICLEEFHV---GNEVKIS-----------FLS-IFYSSCSVSDFT-YLRCGI 272 (274)
Q Consensus 233 ~eCsICLedFe~---GEevR~L-----------PcC-~FH~~CI~~w~~-~~~~~~ 272 (274)
..|+||.++-+. |...... ||- .||..|...|.+ +-=-||
T Consensus 572 ~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CP 627 (636)
T KOG0828|consen 572 NDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICP 627 (636)
T ss_pred ccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCC
Confidence 589999998763 2222222 866 999999999998 543554
No 63
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=25.97 E-value=41 Score=29.94 Aligned_cols=37 Identities=32% Similarity=0.453 Sum_probs=28.1
Q ss_pred hhhhhhcccCCCcc-ccCCCC-ccChhhHHHHHHHHhcCC
Q 024019 184 AAGQEMRGIGQDTA-AYHPGL-YLTAAQREAVEALIQELP 221 (274)
Q Consensus 184 ~~~~~~r~~~~D~~-~~~~G~-~ltPaqreavEa~IqaLP 221 (274)
+|-+..| -|+|-| -||.|. |.+++|++..++.++++-
T Consensus 80 DPt~~~~-Qg~D~G~qYRS~If~~~~~q~~~a~~~~~~~~ 118 (172)
T PRK14054 80 DPTTLNR-QGNDRGTQYRSAIFYHDEEQKEIAEASIAELQ 118 (172)
T ss_pred CCCccCC-CCCCCCcCceeEEEeCCHHHHHHHHHHHHHHH
Confidence 6655443 357876 788888 678999999999888765
No 64
>PF13965 SID-1_RNA_chan: dsRNA-gated channel SID-1
Probab=25.32 E-value=1.2e+02 Score=31.59 Aligned_cols=75 Identities=20% Similarity=0.419 Sum_probs=45.5
Q ss_pred ccccce-------eeeeehhhHHHH-HHHHHHHHhhhhccCCCCccchhhhccccccchHHHHHHHHHH-----------
Q 024019 35 LCTYPL-------HIWIVVDYTTVF-VFRLLMFVDNGLASGMGLDLGWQQRYARFCGRVVVLSILSLLL----------- 95 (274)
Q Consensus 35 ~C~~Pi-------~iWlvv~y~tv~-~fRl~~f~~~~la~~~~~d~~~~~r~~~f~~~~~vls~l~~il----------- 95 (274)
+|.||+ |+|--+.|+.+= +|=++-+-.+.... ...+.|.+|++ |.-+.+++- +++
T Consensus 263 ~Cs~p~~~~~~FN~v~Sn~gy~~lG~lfliiv~~r~~~~~-~~~~~gi~~~~----~~~~~~g~~-li~egi~sa~yh~C 336 (570)
T PF13965_consen 263 LCSHPLGGFSAFNNVFSNIGYVLLGLLFLIIVFRRKIFHR-QPTSYGIPQHY----GLFYAMGLA-LIMEGILSACYHIC 336 (570)
T ss_pred hhhcccccccchhhhHhhHHHHHHHHHHHHHHHHhhhhcc-ccccCCCCccc----hhHHHHHHH-HHHHHHHHHHhhcC
Confidence 588998 666677777652 22222222233332 36788899999 666666632 222
Q ss_pred ---------HHHHHHHHhhheeeeccCCC
Q 024019 96 ---------YPFLWAWTIIGTLWFTSARD 115 (274)
Q Consensus 96 ---------~PF~~~WtIiGt~Wf~~t~~ 115 (274)
++|+.+=-+.+.+|++++|.
T Consensus 337 Pn~~~fqfdt~fmyvi~~L~~lkiyq~RH 365 (570)
T PF13965_consen 337 PNRSNFQFDTSFMYVIAGLCMLKIYQKRH 365 (570)
T ss_pred cCchhhHHHHHHHHHHHHHHHHHHHHhhC
Confidence 35554445556899999886
No 65
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.40 E-value=23 Score=36.75 Aligned_cols=34 Identities=35% Similarity=0.716 Sum_probs=24.3
Q ss_pred CcccccccccccccceeeecccC-cCCcCCcccccccc
Q 024019 232 CSECPICLEEFHVGNEVKISFLS-IFYSSCSVSDFTYL 268 (274)
Q Consensus 232 ~~eCsICLedFe~GEevR~LPcC-~FH~~CI~~w~~~~ 268 (274)
...|||||+.... -+|.. |- .|=-+||.--+.+-
T Consensus 186 ~~~CPICL~~~~~--p~~t~-CGHiFC~~CiLqy~~~s 220 (513)
T KOG2164|consen 186 DMQCPICLEPPSV--PVRTN-CGHIFCGPCILQYWNYS 220 (513)
T ss_pred CCcCCcccCCCCc--ccccc-cCceeeHHHHHHHHhhh
Confidence 3689999998876 23333 33 99999998765554
No 66
>PRK13014 methionine sulfoxide reductase A; Provisional
Probab=24.22 E-value=42 Score=30.33 Aligned_cols=37 Identities=30% Similarity=0.453 Sum_probs=28.1
Q ss_pred hhhhhhcccCCCcc-ccCCCC-ccChhhHHHHHHHHhcCC
Q 024019 184 AAGQEMRGIGQDTA-AYHPGL-YLTAAQREAVEALIQELP 221 (274)
Q Consensus 184 ~~~~~~r~~~~D~~-~~~~G~-~ltPaqreavEa~IqaLP 221 (274)
+|-+..| -|+|-| -||.|+ |.+++|++..++.+++|-
T Consensus 85 DPt~~~~-Qg~D~G~QYRS~If~~~~eQ~~~a~~~~~~~~ 123 (186)
T PRK13014 85 DPTQLNR-QGPDRGEQYRSAIFYHDEEQKKVAEAYIAQLD 123 (186)
T ss_pred CCCccCC-CCCCCCCCceEEEEeCCHHHHHHHHHHHHHHH
Confidence 6655544 358887 788887 778999999998888764
No 67
>PRK10582 cytochrome o ubiquinol oxidase subunit IV; Provisional
Probab=23.40 E-value=1.3e+02 Score=25.19 Aligned_cols=81 Identities=12% Similarity=0.263 Sum_probs=42.9
Q ss_pred hhHHHHHHHhhhheeeEecccccccccceeeeeehhhHHHHHHHHHHHHhhhhccCCCCccchhhhccccccchHHHHHH
Q 024019 12 DGFFLSMLATSVIIVAINWKRYHLCTYPLHIWIVVDYTTVFVFRLLMFVDNGLASGMGLDLGWQQRYARFCGRVVVLSIL 91 (274)
Q Consensus 12 d~~~l~~~~~s~~~v~i~W~~~~~C~~Pi~iWlvv~y~tv~~fRl~~f~~~~la~~~~~d~~~~~r~~~f~~~~~vls~l 91 (274)
=||.+|.+.|.+-...+-++.++ ++ .-++++++.=+.-.+-|-.== +-.|....||. +++
T Consensus 20 iGFiLSliLT~i~F~lv~~~~~~---~~------~~~~~i~~lA~vQi~VqL~~F-LHl~~~~~~~w----------n~~ 79 (109)
T PRK10582 20 TGFILSIILTVIPFWMVMTGAAS---PA------VILGTILAMAVVQILVHLVCF-LHMNTKSDEGW----------NMT 79 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHccCC---hh------HHHHHHHHHHHHHHHHHHHHH-hcccCCcccch----------HHH
Confidence 37888888888777666555432 22 223444444333333331000 11222333443 445
Q ss_pred HHHHHHHHHHHHhhheeeecc
Q 024019 92 SLLLYPFLWAWTIIGTLWFTS 112 (274)
Q Consensus 92 ~~il~PF~~~WtIiGt~Wf~~ 112 (274)
++++.-+...=.++||+|+-.
T Consensus 80 al~Ft~~i~~iiv~GSlWIM~ 100 (109)
T PRK10582 80 AFVFTVLIIAILVVGSIWIMW 100 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHc
Confidence 556666667778999999753
No 68
>PHA02782 hypothetical protein; Provisional
Probab=22.64 E-value=75 Score=32.82 Aligned_cols=66 Identities=18% Similarity=0.349 Sum_probs=42.7
Q ss_pred ccCCCccccCCCCccChhhH----HHHHHHHhcCCceeeecCCCCC-cccccccccccccce--------eeecccC--c
Q 024019 191 GIGQDTAAYHPGLYLTAAQR----EAVEALIQELPKFRLKAVPTDC-SECPICLEEFHVGNE--------VKISFLS--I 255 (274)
Q Consensus 191 ~~~~D~~~~~~G~~ltPaqr----eavEa~IqaLP~~~~t~~~~d~-~eCsICLedFe~GEe--------vR~LPcC--~ 255 (274)
|..+|.... -|....++.- ++.+..|++||.+-|..+...- -+|.+ ++-|+.|+. +|+=|+| .
T Consensus 397 GVdDdt~~I-iG~~~e~e~L~~Le~aIe~cI~KLPV~HFC~eK~kIkYt~Kf-ieVy~~G~l~~~GYVCaIKVErFCCAV 474 (503)
T PHA02782 397 GVDNNTHKV-IGFTVGQDYLKLVENDIEKYIKRLRVVHFCEKKEDIKYACRF-IKVYKPGEETTSTYVCAIKVERCCCAV 474 (503)
T ss_pred EEcCCCCeE-eeeecCHHHHHHHHHHHHHHHHhCCeeEeeccCCccceEEEE-EEEecCCcccceeEEEEEEecceeEEE
Confidence 555664422 2533334442 6678899999999998765432 35654 688999985 6777855 6
Q ss_pred CCc
Q 024019 256 FYS 258 (274)
Q Consensus 256 FH~ 258 (274)
|-.
T Consensus 475 FAe 477 (503)
T PHA02782 475 FAD 477 (503)
T ss_pred EcC
Confidence 643
No 69
>PRK14584 hmsS hemin storage system protein; Provisional
Probab=22.29 E-value=5.6e+02 Score=22.79 Aligned_cols=66 Identities=14% Similarity=0.224 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHHHhhheeeeccCCCCCCCCCCc--hhHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 024019 91 LSLLLYPFLWAWTIIGTLWFTSARDCLPEEGQK--WGFL---IWLLFSYCGLLCIACMSMGKWLTRRQAHSIRAQQG 162 (274)
Q Consensus 91 l~~il~PF~~~WtIiGt~Wf~~t~~cLp~~~~~--W~fl---~Wlv~sy~gllciaci~~~~~~~rR~~~~~~~~qg 162 (274)
++-+.|-||++=..+++++- .|..||. |... .|-+.-|.+++-+..++...|.++.|.|-...+.+
T Consensus 24 ~aW~gfi~l~~~~~~~~~~~------~~~~gp~~~~~~~~s~~~tl~~yl~ial~nAvlLI~WA~YN~~RF~~eRR~ 94 (153)
T PRK14584 24 LAWFGFLFLLVRGLLEMISR------APHMGPIPLRIYILSGLTTIALYLAIAAFNAVLLIIWAKYNQVRFQVERRG 94 (153)
T ss_pred HHHHHHHHHHHHHHHHHhcc------CcccCCcchhHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccC
Confidence 34444444444444555332 2445555 7544 56677788766555667778888888887554444
No 70
>PRK05528 methionine sulfoxide reductase A; Provisional
Probab=21.89 E-value=57 Score=28.61 Aligned_cols=37 Identities=14% Similarity=0.179 Sum_probs=28.5
Q ss_pred hhhhhhcccCCCcc-ccCCCC-ccChhhHHHHHHHHhcCC
Q 024019 184 AAGQEMRGIGQDTA-AYHPGL-YLTAAQREAVEALIQELP 221 (274)
Q Consensus 184 ~~~~~~r~~~~D~~-~~~~G~-~ltPaqreavEa~IqaLP 221 (274)
+|-+..| -|+|.| -||.|. |.+++|++..++.++++-
T Consensus 73 dPt~~~~-Qg~D~G~QYRS~If~~d~eQ~~~a~~~~~~~~ 111 (156)
T PRK05528 73 DPYSVNK-QGNDVGEKYRTGIYSEVDDHLIEARQFIERRE 111 (156)
T ss_pred Ccccccc-cCCCCCCCceEEEEeCCHHHHHHHHHHHHHHh
Confidence 5555544 358887 788888 678999999999988774
No 71
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.67 E-value=26 Score=32.97 Aligned_cols=32 Identities=25% Similarity=0.407 Sum_probs=25.0
Q ss_pred CcccccccccccccceeeecccC--cCCcCCccccccc
Q 024019 232 CSECPICLEEFHVGNEVKISFLS--IFYSSCSVSDFTY 267 (274)
Q Consensus 232 ~~eCsICLedFe~GEevR~LPcC--~FH~~CI~~w~~~ 267 (274)
.-+|.|||+.=|+ -|-. +| .|=-.|+-.|+.+
T Consensus 47 ~FdCNICLd~akd--PVvT--lCGHLFCWpClyqWl~~ 80 (230)
T KOG0823|consen 47 FFDCNICLDLAKD--PVVT--LCGHLFCWPCLYQWLQT 80 (230)
T ss_pred ceeeeeeccccCC--CEEe--ecccceehHHHHHHHhh
Confidence 3689999997665 3433 47 9999999999975
No 72
>PHA02902 putative IMV membrane protein; Provisional
Probab=21.11 E-value=3.2e+02 Score=21.58 Aligned_cols=25 Identities=4% Similarity=0.126 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhcC
Q 024019 138 LCIACMSMGKWLTRRQAHSIRAQQG 162 (274)
Q Consensus 138 lciaci~~~~~~~rR~~~~~~~~qg 162 (274)
+|.+..+...|..+|..+-..++.+
T Consensus 11 v~v~Ivclliya~YrR~kci~sP~~ 35 (70)
T PHA02902 11 VIVIIFCLLIYAAYKRYKCIPSPDD 35 (70)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCCCC
Confidence 4555556666777777765554444
No 73
>TIGR02847 CyoD cytochrome o ubiquinol oxidase subunit IV. Cytochrome o terminal oxidase complex is the component of the aerobic respiratory chain which reacts with oxygen, reducing it to water with the concomitant transport of 4 protons across the membrane. Also known as the cytochrome bo complex, cytochrome o ubiquinol oxidase contains four subunits, two heme b cofactors and a copper atom which is believed to be the oxygen active site. This complex is structurally related to the cytochrome caa3 oxidases which utilize cytochrome c as the reductant and contain heme a cofactors, as well as the intermediate form aa3 oxidases which also react directly with quinones as the reductant.
Probab=20.71 E-value=1.7e+02 Score=23.85 Aligned_cols=80 Identities=19% Similarity=0.316 Sum_probs=42.6
Q ss_pred hHHHHHHHhhhheeeEecccccccccceeeeeehhhHHHHHHHHHHHHhhhhccCCCCccchhhhccccccchHHHHHHH
Q 024019 13 GFFLSMLATSVIIVAINWKRYHLCTYPLHIWIVVDYTTVFVFRLLMFVDNGLASGMGLDLGWQQRYARFCGRVVVLSILS 92 (274)
Q Consensus 13 ~~~l~~~~~s~~~v~i~W~~~~~C~~Pi~iWlvv~y~tv~~fRl~~f~~~~la~~~~~d~~~~~r~~~f~~~~~vls~l~ 92 (274)
||.+|.+.|.+-...+-++.++ +. .-++++++.-+.-.+-|-.== +-.|.+..||. ++++
T Consensus 10 GFiLsliLT~i~F~~v~~~~~~---~~------~~~~~i~~~A~iQi~vqL~~F-lHl~~~~~~~~----------n~~~ 69 (96)
T TIGR02847 10 GFVLSVILTAIPFGLVMSGTLS---KG------LTLVIIIVLAVVQILVHLVFF-LHLNTSSEQRW----------NLIS 69 (96)
T ss_pred HHHHHHHHHHHHHHHHHHccCC---Hh------HHHHHHHHHHHHHHHHHHHHH-hhccCccccch----------HHHH
Confidence 7788888887776555555432 11 223444433333333221000 11222334443 4556
Q ss_pred HHHHHHHHHHHhhheeeecc
Q 024019 93 LLLYPFLWAWTIIGTLWFTS 112 (274)
Q Consensus 93 ~il~PF~~~WtIiGt~Wf~~ 112 (274)
+++.-+...=.+.||+|+-.
T Consensus 70 l~Ft~~i~~iiv~GSiWIm~ 89 (96)
T TIGR02847 70 LLFTILIIFILIGGSIWIMH 89 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 67777777778999999753
No 74
>PRK02654 putative inner membrane protein translocase component YidC; Provisional
Probab=20.71 E-value=78 Score=31.79 Aligned_cols=29 Identities=21% Similarity=0.288 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHhhhhccCCCCccchhhhc
Q 024019 49 TTVFVFRLLMFVDNGLASGMGLDLGWQQRY 78 (274)
Q Consensus 49 ~tv~~fRl~~f~~~~la~~~~~d~~~~~r~ 78 (274)
+.|..|.++-|++|.||. +|..-..||..
T Consensus 271 ~mi~~fg~sl~~~q~lsg-~~~~~~~qq~t 299 (375)
T PRK02654 271 IMVLGFGVSLYLSQVLSG-QGMPANPQQST 299 (375)
T ss_pred HHHHHhhhhhhhhHhhhc-CCCCCChhHHH
Confidence 567889999999999996 44444555533
No 75
>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase. Two proteolipids (PMP1 and PMP2) are associated with the ATPase and both genes are similarly expressed in the wild-type strain of yeast. No modification of the level of transcription of one PMP gene is detected in a strain deleted of the other. Though both proteolipids show similarity with other small proteolipids associated with other cation -transporting ATPases, their functions remain unclear [].
Probab=20.65 E-value=1.5e+02 Score=21.38 Aligned_cols=24 Identities=33% Similarity=0.697 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHH---HHHHHHHHHHHH
Q 024019 130 LLFSYCGLLCIA---CMSMGKWLTRRQ 153 (274)
Q Consensus 130 lv~sy~gllcia---ci~~~~~~~rR~ 153 (274)
+|||-+|++.++ .++-.||..|++
T Consensus 12 lVF~lVglv~i~iva~~iYRKw~aRkr 38 (43)
T PF08114_consen 12 LVFCLVGLVGIGIVALFIYRKWQARKR 38 (43)
T ss_pred eehHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666654333 334445554443
No 76
>PF02810 SEC-C: SEC-C motif; InterPro: IPR004027 The SEC-C motif found in the C terminus of the SecA protein, in the middle of some SWI2 ATPases and also solo in several proteins. The motif is predicted to chelate zinc with the CXC and C[HC] pairs that constitute the most conserved feature of the motif. It is predicted to be a potential nucleic acid binding domain.; PDB: 1OZB_J 1TM6_A 2I9W_A 2JQ5_A.
Probab=20.18 E-value=32 Score=21.11 Aligned_cols=11 Identities=45% Similarity=0.936 Sum_probs=8.7
Q ss_pred cccccccccee
Q 024019 31 KRYHLCTYPLH 41 (274)
Q Consensus 31 ~~~~~C~~Pi~ 41 (274)
+.|..|+.|+|
T Consensus 11 ~~y~~CC~~~H 21 (21)
T PF02810_consen 11 KKYKDCCGPYH 21 (21)
T ss_dssp SBHHHCTTHC-
T ss_pred chHHHhCcccC
Confidence 47899999988
No 77
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=20.13 E-value=24 Score=31.73 Aligned_cols=34 Identities=35% Similarity=0.387 Sum_probs=27.0
Q ss_pred cccccccccccccce-eeecccC------cCCcCCcccccc
Q 024019 233 SECPICLEEFHVGNE-VKISFLS------IFYSSCSVSDFT 266 (274)
Q Consensus 233 ~eCsICLedFe~GEe-vR~LPcC------~FH~~CI~~w~~ 266 (274)
..|-||..+-.+.+. .-..||- ..|.+|...|+.
T Consensus 79 ~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~ 119 (323)
T KOG1609|consen 79 PICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFS 119 (323)
T ss_pred CcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhc
Confidence 579999987765433 6678865 779999999998
Done!