Query 019783
Match_columns 336
No_of_seqs 247 out of 2351
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 04:30:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019783.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019783hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 100.0 2.1E-49 4.5E-54 376.1 12.5 236 98-336 30-266 (348)
2 cd02126 PA_EDEM3_like PA_EDEM3 99.9 7.3E-23 1.6E-27 171.4 10.8 114 106-223 2-125 (126)
3 cd02125 PA_VSR PA_VSR: Proteas 99.9 8E-23 1.7E-27 171.3 10.5 113 110-223 1-126 (127)
4 cd02123 PA_C_RZF_like PA_C-RZF 99.9 3E-22 6.6E-27 173.1 13.3 118 101-219 21-141 (153)
5 cd02127 PA_hPAP21_like PA_hPAP 99.9 5.2E-22 1.1E-26 164.3 10.9 109 110-222 1-114 (118)
6 cd02122 PA_GRAIL_like PA _GRAI 99.9 1.6E-21 3.5E-26 165.6 11.8 117 106-224 17-138 (138)
7 cd02132 PA_GO-like PA_GO-like: 99.9 1.6E-21 3.4E-26 166.1 11.1 118 98-223 13-138 (139)
8 cd04813 PA_1 PA_1: Protease-as 99.8 1.9E-20 4.1E-25 154.7 9.4 104 106-216 5-110 (117)
9 cd04818 PA_subtilisin_1 PA_sub 99.8 1.2E-18 2.6E-23 144.0 10.9 113 107-223 1-117 (118)
10 cd02129 PA_hSPPL_like PA_hSPPL 99.8 6.8E-19 1.5E-23 145.5 8.5 91 123-216 23-113 (120)
11 cd04816 PA_SaNapH_like PA_SaNa 99.7 8.3E-18 1.8E-22 139.9 10.5 113 108-223 5-121 (122)
12 cd02130 PA_ScAPY_like PA_ScAPY 99.7 4.9E-17 1.1E-21 135.2 10.7 113 103-223 8-121 (122)
13 cd04817 PA_VapT_like PA_VapT_l 99.6 1.7E-15 3.6E-20 128.6 10.7 99 111-216 27-132 (139)
14 cd02124 PA_PoS1_like PA_PoS1_l 99.6 2.6E-15 5.6E-20 126.2 10.1 96 121-223 32-128 (129)
15 KOG3920 Uncharacterized conser 99.6 5.9E-15 1.3E-19 124.8 7.3 117 96-216 37-162 (193)
16 PF02225 PA: PA domain; Inter 99.5 2.4E-15 5.3E-20 119.9 2.7 70 146-215 32-101 (101)
17 KOG2442 Uncharacterized conser 99.5 3.4E-14 7.3E-19 138.9 6.9 122 100-229 51-180 (541)
18 cd00538 PA PA: Protease-associ 99.4 3E-13 6.6E-18 111.8 7.2 97 125-223 25-125 (126)
19 COG5540 RING-finger-containing 99.4 2.6E-14 5.6E-19 132.3 -0.4 38 296-334 321-358 (374)
20 cd02133 PA_C5a_like PA_C5a_lik 99.3 1.3E-11 2.9E-16 105.3 10.6 105 110-224 16-120 (143)
21 PF13639 zf-RING_2: Ring finge 99.2 1.2E-11 2.6E-16 84.4 2.2 37 299-336 1-37 (44)
22 cd04819 PA_2 PA_2: Protease-as 99.2 1.8E-10 3.9E-15 96.6 9.4 98 118-222 21-125 (127)
23 cd04815 PA_M28_2 PA_M28_2: Pro 99.1 1.4E-10 3.1E-15 98.1 5.8 109 110-223 7-133 (134)
24 cd02120 PA_subtilisin_like PA_ 98.9 1.6E-09 3.5E-14 89.9 6.8 81 129-216 36-117 (126)
25 cd02128 PA_TfR PA_TfR: Proteas 98.8 5.6E-09 1.2E-13 92.5 6.4 111 106-219 15-157 (183)
26 PHA02929 N1R/p28-like protein; 98.7 1.1E-08 2.3E-13 94.2 3.4 64 271-335 147-215 (238)
27 PF12678 zf-rbx1: RING-H2 zinc 98.6 2.8E-08 6E-13 75.4 3.7 38 298-336 19-66 (73)
28 cd00162 RING RING-finger (Real 98.1 1.7E-06 3.6E-11 57.8 2.2 33 300-335 1-33 (45)
29 cd04822 PA_M28_1_3 PA_M28_1_3: 98.0 2.1E-05 4.5E-10 67.9 8.3 93 118-214 18-131 (151)
30 COG5243 HRD1 HRD ubiquitin lig 98.0 1.5E-06 3.3E-11 83.2 1.4 58 273-335 266-333 (491)
31 PF13923 zf-C3HC4_2: Zinc fing 98.0 3.6E-06 7.8E-11 55.7 2.7 33 301-336 1-33 (39)
32 cd04814 PA_M28_1 PA_M28_1: Pro 98.0 2.5E-05 5.4E-10 66.7 8.2 61 119-182 19-100 (142)
33 cd02121 PA_GCPII_like PA_GCPII 98.0 9.9E-06 2.1E-10 74.0 6.1 61 118-181 43-105 (220)
34 cd04820 PA_M28_1_1 PA_M28_1_1: 97.9 4E-05 8.6E-10 65.1 8.1 62 118-182 20-96 (137)
35 smart00184 RING Ring finger. E 97.9 6.8E-06 1.5E-10 52.8 1.8 30 301-334 1-30 (39)
36 smart00744 RINGv The RING-vari 97.8 8.8E-06 1.9E-10 56.8 1.8 34 300-335 1-39 (49)
37 PF00097 zf-C3HC4: Zinc finger 97.8 8.2E-06 1.8E-10 54.3 1.5 31 301-334 1-31 (41)
38 KOG0802 E3 ubiquitin ligase [P 97.7 9.7E-06 2.1E-10 83.7 1.2 40 295-335 288-329 (543)
39 cd02131 PA_hNAALADL2_like PA_h 97.6 7.6E-05 1.7E-09 64.0 4.9 61 118-182 13-75 (153)
40 PF12861 zf-Apc11: Anaphase-pr 97.5 5.1E-05 1.1E-09 58.8 1.6 38 297-335 20-67 (85)
41 PF13445 zf-RING_UBOX: RING-ty 97.4 0.00012 2.6E-09 49.7 2.1 33 301-335 1-34 (43)
42 KOG0801 Predicted E3 ubiquitin 97.3 7.6E-05 1.6E-09 64.1 1.1 30 297-327 176-205 (205)
43 PF14634 zf-RING_5: zinc-RING 97.2 0.00017 3.8E-09 48.9 1.8 33 300-333 1-33 (44)
44 PHA02926 zinc finger-like prot 97.2 7.5E-05 1.6E-09 67.5 -0.5 40 295-335 167-212 (242)
45 KOG1734 Predicted RING-contain 97.2 0.00015 3.2E-09 67.2 1.1 38 295-333 221-265 (328)
46 PF13920 zf-C3HC4_3: Zinc fing 97.1 0.00045 9.8E-09 48.1 2.6 34 298-335 2-36 (50)
47 KOG0804 Cytoplasmic Zn-finger 97.0 0.00033 7.2E-09 69.0 1.8 36 297-333 174-210 (493)
48 COG5194 APC11 Component of SCF 96.9 0.00044 9.6E-09 52.5 1.8 35 299-334 32-68 (88)
49 PF05883 Baculo_RING: Baculovi 96.7 0.00052 1.1E-08 57.6 0.8 35 297-332 25-65 (134)
50 KOG4445 Uncharacterized conser 96.6 0.00085 1.8E-08 63.1 1.3 41 294-335 111-151 (368)
51 PF15227 zf-C3HC4_4: zinc fing 96.3 0.0033 7.2E-08 42.3 2.6 31 301-335 1-31 (42)
52 KOG1493 Anaphase-promoting com 96.3 0.00068 1.5E-08 51.1 -0.9 37 298-335 20-66 (84)
53 smart00504 Ubox Modified RING 96.3 0.0036 7.7E-08 45.2 2.9 33 299-335 2-34 (63)
54 KOG2930 SCF ubiquitin ligase, 96.2 0.0018 4E-08 51.6 1.1 24 312-336 73-97 (114)
55 PF11793 FANCL_C: FANCL C-term 96.1 0.0031 6.7E-08 47.3 1.7 37 298-335 2-43 (70)
56 KOG0828 Predicted E3 ubiquitin 96.0 0.0018 3.8E-08 64.6 -0.1 37 297-334 570-620 (636)
57 PF10367 Vps39_2: Vacuolar sor 95.5 0.0089 1.9E-07 47.7 2.1 32 297-330 77-108 (109)
58 TIGR00599 rad18 DNA repair pro 95.3 0.0092 2E-07 59.1 2.0 35 297-335 25-59 (397)
59 PF12906 RINGv: RING-variant d 94.6 0.023 4.9E-07 39.2 2.0 33 301-335 1-38 (47)
60 KOG0320 Predicted E3 ubiquitin 94.2 0.026 5.6E-07 49.6 1.8 38 295-334 128-165 (187)
61 KOG0825 PHD Zn-finger protein 94.2 0.0084 1.8E-07 62.9 -1.4 37 296-333 121-157 (1134)
62 KOG0317 Predicted E3 ubiquitin 93.9 0.033 7.1E-07 52.4 2.0 36 296-335 237-272 (293)
63 cd04821 PA_M28_1_2 PA_M28_1_2: 93.6 0.11 2.4E-06 45.2 4.6 37 146-182 48-103 (157)
64 KOG1428 Inhibitor of type V ad 93.3 0.049 1.1E-06 60.7 2.3 53 281-335 3470-3522(3738)
65 KOG1941 Acetylcholine receptor 92.8 0.032 6.9E-07 54.5 0.1 38 298-336 365-403 (518)
66 KOG0823 Predicted E3 ubiquitin 92.4 0.089 1.9E-06 48.1 2.4 35 296-334 45-79 (230)
67 PF14446 Prok-RING_1: Prokaryo 91.9 0.11 2.4E-06 36.8 1.9 32 298-330 5-37 (54)
68 COG5219 Uncharacterized conser 91.5 0.041 8.8E-07 59.1 -1.0 41 294-335 1465-1509(1525)
69 KOG3970 Predicted E3 ubiquitin 89.0 0.21 4.5E-06 45.6 1.5 36 296-333 48-83 (299)
70 KOG0827 Predicted E3 ubiquitin 88.7 0.045 9.8E-07 53.4 -3.0 37 298-335 196-233 (465)
71 KOG1952 Transcription factor N 88.3 0.21 4.5E-06 53.3 1.2 39 295-334 188-227 (950)
72 KOG1039 Predicted E3 ubiquitin 87.9 0.21 4.6E-06 48.7 0.9 36 297-333 160-200 (344)
73 PF11789 zf-Nse: Zinc-finger o 87.7 0.53 1.1E-05 33.8 2.6 35 297-334 10-44 (57)
74 PF04564 U-box: U-box domain; 86.9 0.59 1.3E-05 35.0 2.7 35 297-335 3-37 (73)
75 KOG1814 Predicted E3 ubiquitin 85.9 0.35 7.5E-06 47.8 1.2 38 296-334 182-219 (445)
76 KOG4265 Predicted E3 ubiquitin 83.0 0.64 1.4E-05 45.1 1.6 32 296-330 288-319 (349)
77 KOG2164 Predicted E3 ubiquitin 78.7 1.3 2.8E-05 45.0 2.1 32 298-333 186-217 (513)
78 KOG2034 Vacuolar sorting prote 78.3 0.87 1.9E-05 49.0 0.8 33 297-331 816-848 (911)
79 COG5574 PEX10 RING-finger-cont 76.2 1.3 2.8E-05 41.5 1.2 34 297-334 214-248 (271)
80 smart00249 PHD PHD zinc finger 73.5 1.9 4.2E-05 28.1 1.2 31 300-331 1-31 (47)
81 cd03029 GRX_hybridPRX5 Glutare 67.4 8.3 0.00018 28.0 3.7 57 149-206 2-59 (72)
82 PHA03096 p28-like protein; Pro 66.5 2.3 4.9E-05 40.6 0.5 36 299-335 179-219 (284)
83 TIGR02190 GlrX-dom Glutaredoxi 65.9 9.1 0.0002 28.6 3.7 60 146-206 6-66 (79)
84 KOG1609 Protein involved in mR 64.8 3.2 7E-05 39.3 1.2 36 298-334 78-119 (323)
85 PF00628 PHD: PHD-finger; Int 64.4 3.9 8.4E-05 27.9 1.3 31 300-331 1-31 (51)
86 KOG2195 Transferrin receptor a 59.2 9.3 0.0002 41.0 3.5 35 147-181 184-218 (702)
87 KOG4692 Predicted E3 ubiquitin 54.4 8.3 0.00018 37.7 2.0 56 277-336 400-456 (489)
88 KOG1729 FYVE finger containing 54.0 2.8 6E-05 40.0 -1.2 37 298-335 214-250 (288)
89 COG5236 Uncharacterized conser 52.6 7.9 0.00017 37.7 1.5 46 277-326 41-86 (493)
90 KOG3039 Uncharacterized conser 47.2 22 0.00047 33.2 3.4 57 279-336 195-259 (303)
91 KOG3268 Predicted E3 ubiquitin 43.9 12 0.00027 33.1 1.3 36 298-334 165-204 (234)
92 KOG1785 Tyrosine kinase negati 41.2 8.9 0.00019 38.1 0.0 37 295-335 366-402 (563)
93 cd03027 GRX_DEP Glutaredoxin ( 40.4 44 0.00095 24.2 3.7 58 148-206 1-60 (73)
94 KOG2066 Vacuolar assembly/sort 40.3 12 0.00027 40.1 0.9 15 314-329 804-818 (846)
95 KOG1571 Predicted E3 ubiquitin 39.5 23 0.0005 34.7 2.5 27 295-324 302-328 (355)
96 PRK11200 grxA glutaredoxin 1; 39.0 64 0.0014 24.1 4.6 57 149-206 2-67 (85)
97 PRK10638 glutaredoxin 3; Provi 38.5 43 0.00094 25.0 3.5 56 149-205 3-60 (83)
98 COG0695 GrxC Glutaredoxin and 36.8 67 0.0015 24.2 4.3 57 150-206 3-62 (80)
99 PF13717 zinc_ribbon_4: zinc-r 36.2 19 0.00041 23.2 0.9 25 300-325 4-36 (36)
100 KOG2932 E3 ubiquitin ligase in 34.7 14 0.00031 35.5 0.3 24 298-323 90-113 (389)
101 smart00746 TRASH metallochaper 32.5 48 0.001 19.3 2.4 35 301-335 1-38 (39)
102 cd03028 GRX_PICOT_like Glutare 31.4 61 0.0013 24.8 3.3 58 148-206 8-72 (90)
103 COG5152 Uncharacterized conser 31.0 13 0.00028 33.6 -0.7 29 298-330 196-224 (259)
104 KOG2071 mRNA cleavage and poly 31.0 32 0.00069 35.9 2.1 34 296-331 511-555 (579)
105 KOG3858 Ephrin, ligand for Eph 30.9 26 0.00057 32.4 1.3 9 4-12 127-135 (233)
106 KOG1940 Zn-finger protein [Gen 29.8 19 0.00042 34.1 0.3 34 298-332 158-192 (276)
107 PF04202 Mfp-3: Foot protein 3 29.2 29 0.00062 25.7 1.0 14 11-24 51-64 (71)
108 PRK10824 glutaredoxin-4; Provi 28.9 59 0.0013 26.7 3.0 67 148-215 15-91 (115)
109 cd02066 GRX_family Glutaredoxi 28.6 76 0.0016 21.8 3.3 55 149-204 1-57 (72)
110 smart00132 LIM Zinc-binding do 28.4 45 0.00097 20.5 1.8 27 301-329 2-28 (39)
111 KOG0311 Predicted E3 ubiquitin 28.2 7.7 0.00017 37.9 -2.7 36 295-334 40-76 (381)
112 PF15435 UNC119_bdg: UNC119-bi 27.9 21 0.00046 30.9 0.2 31 42-72 25-55 (197)
113 cd03418 GRX_GRXb_1_3_like Glut 27.5 76 0.0016 22.7 3.1 57 149-206 1-60 (75)
114 TIGR00365 monothiol glutaredox 27.4 81 0.0018 24.6 3.5 58 148-206 12-76 (97)
115 KOG0269 WD40 repeat-containing 27.0 38 0.00083 36.4 1.9 34 300-336 781-815 (839)
116 TIGR02194 GlrX_NrdH Glutaredox 26.4 78 0.0017 22.9 3.0 53 151-204 2-55 (72)
117 PF06679 DUF1180: Protein of u 25.2 24 0.00052 30.9 0.0 15 243-257 101-115 (163)
118 KOG2114 Vacuolar assembly/sort 25.2 31 0.00068 37.5 0.9 29 299-330 841-869 (933)
119 TIGR02189 GlrX-like_plant Glut 25.2 1E+02 0.0023 24.1 3.7 59 148-206 8-70 (99)
120 TIGR01477 RIFIN variant surfac 25.0 15 0.00033 36.0 -1.4 25 236-260 312-336 (353)
121 KOG2807 RNA polymerase II tran 24.9 48 0.001 32.2 2.0 42 282-323 314-355 (378)
122 PTZ00046 rifin; Provisional 24.4 16 0.00035 35.9 -1.3 25 236-260 317-341 (358)
123 PF02009 Rifin_STEVOR: Rifin/s 23.9 17 0.00037 34.9 -1.2 25 236-260 258-282 (299)
124 PF01680 SOR_SNZ: SOR/SNZ fami 23.6 34 0.00073 30.6 0.6 44 158-201 21-75 (208)
125 KOG1812 Predicted E3 ubiquitin 23.0 26 0.00056 34.9 -0.2 35 297-332 145-180 (384)
126 cd04727 pdxS PdxS is a subunit 22.7 79 0.0017 30.2 2.9 51 158-208 15-76 (283)
127 PF07172 GRP: Glycine rich pro 22.3 67 0.0015 25.5 2.1 12 78-89 10-21 (95)
128 TIGR00622 ssl1 transcription f 22.3 78 0.0017 26.0 2.5 14 298-311 55-68 (112)
129 KOG0309 Conserved WD40 repeat- 22.2 39 0.00084 36.4 0.8 34 300-334 1020-1062(1081)
130 cd00860 ThrRS_anticodon ThrRS 22.2 1.9E+02 0.0042 21.2 4.6 34 148-181 28-61 (91)
131 COG4882 Predicted aminopeptida 22.0 2.6E+02 0.0057 27.9 6.4 65 148-213 90-161 (486)
132 PF13832 zf-HC5HC2H_2: PHD-zin 21.7 75 0.0016 25.2 2.3 32 297-331 54-87 (110)
133 PF14835 zf-RING_6: zf-RING of 21.0 56 0.0012 24.1 1.2 29 300-331 9-37 (65)
134 TIGR00343 pyridoxal 5'-phospha 20.9 90 0.002 29.8 3.0 51 158-208 17-78 (287)
135 COG5216 Uncharacterized conser 20.3 49 0.0011 24.0 0.8 25 298-322 28-53 (67)
136 KOG1512 PHD Zn-finger protein 20.1 52 0.0011 31.4 1.2 51 273-330 295-345 (381)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.1e-49 Score=376.13 Aligned_cols=236 Identities=37% Similarity=0.636 Sum_probs=201.9
Q ss_pred cCceeeeecccCCCCCCCCCCCeEEEEEeCCCCCCCCCCCCCCCCCCCCCCeEEEEEccCCChHHHHHHHHHcCCcEEEE
Q 019783 98 KPLSLHFPDLPAKFAVDVNSSGTCGALHVADPADACSPLSNPVASNDADHINFVLIVRGQCIFEDKIRNAQAAGYRAAIV 177 (336)
Q Consensus 98 ~~~~~~f~~~~a~Fg~~~~~~~~~g~L~~~~p~~aC~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~~Aq~aGA~avII 177 (336)
.+.+++|.+.+|.||+.+..++..|.++.++|.+||+++.+.+...+....+++||+||+|+|++|+++||++|++|+||
T Consensus 30 ~n~S~sf~d~~a~f~~s~~~e~~~G~l~~~ep~~aC~~i~~~p~~~~~~~~~laLI~Rg~CsFe~Kv~~AQ~aGfkaaIV 109 (348)
T KOG4628|consen 30 RNTSLSFADLPALFGPSLPSEGNLGVLVVAEPLNACNPITNFPEHSTRSTSFLALIRRGGCSFEDKVLNAQRAGFKAAIV 109 (348)
T ss_pred ccccccccCCccccCCccccccceeeeecCCCccccCccccCccCCCCCcceEEEEEccCCchHHHHhhcccccCceEEE
Confidence 67888999999999999999999999999999999999987433233345899999999999999999999999999999
Q ss_pred eccCCCCceeecccCCCcceeeEEEEeeecccchhccccCCcceeeecC-CCCCCccceeEeeehhHHHHHHhhhhhhcc
Q 019783 178 YNDREKGSLVSMTASHEGVKVHAIFVSLETGVYLKEHARGETGECCIFP-ESNRGSWSVLMVSVFSLIVVFALFAVAFIT 256 (336)
Q Consensus 178 ~n~~~~~~l~~m~~~~~~i~IP~v~I~~~~G~~L~~~l~g~~v~v~I~p-~~~~~~w~~liIsfi~lllI~~vvl~~~~~ 256 (336)
||+.+.+++..|..+.+++.|+++|++...|+.|+++.......+...+ .+..+.|.++.++++.++++..+++++|++
T Consensus 110 ynn~~~~~lv~~~~~~~~v~i~~~~vs~~~ge~l~~~~~~~~~~~~~~~~~~~~~~ws~~~~~~i~~l~v~~il~~~f~i 189 (348)
T KOG4628|consen 110 YNNVGSEDLVAMASNPSKVDIHIVFVSVFSGELLSSYAGRTEFECLLIPLGFDTSPWSILAISLISLLTVVAILVTCFFI 189 (348)
T ss_pred ecCCCCchheeeccCCccceeEEEEEeeehHHHHHHhhcccceeeeeccccccCCcchhhhhhhhhHHHHHHHHHHHHHH
Confidence 9998777899999999999999999999999999997654444444444 788889998887888888888888877777
Q ss_pred CCCCCCCCCCCCCCcCCCCHHHHhcCCeeeeccCCCCCCCCCccccccccccCCCCeeEEecCCceeCChhhHHHhhhcC
Q 019783 257 PRPWRPWPGQNQPLSRRLDSKVVEALPCFLFSSASSSQCHGGETCAICLEDYQDGEKLKVLSCKHATCRVSCKLRGLMAD 336 (336)
Q Consensus 257 ~~~~~~~~~~~~~~~~~l~~~~i~~lp~~~y~~~~~~~~~~~~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL~~~ 336 (336)
+++++.++.+++++++++.++.+++||+.+|+..++++.. .+||||||+|++||+||+|||+|.| |..|||+||+++
T Consensus 190 ~~~~~~~~~r~~~~~~r~~k~~l~~~p~~~f~~~~~~~~~--~~CaIClEdY~~GdklRiLPC~H~F-H~~CIDpWL~~~ 266 (348)
T KOG4628|consen 190 YRIRRLIRARNRLRRNRLIKRLLKKLPVRTFTKGDDEDAT--DTCAICLEDYEKGDKLRILPCSHKF-HVNCIDPWLTQT 266 (348)
T ss_pred HHHHHHHHHHhHhhhhhhHHHHHhhCCcEEeccccccCCC--ceEEEeecccccCCeeeEecCCCch-hhccchhhHhhc
Confidence 6665544433333378999999999999999987655433 7999999999999999999999999 999999999975
No 2
>cd02126 PA_EDEM3_like PA_EDEM3_like: protease associated domain (PA) domain-containing EDEM3-like proteins. This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar to Class I alpha-mannosidases (gylcosyl hydrolase family 47), N-terminal to the PA domain. EDEM3 accelerates glycoprotein ERAD (ER-associated degradation). In transfected mammalian cells, overexpression of EDEM3 enhances the mannose trimming from the N-glycans, of a model misfolded protein [alpha1-antitrypsin null (Hong Kong)] as well as, from total glycoproteins. Mannose trimming appears to be involved in the selection of ERAD substrates. EDEM3 has a different specificity of trimming than ER alpha-mannosidase 1. The significance of the PA domain to EDEM3 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or pr
Probab=99.89 E-value=7.3e-23 Score=171.43 Aligned_cols=114 Identities=25% Similarity=0.445 Sum_probs=96.1
Q ss_pred cccCCCCCCCCCC-CeEEEEEeCCCCCCCCCCCCCCCCCCCCCCeEEEEEccCCChHHHHHHHHHcCCcEEEEeccCCCC
Q 019783 106 DLPAKFAVDVNSS-GTCGALHVADPADACSPLSNPVASNDADHINFVLIVRGQCIFEDKIRNAQAAGYRAAIVYNDREKG 184 (336)
Q Consensus 106 ~~~a~Fg~~~~~~-~~~g~L~~~~p~~aC~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~~ 184 (336)
..||+||.+++.. .+.|.|+.++|.++|++..++. ...++|+||+||+|+|.+|+++||++||+||||+|+.+++
T Consensus 2 ~~pa~FG~~~~~~~~~~g~l~~~~p~~gC~~~~~~~----~~~gkIaLv~RG~C~f~~K~~~Aq~aGA~avII~n~~~~~ 77 (126)
T cd02126 2 AGPAQFGMDLTGDKAGVGRVVKAKPYRACSEITNAE----EVKGKIAIMERGDCMFVEKARRVQKAGAIGGIVIDNNEGS 77 (126)
T ss_pred CCCcccCCcCCCCCCceEEEEeCCchhcccCCCCcc----ccCceEEEEECCCCcHHHHHHHHHHCCCcEEEEEECCCCc
Confidence 4689999999864 7899999999999999886532 2359999999999999999999999999999999987542
Q ss_pred -----ceeecccCC---CcceeeEEEEeeecccchhcccc-CCcceee
Q 019783 185 -----SLVSMTASH---EGVKVHAIFVSLETGVYLKEHAR-GETGECC 223 (336)
Q Consensus 185 -----~l~~m~~~~---~~i~IP~v~I~~~~G~~L~~~l~-g~~v~v~ 223 (336)
....|.++. +.++||+++|++++|+.|++.++ +.++++.
T Consensus 78 ~~~~~~~~~m~~~~~~~~~~~IP~v~I~~~dG~~L~~~l~~~~~~~~~ 125 (126)
T cd02126 78 SSDTAPMFAMSGDGDSTDDVTIPVVFLFSKEGSKLLAAIKEHQNVEVL 125 (126)
T ss_pred cccccceeEeecCCCCCCCCeEEEEEEEHHHHHHHHHHHHhCCceEEe
Confidence 355676664 46899999999999999999887 6677765
No 3
>cd02125 PA_VSR PA_VSR: Protease-associated (PA) domain-containing plant vacuolar sorting receptor (VSR). This group includes various PA domain-containing VSRs such as garden pea BP-80, pumpkin PV72, and various Arabidopsis VSRs including AtVSR1. In contrast to most eukaryotes, which only have one or two VSRs, plants have several. This may in part be a reflection of having a more complex vacuolar system with both lytic vacuoles and storage vacuoles. The lytic vacuole is thought to be equivalent to the mammalian lysosome and the yeast vacuole. Pea BP-80 is a type 1 transmembrane protein, involved in the targeting of proteins to the lytic vacuole; it has been suggested that this protein also mediates targeting to the storage vacuole. PV72 and AtVSR1 may mediate transport of seed storage proteins to protein storage vacuoles. The significance of the PA domain to VSRs has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may partic
Probab=99.89 E-value=8e-23 Score=171.27 Aligned_cols=113 Identities=21% Similarity=0.306 Sum_probs=93.4
Q ss_pred CCCCCCCCCCeEEEEEeC-CCCCCCCCCCCCCCC---CCCCCCeEEEEEccCCChHHHHHHHHHcCCcEEEEeccCCCCc
Q 019783 110 KFAVDVNSSGTCGALHVA-DPADACSPLSNPVAS---NDADHINFVLIVRGQCIFEDKIRNAQAAGYRAAIVYNDREKGS 185 (336)
Q Consensus 110 ~Fg~~~~~~~~~g~L~~~-~p~~aC~~~~~~~~~---~~~~~~~IvLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~~~ 185 (336)
+||.++++..+.|.|+++ ++.++|++++....+ +....++||||+||+|+|.+|+++||++||++|||||+.+ ++
T Consensus 1 ~FG~~~yg~~~~G~l~~~~~~~~gC~~~~~~~~~~~~~~~~~~~IvLv~RG~C~F~~K~~~Aq~aGA~avII~n~~~-~~ 79 (127)
T cd02125 1 NFGLPQYGGTLTGVVVYPKENRTGCKEFDVFFKPKKSEPGRRPVILLLDRGGCFFTLKAWNAQQAGAAAVLVADNVD-EP 79 (127)
T ss_pred CCCCCCcCCeeEEEEEecCCccccCCCCcccccccccccCCCceEEEEECCCcCHHHHHHHHHHCCCcEEEEEECCC-Cc
Confidence 699999999999999887 678999999764211 1124489999999999999999999999999999999875 34
Q ss_pred eeeccc--------CCCcceeeEEEEeeecccchhcccc-CCcceee
Q 019783 186 LVSMTA--------SHEGVKVHAIFVSLETGVYLKEHAR-GETGECC 223 (336)
Q Consensus 186 l~~m~~--------~~~~i~IP~v~I~~~~G~~L~~~l~-g~~v~v~ 223 (336)
+..|.. ..++++||+++|++++|+.|++.+. |..|++.
T Consensus 80 ~~~m~~~~~~~~~~~~~~i~IP~v~Is~~~G~~L~~~l~~g~~V~v~ 126 (127)
T cd02125 80 LLTMDTPEESGSADYIEKITIPSALITKAFGEKLKKAISNGEMVVIK 126 (127)
T ss_pred cccccCcccccccccCCCceEeEEEECHHHHHHHHHHHhcCCeEEEe
Confidence 566643 1346899999999999999999887 7777765
No 4
>cd02123 PA_C_RZF_like PA_C-RZF_ like: Protease-associated (PA) domain C_RZF-like. This group includes various PA domain-containing proteins similar to C-RZF (chicken embryo RING zinc finger) protein. These proteins contain a C3H2C3 RING finger. C-RZF is expressed in embryo cells and is restricted mainly to brain and heart, it is localized to both the nucleus and endosomes. Additional C3H2C3 RING finger proteins belonging to this group, include Arabidopsis ReMembR-H2 protein and mouse sperizin. ReMembR-H2 is likely to be an integral membrane protein, and to traffic through the endosomal pathway. Sperizin is expressed in haploid germ cells and localized in the cytoplasm, it may participate in spermatogenesis. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and acce
Probab=99.88 E-value=3e-22 Score=173.06 Aligned_cols=118 Identities=47% Similarity=0.733 Sum_probs=100.5
Q ss_pred eeeeecccCCCCCCCCCCCeEEEEEeCCCCCCCCCCCCCCCCCCCCCCeEEEEEccCCChHHHHHHHHHcCCcEEEEecc
Q 019783 101 SLHFPDLPAKFAVDVNSSGTCGALHVADPADACSPLSNPVASNDADHINFVLIVRGQCIFEDKIRNAQAAGYRAAIVYND 180 (336)
Q Consensus 101 ~~~f~~~~a~Fg~~~~~~~~~g~L~~~~p~~aC~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~~Aq~aGA~avII~n~ 180 (336)
+.+|...+|.||++.+..++.|.|+.++|.+||+++.+++.......++||||+||+|+|.+|+++||++||++|||||+
T Consensus 21 ~~~~~~~~A~FG~~~~~~~~~g~lv~~~p~~gC~~~~~~~~~~~~~~g~IvLV~RG~CtF~~Kv~nAq~aGA~avII~n~ 100 (153)
T cd02123 21 TDEFDDLPANFGPIPPGSGLKGVLVVAEPLNACSPIENPPLNSNASGSFIVLIRRGNCSFETKVRNAQRAGYKAAIVYND 100 (153)
T ss_pred cceEeeecccCCCCCCCCceEEEEEeCCccccCCCCcccccccccCCCeEEEEECCCCCHHHHHHHHHHCCCCEEEEEEC
Confidence 35789999999999998999999999999999999876431112244999999999999999999999999999999998
Q ss_pred CCCCceeecccCCC---cceeeEEEEeeecccchhccccCCc
Q 019783 181 REKGSLVSMTASHE---GVKVHAIFVSLETGVYLKEHARGET 219 (336)
Q Consensus 181 ~~~~~l~~m~~~~~---~i~IP~v~I~~~~G~~L~~~l~g~~ 219 (336)
.+ +.+..|..+.. +++||+++|++++|+.|++.++..+
T Consensus 101 ~~-~~~~~m~~~~~~~~~v~IP~v~Is~~dg~~L~~~l~~~~ 141 (153)
T cd02123 101 ES-NDLISMSGNDQEIKGIDIPSVFVGKSTGEILKKYASYEK 141 (153)
T ss_pred CC-CcceeccCCCCCCcCCEEEEEEeeHHHHHHHHHHHhcCC
Confidence 76 45777777653 7899999999999999999987433
No 5
>cd02127 PA_hPAP21_like PA_hPAP21_like: Protease-associated domain containing proteins like the human secreted glycoprotein hPAP21 (human protease-associated domain-containing protein, 21kDa). This group contains various PA domain-containing proteins similar to hPAP21. Complex N-glycosylation may be required for the secretion of hPAP21. The significance of the PA domain to hPAP21 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.87 E-value=5.2e-22 Score=164.33 Aligned_cols=109 Identities=28% Similarity=0.305 Sum_probs=91.6
Q ss_pred CCCCCCCCCCeEEEEEeCCCCCCCCCCCCCCCCCCCCCCeEEEEEccCCChHHHHHHHHHcCCcEEEEeccCCC--Ccee
Q 019783 110 KFAVDVNSSGTCGALHVADPADACSPLSNPVASNDADHINFVLIVRGQCIFEDKIRNAQAAGYRAAIVYNDREK--GSLV 187 (336)
Q Consensus 110 ~Fg~~~~~~~~~g~L~~~~p~~aC~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~--~~l~ 187 (336)
.||.+++.+...|.|+.++|.+||++..++ ....++|+||+||+|+|.+|+++||++||+||||||+.++ ....
T Consensus 1 ~~~~~~~~~~~~~~lv~~~p~~gC~~~~~~----~~~~g~I~Lv~RG~C~F~~K~~~Aq~aGA~avII~n~~~~~~~~~~ 76 (118)
T cd02127 1 DFGTIFNTRYKHVPLVPADPLEACEELRNI----HDINGNIALIERGGCSFLTKAINAQKAGALAVIITDVNNDSDEYYV 76 (118)
T ss_pred CCCccccccccceEEEECCccccCCCCCCc----cccCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCCCccccce
Confidence 489999999999999999999999986553 1235999999999999999999999999999999998753 2345
Q ss_pred ecccC--CCcceeeEEEEeeecccchhcccc-CCccee
Q 019783 188 SMTAS--HEGVKVHAIFVSLETGVYLKEHAR-GETGEC 222 (336)
Q Consensus 188 ~m~~~--~~~i~IP~v~I~~~~G~~L~~~l~-g~~v~v 222 (336)
.|.++ ..+++||+++|++++|+.|++.++ |..++.
T Consensus 77 ~m~~~~~~~~i~IP~v~Is~~dG~~L~~~l~~g~~~~~ 114 (118)
T cd02127 77 EMIQDDSSRRADIPAAFLLGKNGYMIRKTLERLGLPYA 114 (118)
T ss_pred EecCCCCCCCceEEEEEecHHHHHHHHHHHHcCCceEE
Confidence 56665 456899999999999999999887 665543
No 6
>cd02122 PA_GRAIL_like PA _GRAIL_like: Protease-associated (PA) domain GRAIL-like. This group includes PA domain containing E3 (ubiquitin ligases) similar to human GRAIL (gene related to anergy in lymphocytes) protein. Proteins in this group contain a C3H2C3 RING finger. E3 ubiquitin ligase is part of an enzymic cascade, the end result of which is the ubiquitination of proteins. In this cascade, E1 activates the ubiquitin, the activated ubiquitin is carried by E2, and E3 recognizes the acceptor protein as well as catalyzes the transfer of the activated ubiquitin from E2 to this acceptor. GRAIL, a transmembrane protein localized in the endosomes, controls the development of T cell clonal anergy, and may ubiquitinate membrane-associated targets for T cell activation. GRAIL1 is associated with, and regulated by, two isoforms of otubain 1 (the ubiquitin-specific protease). Additional E3s belonging to this group include human (h)Goliath and Xenopus GREUL1 (Goliath Related E3 Ubiquitin Ligase
Probab=99.86 E-value=1.6e-21 Score=165.58 Aligned_cols=117 Identities=21% Similarity=0.305 Sum_probs=95.0
Q ss_pred cccCCCCCCCCCCCeEEEEEeC---CCCCCCCCCCCCCCCCCCCCCeEEEEEccCCChHHHHHHHHHcCCcEEEEeccCC
Q 019783 106 DLPAKFAVDVNSSGTCGALHVA---DPADACSPLSNPVASNDADHINFVLIVRGQCIFEDKIRNAQAAGYRAAIVYNDRE 182 (336)
Q Consensus 106 ~~~a~Fg~~~~~~~~~g~L~~~---~p~~aC~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~ 182 (336)
..+|+||...+..++.|.|+.. ++.+||+++++... .....++||||+||+|+|.+|+++||++||++|||||+.+
T Consensus 17 ~~~a~fg~~~~~~~~~G~l~~~~~~~~~~gC~~~~~~~~-~~~~~g~IaLV~RG~C~F~~K~~nA~~aGA~aVIIyn~~~ 95 (138)
T cd02122 17 TESGRYGEHSPKEEAKGLVVVPDPPNDHYGCDPDTRFPI-PPNGEPWIALIQRGNCTFEEKIKLAAERNASAVVIYNNPG 95 (138)
T ss_pred ccccccCCCCCCCccEEEEecCCCCCCcCCCCCCccccC-CccCCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCC
Confidence 4589999999999999998654 45899999876210 1223499999999999999999999999999999999986
Q ss_pred -CCceeecccCCCcceeeEEEEeeecccchhcccc-CCcceeee
Q 019783 183 -KGSLVSMTASHEGVKVHAIFVSLETGVYLKEHAR-GETGECCI 224 (336)
Q Consensus 183 -~~~l~~m~~~~~~i~IP~v~I~~~~G~~L~~~l~-g~~v~v~I 224 (336)
......|..+. ...||+++|++++|+.|++.++ |.+|++.|
T Consensus 96 ~~~~~~~m~~~~-~~~ip~v~Is~~~G~~l~~~l~~G~~Vtv~~ 138 (138)
T cd02122 96 TGNETVKMSHPG-TGDIVAIMITNPKGMEILELLERGISVTMVI 138 (138)
T ss_pred CCCceeeccCCC-CCcceEEEEcHHHHHHHHHHHHcCCcEEEeC
Confidence 34466665443 3478999999999999999987 77787764
No 7
>cd02132 PA_GO-like PA_GO-like: Protease-associated domain containing proteins like Arabidopsis thaliana growth-on protein GRO10. This group contains various PA domain-containing proteins similar to the functionally uncharacterized Arabidopsis GRO10. The PA domain may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.86 E-value=1.6e-21 Score=166.07 Aligned_cols=118 Identities=24% Similarity=0.397 Sum_probs=98.3
Q ss_pred cCceeeeecccCCCCCCCCC---CCeEEEEEeCCCCCCCCCCCCCCCCCCCCCCeEEEEEccCCChHHHHHHHHHcCCcE
Q 019783 98 KPLSLHFPDLPAKFAVDVNS---SGTCGALHVADPADACSPLSNPVASNDADHINFVLIVRGQCIFEDKIRNAQAAGYRA 174 (336)
Q Consensus 98 ~~~~~~f~~~~a~Fg~~~~~---~~~~g~L~~~~p~~aC~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~~Aq~aGA~a 174 (336)
.++..+|.+.+|.||.+++. .+..+.++.++|.++|++++++ ..++||||+||+|+|.+|++|||++||++
T Consensus 13 ~~~~~~~~~~~a~FG~~~p~~~~~~~~~~lv~~~~~~gC~~~~~~------~~g~IvLV~RG~C~F~~K~~nA~~aGA~a 86 (139)
T cd02132 13 GDEGDELVGVTARFGASLPSKEDNANKTRAVLANPLDCCSPSTSK------LSGSIALVERGECAFTEKAKIAEAGGASA 86 (139)
T ss_pred CccccEEEeeccccCCCCCCcccCccEEEEEECCcccccCCCCcc------cCCeEEEEECCCCCHHHHHHHHHHcCCcE
Confidence 35556899999999988865 3578899999999999998642 34999999999999999999999999999
Q ss_pred EEEeccCCCCceeecccC----CCcceeeEEEEeeecccchhcccc-CCcceee
Q 019783 175 AIVYNDREKGSLVSMTAS----HEGVKVHAIFVSLETGVYLKEHAR-GETGECC 223 (336)
Q Consensus 175 vII~n~~~~~~l~~m~~~----~~~i~IP~v~I~~~~G~~L~~~l~-g~~v~v~ 223 (336)
|||||+.+ .+..|... ...+.||+++|++++|+.|++.++ |.++++.
T Consensus 87 vIv~n~~~--~~~~~~~~~~~~~~~~~IP~v~Is~~~G~~L~~~l~~g~~Vtv~ 138 (139)
T cd02132 87 LLIINDQE--ELYKMVCEDNDTSLNISIPVVMIPQSAGDALNKSLDQGKKVEVL 138 (139)
T ss_pred EEEEECCC--cccccccCCCCCCCCCcEeEEEecHHHHHHHHHHHHcCCcEEEe
Confidence 99999874 35566532 135899999999999999999887 7777764
No 8
>cd04813 PA_1 PA_1: Protease-associated (PA) domain subgroup 1. A subgroup of PA-domain containing proteins. Proteins in this subgroup contain a RING-finger (Really Interesting New Gene) domain C-terminal to this PA domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins in this group contain a C-terminal RING-finger domain. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases: such as hSPPL2a and 2b, ii) various E3 ubiquitin ligases similar to human GRAIL (gene related to anergy in lymphocytes) protein, iii) various proteins containing a RING finger motif such as Arabid
Probab=99.83 E-value=1.9e-20 Score=154.73 Aligned_cols=104 Identities=29% Similarity=0.369 Sum_probs=84.8
Q ss_pred cccCCCCCCCCCCCeEEEEEeCCCCCCCCCCCCCCCCCCCCCCeEEEEEccCCChHHHHHHHHHcCCcEEEEeccCCCCc
Q 019783 106 DLPAKFAVDVNSSGTCGALHVADPADACSPLSNPVASNDADHINFVLIVRGQCIFEDKIRNAQAAGYRAAIVYNDREKGS 185 (336)
Q Consensus 106 ~~~a~Fg~~~~~~~~~g~L~~~~p~~aC~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~~~ 185 (336)
...|+||++++.+ +.+.. .++|.+||++.+. .+..++||||+||+|+|.+|+++||++||++|||||+.+++.
T Consensus 5 ~~~~~~~~~~~~~-~~~~~-~~~p~~gC~~~~~-----~~l~gkIvLV~RG~CsF~~K~~nAq~aGA~avII~n~~~~~~ 77 (117)
T cd04813 5 GRYASFSPILNPH-LRGSY-KVSPTDACSLQEH-----AEIDGKVALVLRGGCGFLDKVMWAQRRGAKAVIVGDDEPGRG 77 (117)
T ss_pred ccccccCCccCcc-ccccc-cCCCCCCCCCCCc-----CCcCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCCccc
Confidence 4678999998876 33332 2789999998833 224599999999999999999999999999999999886555
Q ss_pred eeecccC--CCcceeeEEEEeeecccchhcccc
Q 019783 186 LVSMTAS--HEGVKVHAIFVSLETGVYLKEHAR 216 (336)
Q Consensus 186 l~~m~~~--~~~i~IP~v~I~~~~G~~L~~~l~ 216 (336)
+..|..+ ..+++||+++|++++|+.|++++.
T Consensus 78 ~~~m~~~~~~~~v~IPav~Is~~~g~~L~~l~~ 110 (117)
T cd04813 78 LITMFSNGDTDNVTIPAMFTSRTSYHLLSSLLP 110 (117)
T ss_pred ceecccCCCCCCcEEEEEEEcHHHHHHHHHhcc
Confidence 6667643 466899999999999999998865
No 9
>cd04818 PA_subtilisin_1 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1. A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following subtilisin-like proteases: i) melon cucumisin, ii) Arabidopsis thaliana Ara12, iii) Alnus glutinosa ag12, iv) members of the tomato P69 family, and v) tomato LeSBT2. However, these proteins belong to other subtilisin-like subgroups. Relatively little is known about proteins in this subgroup.
Probab=99.78 E-value=1.2e-18 Score=144.00 Aligned_cols=113 Identities=28% Similarity=0.371 Sum_probs=95.5
Q ss_pred ccCCCCCCCCC---CCeEEEEEeCCCCCCCCCCCCCCCCCCCCCCeEEEEEccCCChHHHHHHHHHcCCcEEEEeccCCC
Q 019783 107 LPAKFAVDVNS---SGTCGALHVADPADACSPLSNPVASNDADHINFVLIVRGQCIFEDKIRNAQAAGYRAAIVYNDREK 183 (336)
Q Consensus 107 ~~a~Fg~~~~~---~~~~g~L~~~~p~~aC~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~ 183 (336)
.+|.||+.++. ..+.|.++.++|.++|++.... ....+||||++||+|+|.+|+++|+++||+++||||+.+.
T Consensus 1 ~~a~fg~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~----~~v~GkIvL~~rg~c~f~~k~~~a~~aGA~gvIi~~~~~~ 76 (118)
T cd04818 1 VSAGFGPALTNVTADVVLAGAAPASNTDGCTAFTNA----AAFAGKIALIDRGTCNFTVKVLNAQNAGAIAVIVANNVAG 76 (118)
T ss_pred CCcccCCcCccccccceeEEEecCCcccccCCCCcC----CCCCCEEEEEECCCCCHHHHHHHHHHCCCeEEEEEECCCC
Confidence 37999999875 5688999999999999988652 1245999999999999999999999999999999998764
Q ss_pred CceeecccCCCcceeeEEEEeeecccchhcccc-CCcceee
Q 019783 184 GSLVSMTASHEGVKVHAIFVSLETGVYLKEHAR-GETGECC 223 (336)
Q Consensus 184 ~~l~~m~~~~~~i~IP~v~I~~~~G~~L~~~l~-g~~v~v~ 223 (336)
+....|.++.....||+++|+.++|+.|+++++ |.+++++
T Consensus 77 ~~~~~~~~~~~~~~iP~v~V~~~~g~~l~~~l~~g~~v~v~ 117 (118)
T cd04818 77 GAPITMGGDDPDITIPAVMISQADGDALKAALAAGGTVTVT 117 (118)
T ss_pred CcceeccCCCCCCEEeEEEecHHHHHHHHHHHhcCCcEEEe
Confidence 445556655556789999999999999999988 7777765
No 10
>cd02129 PA_hSPPL_like PA_hSPPL_like: Protease-associated domain containing human signal peptide peptidase-like (hSPPL)-like. This group contains various PA domain-containing proteins similar to hSPPL2a and 2b. These SPPLs are GxGD aspartic proteases. SPPL2a is sorted to the late endosomes, SPPL2b to the plasma membrane. In activated dendritic cells, hSPPL2a and 2b catalyze the intramembrane proteolysis of tumor necrosis factor alpha triggering IL-12 production. hSPPL2a and 2b may have a broad substrate spectrum. The significance of the PA domain to these SPPLs has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.77 E-value=6.8e-19 Score=145.51 Aligned_cols=91 Identities=18% Similarity=0.246 Sum_probs=72.7
Q ss_pred EEEeCCCCCCCCCCCCCCCCCCCCCCeEEEEEccCCChHHHHHHHHHcCCcEEEEeccCCCCceeecccCCCcceeeEEE
Q 019783 123 ALHVADPADACSPLSNPVASNDADHINFVLIVRGQCIFEDKIRNAQAAGYRAAIVYNDREKGSLVSMTASHEGVKVHAIF 202 (336)
Q Consensus 123 ~L~~~~p~~aC~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~~~l~~m~~~~~~i~IP~v~ 202 (336)
.|+.++|..+|++.+.+. ....++|+||+||+|+|.+|+++||++||+||||||+.+........++..+++||++|
T Consensus 23 ~~~~~~~~~gC~~~~~~~---~~l~gkIaLV~RG~CsF~~K~~~Aq~aGA~aVII~nn~~~~~~~~~~~~~~~v~IP~v~ 99 (120)
T cd02129 23 PLRNLTSSVLCSASDVPP---GGLKGKAVVVMRGNCTFYEKARLAQSLGAEGLLIVSRERLVPPSGNRSEYEKIDIPVAL 99 (120)
T ss_pred eeecCCCcCCCCccccCc---cccCCeEEEEECCCcCHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCCCcCCcccEEE
Confidence 577889999999876532 12349999999999999999999999999999999987521111111223678999999
Q ss_pred Eeeecccchhcccc
Q 019783 203 VSLETGVYLKEHAR 216 (336)
Q Consensus 203 I~~~~G~~L~~~l~ 216 (336)
|++++|+.|++.+.
T Consensus 100 Is~~dG~~i~~~l~ 113 (120)
T cd02129 100 LSYKDMLDIQQTFG 113 (120)
T ss_pred EeHHHHHHHHHHhc
Confidence 99999999988876
No 11
>cd04816 PA_SaNapH_like PA_SaNapH_like: Protease-associated domain containing proteins like Streptomyces anulatus N-acetylpuromycin N-acetylhydrolase (SaNapH).This group contains various PA domain-containing proteins similar SaNapH. Proteins in this group belong to the peptidase M28 family. NapH is a terminal enzyme in the puromycin biosynthetic pathway; NapH hydrolyzes N-acetylpuromycin to the active antibiotic. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.75 E-value=8.3e-18 Score=139.91 Aligned_cols=113 Identities=26% Similarity=0.321 Sum_probs=88.3
Q ss_pred cCCCCCCCCCCCeEEEEEeCCC--CCCCCCCCCCCCCCCCCCCeEEEEEccCCChHHHHHHHHHcCCcEEEEeccCCCCc
Q 019783 108 PAKFAVDVNSSGTCGALHVADP--ADACSPLSNPVASNDADHINFVLIVRGQCIFEDKIRNAQAAGYRAAIVYNDREKGS 185 (336)
Q Consensus 108 ~a~Fg~~~~~~~~~g~L~~~~p--~~aC~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~~~ 185 (336)
...|++..+..+++|.|++.++ .++|++.+.+. ....+|||||+||+|+|.+|+++||++||+++||||+.+...
T Consensus 5 ~~~~~~~~~~~gi~~~lv~~~~~~~~gC~~~~~~~---~~~~GkIvLv~rg~c~f~~K~~~A~~aGA~avIi~n~~~~~~ 81 (122)
T cd04816 5 SLSYSPSTPPGGVTAPLVPLDPERPAGCDASDYDG---LDVKGAIVLVDRGGCPFADKQKVAAARGAVAVIVVNNSDGGG 81 (122)
T ss_pred EEeccCCCCCCCcEEEEEEcCCCCccCCCccccCC---CCcCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEeCCCCcc
Confidence 3467777788899999988765 58999865431 124599999999999999999999999999999999875322
Q ss_pred eeecccC-CCcceeeEEEEeeecccchhcccc-CCcceee
Q 019783 186 LVSMTAS-HEGVKVHAIFVSLETGVYLKEHAR-GETGECC 223 (336)
Q Consensus 186 l~~m~~~-~~~i~IP~v~I~~~~G~~L~~~l~-g~~v~v~ 223 (336)
...+..+ .....||+++|++++|+.|+++++ |.++++.
T Consensus 82 ~~~~~~~~~~~~~iP~~~Is~~~G~~l~~~l~~g~~v~~~ 121 (122)
T cd04816 82 TAGTLGAPNIDLKVPVGVITKAAGAALRRRLGAGETLELD 121 (122)
T ss_pred ccccccCCCCCCeeeEEEEcHHHHHHHHHHHcCCCEEEEe
Confidence 2222222 256789999999999999999987 6666654
No 12
>cd02130 PA_ScAPY_like PA_ScAPY_like: Protease-associated domain containing proteins like Saccharomyces cerevisiae aminopeptidase Y (ScAPY). This group contains various PA domain-containing proteins similar to the S. cerevisiae APY, including Trichophyton rubrum leucine aminopeptidase 1(LAP1). Proteins in this group belong to the peptidase M28 family. ScAPY hydrolyzes amino acid-4-methylcoumaryl-7-amides (MCAs). ScAPY more rapidly hydrolyzes dipeptidyl-MCAs. Hydrolysis of amino acid-MCAs or dipeptides is stimulated by Co2+ while the hydrolysis of dipeptidyl-MCAs, tripeptides, and longer peptides is inhibited by Co2+. ScAPY is vacuolar and is activated by proteolytic processing. LAP1 is a secreted leucine aminopeptidase. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stab
Probab=99.71 E-value=4.9e-17 Score=135.22 Aligned_cols=113 Identities=30% Similarity=0.391 Sum_probs=84.3
Q ss_pred eeecccCCCCCCCCCCCeEEEEEeCCCCCCCCCCCCCCCCCCCCCCeEEEEEccCCChHHHHHHHHHcCCcEEEEeccCC
Q 019783 103 HFPDLPAKFAVDVNSSGTCGALHVADPADACSPLSNPVASNDADHINFVLIVRGQCIFEDKIRNAQAAGYRAAIVYNDRE 182 (336)
Q Consensus 103 ~f~~~~a~Fg~~~~~~~~~g~L~~~~p~~aC~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~ 182 (336)
.|...+..|++. .+.+|.|+.. +.++|.+.+.+. ...+|||||+||+|+|.+|+++|+++||++|||||+.+
T Consensus 8 ~~~~~~~~~~~~---~~~~g~lv~~-~~~gC~~~~~~~----~~~gkIvlv~rg~c~f~~K~~~A~~aGA~~vIv~n~~~ 79 (122)
T cd02130 8 AIPTTAFTYSPA---GEVTGPLVVV-PNLGCDAADYPA----SVAGNIALIERGECPFGDKSALAGAAGAAAAIIYNNVP 79 (122)
T ss_pred EEeeeecccCCC---CCcEEEEEEe-CCCCCCcccCCc----CCCCEEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCC
Confidence 344444444333 4457888875 468999765431 24599999999999999999999999999999999873
Q ss_pred CCceeecccCCCcceeeEEEEeeecccchhcccc-CCcceee
Q 019783 183 KGSLVSMTASHEGVKVHAIFVSLETGVYLKEHAR-GETGECC 223 (336)
Q Consensus 183 ~~~l~~m~~~~~~i~IP~v~I~~~~G~~L~~~l~-g~~v~v~ 223 (336)
.+....+..+..+..||+++|++++|+.|++.++ |.++++.
T Consensus 80 ~~~~~~~~~~~~~~~Ip~v~Is~~~G~~L~~~l~~g~~v~~~ 121 (122)
T cd02130 80 AGGLSGTLGEPSGPYVPTVGISQEDGKALVAALANGGEVSAN 121 (122)
T ss_pred CcccccccCCCCCCEeeEEEecHHHHHHHHHHHhcCCcEEEe
Confidence 2333223334456789999999999999999887 7777764
No 13
>cd04817 PA_VapT_like PA_VapT_like: Protease-associated domain containing proteins like VapT from Vibrio metschnikovii strain RH530. This group contains various PA domain-containing proteins similar to V. metschnikovii VapT, including the serine alkaline protease SapSh from the psychotroph Shewanella strain Ac10 and the Apa1 protease from the psychrotroph Pseudoalteromonas Sp. As-11. VapT is a sodium dodecyl sulfate (SDS) resistant extracellular alkaline serine protease showing high activity over a broad pH range and temperature. SapSh has a high level of protease activity at low temperatures. Apa1 is also cold-adapted. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.63 E-value=1.7e-15 Score=128.59 Aligned_cols=99 Identities=22% Similarity=0.215 Sum_probs=74.0
Q ss_pred CCCCCCCCCeEEEEEeCCCCCCCCCCCCCCCCCCCCCCeEEEEEccCCC-----hHHHHHHHHHcCCcEEEEeccCCC-C
Q 019783 111 FAVDVNSSGTCGALHVADPADACSPLSNPVASNDADHINFVLIVRGQCI-----FEDKIRNAQAAGYRAAIVYNDREK-G 184 (336)
Q Consensus 111 Fg~~~~~~~~~g~L~~~~p~~aC~~~~~~~~~~~~~~~~IvLV~RG~Cs-----F~~Kv~~Aq~aGA~avII~n~~~~-~ 184 (336)
|-...+...++|.|+.... -+|+-... ...+||+||+||+|+ |.+|+++||++||+||||||+.+. +
T Consensus 27 ~~s~~~~g~~tg~lv~~g~-~g~d~~~~------d~~GkIaLI~RG~c~~~~~~f~~Kv~~A~~aGA~avIIyNn~~~~g 99 (139)
T cd04817 27 YASMPVTGSATGSLYYCGT-SGGSYICG------GMAGKICLIERGGNSKSVYPEIDKVKACQNAGAIAAIVYSNAALAG 99 (139)
T ss_pred ccccccCCcceEEEEEccC-CCccccCC------CcCccEEEEECCCCCCCcccHHHHHHHHHHCCCeEEEEEeCCCCCC
Confidence 3333445567888887664 33632211 234999999999999 999999999999999999999832 2
Q ss_pred ceeecccCC-CcceeeEEEEeeecccchhcccc
Q 019783 185 SLVSMTASH-EGVKVHAIFVSLETGVYLKEHAR 216 (336)
Q Consensus 185 ~l~~m~~~~-~~i~IP~v~I~~~~G~~L~~~l~ 216 (336)
....+..+. .+++||+++|++++|+.|++.+.
T Consensus 100 ~~~~~lg~~~~~~~IP~v~is~~dG~~L~~~l~ 132 (139)
T cd04817 100 LQNPFLVDTNNDTTIPSVSVDRADGQALLAALG 132 (139)
T ss_pred cccccccCCCCCceEeEEEeeHHHHHHHHHHhc
Confidence 233344443 37899999999999999998874
No 14
>cd02124 PA_PoS1_like PA_PoS1_like: Protease-associated (PA) domain PoS1-like. This group includes various PA domain-containing proteins similar to Pleurotus ostreatus (Po)S1. PoSl, the main extracellular protease in P. ostreatus is a subtilisin-like serine protease belonging to the peptidase S8 family. Ca2+ and Mn2+ both stimulate the protease activity of (Po)S1. Ca2+ protects PoS1 from autolysis. PoS1 is a monomeric glycoprotein, which may play a role in the regulation of laccases in lignin formation. (Po)S1 participates in the degradation of POXA1b, and in the activation of POXA3, (POXA1b and POXA3 are laccase isoenzymes), but its effect may be indirect. The significance of the PA domain to PoS1 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.62 E-value=2.6e-15 Score=126.20 Aligned_cols=96 Identities=25% Similarity=0.339 Sum_probs=71.8
Q ss_pred EEEEEeCCCCCCCCCCCCCCCCCCCCCCeEEEEEccCCChHHHHHHHHHcCCcEEEEeccCCCCceeecccCCCcceeeE
Q 019783 121 CGALHVADPADACSPLSNPVASNDADHINFVLIVRGQCIFEDKIRNAQAAGYRAAIVYNDREKGSLVSMTASHEGVKVHA 200 (336)
Q Consensus 121 ~g~L~~~~p~~aC~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~~~l~~m~~~~~~i~IP~ 200 (336)
...+..+++.+||++++.... ...++||||+||+|+|.+|+++||++||++|||||+.++ .. .+.... ...+|+
T Consensus 32 ~~~~~~~~~~~gC~~~~~~~~---~~~g~IaLv~rg~c~f~~K~~nA~~aGA~aviiyn~~~~-~~-~~~~~~-~~~~~~ 105 (129)
T cd02124 32 ALSLDTSVADDACQPLPDDTP---DLSGYIVLVRRGTCTFATKAANAAAKGAKYVLIYNNGSG-PT-DQVGSD-ADSIIA 105 (129)
T ss_pred EeecccCCCcccCcCCCcccc---cccCeEEEEECCCCCHHHHHHHHHHcCCcEEEEEECCCC-cc-cccCCC-Ccceee
Confidence 334556678899999865321 234999999999999999999999999999999998753 22 233222 234565
Q ss_pred EEEeeecccchhcccc-CCcceee
Q 019783 201 IFVSLETGVYLKEHAR-GETGECC 223 (336)
Q Consensus 201 v~I~~~~G~~L~~~l~-g~~v~v~ 223 (336)
+++ +++|+.|++.++ |.++++.
T Consensus 106 ~~~-~~~G~~l~~~l~~G~~vtv~ 128 (129)
T cd02124 106 AVT-PEDGEAWIDALAAGSNVTVD 128 (129)
T ss_pred EEe-HHHHHHHHHHHhcCCeEEEe
Confidence 666 999999998886 6666654
No 15
>KOG3920 consensus Uncharacterized conserved protein, contains PA domain [General function prediction only]
Probab=99.56 E-value=5.9e-15 Score=124.77 Aligned_cols=117 Identities=29% Similarity=0.436 Sum_probs=92.2
Q ss_pred EEcCcee--eeecccCC-CCCCCCCCCeEEEEEeCCCCCCCCCCCCCCCCCCCCCCeEEEEEccCCChHHHHHHHHHcCC
Q 019783 96 VWKPLSL--HFPDLPAK-FAVDVNSSGTCGALHVADPADACSPLSNPVASNDADHINFVLIVRGQCIFEDKIRNAQAAGY 172 (336)
Q Consensus 96 ~~~~~~~--~f~~~~a~-Fg~~~~~~~~~g~L~~~~p~~aC~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~~Aq~aGA 172 (336)
++.|.++ +|...+|. ||..++..-..-.|+.++|..||+.+.+... ..+.|+|++||+|||..|.+++|++||
T Consensus 37 vlsP~~l~Yty~~~pAkdfG~~F~~r~e~~~lV~adPp~aC~elrN~~f----~~d~vaL~eRGeCSFl~Ktl~~e~aGa 112 (193)
T KOG3920|consen 37 VLSPYTLAYTYQMKPAKDFGVHFPDRFENLELVLADPPHACEELRNEIF----APDSVALMERGECSFLVKTLNGEKAGA 112 (193)
T ss_pred ecCcccEEEEEEecchhhhccccchhhcCcceeecCChhHHHHHhhccc----CCCcEEEEecCCceeeehhhhhhhcCc
Confidence 3355554 67777876 8887776544447899999999999987533 227899999999999999999999999
Q ss_pred cEEEEeccCCCCc----eeecccCC--CcceeeEEEEeeecccchhcccc
Q 019783 173 RAAIVYNDREKGS----LVSMTASH--EGVKVHAIFVSLETGVYLKEHAR 216 (336)
Q Consensus 173 ~avII~n~~~~~~----l~~m~~~~--~~i~IP~v~I~~~~G~~L~~~l~ 216 (336)
.|+||.|+.+.+. .+.|..|. .+.+||++|+-..+|..++.-++
T Consensus 113 ~aiiitd~~~~~~sf~~YveMI~D~sq~~AniPa~fllg~~Gy~ir~sL~ 162 (193)
T KOG3920|consen 113 TAIIITDSQNYEYSFHQYVEMIPDESQDRANIPAVFLLGVTGYYIRVSLK 162 (193)
T ss_pred eEEEEecCCCCchhHHHHHHhcCcccccccCCceEEEeccceEEEehhHH
Confidence 9999999875433 45677664 55799999999999988776654
No 16
>PF02225 PA: PA domain; InterPro: IPR003137 The PA (Protease associated) domain is found as an insert domain in diverse proteases, which include the MEROPS peptidase families A22B, M28, and S8A []. The PA domain is also found in a plant vacuolar sorting receptor O22925 from SWISSPROT and members of the RZF family, e.g. O43567 from SWISSPROT.; PDB: 3EIF_A 1XF1_B 3BXM_A 2C6P_A 1Z8L_C 3SJF_A 3BHX_A 2C6G_A 3D7F_A 2XEG_A ....
Probab=99.54 E-value=2.4e-15 Score=119.87 Aligned_cols=70 Identities=31% Similarity=0.524 Sum_probs=54.6
Q ss_pred CCCeEEEEEccCCChHHHHHHHHHcCCcEEEEeccCCCCceeecccCCCcceeeEEEEeeecccchhccc
Q 019783 146 DHINFVLIVRGQCIFEDKIRNAQAAGYRAAIVYNDREKGSLVSMTASHEGVKVHAIFVSLETGVYLKEHA 215 (336)
Q Consensus 146 ~~~~IvLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~~~l~~m~~~~~~i~IP~v~I~~~~G~~L~~~l 215 (336)
..++|||++||+|+|.+|+++||++||+|+||+|+.+.........+.....||+++|++++|+.|++++
T Consensus 32 ~~gkIvlv~rg~~~~~~k~~~a~~~GA~gvIi~~~~~~~~~~~~~~~~~~~~iP~v~I~~~~g~~L~~~i 101 (101)
T PF02225_consen 32 VKGKIVLVERGSCSFDDKVRNAQKAGAKGVIIYNPPPNNGSMIDSEDPDPIDIPVVFISYEDGEALLAYI 101 (101)
T ss_dssp CTTSEEEEESTSSCHHHHHHHHHHTTESEEEEE-TSCSCTTTTCEBTTTSTBSEEEEE-HHHHHHHHHHH
T ss_pred ccceEEEEecCCCCHHHHHHHHHHcCCEEEEEEeCCccccCcccccCCCCcEEEEEEeCHHHHhhhhccC
Confidence 4599999999999999999999999999999999332222222333446689999999999999998753
No 17
>KOG2442 consensus Uncharacterized conserved protein, contains PA domain [General function prediction only]
Probab=99.49 E-value=3.4e-14 Score=138.86 Aligned_cols=122 Identities=27% Similarity=0.451 Sum_probs=94.3
Q ss_pred ceeeeecccCCCCCCCCCCCeE---EEEEeCCCCCCCCCCCCCCCCCCCCCCeEEEEEccCCChHHHHHHHHHcCCcEEE
Q 019783 100 LSLHFPDLPAKFAVDVNSSGTC---GALHVADPADACSPLSNPVASNDADHINFVLIVRGQCIFEDKIRNAQAAGYRAAI 176 (336)
Q Consensus 100 ~~~~f~~~~a~Fg~~~~~~~~~---g~L~~~~p~~aC~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~~Aq~aGA~avI 176 (336)
+..++....+.||..++...-. -.+...+|.|.|++.+.+ ..+++++|.||+|+|.+|++.||++||+|++
T Consensus 51 ~~~~~a~~~~~~~~t~~~~~~~a~~~~~a~~~pld~cs~~~~k------l~~~~~~v~RGnC~Ft~Ka~~Aq~aGAsaLl 124 (541)
T KOG2442|consen 51 EYLEFAGMLARFGITLPSKCKAADIPHLAQVDPLDSCSTLQSK------LSGKVALVFRGNCSFTEKAKLAQAAGASALL 124 (541)
T ss_pred chhhhhhhhhhcCCcCCCCccccccchhhhcCCccccCCCCcc------ccceeEEEecccceeehhhhhhhhcCceEEE
Confidence 4446677888898665543221 223456899999988764 3499999999999999999999999999999
Q ss_pred EeccCCCCceeecccC----CCcceeeEEEEeeecccchhcccc-CCcceeeecCCCC
Q 019783 177 VYNDREKGSLVSMTAS----HEGVKVHAIFVSLETGVYLKEHAR-GETGECCIFPESN 229 (336)
Q Consensus 177 I~n~~~~~~l~~m~~~----~~~i~IP~v~I~~~~G~~L~~~l~-g~~v~v~I~p~~~ 229 (336)
|.|+.. ++.-|..+ ..+++||++||+.++|+.+.+... +.+|++.++.|..
T Consensus 125 iin~~~--d~~~~~~~~~~~~~dv~IPv~mi~~~~~~~l~~~~~~~~~V~~~lYaPk~ 180 (541)
T KOG2442|consen 125 IINNKK--DLLFMPCGNKETSLDVTIPVAMISYSDGRDLNKSTRSNDNVELALYAPKR 180 (541)
T ss_pred EEcCch--hhccCCCCCCCccccccceEEEEEhhhHHHHHhhhccCCeEEEEEECCCC
Confidence 999864 44445443 257999999999999988876655 7899999976643
No 18
>cd00538 PA PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases including, hSPPL2a and 2b which catalyze the intramembrane proteolysis of tumor necrosis factor alpha, ii) various proteins containing a C3H2C3 RING finger including, Arabidopsis ReMembR-H2 protein and various E3 ubiquitin ligases such as human GRAIL (gene related to anergy in lymphocytes), iii) EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein), iv) various plant vacuolar sorting receptors such as Pisum sativum BP-80, v) g
Probab=99.43 E-value=3e-13 Score=111.80 Aligned_cols=97 Identities=28% Similarity=0.365 Sum_probs=72.7
Q ss_pred EeCCCCCCCCCCCCCCCCCCCCCCeEEEEEccCCChHHHHHHHHHcCCcEEEEeccCCCCceeecccC---CCcceeeEE
Q 019783 125 HVADPADACSPLSNPVASNDADHINFVLIVRGQCIFEDKIRNAQAAGYRAAIVYNDREKGSLVSMTAS---HEGVKVHAI 201 (336)
Q Consensus 125 ~~~~p~~aC~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~~~l~~m~~~---~~~i~IP~v 201 (336)
....+.++|++...+. ......+||||++||+|+|.+|+++|+++||+|+||+|+.+. ....|... .....||++
T Consensus 25 ~~~~~~~~C~~~~~~~-~~~~~~GkIvl~~~g~~~~~~k~~~a~~~GA~gvii~~~~~~-~~~~~~~~~~~~~~~~iP~~ 102 (126)
T cd00538 25 VVAGPLVGCGYGTTDD-SGADVKGKIVLVRRGGCSFSEKVKNAQKAGAKAVIIYNNGDD-PGPQMGSVGLESTDPSIPTV 102 (126)
T ss_pred ccccceEEEecCcccc-cCCCccceEEEEECCCcCHHHHHHHHHHCCCEEEEEEECCCC-cccccccccCCCCCCcEeEE
Confidence 3446778998875211 012245999999999999999999999999999999998752 22222221 245689999
Q ss_pred EEeeecccchhcccc-CCcceee
Q 019783 202 FVSLETGVYLKEHAR-GETGECC 223 (336)
Q Consensus 202 ~I~~~~G~~L~~~l~-g~~v~v~ 223 (336)
+|+.++|+.|+++++ +.++++.
T Consensus 103 ~is~~~g~~l~~~~~~~~~v~~~ 125 (126)
T cd00538 103 GISYADGEALLSLLEAGKTVTVD 125 (126)
T ss_pred EeCHHHHHHHHHHHhcCCceEEe
Confidence 999999999999987 6666654
No 19
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.41 E-value=2.6e-14 Score=132.30 Aligned_cols=38 Identities=34% Similarity=0.819 Sum_probs=35.6
Q ss_pred CCCccccccccccCCCCeeEEecCCceeCChhhHHHhhh
Q 019783 296 HGGETCAICLEDYQDGEKLKVLSCKHATCRVSCKLRGLM 334 (336)
Q Consensus 296 ~~~~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL~ 334 (336)
...-+||||+++|.++|++++|||+|.| |..||++|+.
T Consensus 321 ~~GveCaICms~fiK~d~~~vlPC~H~F-H~~Cv~kW~~ 358 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLPCDHRF-HVGCVDKWLL 358 (374)
T ss_pred CCCceEEEEhhhhcccceEEEeccCcee-chhHHHHHHh
Confidence 3457999999999999999999999999 9999999997
No 20
>cd02133 PA_C5a_like PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from Bacillus subtilis, ii) a large molecular mass collagenolytic protease from Geobacillus collagenovorans MO-1, and iii) PrtS, a cell envelope protease from Streptococcus thermophilus CNRZ 385. Proteins in this group belong to the peptidase S8 family. C5a peptidase is a cell surface serine protease which specifically inactivates C5a [a chemotactic peptide, which attracts polymorphonuclear leukocytes (PMNs)], by cleaving it to release a 7-residue carboxy-terminal fragment which contains the PMN binding site. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promotin
Probab=99.31 E-value=1.3e-11 Score=105.32 Aligned_cols=105 Identities=27% Similarity=0.290 Sum_probs=74.0
Q ss_pred CCCCCCCCCCeEEEEEeCCCCCCCCCCCCCCCCCCCCCCeEEEEEccCCChHHHHHHHHHcCCcEEEEeccCCCCceeec
Q 019783 110 KFAVDVNSSGTCGALHVADPADACSPLSNPVASNDADHINFVLIVRGQCIFEDKIRNAQAAGYRAAIVYNDREKGSLVSM 189 (336)
Q Consensus 110 ~Fg~~~~~~~~~g~L~~~~p~~aC~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~~~l~~m 189 (336)
.++.+.+.....+.++.... |.+.+.. .....+||||++||+|+|.+|+++|+++||+++||+|+.++ ...|
T Consensus 16 ~~~~~~~~~~~~~~lv~~g~---g~~~d~~---~~dv~GkIvL~~rg~c~~~~K~~~a~~aGA~gvIi~n~~~~--~~~~ 87 (143)
T cd02133 16 FSGNPTDLLGKTYELVDAGL---GTPEDFE---GKDVKGKIALIQRGEITFVEKIANAKAAGAVGVIIYNNVDG--LIPG 87 (143)
T ss_pred cCCCcCCCCCcEEEEEEccC---CchhccC---CCCccceEEEEECCCCCHHHHHHHHHHCCCeEEEEeecCCC--cccc
Confidence 34444455567777776532 2222111 11245999999999999999999999999999999998753 2333
Q ss_pred ccCCCcceeeEEEEeeecccchhccccCCcceeee
Q 019783 190 TASHEGVKVHAIFVSLETGVYLKEHARGETGECCI 224 (336)
Q Consensus 190 ~~~~~~i~IP~v~I~~~~G~~L~~~l~g~~v~v~I 224 (336)
..+. ...||+++|++++|+.|+++++. .+++.+
T Consensus 88 ~~~~-~~~iP~v~Is~~dG~~L~~~l~~-~~~i~~ 120 (143)
T cd02133 88 TLGE-AVFIPVVFISKEDGEALKAALES-SKKLTF 120 (143)
T ss_pred cCCC-CCeEeEEEecHHHHHHHHHHHhC-CCeEEE
Confidence 2222 45799999999999999999875 444443
No 21
>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=99.16 E-value=1.2e-11 Score=84.41 Aligned_cols=37 Identities=41% Similarity=0.819 Sum_probs=34.2
Q ss_pred ccccccccccCCCCeeEEecCCceeCChhhHHHhhhcC
Q 019783 299 ETCAICLEDYQDGEKLKVLSCKHATCRVSCKLRGLMAD 336 (336)
Q Consensus 299 ~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL~~~ 336 (336)
++|+||+++|.+++.+..|+|+|.| |.+||..||.++
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~f-h~~Ci~~~~~~~ 37 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVF-HRSCIKEWLKRN 37 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEE-EHHHHHHHHHHS
T ss_pred CCCcCCChhhcCCCeEEEccCCCee-CHHHHHHHHHhC
Confidence 4799999999999999999999999 999999999764
No 22
>cd04819 PA_2 PA_2: Protease-associated (PA) domain subgroup 2. A subgroup of PA-domain containing proteins. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins in this group contain a C-terminal RING-finger domain. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases: such as hSPPL2a and 2b, ii) various E3 ubiquitin ligases similar to human GRAIL (gene related to anergy in lymphocytes) protein, iii) various proteins containing a RING finger motif such as Arabidopsis ReMembR-H2 protein, iv) EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein), v) various plant vacuola
Probab=99.16 E-value=1.8e-10 Score=96.56 Aligned_cols=98 Identities=21% Similarity=0.061 Sum_probs=69.7
Q ss_pred CCeEEEEEeCCCCCCCCCCCCCCCCCCCCCCeEEEEEccCC--ChHHHHHHHHHcCCcEEEEeccCCCCceeecc--cC-
Q 019783 118 SGTCGALHVADPADACSPLSNPVASNDADHINFVLIVRGQC--IFEDKIRNAQAAGYRAAIVYNDREKGSLVSMT--AS- 192 (336)
Q Consensus 118 ~~~~g~L~~~~p~~aC~~~~~~~~~~~~~~~~IvLV~RG~C--sF~~Kv~~Aq~aGA~avII~n~~~~~~l~~m~--~~- 192 (336)
...+|.++.... + .+.+.. +....+|||||+||.| +|.+|+++|+++||+|+||+|+.++. ...+. ..
T Consensus 21 ~~~~~~lV~~g~--G-~~~d~~---~~~v~GkIvlv~~g~~~~~~~~k~~~A~~~GA~avi~~~~~~g~-~~~~~~~~~~ 93 (127)
T cd04819 21 GEAKGEPVDAGY--G-LPKDFD---GLDLEGKIAVVKRDDPDVDRKEKYAKAVAAGAAAFVVVNTVPGV-LPATGDEGTE 93 (127)
T ss_pred CCeeEEEEEeCC--C-CHHHcC---CCCCCCeEEEEEcCCCchhHHHHHHHHHHCCCEEEEEEeCCCCc-Cccccccccc
Confidence 446788877642 1 111110 1124599999999999 99999999999999999999977533 22111 11
Q ss_pred -CCcceeeEEEEeeecccchhcccc-CCccee
Q 019783 193 -HEGVKVHAIFVSLETGVYLKEHAR-GETGEC 222 (336)
Q Consensus 193 -~~~i~IP~v~I~~~~G~~L~~~l~-g~~v~v 222 (336)
.....||++.|+.+||+.|.++++ |..+.+
T Consensus 94 ~~~~~~IP~v~Is~edg~~L~~~l~~g~~~~~ 125 (127)
T cd04819 94 DGPPSPIPAASVSGEDGLRLARVAERNDTLVL 125 (127)
T ss_pred CCCCCCCCEEEEeHHHHHHHHHHHhcCCceEe
Confidence 234689999999999999999987 554443
No 23
>cd04815 PA_M28_2 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subfamilies; relatively little is known a
Probab=99.09 E-value=1.4e-10 Score=98.08 Aligned_cols=109 Identities=17% Similarity=0.107 Sum_probs=76.6
Q ss_pred CCCCCCCCCCeEEEEEeCCCCCCCCCCCCCCCCCCCCCCeEEEEEccCC------ChHHH-------HHHHHHcCCcEEE
Q 019783 110 KFAVDVNSSGTCGALHVADPADACSPLSNPVASNDADHINFVLIVRGQC------IFEDK-------IRNAQAAGYRAAI 176 (336)
Q Consensus 110 ~Fg~~~~~~~~~g~L~~~~p~~aC~~~~~~~~~~~~~~~~IvLV~RG~C------sF~~K-------v~~Aq~aGA~avI 176 (336)
.|++..+..+++|.++...... .+.. . +.....||||||.||.| +|..| .++|+++||.|+|
T Consensus 7 ~~s~~t~~~gvta~vv~v~~~~---~~~~-~-~~~~v~GKIvlv~~~~~~~~~~~~~~~k~~~r~~~~~~A~~~GA~avI 81 (134)
T cd04815 7 GGSVATPPEGITAEVVVVKSFD---ELKA-A-PAGAVKGKIVFFNQPMVRTQTGSGYGPTVAYRRRGAVEAAKKGAVAVL 81 (134)
T ss_pred CCCCCCCCCCcEEEEEEECCHH---HHHh-c-chhhcCCeEEEecCCccccCchhhcCchhhhhhHHHHHHHhCCCEEEE
Confidence 3455555667899888765211 1111 0 01124599999999999 99999 7999999999999
Q ss_pred EeccCCCCc--e-eecccC-CCcceeeEEEEeeecccchhcccc-CCcceee
Q 019783 177 VYNDREKGS--L-VSMTAS-HEGVKVHAIFVSLETGVYLKEHAR-GETGECC 223 (336)
Q Consensus 177 I~n~~~~~~--l-~~m~~~-~~~i~IP~v~I~~~~G~~L~~~l~-g~~v~v~ 223 (336)
|+|..+... . ..+... +....||++.|+.++|+.|.++++ |..|++.
T Consensus 82 v~s~~~~~~~~~~~G~~~~~~~~~~IP~v~is~ed~~~L~r~l~~g~~v~~~ 133 (134)
T cd04815 82 IRSIGTDSHRSPHTGMMSYDDGVPKIPAAAISVEDADMLERLAARGKPIRVN 133 (134)
T ss_pred EEecCcccCCCCcCCccccCCCCCCCCEEEechhcHHHHHHHHhCCCCeEEe
Confidence 999653211 1 223333 345689999999999999999987 6667665
No 24
>cd02120 PA_subtilisin_like PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from Alnus glutinosa ag12, members of the tomato P69 family, and tomato LeSBT2. These proteins belong to the peptidase S8 family. Cucumisin from the juice of melon fruits is a thermostable serine peptidase, with a broad substrate specificity for oligopeptides and proteins. A. thaliana Ara12 is a thermostable, extracellular serine protease, found chiefly in silique tissue and stem tissue. Ara12 is stimulated by Ca2+ ions. A. glutinosa ag12 is expressed at high levels in the nodules, and at low levels in the shoot tips; it is implicated in both symbiotic and non-symbiotic processes in plant development. The tomato P69 protease family is comprised of various protein isoforms of approximately 69KDa. These isoforms accu
Probab=98.95 E-value=1.6e-09 Score=89.95 Aligned_cols=81 Identities=26% Similarity=0.235 Sum_probs=63.9
Q ss_pred CCCCCCCCCCCCCCCCCCCCeEEEEEccCC-ChHHHHHHHHHcCCcEEEEeccCCCCceeecccCCCcceeeEEEEeeec
Q 019783 129 PADACSPLSNPVASNDADHINFVLIVRGQC-IFEDKIRNAQAAGYRAAIVYNDREKGSLVSMTASHEGVKVHAIFVSLET 207 (336)
Q Consensus 129 p~~aC~~~~~~~~~~~~~~~~IvLV~RG~C-sF~~Kv~~Aq~aGA~avII~n~~~~~~l~~m~~~~~~i~IP~v~I~~~~ 207 (336)
....|++..... ....+||||++||+| +|.+|+.+|+++||.++|++|+.++. ..+.. ....||+++|+.++
T Consensus 36 ~~~~C~~~~~~~---~~v~GkIVlc~~~~~~~~~~k~~~~~~~GA~gvI~~~~~~~~--~~~~~--~~~~iP~v~I~~~~ 108 (126)
T cd02120 36 DASLCLPGSLDP---SKVKGKIVLCDRGGNTSRVAKGDAVKAAGGAGMILANDPTDG--LDVVA--DAHVLPAVHVDYED 108 (126)
T ss_pred ccccCCCCCCCh---hhccccEEEEeCCCCccHHHHHHHHHHcCCcEEEEEecCCCC--ceecc--cccccceEEECHHH
Confidence 346898764421 224599999999999 99999999999999999999987532 22221 24579999999999
Q ss_pred ccchhcccc
Q 019783 208 GVYLKEHAR 216 (336)
Q Consensus 208 G~~L~~~l~ 216 (336)
|+.|+++++
T Consensus 109 g~~l~~y~~ 117 (126)
T cd02120 109 GTAILSYIN 117 (126)
T ss_pred HHHHHHHHH
Confidence 999999987
No 25
>cd02128 PA_TfR PA_TfR: Protease-associated domain containing proteins like transferrin receptor (TfR). This group contains various PA domain-containing proteins similar to human TfR1 and TfR2. TfR1 and TfR2 are type II membrane proteins, belonging to the peptidase M28 family. TfR1 is homodimeric, widely expressed, and a key player in the uptake of iron-loaded transferrin (Tf) into cells. The TfR1 homodimer binds two molecules of Tf and this complex is internalized. In addition to its role in iron uptake, TfR1 may participate in cell growth and proliferation. TfR2 also binds Tf but with a significantly lower affinity than does TfR1. TfR2 is expressed chiefly in hepatocytes, hematopoietic cells, and duodenal crypt cells; its expression overlaps with that of hereditary hemochromatosis protein (HFE). TfR2 is involved in iron homeostasis. HFE and TfR2 interact in cells. By one model for serum iron sensing, at low or basal iron concentrations, HFE and TFR1 form a complex at the plasma membra
Probab=98.83 E-value=5.6e-09 Score=92.47 Aligned_cols=111 Identities=17% Similarity=0.178 Sum_probs=72.8
Q ss_pred cccCCCCCCCCCCCeEEEEEeCCCCCCCCCCCCC-C-CCCCCCCCeEEEEEccCCChHHHHHHHHHcCCcEEEEeccCCC
Q 019783 106 DLPAKFAVDVNSSGTCGALHVADPADACSPLSNP-V-ASNDADHINFVLIVRGQCIFEDKIRNAQAAGYRAAIVYNDREK 183 (336)
Q Consensus 106 ~~~a~Fg~~~~~~~~~g~L~~~~p~~aC~~~~~~-~-~~~~~~~~~IvLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~ 183 (336)
-.+..|.+.-+...++|.++.++ .| ...+.. . ..+....++||||+||+|+|.+|+++||++||+|||||+|..+
T Consensus 15 l~~~~f~~~s~~G~v~g~lVyvn--~G-~~~Df~~L~~~gv~v~GkIvLvr~G~~~~~~Kv~~A~~~GA~gvIiy~Dp~d 91 (183)
T cd02128 15 ENPGGYVAYSAAGTVTGKLVYAN--YG-RKKDFEDLQSVGVSVNGSVVLVRAGKISFAEKVANAEKLGAVGVLIYPDPAD 91 (183)
T ss_pred cccccccCCCCCCceEEEEEEcC--CC-CHHHHHHHHhcCCCCCCeEEEEECCCCCHHHHHHHHHHCCCEEEEEecCHHH
Confidence 34445554444556789988874 22 221110 0 0012345999999999999999999999999999999998421
Q ss_pred Cc-----------eeecccCC---------------C----cceeeEEEEeeecccchhccccCCc
Q 019783 184 GS-----------LVSMTASH---------------E----GVKVHAIFVSLETGVYLKEHARGET 219 (336)
Q Consensus 184 ~~-----------l~~m~~~~---------------~----~i~IP~v~I~~~~G~~L~~~l~g~~ 219 (336)
.. .....+|+ . --.||++=|+.++++.|++.++|..
T Consensus 92 ~~~~~~~~~~~g~~~~~~GDplTPG~ps~~~~~~~~~~~~~lP~IPs~PIS~~da~~lL~~l~G~~ 157 (183)
T cd02128 92 FPIDPSETALFGHVHLGTGDPYTPGFPSFNHTQFPPSQSSGLPNIPAQTISAAAAAKLLSKMGGPV 157 (183)
T ss_pred cCcccCcceeecceeccCCCcCCCCCccccccccCcccccCCCCCCEeccCHHHHHHHHHHcCCCC
Confidence 00 00001110 0 1369999999999999999887654
No 26
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.68 E-value=1.1e-08 Score=94.23 Aligned_cols=64 Identities=22% Similarity=0.355 Sum_probs=48.0
Q ss_pred cCCCCHHHHhcCCeeeeccCCCCCCCCCccccccccccCCCC----eeEEe-cCCceeCChhhHHHhhhc
Q 019783 271 SRRLDSKVVEALPCFLFSSASSSQCHGGETCAICLEDYQDGE----KLKVL-SCKHATCRVSCKLRGLMA 335 (336)
Q Consensus 271 ~~~l~~~~i~~lp~~~y~~~~~~~~~~~~~CaICLe~f~~gd----~vr~L-pC~H~F~H~~CId~WL~~ 335 (336)
+.+..++.++++|.+..+..+......+.+|+||+|++.+.+ .+.++ +|+|.| |.+||++|+.+
T Consensus 147 k~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~F-C~~CI~~Wl~~ 215 (238)
T PHA02929 147 KGKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVF-CIECIDIWKKE 215 (238)
T ss_pred hcchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcc-cHHHHHHHHhc
Confidence 345577888999988765433333455789999999988764 23455 599999 99999999975
No 27
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=98.63 E-value=2.8e-08 Score=75.36 Aligned_cols=38 Identities=26% Similarity=0.468 Sum_probs=30.0
Q ss_pred CccccccccccCC----------CCeeEEecCCceeCChhhHHHhhhcC
Q 019783 298 GETCAICLEDYQD----------GEKLKVLSCKHATCRVSCKLRGLMAD 336 (336)
Q Consensus 298 ~~~CaICLe~f~~----------gd~vr~LpC~H~F~H~~CId~WL~~~ 336 (336)
++.|+||+++|.+ +-.+...+|+|.| |..||.+||..+
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~F-H~~Ci~~Wl~~~ 66 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIF-HFHCISQWLKQN 66 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEE-EHHHHHHHHTTS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccCCCE-EHHHHHHHHhcC
Confidence 5569999999933 2345666799999 999999999864
No 28
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.10 E-value=1.7e-06 Score=57.77 Aligned_cols=33 Identities=36% Similarity=0.717 Sum_probs=28.7
Q ss_pred cccccccccCCCCeeEEecCCceeCChhhHHHhhhc
Q 019783 300 TCAICLEDYQDGEKLKVLSCKHATCRVSCKLRGLMA 335 (336)
Q Consensus 300 ~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL~~ 335 (336)
+|+||++++ .+.+..++|+|.| |.+|++.|+.+
T Consensus 1 ~C~iC~~~~--~~~~~~~~C~H~~-c~~C~~~~~~~ 33 (45)
T cd00162 1 ECPICLEEF--REPVVLLPCGHVF-CRSCIDKWLKS 33 (45)
T ss_pred CCCcCchhh--hCceEecCCCChh-cHHHHHHHHHh
Confidence 599999998 5566677799999 99999999875
No 29
>cd04822 PA_M28_1_3 PA_M28_1_3: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 3. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt
Probab=98.04 E-value=2.1e-05 Score=67.90 Aligned_cols=93 Identities=17% Similarity=0.030 Sum_probs=58.2
Q ss_pred CCeEEEEEeCC---CCCCCCCCCCCCCCCCCCCCeEEEEEccC------------------CChHHHHHHHHHcCCcEEE
Q 019783 118 SGTCGALHVAD---PADACSPLSNPVASNDADHINFVLIVRGQ------------------CIFEDKIRNAQAAGYRAAI 176 (336)
Q Consensus 118 ~~~~g~L~~~~---p~~aC~~~~~~~~~~~~~~~~IvLV~RG~------------------CsF~~Kv~~Aq~aGA~avI 176 (336)
..++|.++... ...+|...+.. +-...||||||.||+ |+|..|+++|+++||+|||
T Consensus 18 g~vtg~lVfvGyGi~~~~~~~~Dy~---giDVkGKIVlv~~g~P~~~~~~~~~~~~~~~~~~~~~~K~~~A~~~GA~aVI 94 (151)
T cd04822 18 GAVTAPVVFAGYGITAPELGYDDYA---GLDVKGKIVLVLRHEPQEDDANSRFNGPGLTRHAGLRYKATNARRHGAAAVI 94 (151)
T ss_pred CCceEeEEEecCCcCccccchhhcc---CCCCCCeEEEEEcCCcccccccccccccccccccCHHHHHHHHHHCCCeEEE
Confidence 45677877654 34566544321 123559999999884 9999999999999999999
Q ss_pred EeccCCCCceeecccCCCcceeeEEEEeeecccchhcc
Q 019783 177 VYNDREKGSLVSMTASHEGVKVHAIFVSLETGVYLKEH 214 (336)
Q Consensus 177 I~n~~~~~~l~~m~~~~~~i~IP~v~I~~~~G~~L~~~ 214 (336)
||++.+......-.....+.. .+++++....+.+...
T Consensus 95 v~~d~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ 131 (151)
T cd04822 95 VVNGPNSHSGDADRLPRFGGT-APQRVDIAAADPWFTA 131 (151)
T ss_pred EEeCCcccCcccccccccCcc-ceEEechHHHHHHhhh
Confidence 999864321000000000111 1566777666666554
No 30
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.04 E-value=1.5e-06 Score=83.17 Aligned_cols=58 Identities=21% Similarity=0.419 Sum_probs=43.5
Q ss_pred CCCHHHHhcCCeeeeccCCCCCCCCCccccccccc-cCCCC---------eeEEecCCceeCChhhHHHhhhc
Q 019783 273 RLDSKVVEALPCFLFSSASSSQCHGGETCAICLED-YQDGE---------KLKVLSCKHATCRVSCKLRGLMA 335 (336)
Q Consensus 273 ~l~~~~i~~lp~~~y~~~~~~~~~~~~~CaICLe~-f~~gd---------~vr~LpC~H~F~H~~CId~WL~~ 335 (336)
+..++.-+.+|+.+-++. ..++..|+||.|+ |+.+. +=+.|||+|+| |-+|+..|++.
T Consensus 266 r~~kdl~~~~~t~t~eql----~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHil-Hl~CLknW~ER 333 (491)
T COG5243 266 RATKDLNAMYPTATEEQL----TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHIL-HLHCLKNWLER 333 (491)
T ss_pred HHhhHHHhhcchhhhhhh----cCCCCeEEEecccccCCCCccCcccccCCccccccccee-eHHHHHHHHHh
Confidence 345555667777666553 4468899999999 55551 34789999999 99999999963
No 31
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.03 E-value=3.6e-06 Score=55.73 Aligned_cols=33 Identities=30% Similarity=0.663 Sum_probs=28.5
Q ss_pred ccccccccCCCCeeEEecCCceeCChhhHHHhhhcC
Q 019783 301 CAICLEDYQDGEKLKVLSCKHATCRVSCKLRGLMAD 336 (336)
Q Consensus 301 CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL~~~ 336 (336)
|+||++++.+ .+.+++|+|.| ..+||.+|+.++
T Consensus 1 C~iC~~~~~~--~~~~~~CGH~f-C~~C~~~~~~~~ 33 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTPCGHSF-CKECIEKYLEKN 33 (39)
T ss_dssp ETTTTSB-SS--EEEECTTSEEE-EHHHHHHHHHCT
T ss_pred CCCCCCcccC--cCEECCCCCch-hHHHHHHHHHCc
Confidence 8999998877 66789999999 999999999763
No 32
>cd04814 PA_M28_1 PA_M28_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subfamilies, relatively little is known a
Probab=98.01 E-value=2.5e-05 Score=66.71 Aligned_cols=61 Identities=13% Similarity=0.028 Sum_probs=44.5
Q ss_pred CeEEEEEeCC---CCCCCCCCCCCCCCCCCCCCeEEEEEccCC------------------ChHHHHHHHHHcCCcEEEE
Q 019783 119 GTCGALHVAD---PADACSPLSNPVASNDADHINFVLIVRGQC------------------IFEDKIRNAQAAGYRAAIV 177 (336)
Q Consensus 119 ~~~g~L~~~~---p~~aC~~~~~~~~~~~~~~~~IvLV~RG~C------------------sF~~Kv~~Aq~aGA~avII 177 (336)
...+.++... ...+|.-.+.. +....||||||.||+| +|..|+++|+++||+|||+
T Consensus 19 ~~~aelVfvGyGi~a~~~~~dDYa---g~DVkGKIVlv~~g~P~~~~~~~~~~~~~~~~~~~~~~K~~~A~~~GA~gvIi 95 (142)
T cd04814 19 IKDAPLVFVGYGIKAPELSWDDYA---GLDVKGKVVVVLRNDPQGEPGAGDFGGKAMTYYGRWTYKYEEAARHGAAGVLI 95 (142)
T ss_pred ccceeeEEecCCcCCCCCChhhcC---CCCCCCcEEEEEcCCCCcccccccccccccccccCHHHHHHHHHHCCCcEEEE
Confidence 3456666542 23456543332 1234599999999999 6889999999999999999
Q ss_pred eccCC
Q 019783 178 YNDRE 182 (336)
Q Consensus 178 ~n~~~ 182 (336)
+++.+
T Consensus 96 i~~~~ 100 (142)
T cd04814 96 VHELA 100 (142)
T ss_pred EeCCC
Confidence 99875
No 33
>cd02121 PA_GCPII_like PA_GCPII_like: Protease-associated domain containing protein, glutamate carboxypeptidase II (GCPII)-like. This group contains various PA domain-containing proteins similar to GCPII including, GCPIII (NAALADase2) and NAALADase L. These proteins belong to the peptidase M28 family. GCPII is also known N-acetylated-alpha-linked acidic dipeptidase (NAALDase1), folate hydrolase or prostate-specific membrane antigen (PSMA). GCPII is found in various human tissues including prostate, small intestine, and the central nervous system. In the brain, GCPII is known as NAALDase1, it functions as a NAALDase hydrolyzing the neuropeptide N-acetyl-L-aspartyl-L-glutamate (alpha-NAAG), to release free glutamate. In the small intestine, GCPII releases the terminal glutamate from poly-gamma-glutamated folates. GCPII (PSMA) is a useful cancer marker; its expression is markedly increased in prostate cancer and in tumor-associated neovasculature. GCPIII hydrolyzes alpha-NAAG with a lower
Probab=98.01 E-value=9.9e-06 Score=74.03 Aligned_cols=61 Identities=25% Similarity=0.193 Sum_probs=44.7
Q ss_pred CCeEEEEEeCCCCCCCCCCCCCC-C-CCCCCCCeEEEEEccCCChHHHHHHHHHcCCcEEEEeccC
Q 019783 118 SGTCGALHVADPADACSPLSNPV-A-SNDADHINFVLIVRGQCIFEDKIRNAQAAGYRAAIVYNDR 181 (336)
Q Consensus 118 ~~~~g~L~~~~p~~aC~~~~~~~-~-~~~~~~~~IvLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~ 181 (336)
..++|.|+++. .|...+... . .+-...+||||+++|.|.+.+|+++|+++||+|||||++.
T Consensus 43 g~v~g~lVyvn---yG~~~D~~~L~~~gvdv~GKIvLvr~G~~~~~~Kv~~A~~~GA~gVIiy~Dp 105 (220)
T cd02121 43 GNVTAELVYAN---YGSPEDFEYLEDLGIDVKGKIVIARYGGIFRGLKVKNAQLAGAVGVIIYSDP 105 (220)
T ss_pred CCceEEEEEcC---CCcHHHHHHHhhcCCCCCCeEEEEECCCccHHHHHHHHHHcCCEEEEEEeCc
Confidence 34688888775 233321110 0 1123459999999999999999999999999999999974
No 34
>cd04820 PA_M28_1_1 PA_M28_1_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 1. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt
Probab=97.94 E-value=4e-05 Score=65.08 Aligned_cols=62 Identities=16% Similarity=0.077 Sum_probs=46.3
Q ss_pred CCeEEEEEeCC---CCCCCCCCCCCCCCCCCCCCeEEEEEccCCC------------hHHHHHHHHHcCCcEEEEeccCC
Q 019783 118 SGTCGALHVAD---PADACSPLSNPVASNDADHINFVLIVRGQCI------------FEDKIRNAQAAGYRAAIVYNDRE 182 (336)
Q Consensus 118 ~~~~g~L~~~~---p~~aC~~~~~~~~~~~~~~~~IvLV~RG~Cs------------F~~Kv~~Aq~aGA~avII~n~~~ 182 (336)
..+.|.++... ...+|...+.. .-...||||||++|+|+ +..|+++|+++||+|||++++..
T Consensus 20 g~v~gelVfvGyG~~~~~~~~~Dy~---~iDVkGKIVlv~~g~p~~~~~~~~~~~~~~~~K~~~A~~~GA~aVIi~~d~~ 96 (137)
T cd04820 20 ASVEAPLVFVGYGLVAPELGHDDYA---GLDVKGKIVVVLSGGPAGIPSEEGAHAHSSNEKARYAAKAGAIGMITLTTPR 96 (137)
T ss_pred CCceEeEEEecCCcCccCcCHhhcc---CCCCCCeEEEEEcCCCCccccccccccccHHHHHHHHHHCCCeEEEEEeCCc
Confidence 45677777653 33456543321 12345999999999995 78999999999999999999864
No 35
>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=97.87 E-value=6.8e-06 Score=52.78 Aligned_cols=30 Identities=40% Similarity=0.667 Sum_probs=26.9
Q ss_pred ccccccccCCCCeeEEecCCceeCChhhHHHhhh
Q 019783 301 CAICLEDYQDGEKLKVLSCKHATCRVSCKLRGLM 334 (336)
Q Consensus 301 CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL~ 334 (336)
|+||++. .+....++|+|.| |.+|++.|+.
T Consensus 1 C~iC~~~---~~~~~~~~C~H~~-c~~C~~~~~~ 30 (39)
T smart00184 1 CPICLEE---LKDPVVLPCGHTF-CRSCIRKWLK 30 (39)
T ss_pred CCcCccC---CCCcEEecCCChH-HHHHHHHHHH
Confidence 8899988 4578889999999 9999999986
No 36
>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=97.82 E-value=8.8e-06 Score=56.84 Aligned_cols=34 Identities=24% Similarity=0.429 Sum_probs=27.4
Q ss_pred cccccccccCCCCeeEEecCC-----ceeCChhhHHHhhhc
Q 019783 300 TCAICLEDYQDGEKLKVLSCK-----HATCRVSCKLRGLMA 335 (336)
Q Consensus 300 ~CaICLe~f~~gd~vr~LpC~-----H~F~H~~CId~WL~~ 335 (336)
.|.||++ +.+++...++||. |.+ |.+|+++|+.+
T Consensus 1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~v-H~~Cl~~W~~~ 39 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSPCRCKGSLKYV-HQECLERWINE 39 (49)
T ss_pred CccCCCC-CCCCCCeeEeccccCCchhHH-HHHHHHHHHHH
Confidence 4999999 4455555689985 899 99999999965
No 37
>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=97.82 E-value=8.2e-06 Score=54.35 Aligned_cols=31 Identities=35% Similarity=0.708 Sum_probs=27.8
Q ss_pred ccccccccCCCCeeEEecCCceeCChhhHHHhhh
Q 019783 301 CAICLEDYQDGEKLKVLSCKHATCRVSCKLRGLM 334 (336)
Q Consensus 301 CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL~ 334 (336)
|+||++.+.+.. +.++|+|.| +..||..|+.
T Consensus 1 C~iC~~~~~~~~--~~~~C~H~f-C~~C~~~~~~ 31 (41)
T PF00097_consen 1 CPICLEPFEDPV--ILLPCGHSF-CRDCLRKWLE 31 (41)
T ss_dssp ETTTSSBCSSEE--EETTTSEEE-EHHHHHHHHH
T ss_pred CCcCCccccCCC--EEecCCCcc-hHHHHHHHHH
Confidence 899999887655 789999999 9999999987
No 38
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.74 E-value=9.7e-06 Score=83.66 Aligned_cols=40 Identities=33% Similarity=0.554 Sum_probs=36.1
Q ss_pred CCCCccccccccccCCCCe--eEEecCCceeCChhhHHHhhhc
Q 019783 295 CHGGETCAICLEDYQDGEK--LKVLSCKHATCRVSCKLRGLMA 335 (336)
Q Consensus 295 ~~~~~~CaICLe~f~~gd~--vr~LpC~H~F~H~~CId~WL~~ 335 (336)
...++.|+||+|+...+++ .+.|||+|+| |..|+..||.+
T Consensus 288 ~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hif-h~~CL~~W~er 329 (543)
T KOG0802|consen 288 ALSDELCIICLEELHSGHNITPKRLPCGHIF-HDSCLRSWFER 329 (543)
T ss_pred hhcCCeeeeechhhccccccccceeecccch-HHHHHHHHHHH
Confidence 3457899999999999987 8899999999 99999999975
No 39
>cd02131 PA_hNAALADL2_like PA_hNAALADL2_like: Protease-associated domain containing proteins like human N-acetylated alpha-linked acidic dipeptidase-like 2 protein (hNAALADL2). This group contains various PA domain-containing proteins similar to hNAALADL2. The function of hNAALADL2 is unknown. This gene has been mapped to a chromosomal region associated with Cornelia de Lange syndrome. The significance of the PA domain to hNAALADL2 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=97.63 E-value=7.6e-05 Score=64.01 Aligned_cols=61 Identities=15% Similarity=0.148 Sum_probs=44.0
Q ss_pred CCeEEEEEeCCCC--CCCCCCCCCCCCCCCCCCeEEEEEccCCChHHHHHHHHHcCCcEEEEeccCC
Q 019783 118 SGTCGALHVADPA--DACSPLSNPVASNDADHINFVLIVRGQCIFEDKIRNAQAAGYRAAIVYNDRE 182 (336)
Q Consensus 118 ~~~~g~L~~~~p~--~aC~~~~~~~~~~~~~~~~IvLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~ 182 (336)
..++|.+++++=. .-=+.+.. +-+..|||||++-|.-.+..|+++||++||.+||||.|..
T Consensus 13 G~Vtg~~VYvNyG~~eDf~~L~~----~V~v~GkIvi~RyG~~~RG~Kv~~A~~~GA~GviIYsDP~ 75 (153)
T cd02131 13 GTLQAEVVDVQYGSVEDLRRIRD----NMNVTNQIALLKLGQAPLLYKLSLLEEAGFGGVLLYVDPC 75 (153)
T ss_pred CceEEEEEEecCCCHHHHHHHHh----CCCccceEEEEeccCcchHHHHHHHHHCCCeEEEEecChh
Confidence 4578888876520 00001111 1124599999999999999999999999999999999863
No 40
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=97.47 E-value=5.1e-05 Score=58.80 Aligned_cols=38 Identities=26% Similarity=0.603 Sum_probs=29.4
Q ss_pred CCccccccccccC--------CCCe--eEEecCCceeCChhhHHHhhhc
Q 019783 297 GGETCAICLEDYQ--------DGEK--LKVLSCKHATCRVSCKLRGLMA 335 (336)
Q Consensus 297 ~~~~CaICLe~f~--------~gd~--vr~LpC~H~F~H~~CId~WL~~ 335 (336)
+++.|.||...|. .||. +..-.|+|.| |..||.+||.+
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~F-H~hCI~kWl~~ 67 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNF-HMHCILKWLST 67 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHH-HHHHHHHHHcc
Confidence 3788999999886 3543 2223399999 99999999975
No 41
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=97.36 E-value=0.00012 Score=49.72 Aligned_cols=33 Identities=30% Similarity=0.555 Sum_probs=21.9
Q ss_pred ccccccccCCCCe-eEEecCCceeCChhhHHHhhhc
Q 019783 301 CAICLEDYQDGEK-LKVLSCKHATCRVSCKLRGLMA 335 (336)
Q Consensus 301 CaICLe~f~~gd~-vr~LpC~H~F~H~~CId~WL~~ 335 (336)
|+||.| |.+.|. =.+|+|+|.| =.+||+.++.+
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~-c~~cl~~l~~~ 34 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVF-CKDCLQKLSKK 34 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EE-EHHHHHHHHHH
T ss_pred CCcccc-ccCCCCCCEEEeCccHH-HHHHHHHHHhc
Confidence 899999 877664 4779999999 89999998864
No 42
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.32 E-value=7.6e-05 Score=64.07 Aligned_cols=30 Identities=30% Similarity=0.640 Sum_probs=27.4
Q ss_pred CCccccccccccCCCCeeEEecCCceeCChh
Q 019783 297 GGETCAICLEDYQDGEKLKVLSCKHATCRVS 327 (336)
Q Consensus 297 ~~~~CaICLe~f~~gd~vr~LpC~H~F~H~~ 327 (336)
+-.+|+|||||...||.|..|||-.+| |+.
T Consensus 176 dkGECvICLEdL~~GdtIARLPCLCIY-HK~ 205 (205)
T KOG0801|consen 176 DKGECVICLEDLEAGDTIARLPCLCIY-HKQ 205 (205)
T ss_pred cCCcEEEEhhhccCCCceeccceEEEe-ecC
Confidence 456899999999999999999999999 973
No 43
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=97.22 E-value=0.00017 Score=48.94 Aligned_cols=33 Identities=27% Similarity=0.622 Sum_probs=29.5
Q ss_pred cccccccccCCCCeeEEecCCceeCChhhHHHhh
Q 019783 300 TCAICLEDYQDGEKLKVLSCKHATCRVSCKLRGL 333 (336)
Q Consensus 300 ~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL 333 (336)
.|.||+++|.+.+..++|+|+|+| ..+|+....
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~-C~~C~~~~~ 33 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIF-CEKCLKKLK 33 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHH-HHHHHHhhc
Confidence 499999999777789999999999 999998865
No 44
>PHA02926 zinc finger-like protein; Provisional
Probab=97.17 E-value=7.5e-05 Score=67.48 Aligned_cols=40 Identities=20% Similarity=0.387 Sum_probs=30.7
Q ss_pred CCCCccccccccccCCC----C-eeEEec-CCceeCChhhHHHhhhc
Q 019783 295 CHGGETCAICLEDYQDG----E-KLKVLS-CKHATCRVSCKLRGLMA 335 (336)
Q Consensus 295 ~~~~~~CaICLe~f~~g----d-~vr~Lp-C~H~F~H~~CId~WL~~ 335 (336)
.+.+.+|+||+|..-+. | .--+|+ |+|.| ...||+.|-.+
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsF-Cl~CIr~Wr~~ 212 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIF-CITCINIWHRT 212 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchH-HHHHHHHHHHh
Confidence 44578999999986432 2 345665 99999 99999999863
No 45
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.15 E-value=0.00015 Score=67.16 Aligned_cols=38 Identities=21% Similarity=0.306 Sum_probs=32.9
Q ss_pred CCCCccccccccccCCCC-------eeEEecCCceeCChhhHHHhh
Q 019783 295 CHGGETCAICLEDYQDGE-------KLKVLSCKHATCRVSCKLRGL 333 (336)
Q Consensus 295 ~~~~~~CaICLe~f~~gd-------~vr~LpC~H~F~H~~CId~WL 333 (336)
..+++.||||-..+...+ ++-.|.|+|.| |..||+-|-
T Consensus 221 hl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvF-HEfCIrGWc 265 (328)
T KOG1734|consen 221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVF-HEFCIRGWC 265 (328)
T ss_pred CCCcchhHhhcchheeecchhhhhhhheeeecccch-HHHhhhhhe
Confidence 456889999998886655 78899999999 999999994
No 46
>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=97.05 E-value=0.00045 Score=48.08 Aligned_cols=34 Identities=35% Similarity=0.665 Sum_probs=28.2
Q ss_pred CccccccccccCCCCeeEEecCCce-eCChhhHHHhhhc
Q 019783 298 GETCAICLEDYQDGEKLKVLSCKHA-TCRVSCKLRGLMA 335 (336)
Q Consensus 298 ~~~CaICLe~f~~gd~vr~LpC~H~-F~H~~CId~WL~~ 335 (336)
+.+|.||+++..+ +..+||+|. | ..+|++.|+.+
T Consensus 2 ~~~C~iC~~~~~~---~~~~pCgH~~~-C~~C~~~~~~~ 36 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLPCGHLCF-CEECAERLLKR 36 (50)
T ss_dssp HSB-TTTSSSBSS---EEEETTCEEEE-EHHHHHHHHHT
T ss_pred cCCCccCCccCCc---eEEeCCCChHH-HHHHhHHhccc
Confidence 4689999998654 788999999 9 99999999853
No 47
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=96.97 E-value=0.00033 Score=68.99 Aligned_cols=36 Identities=25% Similarity=0.579 Sum_probs=31.0
Q ss_pred CCccccccccccCCC-CeeEEecCCceeCChhhHHHhh
Q 019783 297 GGETCAICLEDYQDG-EKLKVLSCKHATCRVSCKLRGL 333 (336)
Q Consensus 297 ~~~~CaICLe~f~~g-d~vr~LpC~H~F~H~~CId~WL 333 (336)
+..+|+||||.+.+. ..|+...|+|.| |+.|+..|=
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~c~Hsf-h~~cl~~w~ 210 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTILCNHSF-HCSCLMKWW 210 (493)
T ss_pred cCCCcchhHhhcCccccceeeeeccccc-chHHHhhcc
Confidence 356999999998766 477888899999 999999993
No 48
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=96.93 E-value=0.00044 Score=52.53 Aligned_cols=35 Identities=31% Similarity=0.544 Sum_probs=24.0
Q ss_pred ccccccccccCCCCeeEEe-c-CCceeCChhhHHHhhh
Q 019783 299 ETCAICLEDYQDGEKLKVL-S-CKHATCRVSCKLRGLM 334 (336)
Q Consensus 299 ~~CaICLe~f~~gd~vr~L-p-C~H~F~H~~CId~WL~ 334 (336)
+.|.-|......||+..+. - |+|.| |..||.+||.
T Consensus 32 ~~C~eCq~~~~~~~eC~v~wG~CnHaF-H~HCI~rWL~ 68 (88)
T COG5194 32 GTCPECQFGMTPGDECPVVWGVCNHAF-HDHCIYRWLD 68 (88)
T ss_pred CcCcccccCCCCCCcceEEEEecchHH-HHHHHHHHHh
Confidence 3444444444456655443 3 99999 9999999995
No 49
>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=96.72 E-value=0.00052 Score=57.57 Aligned_cols=35 Identities=14% Similarity=0.337 Sum_probs=31.5
Q ss_pred CCccccccccccCCCCeeEEecCC------ceeCChhhHHHh
Q 019783 297 GGETCAICLEDYQDGEKLKVLSCK------HATCRVSCKLRG 332 (336)
Q Consensus 297 ~~~~CaICLe~f~~gd~vr~LpC~------H~F~H~~CId~W 332 (336)
..-+|+||++...+++-|..++|+ |.| |.+|+.+|
T Consensus 25 ~~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmf-c~~C~~rw 65 (134)
T PF05883_consen 25 CTVECQICFDRIDNNDGVVYVTDGGTLNLEKMF-CADCDKRW 65 (134)
T ss_pred cCeeehhhhhhhhcCCCEEEEecCCeehHHHHH-HHHHHHHH
Confidence 367899999999998888888985 999 99999999
No 50
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=96.58 E-value=0.00085 Score=63.05 Aligned_cols=41 Identities=27% Similarity=0.577 Sum_probs=36.5
Q ss_pred CCCCCccccccccccCCCCeeEEecCCceeCChhhHHHhhhc
Q 019783 294 QCHGGETCAICLEDYQDGEKLKVLSCKHATCRVSCKLRGLMA 335 (336)
Q Consensus 294 ~~~~~~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL~~ 335 (336)
++.-..+|+|||=-|.+++...+++|.|.| |..|+-..|++
T Consensus 111 nn~p~gqCvICLygfa~~~~ft~T~C~Hy~-H~~ClaRyl~~ 151 (368)
T KOG4445|consen 111 NNHPNGQCVICLYGFASSPAFTVTACDHYM-HFACLARYLTE 151 (368)
T ss_pred CCCCCCceEEEEEeecCCCceeeehhHHHH-HHHHHHHHHHH
Confidence 345567999999999999999999999999 99999988763
No 51
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=96.33 E-value=0.0033 Score=42.31 Aligned_cols=31 Identities=35% Similarity=0.633 Sum_probs=24.8
Q ss_pred ccccccccCCCCeeEEecCCceeCChhhHHHhhhc
Q 019783 301 CAICLEDYQDGEKLKVLSCKHATCRVSCKLRGLMA 335 (336)
Q Consensus 301 CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL~~ 335 (336)
|+||++-|++ =..|+|+|.| =.+||..|..+
T Consensus 1 CpiC~~~~~~---Pv~l~CGH~F-C~~Cl~~~~~~ 31 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLPCGHSF-CRSCLERLWKE 31 (42)
T ss_dssp ETTTTSB-SS---EEE-SSSSEE-EHHHHHHHHCC
T ss_pred CCccchhhCC---ccccCCcCHH-HHHHHHHHHHc
Confidence 8999999865 3458999999 89999999865
No 52
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=96.31 E-value=0.00068 Score=51.09 Aligned_cols=37 Identities=35% Similarity=0.688 Sum_probs=28.2
Q ss_pred CccccccccccCC--------CCeeE-Eec-CCceeCChhhHHHhhhc
Q 019783 298 GETCAICLEDYQD--------GEKLK-VLS-CKHATCRVSCKLRGLMA 335 (336)
Q Consensus 298 ~~~CaICLe~f~~--------gd~vr-~Lp-C~H~F~H~~CId~WL~~ 335 (336)
+++|-||...|.. ||..- ++- |+|.| |..||.+||..
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~f-h~hCI~~wl~~ 66 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAF-HAHCILKWLNT 66 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHH-HHHHHHHHhcC
Confidence 4589999998853 55432 344 99999 99999999853
No 53
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=96.30 E-value=0.0036 Score=45.22 Aligned_cols=33 Identities=21% Similarity=0.253 Sum_probs=28.2
Q ss_pred ccccccccccCCCCeeEEecCCceeCChhhHHHhhhc
Q 019783 299 ETCAICLEDYQDGEKLKVLSCKHATCRVSCKLRGLMA 335 (336)
Q Consensus 299 ~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL~~ 335 (336)
-.|+||.+-+.+- .++||+|.| -.+||..|+.+
T Consensus 2 ~~Cpi~~~~~~~P---v~~~~G~v~-~~~~i~~~~~~ 34 (63)
T smart00504 2 FLCPISLEVMKDP---VILPSGQTY-ERRAIEKWLLS 34 (63)
T ss_pred cCCcCCCCcCCCC---EECCCCCEE-eHHHHHHHHHH
Confidence 3699999998764 457999999 99999999975
No 54
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=96.22 E-value=0.0018 Score=51.59 Aligned_cols=24 Identities=29% Similarity=0.383 Sum_probs=18.8
Q ss_pred CeeEEec-CCceeCChhhHHHhhhcC
Q 019783 312 EKLKVLS-CKHATCRVSCKLRGLMAD 336 (336)
Q Consensus 312 d~vr~Lp-C~H~F~H~~CId~WL~~~ 336 (336)
|-....- |+|.| |..||.+||.++
T Consensus 73 EC~VaWG~CNHaF-H~hCisrWlktr 97 (114)
T KOG2930|consen 73 ECTVAWGVCNHAF-HFHCISRWLKTR 97 (114)
T ss_pred ceEEEeeecchHH-HHHHHHHHHhhc
Confidence 4334444 99999 999999999864
No 55
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=96.08 E-value=0.0031 Score=47.32 Aligned_cols=37 Identities=22% Similarity=0.420 Sum_probs=17.2
Q ss_pred CccccccccccCCCCee--EEe---cCCceeCChhhHHHhhhc
Q 019783 298 GETCAICLEDYQDGEKL--KVL---SCKHATCRVSCKLRGLMA 335 (336)
Q Consensus 298 ~~~CaICLe~f~~gd~v--r~L---pC~H~F~H~~CId~WL~~ 335 (336)
+.+|.||.+...+++.+ .+- .|++.| |..||..||++
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~f-H~~CL~~wf~~ 43 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKF-HLLCLSEWFLS 43 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B--SGGGHHHHHH
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHH-HHHHHHHHHHH
Confidence 35799999987744433 222 378999 99999999975
No 56
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.98 E-value=0.0018 Score=64.63 Aligned_cols=37 Identities=22% Similarity=0.560 Sum_probs=27.4
Q ss_pred CCccccccccccC---CCCee-------E----EecCCceeCChhhHHHhhh
Q 019783 297 GGETCAICLEDYQ---DGEKL-------K----VLSCKHATCRVSCKLRGLM 334 (336)
Q Consensus 297 ~~~~CaICLe~f~---~gd~v-------r----~LpC~H~F~H~~CId~WL~ 334 (336)
....|+||..+.. ++..+ | ..||+|+| |+.|+..|+.
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~Hif-H~~CL~~WMd 620 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIF-HRQCLLQWMD 620 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccchHHHH-HHHHHHHHHh
Confidence 3568999987753 23222 2 45999999 9999999986
No 57
>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=95.46 E-value=0.0089 Score=47.74 Aligned_cols=32 Identities=22% Similarity=0.565 Sum_probs=27.9
Q ss_pred CCccccccccccCCCCeeEEecCCceeCChhhHH
Q 019783 297 GGETCAICLEDYQDGEKLKVLSCKHATCRVSCKL 330 (336)
Q Consensus 297 ~~~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId 330 (336)
....|++|-..+.. ..+.+.||+|+| |..|++
T Consensus 77 ~~~~C~vC~k~l~~-~~f~~~p~~~v~-H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGN-SVFVVFPCGHVV-HYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCC-ceEEEeCCCeEE-eccccc
Confidence 46779999999877 678889999999 999986
No 58
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=95.29 E-value=0.0092 Score=59.13 Aligned_cols=35 Identities=26% Similarity=0.420 Sum_probs=29.3
Q ss_pred CCccccccccccCCCCeeEEecCCceeCChhhHHHhhhc
Q 019783 297 GGETCAICLEDYQDGEKLKVLSCKHATCRVSCKLRGLMA 335 (336)
Q Consensus 297 ~~~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL~~ 335 (336)
....|.||++.|.+- .++||+|.| ...||..||.+
T Consensus 25 ~~l~C~IC~d~~~~P---vitpCgH~F-Cs~CI~~~l~~ 59 (397)
T TIGR00599 25 TSLRCHICKDFFDVP---VLTSCSHTF-CSLCIRRCLSN 59 (397)
T ss_pred cccCCCcCchhhhCc---cCCCCCCch-hHHHHHHHHhC
Confidence 467899999998542 368999999 99999999865
No 59
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=94.65 E-value=0.023 Score=39.21 Aligned_cols=33 Identities=30% Similarity=0.589 Sum_probs=23.4
Q ss_pred ccccccccCCCCeeEEecCC-----ceeCChhhHHHhhhc
Q 019783 301 CAICLEDYQDGEKLKVLSCK-----HATCRVSCKLRGLMA 335 (336)
Q Consensus 301 CaICLe~f~~gd~vr~LpC~-----H~F~H~~CId~WL~~ 335 (336)
|-||+++-.+++ --+.||+ -.- |.+|+..|+.+
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~v-H~~CL~~W~~~ 38 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYV-HRSCLERWIRE 38 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSE-ECCHHHHHHHH
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchh-HHHHHHHHHHh
Confidence 789999987777 4457863 244 99999999974
No 60
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.20 E-value=0.026 Score=49.55 Aligned_cols=38 Identities=24% Similarity=0.476 Sum_probs=29.1
Q ss_pred CCCCccccccccccCCCCeeEEecCCceeCChhhHHHhhh
Q 019783 295 CHGGETCAICLEDYQDGEKLKVLSCKHATCRVSCKLRGLM 334 (336)
Q Consensus 295 ~~~~~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL~ 334 (336)
...-..|.|||++|.+...+ -..|+|+| =++||..=|.
T Consensus 128 ~~~~~~CPiCl~~~sek~~v-sTkCGHvF-C~~Cik~alk 165 (187)
T KOG0320|consen 128 KEGTYKCPICLDSVSEKVPV-STKCGHVF-CSQCIKDALK 165 (187)
T ss_pred cccccCCCceecchhhcccc-ccccchhH-HHHHHHHHHH
Confidence 34457899999999876542 26799999 8999987553
No 61
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=94.18 E-value=0.0084 Score=62.86 Aligned_cols=37 Identities=19% Similarity=0.185 Sum_probs=33.5
Q ss_pred CCCccccccccccCCCCeeEEecCCceeCChhhHHHhh
Q 019783 296 HGGETCAICLEDYQDGEKLKVLSCKHATCRVSCKLRGL 333 (336)
Q Consensus 296 ~~~~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL 333 (336)
.....|.+||..|.++...-..+|.|+| |.+||+.|-
T Consensus 121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~F-C~~Ci~sWs 157 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLEESEKHTAHYF-CEECVGSWS 157 (1134)
T ss_pred hhhhhhhHHHHHHHHHhhcccccccccc-HHHHhhhhh
Confidence 3467899999999999988889999999 999999995
No 62
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=93.88 E-value=0.033 Score=52.42 Aligned_cols=36 Identities=25% Similarity=0.485 Sum_probs=29.3
Q ss_pred CCCccccccccccCCCCeeEEecCCceeCChhhHHHhhhc
Q 019783 296 HGGETCAICLEDYQDGEKLKVLSCKHATCRVSCKLRGLMA 335 (336)
Q Consensus 296 ~~~~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL~~ 335 (336)
.....|.+|||.-++ --.+||+|+| ==+||..|+.+
T Consensus 237 ~a~~kC~LCLe~~~~---pSaTpCGHiF-CWsCI~~w~~e 272 (293)
T KOG0317|consen 237 EATRKCSLCLENRSN---PSATPCGHIF-CWSCILEWCSE 272 (293)
T ss_pred CCCCceEEEecCCCC---CCcCcCcchH-HHHHHHHHHcc
Confidence 345789999998655 3468999999 78999999865
No 63
>cd04821 PA_M28_1_2 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt
Probab=93.55 E-value=0.11 Score=45.17 Aligned_cols=37 Identities=22% Similarity=0.205 Sum_probs=30.0
Q ss_pred CCCeEEEEEccCCCh-------------------HHHHHHHHHcCCcEEEEeccCC
Q 019783 146 DHINFVLIVRGQCIF-------------------EDKIRNAQAAGYRAAIVYNDRE 182 (336)
Q Consensus 146 ~~~~IvLV~RG~CsF-------------------~~Kv~~Aq~aGA~avII~n~~~ 182 (336)
..||||+|.+|+=.| ..|.+.|+++||.|||+.++.+
T Consensus 48 VkGKiVvvl~~~P~~~~~~~~~f~~~~~~~~~~~~~K~~~A~~~GA~gvi~v~~~~ 103 (157)
T cd04821 48 VKGKTVVILVNDPGFATPDSGLFNGKAMTYYGRWTYKYEEAARQGAAGALIVHETE 103 (157)
T ss_pred cCCcEEEEEcCCCCcccccccccCcccccccccHHHHHHHHHHCCCeEEEEEeCCC
Confidence 459999998875433 3499999999999999998754
No 64
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=93.27 E-value=0.049 Score=60.70 Aligned_cols=53 Identities=23% Similarity=0.525 Sum_probs=40.9
Q ss_pred cCCeeeeccCCCCCCCCCccccccccccCCCCeeEEecCCceeCChhhHHHhhhc
Q 019783 281 ALPCFLFSSASSSQCHGGETCAICLEDYQDGEKLKVLSCKHATCRVSCKLRGLMA 335 (336)
Q Consensus 281 ~lp~~~y~~~~~~~~~~~~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL~~ 335 (336)
-||.+..++.+. .+..+++|.||..|--.-....+|.|.|+| |-.|.+.-|..
T Consensus 3470 CLPCl~Cdks~t-kQD~DDmCmICFTE~L~AAP~IqL~C~HiF-HlqC~R~vLE~ 3522 (3738)
T KOG1428|consen 3470 CLPCLHCDKSAT-KQDADDMCMICFTEALSAAPAIQLDCSHIF-HLQCCRRVLEN 3522 (3738)
T ss_pred cccccccChhhh-hcccCceEEEEehhhhCCCcceecCCccch-hHHHHHHHHHh
Confidence 466666544322 456789999999987777788889999999 99999987653
No 65
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=92.81 E-value=0.032 Score=54.50 Aligned_cols=38 Identities=26% Similarity=0.478 Sum_probs=33.6
Q ss_pred CccccccccccCCC-CeeEEecCCceeCChhhHHHhhhcC
Q 019783 298 GETCAICLEDYQDG-EKLKVLSCKHATCRVSCKLRGLMAD 336 (336)
Q Consensus 298 ~~~CaICLe~f~~g-d~vr~LpC~H~F~H~~CId~WL~~~ 336 (336)
+-.|-.|=|.|-.. |.+..|||.|+| |..|+..-|++|
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIf-H~rCl~e~L~~n 403 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIF-HLRCLQEILENN 403 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHH-HHHHHHHHHHhC
Confidence 45799999999776 578899999999 999999999886
No 66
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.40 E-value=0.089 Score=48.09 Aligned_cols=35 Identities=29% Similarity=0.450 Sum_probs=27.2
Q ss_pred CCCccccccccccCCCCeeEEecCCceeCChhhHHHhhh
Q 019783 296 HGGETCAICLEDYQDGEKLKVLSCKHATCRVSCKLRGLM 334 (336)
Q Consensus 296 ~~~~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL~ 334 (336)
....+|.||||.=+ |-| +..|+|.| ==-||.+||+
T Consensus 45 ~~~FdCNICLd~ak--dPV-vTlCGHLF-CWpClyqWl~ 79 (230)
T KOG0823|consen 45 GGFFDCNICLDLAK--DPV-VTLCGHLF-CWPCLYQWLQ 79 (230)
T ss_pred CCceeeeeeccccC--CCE-Eeecccce-ehHHHHHHHh
Confidence 45679999999643 333 45699999 6789999996
No 67
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=91.85 E-value=0.11 Score=36.84 Aligned_cols=32 Identities=25% Similarity=0.669 Sum_probs=28.6
Q ss_pred CccccccccccCCCCeeEEec-CCceeCChhhHH
Q 019783 298 GETCAICLEDYQDGEKLKVLS-CKHATCRVSCKL 330 (336)
Q Consensus 298 ~~~CaICLe~f~~gd~vr~Lp-C~H~F~H~~CId 330 (336)
...|.+|=+.|+++|.+.+-| |+-.| |++|-+
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~Cgapy-HR~C~~ 37 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPY-HRDCWE 37 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcc-cHHHHh
Confidence 467999999999999888888 99999 999964
No 68
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=91.46 E-value=0.041 Score=59.08 Aligned_cols=41 Identities=27% Similarity=0.507 Sum_probs=28.7
Q ss_pred CCCCCccccccccccCCCC-ee--EEec-CCceeCChhhHHHhhhc
Q 019783 294 QCHGGETCAICLEDYQDGE-KL--KVLS-CKHATCRVSCKLRGLMA 335 (336)
Q Consensus 294 ~~~~~~~CaICLe~f~~gd-~v--r~Lp-C~H~F~H~~CId~WL~~ 335 (336)
..++.++||||..-..--| .+ ...| |+|-| |..|+-+|+..
T Consensus 1465 ~fsG~eECaICYsvL~~vdr~lPskrC~TCknKF-H~~CLyKWf~S 1509 (1525)
T COG5219 1465 KFSGHEECAICYSVLDMVDRSLPSKRCATCKNKF-HTRCLYKWFAS 1509 (1525)
T ss_pred hcCCcchhhHHHHHHHHHhccCCccccchhhhhh-hHHHHHHHHHh
Confidence 3567899999977554212 11 2233 89999 99999999863
No 69
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.02 E-value=0.21 Score=45.56 Aligned_cols=36 Identities=19% Similarity=0.436 Sum_probs=31.7
Q ss_pred CCCccccccccccCCCCeeEEecCCceeCChhhHHHhh
Q 019783 296 HGGETCAICLEDYQDGEKLKVLSCKHATCRVSCKLRGL 333 (336)
Q Consensus 296 ~~~~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL 333 (336)
+-...|..|--....||.+| |-|-|.| |=+|++.|-
T Consensus 48 DY~pNC~LC~t~La~gdt~R-LvCyhlf-HW~Clnera 83 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTTR-LVCYHLF-HWKCLNERA 83 (299)
T ss_pred CCCCCCceeCCccccCccee-ehhhhhH-HHHHhhHHH
Confidence 34568999999999999998 7799999 999999984
No 70
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.74 E-value=0.045 Score=53.39 Aligned_cols=37 Identities=19% Similarity=0.365 Sum_probs=34.1
Q ss_pred CccccccccccCCC-CeeEEecCCceeCChhhHHHhhhc
Q 019783 298 GETCAICLEDYQDG-EKLKVLSCKHATCRVSCKLRGLMA 335 (336)
Q Consensus 298 ~~~CaICLe~f~~g-d~vr~LpC~H~F~H~~CId~WL~~ 335 (336)
...|+||.++|+.. |++..+-|+|++ |..||.+||.+
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~-~~~kL~k~L~~ 233 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIY-HHGKLSKWLAT 233 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccc-hhhHHHHHHHH
Confidence 45799999999999 999999999999 99999999963
No 71
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=88.32 E-value=0.21 Score=53.29 Aligned_cols=39 Identities=18% Similarity=0.336 Sum_probs=31.3
Q ss_pred CCCCccccccccccCCCCeeEEec-CCceeCChhhHHHhhh
Q 019783 295 CHGGETCAICLEDYQDGEKLKVLS-CKHATCRVSCKLRGLM 334 (336)
Q Consensus 295 ~~~~~~CaICLe~f~~gd~vr~Lp-C~H~F~H~~CId~WL~ 334 (336)
.....+|.||.|....-+.+=--. |-|+| |-.||..|=.
T Consensus 188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVF-Hl~CI~~WAr 227 (950)
T KOG1952|consen 188 SNRKYECMICTERIKRTAPVWSCKSCYHVF-HLNCIKKWAR 227 (950)
T ss_pred hcCceEEEEeeeeccccCCceecchhhhhh-hHHHHHHHHH
Confidence 445789999999988877654433 78999 9999999964
No 72
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.91 E-value=0.21 Score=48.72 Aligned_cols=36 Identities=22% Similarity=0.636 Sum_probs=28.2
Q ss_pred CCccccccccccCCCC----eeEEec-CCceeCChhhHHHhh
Q 019783 297 GGETCAICLEDYQDGE----KLKVLS-CKHATCRVSCKLRGL 333 (336)
Q Consensus 297 ~~~~CaICLe~f~~gd----~vr~Lp-C~H~F~H~~CId~WL 333 (336)
.+.+|.||+|.-.+.- ..++|| |+|.| =-+||+.|=
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~-Cl~Cir~wr 200 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSF-CLNCIRKWR 200 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhh-hhcHhHhhh
Confidence 4789999999754432 235567 99999 899999997
No 73
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=87.72 E-value=0.53 Score=33.82 Aligned_cols=35 Identities=20% Similarity=0.380 Sum_probs=25.8
Q ss_pred CCccccccccccCCCCeeEEecCCceeCChhhHHHhhh
Q 019783 297 GGETCAICLEDYQDGEKLKVLSCKHATCRVSCKLRGLM 334 (336)
Q Consensus 297 ~~~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL~ 334 (336)
....|+|.+..|+ |-|+-..|+|.| =++.|..+|.
T Consensus 10 ~~~~CPiT~~~~~--~PV~s~~C~H~f-ek~aI~~~i~ 44 (57)
T PF11789_consen 10 ISLKCPITLQPFE--DPVKSKKCGHTF-EKEAILQYIQ 44 (57)
T ss_dssp --SB-TTTSSB-S--SEEEESSS--EE-EHHHHHHHCT
T ss_pred eccCCCCcCChhh--CCcCcCCCCCee-cHHHHHHHHH
Confidence 4578999999886 688888999999 9999999983
No 74
>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=86.89 E-value=0.59 Score=35.04 Aligned_cols=35 Identities=26% Similarity=0.208 Sum_probs=27.4
Q ss_pred CCccccccccccCCCCeeEEecCCceeCChhhHHHhhhc
Q 019783 297 GGETCAICLEDYQDGEKLKVLSCKHATCRVSCKLRGLMA 335 (336)
Q Consensus 297 ~~~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL~~ 335 (336)
+.-.|+||.+-+.+ -| ++||+|.| =++||..||.+
T Consensus 3 ~~f~CpIt~~lM~d--PV-i~~~G~ty-er~~I~~~l~~ 37 (73)
T PF04564_consen 3 DEFLCPITGELMRD--PV-ILPSGHTY-ERSAIERWLEQ 37 (73)
T ss_dssp GGGB-TTTSSB-SS--EE-EETTSEEE-EHHHHHHHHCT
T ss_pred cccCCcCcCcHhhC--ce-eCCcCCEE-cHHHHHHHHHc
Confidence 35679999998765 34 57999999 99999999987
No 75
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.95 E-value=0.35 Score=47.78 Aligned_cols=38 Identities=26% Similarity=0.448 Sum_probs=32.4
Q ss_pred CCCccccccccccCCCCeeEEecCCceeCChhhHHHhhh
Q 019783 296 HGGETCAICLEDYQDGEKLKVLSCKHATCRVSCKLRGLM 334 (336)
Q Consensus 296 ~~~~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL~ 334 (336)
..-..|.||.++....+....|||.|+| -++|+...++
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~-Ck~C~kdY~~ 219 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLPCSHVF-CKSCLKDYFT 219 (445)
T ss_pred hhcccceeeehhhcCcceeeecccchHH-HHHHHHHHHH
Confidence 3467899999998877999999999999 8899887654
No 76
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.02 E-value=0.64 Score=45.14 Aligned_cols=32 Identities=34% Similarity=0.779 Sum_probs=22.9
Q ss_pred CCCccccccccccCCCCeeEEecCCceeCChhhHH
Q 019783 296 HGGETCAICLEDYQDGEKLKVLSCKHATCRVSCKL 330 (336)
Q Consensus 296 ~~~~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId 330 (336)
....+|+||+.+=++ +.+|||+|.=.=+.|-+
T Consensus 288 ~~gkeCVIClse~rd---t~vLPCRHLCLCs~Ca~ 319 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLPCRHLCLCSGCAK 319 (349)
T ss_pred cCCCeeEEEecCCcc---eEEecchhhehhHhHHH
Confidence 346799999997554 77899999742344543
No 77
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.72 E-value=1.3 Score=44.98 Aligned_cols=32 Identities=28% Similarity=0.469 Sum_probs=23.4
Q ss_pred CccccccccccCCCCeeEEecCCceeCChhhHHHhh
Q 019783 298 GETCAICLEDYQDGEKLKVLSCKHATCRVSCKLRGL 333 (336)
Q Consensus 298 ~~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL 333 (336)
+..|+|||+...-- ++.. |+|+| =..||-+.+
T Consensus 186 ~~~CPICL~~~~~p--~~t~-CGHiF-C~~CiLqy~ 217 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP--VRTN-CGHIF-CGPCILQYW 217 (513)
T ss_pred CCcCCcccCCCCcc--cccc-cCcee-eHHHHHHHH
Confidence 78999999975432 2222 99999 788987654
No 78
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=78.33 E-value=0.87 Score=49.04 Aligned_cols=33 Identities=21% Similarity=0.473 Sum_probs=25.9
Q ss_pred CCccccccccccCCCCeeEEecCCceeCChhhHHH
Q 019783 297 GGETCAICLEDYQDGEKLKVLSCKHATCRVSCKLR 331 (336)
Q Consensus 297 ~~~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~ 331 (336)
.++.|.+|-..+... .--+-||+|.| |++||..
T Consensus 816 p~d~C~~C~~~ll~~-pF~vf~CgH~F-H~~Cl~~ 848 (911)
T KOG2034|consen 816 PQDSCDHCGRPLLIK-PFYVFPCGHCF-HRDCLIR 848 (911)
T ss_pred CccchHHhcchhhcC-cceeeeccchH-HHHHHHH
Confidence 367899997665443 56678999999 9999965
No 79
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.18 E-value=1.3 Score=41.46 Aligned_cols=34 Identities=26% Similarity=0.439 Sum_probs=26.7
Q ss_pred CCccccccccccCCCCeeEEecCCceeCChhhHHH-hhh
Q 019783 297 GGETCAICLEDYQDGEKLKVLSCKHATCRVSCKLR-GLM 334 (336)
Q Consensus 297 ~~~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~-WL~ 334 (336)
.+..|+||+|.-. .--.+||+|+| =-.||-. |=.
T Consensus 214 ~d~kC~lC~e~~~---~ps~t~CgHlF-C~~Cl~~~~t~ 248 (271)
T COG5574 214 ADYKCFLCLEEPE---VPSCTPCGHLF-CLSCLLISWTK 248 (271)
T ss_pred cccceeeeecccC---Ccccccccchh-hHHHHHHHHHh
Confidence 4678999999754 35568999999 7889887 744
No 80
>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 cd03029 GRX_hybridPRX5 Glutaredoxin (GRX) family, PRX5 hybrid subfamily; composed of hybrid proteins containing peroxiredoxin (PRX) and GRX domains, which is found in some pathogenic bacteria and cyanobacteria. PRXs are thiol-specific antioxidant (TSA) proteins that confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins. PRX-GRX hybrid proteins from Haemophilus influenza and Neisseria meningitis exhibit GSH-dependent peroxidase activity. The flow of reducing equivalents in the catalytic cycle of the hybrid protein goes from NADPH - GSH reductase - GSH - GRX domain of hybrid - PRX domain of hybrid - peroxide substrate.
Probab=67.38 E-value=8.3 Score=28.04 Aligned_cols=57 Identities=18% Similarity=0.184 Sum_probs=34.9
Q ss_pred eEEEEEccCCChHHHHHHHHH-cCCcEEEEeccCCCCceeecccCCCcceeeEEEEeee
Q 019783 149 NFVLIVRGQCIFEDKIRNAQA-AGYRAAIVYNDREKGSLVSMTASHEGVKVHAIFVSLE 206 (336)
Q Consensus 149 ~IvLV~RG~CsF~~Kv~~Aq~-aGA~avII~n~~~~~~l~~m~~~~~~i~IP~v~I~~~ 206 (336)
+|.|..+-+|.+-.|++.+.+ .|..... .|-+.+.....+..-....++|+++|...
T Consensus 2 ~v~lys~~~Cp~C~~ak~~L~~~~i~~~~-~~v~~~~~~~~~~~~~g~~~vP~ifi~g~ 59 (72)
T cd03029 2 SVSLFTKPGCPFCARAKAALQENGISYEE-IPLGKDITGRSLRAVTGAMTVPQVFIDGE 59 (72)
T ss_pred eEEEEECCCCHHHHHHHHHHHHcCCCcEE-EECCCChhHHHHHHHhCCCCcCeEEECCE
Confidence 578889999999999999775 5665443 33322111111111123458899988753
No 82
>PHA03096 p28-like protein; Provisional
Probab=66.46 E-value=2.3 Score=40.58 Aligned_cols=36 Identities=28% Similarity=0.503 Sum_probs=29.3
Q ss_pred ccccccccccCCC----CeeEEec-CCceeCChhhHHHhhhc
Q 019783 299 ETCAICLEDYQDG----EKLKVLS-CKHATCRVSCKLRGLMA 335 (336)
Q Consensus 299 ~~CaICLe~f~~g----d~vr~Lp-C~H~F~H~~CId~WL~~ 335 (336)
-+|.||+|.-.+. ..-..|+ |+|.| =..||..|-.+
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~f-c~~ci~~wr~~ 219 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEF-NIFCIKIWMTE 219 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHH-HHHHHHHHHHh
Confidence 6799999987654 2456788 99999 88999999764
No 83
>TIGR02190 GlrX-dom Glutaredoxin-family domain. This C-terminal domain with homology to glutaredoxin is fused to an N-terminal peroxiredoxin-like domain.
Probab=65.94 E-value=9.1 Score=28.61 Aligned_cols=60 Identities=17% Similarity=0.221 Sum_probs=37.4
Q ss_pred CCCeEEEEEccCCChHHHHHHHHH-cCCcEEEEeccCCCCceeecccCCCcceeeEEEEeee
Q 019783 146 DHINFVLIVRGQCIFEDKIRNAQA-AGYRAAIVYNDREKGSLVSMTASHEGVKVHAIFVSLE 206 (336)
Q Consensus 146 ~~~~IvLV~RG~CsF~~Kv~~Aq~-aGA~avII~n~~~~~~l~~m~~~~~~i~IP~v~I~~~ 206 (336)
+.++|.|..+-+|.+-.+++.+-+ .|.....+ |-+.......+..-....++|++++...
T Consensus 6 ~~~~V~ly~~~~Cp~C~~ak~~L~~~gi~y~~i-di~~~~~~~~~~~~~g~~~vP~i~i~g~ 66 (79)
T TIGR02190 6 KPESVVVFTKPGCPFCAKAKATLKEKGYDFEEI-PLGNDARGRSLRAVTGATTVPQVFIGGK 66 (79)
T ss_pred CCCCEEEEECCCCHhHHHHHHHHHHcCCCcEEE-ECCCChHHHHHHHHHCCCCcCeEEECCE
Confidence 448899999999999999998765 57665553 3222111111211123358999988643
No 84
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=64.84 E-value=3.2 Score=39.30 Aligned_cols=36 Identities=25% Similarity=0.526 Sum_probs=26.8
Q ss_pred CccccccccccCCCCe-eEEecCC-----ceeCChhhHHHhhh
Q 019783 298 GETCAICLEDYQDGEK-LKVLSCK-----HATCRVSCKLRGLM 334 (336)
Q Consensus 298 ~~~CaICLe~f~~gd~-vr~LpC~-----H~F~H~~CId~WL~ 334 (336)
+..|-||.++-.+.+. .-..||. +.. |.+|+++|+.
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~v-H~~cl~~W~~ 119 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYV-HRSCLEKWFS 119 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHH-HHHHHHhhhc
Confidence 4789999997765432 4567763 455 9999999985
No 85
>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=64.43 E-value=3.9 Score=27.91 Aligned_cols=31 Identities=23% Similarity=0.503 Sum_probs=23.7
Q ss_pred cccccccccCCCCeeEEecCCceeCChhhHHH
Q 019783 300 TCAICLEDYQDGEKLKVLSCKHATCRVSCKLR 331 (336)
Q Consensus 300 ~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~ 331 (336)
.|.||-+.-.+++.|.=-.|+..| |..|++.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~-H~~C~~~ 31 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWY-HQECVGP 31 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEE-ETTTSTS
T ss_pred eCcCCCCcCCCCCeEEcCCCChhh-CcccCCC
Confidence 488999965555666655689999 9999874
No 86
>KOG2195 consensus Transferrin receptor and related proteins containing the protease-associated (PA) domain [Posttranslational modification, protein turnover, chaperones; Inorganic ion transport and metabolism; General function prediction only]
Probab=59.21 E-value=9.3 Score=40.96 Aligned_cols=35 Identities=34% Similarity=0.459 Sum_probs=32.5
Q ss_pred CCeEEEEEccCCChHHHHHHHHHcCCcEEEEeccC
Q 019783 147 HINFVLIVRGQCIFEDKIRNAQAAGYRAAIVYNDR 181 (336)
Q Consensus 147 ~~~IvLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~ 181 (336)
.++|+|++=|.-.+.+|++||+++||.+||+|.+.
T Consensus 184 ~g~i~l~r~~~i~~g~~~~na~~~~a~gviiy~d~ 218 (702)
T KOG2195|consen 184 SGKIVLARVGKIYRGKKVKNAEAAGADGVIIYTDP 218 (702)
T ss_pred cCceEEEEccccchhhhHhhHHHhhcCcEEEeecc
Confidence 38999999999999999999999999999999874
No 87
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=54.44 E-value=8.3 Score=37.68 Aligned_cols=56 Identities=20% Similarity=0.273 Sum_probs=34.9
Q ss_pred HHHhcCCeeeeccCCCCC-CCCCccccccccccCCCCeeEEecCCceeCChhhHHHhhhcC
Q 019783 277 KVVEALPCFLFSSASSSQ-CHGGETCAICLEDYQDGEKLKVLSCKHATCRVSCKLRGLMAD 336 (336)
Q Consensus 277 ~~i~~lp~~~y~~~~~~~-~~~~~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL~~~ 336 (336)
+++.++|..+=...+.+. ..+++.|.||... .-.-...||+|.= -..||.+=|+.+
T Consensus 400 r~~~~l~~~~~~~~~~~lp~sEd~lCpICyA~---pi~Avf~PC~H~S-C~~CI~qHlmN~ 456 (489)
T KOG4692|consen 400 RASSQLPERKEESFNKDLPDSEDNLCPICYAG---PINAVFAPCSHRS-CYGCITQHLMNC 456 (489)
T ss_pred HHHhhcchhhHHhhcCCCCCcccccCcceecc---cchhhccCCCCch-HHHHHHHHHhcC
Confidence 344555554433323232 2567899999542 2233457899998 789999887753
No 88
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=54.03 E-value=2.8 Score=40.04 Aligned_cols=37 Identities=19% Similarity=0.306 Sum_probs=31.9
Q ss_pred CccccccccccCCCCeeEEecCCceeCChhhHHHhhhc
Q 019783 298 GETCAICLEDYQDGEKLKVLSCKHATCRVSCKLRGLMA 335 (336)
Q Consensus 298 ~~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL~~ 335 (336)
-.+|.+|+++|..+.....+.|.-.| |..|+..|+++
T Consensus 214 ~rvC~~CF~el~~~~~~~~~~~~~~~-~~~~~~~~~~~ 250 (288)
T KOG1729|consen 214 IRVCDICFEELEKGARGDREDSLPVF-HGKCYPNWLTT 250 (288)
T ss_pred ceecHHHHHHHhcccccchhhccccc-ccccccccccc
Confidence 34899999999988888888877799 99999999875
No 89
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=52.61 E-value=7.9 Score=37.73 Aligned_cols=46 Identities=24% Similarity=0.382 Sum_probs=29.0
Q ss_pred HHHhcCCeeeeccCCCCCCCCCccccccccccCCCCeeEEecCCceeCCh
Q 019783 277 KVVEALPCFLFSSASSSQCHGGETCAICLEDYQDGEKLKVLSCKHATCRV 326 (336)
Q Consensus 277 ~~i~~lp~~~y~~~~~~~~~~~~~CaICLe~f~~gd~vr~LpC~H~F~H~ 326 (336)
..+..=|.++-.++ +++..+...|.||-+.. -.+.++||+|.-||.
T Consensus 41 NnlsaEPnlttsSa-ddtDEen~~C~ICA~~~---TYs~~~PC~H~~CH~ 86 (493)
T COG5236 41 NNLSAEPNLTTSSA-DDTDEENMNCQICAGST---TYSARYPCGHQICHA 86 (493)
T ss_pred cccccCCccccccc-cccccccceeEEecCCc---eEEEeccCCchHHHH
Confidence 34444454433332 33344577999997653 357889999988775
No 90
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=47.18 E-value=22 Score=33.23 Aligned_cols=57 Identities=16% Similarity=0.257 Sum_probs=41.8
Q ss_pred HhcCCeeeeccCCCCC-------CCCCccccccccccCCCCeeEEec-CCceeCChhhHHHhhhcC
Q 019783 279 VEALPCFLFSSASSSQ-------CHGGETCAICLEDYQDGEKLKVLS-CKHATCRVSCKLRGLMAD 336 (336)
Q Consensus 279 i~~lp~~~y~~~~~~~-------~~~~~~CaICLe~f~~gd~vr~Lp-C~H~F~H~~CId~WL~~~ 336 (336)
++-|-.++|...+++. .+....|+||-+...+--.+.+|. |+|+| -.+|+.+-+.+|
T Consensus 195 lkdL~~VkFT~l~s~~~et~l~a~s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv-~~ecvEklir~D 259 (303)
T KOG3039|consen 195 LKDLFAVKFTPLNSEETETKLIAASKRYICPVTRDTLTNTTPCAVLRPSGHVV-TKECVEKLIRKD 259 (303)
T ss_pred hhhcceeeeeecCCchhhhhhhhhccceecccchhhhcCccceEEeccCCcEe-eHHHHHHhcccc
Confidence 3444456666544321 224679999999999988888887 99999 999999876654
No 91
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=43.89 E-value=12 Score=33.09 Aligned_cols=36 Identities=22% Similarity=0.401 Sum_probs=25.8
Q ss_pred CccccccccccCCC---C-eeEEecCCceeCChhhHHHhhh
Q 019783 298 GETCAICLEDYQDG---E-KLKVLSCKHATCRVSCKLRGLM 334 (336)
Q Consensus 298 ~~~CaICLe~f~~g---d-~vr~LpC~H~F~H~~CId~WL~ 334 (336)
-..|-||..---+| | ..--..|+..| |.-|+..||.
T Consensus 165 ~~~cgicyayqldGTipDqtCdN~qCgkpF-HqiCL~dWLR 204 (234)
T KOG3268|consen 165 LGACGICYAYQLDGTIPDQTCDNIQCGKPF-HQICLTDWLR 204 (234)
T ss_pred hhcccceeeeecCCccccccccccccCCcH-HHHHHHHHHH
Confidence 45688887543344 2 33446699999 9999999995
No 92
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=41.25 E-value=8.9 Score=38.06 Aligned_cols=37 Identities=27% Similarity=0.420 Sum_probs=29.3
Q ss_pred CCCCccccccccccCCCCeeEEecCCceeCChhhHHHhhhc
Q 019783 295 CHGGETCAICLEDYQDGEKLKVLSCKHATCRVSCKLRGLMA 335 (336)
Q Consensus 295 ~~~~~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~WL~~ 335 (336)
.+..+.|-||-|. +..|++=||+|.- -..|+..|=..
T Consensus 366 gsTFeLCKICaen---dKdvkIEPCGHLl-Ct~CLa~WQ~s 402 (563)
T KOG1785|consen 366 GSTFELCKICAEN---DKDVKIEPCGHLL-CTSCLAAWQDS 402 (563)
T ss_pred cchHHHHHHhhcc---CCCcccccccchH-HHHHHHhhccc
Confidence 3456789999765 3358999999999 89999999644
No 93
>cd03027 GRX_DEP Glutaredoxin (GRX) family, Dishevelled, Egl-10, and Pleckstrin (DEP) subfamily; composed of uncharacterized proteins containing a GRX domain and additional domains DEP and DUF547, both of which have unknown functions. GRX is a glutathione (GSH) dependent reductase containing a redox active CXXC motif in a TRX fold. It has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. By altering the redox state of target proteins, GRX is involved in many cellular functions.
Probab=40.39 E-value=44 Score=24.22 Aligned_cols=58 Identities=14% Similarity=0.019 Sum_probs=34.7
Q ss_pred CeEEEEEccCCChHHHHHHHH-HcCCcEEEEeccCCCCceee-cccCCCcceeeEEEEeee
Q 019783 148 INFVLIVRGQCIFEDKIRNAQ-AAGYRAAIVYNDREKGSLVS-MTASHEGVKVHAIFVSLE 206 (336)
Q Consensus 148 ~~IvLV~RG~CsF~~Kv~~Aq-~aGA~avII~n~~~~~~l~~-m~~~~~~i~IP~v~I~~~ 206 (336)
++|.|-..-+|++-.|++.+- +.|.....+ |-........ +..-....++|.+++...
T Consensus 1 ~~v~ly~~~~C~~C~ka~~~L~~~gi~~~~~-di~~~~~~~~el~~~~g~~~vP~v~i~~~ 60 (73)
T cd03027 1 GRVTIYSRLGCEDCTAVRLFLREKGLPYVEI-NIDIFPERKAELEERTGSSVVPQIFFNEK 60 (73)
T ss_pred CEEEEEecCCChhHHHHHHHHHHCCCceEEE-ECCCCHHHHHHHHHHhCCCCcCEEEECCE
Confidence 467888889999999999955 567765544 4332111100 110012347799988754
No 94
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=40.30 E-value=12 Score=40.12 Aligned_cols=15 Identities=27% Similarity=0.614 Sum_probs=5.9
Q ss_pred eEEecCCceeCChhhH
Q 019783 314 LKVLSCKHATCRVSCK 329 (336)
Q Consensus 314 vr~LpC~H~F~H~~CI 329 (336)
+.++.|+|.| |..|+
T Consensus 804 ~~v~~c~h~y-hk~c~ 818 (846)
T KOG2066|consen 804 VVVFHCGHMY-HKECL 818 (846)
T ss_pred eeEEEccchh-hhccc
Confidence 3333344444 44443
No 95
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.53 E-value=23 Score=34.69 Aligned_cols=27 Identities=22% Similarity=0.711 Sum_probs=21.5
Q ss_pred CCCCccccccccccCCCCeeEEecCCceeC
Q 019783 295 CHGGETCAICLEDYQDGEKLKVLSCKHATC 324 (336)
Q Consensus 295 ~~~~~~CaICLe~f~~gd~vr~LpC~H~F~ 324 (336)
.+-.+.|.||+++.++ ...+||+|.-|
T Consensus 302 ~~~p~lcVVcl~e~~~---~~fvpcGh~cc 328 (355)
T KOG1571|consen 302 LPQPDLCVVCLDEPKS---AVFVPCGHVCC 328 (355)
T ss_pred cCCCCceEEecCCccc---eeeecCCcEEE
Confidence 3345789999999877 67799999863
No 96
>PRK11200 grxA glutaredoxin 1; Provisional
Probab=39.04 E-value=64 Score=24.12 Aligned_cols=57 Identities=14% Similarity=0.097 Sum_probs=34.4
Q ss_pred eEEEEEccCCChHHHHHHHHHc-----CCcEEEEeccCCC----CceeecccCCCcceeeEEEEeee
Q 019783 149 NFVLIVRGQCIFEDKIRNAQAA-----GYRAAIVYNDREK----GSLVSMTASHEGVKVHAIFVSLE 206 (336)
Q Consensus 149 ~IvLV~RG~CsF~~Kv~~Aq~a-----GA~avII~n~~~~----~~l~~m~~~~~~i~IP~v~I~~~ 206 (336)
+|.+..+-+|.+-.|++..-+. ........|-... +.+..+.+. .-.++|.++|...
T Consensus 2 ~v~iy~~~~C~~C~~a~~~L~~l~~~~~~i~~~~idi~~~~~~~~el~~~~~~-~~~~vP~ifi~g~ 67 (85)
T PRK11200 2 FVVIFGRPGCPYCVRAKELAEKLSEERDDFDYRYVDIHAEGISKADLEKTVGK-PVETVPQIFVDQK 67 (85)
T ss_pred EEEEEeCCCChhHHHHHHHHHhhcccccCCcEEEEECCCChHHHHHHHHHHCC-CCCcCCEEEECCE
Confidence 5778889999999999998765 3333444443321 122222221 1147899998643
No 97
>PRK10638 glutaredoxin 3; Provisional
Probab=38.48 E-value=43 Score=25.02 Aligned_cols=56 Identities=14% Similarity=0.203 Sum_probs=34.7
Q ss_pred eEEEEEccCCChHHHHHHHHH-cCCcEEEEeccCCCCce-eecccCCCcceeeEEEEee
Q 019783 149 NFVLIVRGQCIFEDKIRNAQA-AGYRAAIVYNDREKGSL-VSMTASHEGVKVHAIFVSL 205 (336)
Q Consensus 149 ~IvLV~RG~CsF~~Kv~~Aq~-aGA~avII~n~~~~~~l-~~m~~~~~~i~IP~v~I~~ 205 (336)
+|.|..+-.|.|..|++.+-+ +|....++ |-+..... ..+.......++|++++..
T Consensus 3 ~v~ly~~~~Cp~C~~a~~~L~~~gi~y~~~-dv~~~~~~~~~l~~~~g~~~vP~i~~~g 60 (83)
T PRK10638 3 NVEIYTKATCPFCHRAKALLNSKGVSFQEI-PIDGDAAKREEMIKRSGRTTVPQIFIDA 60 (83)
T ss_pred cEEEEECCCChhHHHHHHHHHHcCCCcEEE-ECCCCHHHHHHHHHHhCCCCcCEEEECC
Confidence 577888899999999998765 67776654 33221111 1111112335789998864
No 98
>COG0695 GrxC Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]
Probab=36.82 E-value=67 Score=24.19 Aligned_cols=57 Identities=12% Similarity=0.174 Sum_probs=37.7
Q ss_pred EEEEEccCCChHHHHHHHHH-cCCcEEEEeccCCCC-ceeecccCC-CcceeeEEEEeee
Q 019783 150 FVLIVRGQCIFEDKIRNAQA-AGYRAAIVYNDREKG-SLVSMTASH-EGVKVHAIFVSLE 206 (336)
Q Consensus 150 IvLV~RG~CsF~~Kv~~Aq~-aGA~avII~n~~~~~-~l~~m~~~~-~~i~IP~v~I~~~ 206 (336)
|.+..+-+|.|-.|++++.. .|.....|..+.... ....|.... ...++|.++|...
T Consensus 3 v~iyt~~~CPyC~~ak~~L~~~g~~~~~i~~~~~~~~~~~~~~~~~~g~~tvP~I~i~~~ 62 (80)
T COG0695 3 VTIYTKPGCPYCKRAKRLLDRKGVDYEEIDVDDDEPEEAREMVKRGKGQRTVPQIFIGGK 62 (80)
T ss_pred EEEEECCCCchHHHHHHHHHHcCCCcEEEEecCCcHHHHHHHHHHhCCCCCcCEEEECCE
Confidence 45566667999999999765 688777765554321 222333333 4568999999873
No 99
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=36.18 E-value=19 Score=23.20 Aligned_cols=25 Identities=24% Similarity=0.603 Sum_probs=16.9
Q ss_pred cccccccccCCCCe--------eEEecCCceeCC
Q 019783 300 TCAICLEDYQDGEK--------LKVLSCKHATCR 325 (336)
Q Consensus 300 ~CaICLe~f~~gd~--------vr~LpC~H~F~H 325 (336)
+|.=|-..|.-.|. |+--.|+|.| +
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f-~ 36 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVF-F 36 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEe-C
Confidence 57788888866543 4444478988 5
No 100
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=34.72 E-value=14 Score=35.51 Aligned_cols=24 Identities=25% Similarity=0.534 Sum_probs=16.7
Q ss_pred CccccccccccCCCCeeEEecCCcee
Q 019783 298 GETCAICLEDYQDGEKLKVLSCKHAT 323 (336)
Q Consensus 298 ~~~CaICLe~f~~gd~vr~LpC~H~F 323 (336)
...|.-| ||--.=.-|.+||+|+|
T Consensus 90 VHfCd~C--d~PI~IYGRmIPCkHvF 113 (389)
T KOG2932|consen 90 VHFCDRC--DFPIAIYGRMIPCKHVF 113 (389)
T ss_pred eEeeccc--CCcceeeecccccchhh
Confidence 4567666 44444456899999999
No 101
>smart00746 TRASH metallochaperone-like domain.
Probab=32.46 E-value=48 Score=19.34 Aligned_cols=35 Identities=20% Similarity=0.320 Sum_probs=20.1
Q ss_pred ccccccccC-CCCeeE-Eec-CCceeCChhhHHHhhhc
Q 019783 301 CAICLEDYQ-DGEKLK-VLS-CKHATCRVSCKLRGLMA 335 (336)
Q Consensus 301 CaICLe~f~-~gd~vr-~Lp-C~H~F~H~~CId~WL~~ 335 (336)
|++|-.... .+.... ... -.+.||+.+|.+.+..+
T Consensus 1 c~~C~~~~~~~~~~~~~~~~g~~~~FCs~~c~~~~~~~ 38 (39)
T smart00746 1 CSFCGKDIYNPGTGIMVVNDGKVFYFCSSKCLSKFKKK 38 (39)
T ss_pred CCCCCCCccCCCCceEEEECCEEEEEeCHHHHHHHHhc
Confidence 666666655 222111 122 44567788999887654
No 102
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=31.37 E-value=61 Score=24.80 Aligned_cols=58 Identities=17% Similarity=0.266 Sum_probs=34.3
Q ss_pred CeEEEEEcc-----CCChHHHHHHHHH-cCCcEEEEeccCCCCceee-cccCCCcceeeEEEEeee
Q 019783 148 INFVLIVRG-----QCIFEDKIRNAQA-AGYRAAIVYNDREKGSLVS-MTASHEGVKVHAIFVSLE 206 (336)
Q Consensus 148 ~~IvLV~RG-----~CsF~~Kv~~Aq~-aGA~avII~n~~~~~~l~~-m~~~~~~i~IP~v~I~~~ 206 (336)
++|++...| .|.|-.|++..-+ .|...-. +|-..+..... +.......++|.+||...
T Consensus 8 ~~vvvf~k~~~~~~~Cp~C~~ak~~L~~~~i~y~~-idv~~~~~~~~~l~~~~g~~tvP~vfi~g~ 72 (90)
T cd03028 8 NPVVLFMKGTPEEPRCGFSRKVVQILNQLGVDFGT-FDILEDEEVRQGLKEYSNWPTFPQLYVNGE 72 (90)
T ss_pred CCEEEEEcCCCCCCCCcHHHHHHHHHHHcCCCeEE-EEcCCCHHHHHHHHHHhCCCCCCEEEECCE
Confidence 677888776 8999999988664 5765444 34322111111 111123358899999754
No 103
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=31.03 E-value=13 Score=33.57 Aligned_cols=29 Identities=31% Similarity=0.660 Sum_probs=21.5
Q ss_pred CccccccccccCCCCeeEEecCCceeCChhhHH
Q 019783 298 GETCAICLEDYQDGEKLKVLSCKHATCRVSCKL 330 (336)
Q Consensus 298 ~~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId 330 (336)
.-.|-||-++|+.- .+.-|+|.| -..|--
T Consensus 196 PF~C~iCKkdy~sp---vvt~CGH~F-C~~Cai 224 (259)
T COG5152 196 PFLCGICKKDYESP---VVTECGHSF-CSLCAI 224 (259)
T ss_pred ceeehhchhhccch---hhhhcchhH-HHHHHH
Confidence 35899999999762 345599999 666653
No 104
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=30.95 E-value=32 Score=35.91 Aligned_cols=34 Identities=15% Similarity=0.360 Sum_probs=24.1
Q ss_pred CCCccccccccccCC-----------CCeeEEecCCceeCChhhHHH
Q 019783 296 HGGETCAICLEDYQD-----------GEKLKVLSCKHATCRVSCKLR 331 (336)
Q Consensus 296 ~~~~~CaICLe~f~~-----------gd~vr~LpC~H~F~H~~CId~ 331 (336)
.....|+||-|+|++ .|-|.+- =+-+| |..|++.
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le-~G~if-H~~Cl~e 555 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLE-FGRIF-HSKCLSE 555 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeec-cCcee-eccccch
Confidence 456789999999965 2234433 45789 9999864
No 105
>KOG3858 consensus Ephrin, ligand for Eph receptor tyrosine kinase [Signal transduction mechanisms]
Probab=30.89 E-value=26 Score=32.41 Aligned_cols=9 Identities=89% Similarity=1.505 Sum_probs=7.3
Q ss_pred eEEEecCCc
Q 019783 4 YYYISTSRG 12 (336)
Q Consensus 4 ~~~~~~~~~ 12 (336)
|||||||-|
T Consensus 127 YY~IStStg 135 (233)
T KOG3858|consen 127 YYYISTSTG 135 (233)
T ss_pred EEEEeCCCc
Confidence 888888876
No 106
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=29.77 E-value=19 Score=34.14 Aligned_cols=34 Identities=26% Similarity=0.322 Sum_probs=27.8
Q ss_pred CccccccccccCCCC-eeEEecCCceeCChhhHHHh
Q 019783 298 GETCAICLEDYQDGE-KLKVLSCKHATCRVSCKLRG 332 (336)
Q Consensus 298 ~~~CaICLe~f~~gd-~vr~LpC~H~F~H~~CId~W 332 (336)
...|+||.|..-++. .+..++|+|.= |..|...-
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~-h~~cf~e~ 192 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYM-HSRCFEEM 192 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccch-HHHHHHHH
Confidence 344999999988885 67889999999 98887653
No 107
>PF04202 Mfp-3: Foot protein 3; InterPro: IPR007328 Mytilus foot protein-3 (Mfp-3) is a highly polymorphic protein family located in the byssal adhesive plaques of blue mussels.
Probab=29.19 E-value=29 Score=25.66 Aligned_cols=14 Identities=43% Similarity=1.059 Sum_probs=7.0
Q ss_pred Cccccccccccccc
Q 019783 11 RGWGWGWGWRWGWG 24 (336)
Q Consensus 11 ~~~~~~~~~~~~~~ 24 (336)
|++||--||-=||+
T Consensus 51 ~~YG~nkGwn~Gw~ 64 (71)
T PF04202_consen 51 RRYGGNKGWNNGWK 64 (71)
T ss_pred cccCcccccccccc
Confidence 45555555554543
No 108
>PRK10824 glutaredoxin-4; Provisional
Probab=28.94 E-value=59 Score=26.66 Aligned_cols=67 Identities=19% Similarity=0.209 Sum_probs=39.0
Q ss_pred CeEEEEEcc-----CCChHHHHHHHH-HcCCcEEEEeccCCCCceee-cccCCCcceeeEEEEeeec--c-cchhccc
Q 019783 148 INFVLIVRG-----QCIFEDKIRNAQ-AAGYRAAIVYNDREKGSLVS-MTASHEGVKVHAIFVSLET--G-VYLKEHA 215 (336)
Q Consensus 148 ~~IvLV~RG-----~CsF~~Kv~~Aq-~aGA~avII~n~~~~~~l~~-m~~~~~~i~IP~v~I~~~~--G-~~L~~~l 215 (336)
++|++...| .|.|..+++..- +.|...-. +|-..+..... |..-...-++|.+||..+- | +.|.++.
T Consensus 15 ~~Vvvf~Kg~~~~p~Cpyc~~ak~lL~~~~i~~~~-idi~~d~~~~~~l~~~sg~~TVPQIFI~G~~IGG~ddl~~l~ 91 (115)
T PRK10824 15 NPILLYMKGSPKLPSCGFSAQAVQALSACGERFAY-VDILQNPDIRAELPKYANWPTFPQLWVDGELVGGCDIVIEMY 91 (115)
T ss_pred CCEEEEECCCCCCCCCchHHHHHHHHHHcCCCceE-EEecCCHHHHHHHHHHhCCCCCCeEEECCEEEcChHHHHHHH
Confidence 788998888 899999998865 46755432 23221111111 1111233589999998764 2 3444443
No 109
>cd02066 GRX_family Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH - GSH reductase - GSH - GRX - protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known including human GRX1 and GRX2, as well as E. coli GRX1 and GRX3, which
Probab=28.62 E-value=76 Score=21.82 Aligned_cols=55 Identities=16% Similarity=0.247 Sum_probs=31.0
Q ss_pred eEEEEEccCCChHHHHHHHHH-cCCcEEEEeccCCCCcee-ecccCCCcceeeEEEEe
Q 019783 149 NFVLIVRGQCIFEDKIRNAQA-AGYRAAIVYNDREKGSLV-SMTASHEGVKVHAIFVS 204 (336)
Q Consensus 149 ~IvLV~RG~CsF~~Kv~~Aq~-aGA~avII~n~~~~~~l~-~m~~~~~~i~IP~v~I~ 204 (336)
+|+|..+.+|.+-.|++.+-+ .|. .....|-....... .+..-....++|++++.
T Consensus 1 ~v~ly~~~~Cp~C~~~~~~L~~~~i-~~~~~di~~~~~~~~~l~~~~~~~~~P~~~~~ 57 (72)
T cd02066 1 KVVVFSKSTCPYCKRAKRLLESLGI-EFEEIDILEDGELREELKELSGWPTVPQIFIN 57 (72)
T ss_pred CEEEEECCCCHHHHHHHHHHHHcCC-cEEEEECCCCHHHHHHHHHHhCCCCcCEEEEC
Confidence 366777888999999998665 453 33444443222111 11111123578888774
No 110
>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=28.40 E-value=45 Score=20.48 Aligned_cols=27 Identities=22% Similarity=0.330 Sum_probs=17.6
Q ss_pred ccccccccCCCCeeEEecCCceeCChhhH
Q 019783 301 CAICLEDYQDGEKLKVLSCKHATCRVSCK 329 (336)
Q Consensus 301 CaICLe~f~~gd~vr~LpC~H~F~H~~CI 329 (336)
|+.|-+...+++.... .=+..| |.+|.
T Consensus 2 C~~C~~~i~~~~~~~~-~~~~~~-H~~Cf 28 (39)
T smart00132 2 CAGCGKPIRGGELVLR-ALGKVW-HPECF 28 (39)
T ss_pred ccccCCcccCCcEEEE-eCCccc-cccCC
Confidence 7788887777633322 236788 88875
No 111
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=28.16 E-value=7.7 Score=37.88 Aligned_cols=36 Identities=22% Similarity=0.394 Sum_probs=26.5
Q ss_pred CCCCccccccccccCCCCeeEEec-CCceeCChhhHHHhhh
Q 019783 295 CHGGETCAICLEDYQDGEKLKVLS-CKHATCRVSCKLRGLM 334 (336)
Q Consensus 295 ~~~~~~CaICLe~f~~gd~vr~Lp-C~H~F~H~~CId~WL~ 334 (336)
...+-.|.|||+=.+. -+..+ |.|.| -.+||..=|.
T Consensus 40 ~~~~v~c~icl~llk~---tmttkeClhrf-c~~ci~~a~r 76 (381)
T KOG0311|consen 40 FDIQVICPICLSLLKK---TMTTKECLHRF-CFDCIWKALR 76 (381)
T ss_pred hhhhhccHHHHHHHHh---hcccHHHHHHH-HHHHHHHHHH
Confidence 3457799999987644 34455 99999 8999986543
No 112
>PF15435 UNC119_bdg: UNC119-binding protein C5orf30 homologue
Probab=27.91 E-value=21 Score=30.89 Aligned_cols=31 Identities=29% Similarity=0.393 Sum_probs=23.4
Q ss_pred cccCCCCcccccCcchhhhhcccchhhHHHH
Q 019783 42 EALDAPFCSSEICSNSQRAEGAKQESKMREK 72 (336)
Q Consensus 42 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 72 (336)
-.-+.|-|||.+||+-++-+.--|+=-|.+-
T Consensus 25 ~eaekPRCsSTPCSPir~tVsGYQILHMdsN 55 (197)
T PF15435_consen 25 PEAEKPRCSSTPCSPIRRTVSGYQILHMDSN 55 (197)
T ss_pred CccCCCCcCCCCCchhhccccceEEEeeccc
Confidence 3457799999999999988776666555543
No 113
>cd03418 GRX_GRXb_1_3_like Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH - GSH reductase - GSH - GRX - protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known i
Probab=27.54 E-value=76 Score=22.71 Aligned_cols=57 Identities=14% Similarity=0.126 Sum_probs=32.4
Q ss_pred eEEEEEccCCChHHHHHHHHH-cCCcEEEEeccCCCCce-eeccc-CCCcceeeEEEEeee
Q 019783 149 NFVLIVRGQCIFEDKIRNAQA-AGYRAAIVYNDREKGSL-VSMTA-SHEGVKVHAIFVSLE 206 (336)
Q Consensus 149 ~IvLV~RG~CsF~~Kv~~Aq~-aGA~avII~n~~~~~~l-~~m~~-~~~~i~IP~v~I~~~ 206 (336)
+|.|..+-.|.+-.+++.+-+ .|-.. -.+|-+...+. ..+.. .+....+|+++|...
T Consensus 1 ~i~ly~~~~Cp~C~~ak~~L~~~~i~~-~~i~i~~~~~~~~~~~~~~~~~~~vP~v~i~g~ 60 (75)
T cd03418 1 KVEIYTKPNCPYCVRAKALLDKKGVDY-EEIDVDGDPALREEMINRSGGRRTVPQIFIGDV 60 (75)
T ss_pred CEEEEeCCCChHHHHHHHHHHHCCCcE-EEEECCCCHHHHHHHHHHhCCCCccCEEEECCE
Confidence 467777888999999999655 55443 34443321111 11111 112237899998753
No 114
>TIGR00365 monothiol glutaredoxin, Grx4 family. The gene for the member of this glutaredoxin family in E. coli, originally designated ydhD, is now designated grxD. Its protein, Grx4, is a monothiol glutaredoxin similar to Grx5 of yeast, which is involved in iron-sulfur cluster formation.
Probab=27.43 E-value=81 Score=24.63 Aligned_cols=58 Identities=22% Similarity=0.262 Sum_probs=35.2
Q ss_pred CeEEEEEcc-----CCChHHHHHHHH-HcCCcEEEEeccCCCCcee-ecccCCCcceeeEEEEeee
Q 019783 148 INFVLIVRG-----QCIFEDKIRNAQ-AAGYRAAIVYNDREKGSLV-SMTASHEGVKVHAIFVSLE 206 (336)
Q Consensus 148 ~~IvLV~RG-----~CsF~~Kv~~Aq-~aGA~avII~n~~~~~~l~-~m~~~~~~i~IP~v~I~~~ 206 (336)
++|++..+| .|.|-.|++..- +.|...-. +|-....... .+..-...-++|.+||..+
T Consensus 12 ~~Vvvf~kg~~~~~~Cp~C~~ak~lL~~~~i~~~~-~di~~~~~~~~~l~~~tg~~tvP~vfi~g~ 76 (97)
T TIGR00365 12 NPVVLYMKGTPQFPQCGFSARAVQILKACGVPFAY-VNVLEDPEIRQGIKEYSNWPTIPQLYVKGE 76 (97)
T ss_pred CCEEEEEccCCCCCCCchHHHHHHHHHHcCCCEEE-EECCCCHHHHHHHHHHhCCCCCCEEEECCE
Confidence 788888875 699999999865 46876543 4432211111 1111112348999999865
No 115
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=27.04 E-value=38 Score=36.38 Aligned_cols=34 Identities=18% Similarity=0.201 Sum_probs=22.7
Q ss_pred cccccccccCCCCeeEEec-CCceeCChhhHHHhhhcC
Q 019783 300 TCAICLEDYQDGEKLKVLS-CKHATCRVSCKLRGLMAD 336 (336)
Q Consensus 300 ~CaICLe~f~~gd~vr~Lp-C~H~F~H~~CId~WL~~~ 336 (336)
.|++|-.-. .| ..-.-+ |+|.= |.+|+.+|+.++
T Consensus 781 ~CtVC~~vi-~G-~~~~c~~C~H~g-H~sh~~sw~~~~ 815 (839)
T KOG0269|consen 781 KCTVCDLVI-RG-VDVWCQVCGHGG-HDSHLKSWFFKA 815 (839)
T ss_pred Cceeeccee-ee-eEeecccccccc-cHHHHHHHHhcC
Confidence 788883321 11 112233 89999 999999999764
No 116
>TIGR02194 GlrX_NrdH Glutaredoxin-like protein NrdH. NrdH-redoxin is a representative of a class of small redox proteins that contain a conserved CXXC motif and are characterized by a glutaredoxin-like amino acid sequence and thioredoxin-like activity profile. Unlike other the glutaredoxins to which it is most closely related, NrdH aparrently does not interact with glutathione/glutathione reductase, but rather with thioredoxin reductase to catalyze the reduction of ribonucleotide reductase.
Probab=26.42 E-value=78 Score=22.86 Aligned_cols=53 Identities=13% Similarity=0.144 Sum_probs=29.7
Q ss_pred EEEEccCCChHHHHHHHHH-cCCcEEEEeccCCCCceeecccCCCcceeeEEEEe
Q 019783 151 VLIVRGQCIFEDKIRNAQA-AGYRAAIVYNDREKGSLVSMTASHEGVKVHAIFVS 204 (336)
Q Consensus 151 vLV~RG~CsF~~Kv~~Aq~-aGA~avII~n~~~~~~l~~m~~~~~~i~IP~v~I~ 204 (336)
.|..+-+|.+-.|++.+-+ .|...-. .|-.................+|++++.
T Consensus 2 ~ly~~~~Cp~C~~ak~~L~~~~i~~~~-~di~~~~~~~~~~~~~g~~~vP~v~~~ 55 (72)
T TIGR02194 2 TVYSKNNCVQCKMTKKALEEHGIAFEE-INIDEQPEAIDYVKAQGFRQVPVIVAD 55 (72)
T ss_pred EEEeCCCCHHHHHHHHHHHHCCCceEE-EECCCCHHHHHHHHHcCCcccCEEEEC
Confidence 4566778999999999654 5655444 343321111111111123478998885
No 117
>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins. Their function is unknown.
Probab=25.21 E-value=24 Score=30.87 Aligned_cols=15 Identities=27% Similarity=0.319 Sum_probs=6.1
Q ss_pred HHHHHHhhhhhhccC
Q 019783 243 LIVVFALFAVAFITP 257 (336)
Q Consensus 243 lllI~~vvl~~~~~~ 257 (336)
++.+..+++.+|+++
T Consensus 101 l~g~s~l~i~yfvir 115 (163)
T PF06679_consen 101 LVGLSALAILYFVIR 115 (163)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333334444444443
No 118
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.20 E-value=31 Score=37.49 Aligned_cols=29 Identities=17% Similarity=0.424 Sum_probs=18.6
Q ss_pred ccccccccccCCCCeeEEecCCceeCChhhHH
Q 019783 299 ETCAICLEDYQDGEKLKVLSCKHATCRVSCKL 330 (336)
Q Consensus 299 ~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId 330 (336)
..|..|--... =-.....|+|.| |..|+.
T Consensus 841 skCs~C~~~Ld--lP~VhF~CgHsy-HqhC~e 869 (933)
T KOG2114|consen 841 SKCSACEGTLD--LPFVHFLCGHSY-HQHCLE 869 (933)
T ss_pred eeecccCCccc--cceeeeecccHH-HHHhhc
Confidence 57888844321 122334499999 999986
No 119
>TIGR02189 GlrX-like_plant Glutaredoxin-like family. This family of glutaredoxin-like proteins is aparrently limited to plants. Multiple isoforms are found in A. thaliana and O.sativa.
Probab=25.17 E-value=1e+02 Score=24.11 Aligned_cols=59 Identities=15% Similarity=0.233 Sum_probs=35.6
Q ss_pred CeEEEEEccCCChHHHHHHHHH-cCCcEEE-EeccCCC-Cceee-cccCCCcceeeEEEEeee
Q 019783 148 INFVLIVRGQCIFEDKIRNAQA-AGYRAAI-VYNDREK-GSLVS-MTASHEGVKVHAIFVSLE 206 (336)
Q Consensus 148 ~~IvLV~RG~CsF~~Kv~~Aq~-aGA~avI-I~n~~~~-~~l~~-m~~~~~~i~IP~v~I~~~ 206 (336)
++|++..+-.|.|-.+++...+ .|...-+ =.+.++. ..... +..-...-++|.+||..+
T Consensus 8 ~~Vvvysk~~Cp~C~~ak~~L~~~~i~~~~vdid~~~~~~~~~~~l~~~tg~~tvP~Vfi~g~ 70 (99)
T TIGR02189 8 KAVVIFSRSSCCMCHVVKRLLLTLGVNPAVHEIDKEPAGKDIENALSRLGCSPAVPAVFVGGK 70 (99)
T ss_pred CCEEEEECCCCHHHHHHHHHHHHcCCCCEEEEcCCCccHHHHHHHHHHhcCCCCcCeEEECCE
Confidence 7899999999999999999765 5654432 2222211 11111 111122358999999864
No 120
>TIGR01477 RIFIN variant surface antigen, rifin family. This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.
Probab=24.96 E-value=15 Score=35.96 Aligned_cols=25 Identities=8% Similarity=0.472 Sum_probs=17.2
Q ss_pred eEeeehhHHHHHHhhhhhhccCCCC
Q 019783 236 LMVSVFSLIVVFALFAVAFITPRPW 260 (336)
Q Consensus 236 liIsfi~lllI~~vvl~~~~~~~~~ 260 (336)
++.+++++++|+++++++|++.|.+
T Consensus 312 IiaSiIAIvvIVLIMvIIYLILRYR 336 (353)
T TIGR01477 312 IIASIIAILIIVLIMVIIYLILRYR 336 (353)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3556677777888877777765554
No 121
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=24.92 E-value=48 Score=32.20 Aligned_cols=42 Identities=19% Similarity=0.437 Sum_probs=31.9
Q ss_pred CCeeeeccCCCCCCCCCccccccccccCCCCeeEEecCCcee
Q 019783 282 LPCFLFSSASSSQCHGGETCAICLEDYQDGEKLKVLSCKHAT 323 (336)
Q Consensus 282 lp~~~y~~~~~~~~~~~~~CaICLe~f~~gd~vr~LpC~H~F 323 (336)
+|-..|.+....+...+..|-.|.++-+.+...+-=.|+|.|
T Consensus 314 ~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~~Ck~~F 355 (378)
T KOG2807|consen 314 FPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCESCKNVF 355 (378)
T ss_pred cCCcchhhccccccCCCcceeeeccccCCCCcEEchhcccee
Confidence 455566665555555667799998888888888877799999
No 122
>PTZ00046 rifin; Provisional
Probab=24.43 E-value=16 Score=35.91 Aligned_cols=25 Identities=12% Similarity=0.468 Sum_probs=17.2
Q ss_pred eEeeehhHHHHHHhhhhhhccCCCC
Q 019783 236 LMVSVFSLIVVFALFAVAFITPRPW 260 (336)
Q Consensus 236 liIsfi~lllI~~vvl~~~~~~~~~ 260 (336)
++.+++++++|+++++++|++.|.+
T Consensus 317 IiaSiiAIvVIVLIMvIIYLILRYR 341 (358)
T PTZ00046 317 IIASIVAIVVIVLIMVIIYLILRYR 341 (358)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3556677777888877777775554
No 123
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=23.88 E-value=17 Score=34.91 Aligned_cols=25 Identities=8% Similarity=0.472 Sum_probs=16.3
Q ss_pred eEeeehhHHHHHHhhhhhhccCCCC
Q 019783 236 LMVSVFSLIVVFALFAVAFITPRPW 260 (336)
Q Consensus 236 liIsfi~lllI~~vvl~~~~~~~~~ 260 (336)
++.+++++++|+++++++|++.|.+
T Consensus 258 I~aSiiaIliIVLIMvIIYLILRYR 282 (299)
T PF02009_consen 258 IIASIIAILIIVLIMVIIYLILRYR 282 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455667777777777777765543
No 124
>PF01680 SOR_SNZ: SOR/SNZ family; InterPro: IPR001852 Snz1p is a highly conserved protein involved in growth arrest in Saccharomyces cerevisiae (Baker's yeast) []. Sor1 (singlet oxygen resistance) is essential in pyridoxine (vitamin B6) synthesis in Cercospora nicotianae and Aspergillus flavus. Pyridoxine quenches singlet oxygen at a rate comparable to that of vitamins C and E, two of the most highly efficient biological antioxidants, suggesting a previously unknown role for pyridoxine in active oxygen resistance [].; GO: 0042823 pyridoxal phosphate biosynthetic process; PDB: 2ISS_A 1ZNN_B 2ZBT_B 2NV2_I 2NV1_C 4ADS_C 4ADU_B 4ADT_B 3FEM_F 3O07_A ....
Probab=23.64 E-value=34 Score=30.58 Aligned_cols=44 Identities=16% Similarity=0.288 Sum_probs=24.8
Q ss_pred CChHHHHHHHHHcCCcEEEEeccCCC-----CceeecccCC------CcceeeEE
Q 019783 158 CIFEDKIRNAQAAGYRAAIVYNDREK-----GSLVSMTASH------EGVKVHAI 201 (336)
Q Consensus 158 CsF~~Kv~~Aq~aGA~avII~n~~~~-----~~l~~m~~~~------~~i~IP~v 201 (336)
-+-.++++-|+++||.||......+. +...-|.+.. +.++||++
T Consensus 21 V~n~eQAkIAE~AGA~AVMaLervPadiR~~GGVaRMsDP~~I~eI~~aVsIPVM 75 (208)
T PF01680_consen 21 VTNAEQAKIAEEAGAVAVMALERVPADIRAAGGVARMSDPKMIKEIMDAVSIPVM 75 (208)
T ss_dssp ESSHHHHHHHHHHT-SEEEE-SS-HHHHHHTTS---S--HHHHHHHHHH-SSEEE
T ss_pred ecCHHHHHHHHHhCCeEEEEeccCCHhHHhcCCccccCCHHHHHHHHHheEecee
Confidence 35578999999999999998776431 2333344321 34799964
No 125
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.01 E-value=26 Score=34.87 Aligned_cols=35 Identities=26% Similarity=0.574 Sum_probs=25.9
Q ss_pred CCccccccccccCCC-CeeEEecCCceeCChhhHHHh
Q 019783 297 GGETCAICLEDYQDG-EKLKVLSCKHATCRVSCKLRG 332 (336)
Q Consensus 297 ~~~~CaICLe~f~~g-d~vr~LpC~H~F~H~~CId~W 332 (336)
...+|.||..++... +...++.|.|.| =.+|+..-
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~f-C~~C~k~~ 180 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRF-CKDCVKQH 180 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchh-hhHHhHHH
Confidence 367899999666665 566677799999 66776543
No 126
>cd04727 pdxS PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some metazoa. Together with PdxT, PdxS forms the PLP synthase, a heteromeric glutamine amidotransferase (GATase), whereby PdxT produces ammonia from glutamine and PdxS combines ammonia with five- and three-carbon phosphosugars to form PLP. PLP is the biologically active form of vitamin B6, an essential cofactor in many biochemical processes. PdxS subunits form two hexameric rings.
Probab=22.68 E-value=79 Score=30.16 Aligned_cols=51 Identities=16% Similarity=0.175 Sum_probs=35.3
Q ss_pred CChHHHHHHHHHcCCcEEEEeccCCC-----CceeecccCC------CcceeeEEEEeeecc
Q 019783 158 CIFEDKIRNAQAAGYRAAIVYNDREK-----GSLVSMTASH------EGVKVHAIFVSLETG 208 (336)
Q Consensus 158 CsF~~Kv~~Aq~aGA~avII~n~~~~-----~~l~~m~~~~------~~i~IP~v~I~~~~G 208 (336)
-+-.++++-|+++||.+|++.+..+. +...-|.+.. +.++||++.+-+.+.
T Consensus 15 v~~~~qa~~ae~aga~~v~~~~~~~~~~~~~~~v~R~~~~~~I~~Ik~~V~iPVIGi~K~~~ 76 (283)
T cd04727 15 VTNAEQARIAEEAGAVAVMALERVPADIRAAGGVARMADPKMIKEIMDAVSIPVMAKVRIGH 76 (283)
T ss_pred eCCHHHHHHHHHcCceEEeeeccCchhhhhcCCeeecCCHHHHHHHHHhCCCCeEEeeehhH
Confidence 45678999999999999999776542 1222222211 347999999988764
No 127
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=22.33 E-value=67 Score=25.45 Aligned_cols=12 Identities=17% Similarity=0.238 Sum_probs=4.8
Q ss_pred HHHHHHHHHHhh
Q 019783 78 LIIYLNLCFVVS 89 (336)
Q Consensus 78 ~l~l~~l~~~~~ 89 (336)
.++|++++++.+
T Consensus 10 ~l~LA~lLlisS 21 (95)
T PF07172_consen 10 GLLLAALLLISS 21 (95)
T ss_pred HHHHHHHHHHHh
Confidence 333434444433
No 128
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=22.26 E-value=78 Score=25.97 Aligned_cols=14 Identities=14% Similarity=0.370 Sum_probs=10.7
Q ss_pred CccccccccccCCC
Q 019783 298 GETCAICLEDYQDG 311 (336)
Q Consensus 298 ~~~CaICLe~f~~g 311 (336)
...|.-|+..|.+.
T Consensus 55 ~~~C~~C~~~f~~~ 68 (112)
T TIGR00622 55 SRFCFGCQGPFPKP 68 (112)
T ss_pred CCcccCcCCCCCCc
Confidence 45699999988753
No 129
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=22.18 E-value=39 Score=36.44 Aligned_cols=34 Identities=26% Similarity=0.431 Sum_probs=23.0
Q ss_pred cccccccccCC---------CCeeEEecCCceeCChhhHHHhhh
Q 019783 300 TCAICLEDYQD---------GEKLKVLSCKHATCRVSCKLRGLM 334 (336)
Q Consensus 300 ~CaICLe~f~~---------gd~vr~LpC~H~F~H~~CId~WL~ 334 (336)
+|+||++-+-. |...-...|.|+- |.+|...|+.
T Consensus 1020 ~~~~~~~~~~~C~~C~l~V~gss~~Cg~C~Hv~-H~sc~~eWf~ 1062 (1081)
T KOG0309|consen 1020 QCAICKGFTFQCAICHLAVRGSSNFCGTCGHVG-HTSCMMEWFR 1062 (1081)
T ss_pred eccccccceeeeeeEeeEeeccchhhccccccc-cHHHHHHHHh
Confidence 56666554422 3333345589999 9999999985
No 130
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=22.16 E-value=1.9e+02 Score=21.25 Aligned_cols=34 Identities=24% Similarity=0.082 Sum_probs=26.7
Q ss_pred CeEEEEEccCCChHHHHHHHHHcCCcEEEEeccC
Q 019783 148 INFVLIVRGQCIFEDKIRNAQAAGYRAAIVYNDR 181 (336)
Q Consensus 148 ~~IvLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~ 181 (336)
|.-+.++-.+-++..|.+.|++.|+..+|+...+
T Consensus 28 g~~v~~d~~~~~~~~~~~~a~~~g~~~~iiig~~ 61 (91)
T cd00860 28 GIRVEVDLRNEKLGKKIREAQLQKIPYILVVGDK 61 (91)
T ss_pred CCEEEEECCCCCHHHHHHHHHHcCCCEEEEECcc
Confidence 4445554345699999999999999999999865
No 131
>COG4882 Predicted aminopeptidase, Iap family [General function prediction only]
Probab=21.98 E-value=2.6e+02 Score=27.91 Aligned_cols=65 Identities=18% Similarity=0.102 Sum_probs=42.3
Q ss_pred CeEEEEEccCCChHHH--HHHHHHcCCcEEEEeccCCCCceeeccc-----CCCcceeeEEEEeeecccchhc
Q 019783 148 INFVLIVRGQCIFEDK--IRNAQAAGYRAAIVYNDREKGSLVSMTA-----SHEGVKVHAIFVSLETGVYLKE 213 (336)
Q Consensus 148 ~~IvLV~RG~CsF~~K--v~~Aq~aGA~avII~n~~~~~~l~~m~~-----~~~~i~IP~v~I~~~~G~~L~~ 213 (336)
|.+++.+|-+--.+-| +..|.++||.|+|+-.+++.. .+...+ +...-.||++.+...++..++.
T Consensus 90 Gr~~Va~~pq~vdd~k~~~i~Aae~ga~a~~f~~~~~rr-iV~~Gd~gy~~~s~PtPIPva~v~en~~~y~~~ 161 (486)
T COG4882 90 GRVVVARAPQVVDDLKAAAILAAEAGAEALLFESRDPRR-IVTGGDWGYSVSSSPTPIPVAVVPENYSRYAEE 161 (486)
T ss_pred CeEEeeeccccHHHHHHHHHHHHHcCCeEEEEecCCcee-EEecccccccCCCCCCCcceEEeccCcchhhcc
Confidence 6777766654433333 345788999999998877532 222111 1244689999998888877663
No 132
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=21.70 E-value=75 Score=25.17 Aligned_cols=32 Identities=25% Similarity=0.495 Sum_probs=24.0
Q ss_pred CCccccccccccCCCCeeEEec--CCceeCChhhHHH
Q 019783 297 GGETCAICLEDYQDGEKLKVLS--CKHATCRVSCKLR 331 (336)
Q Consensus 297 ~~~~CaICLe~f~~gd~vr~Lp--C~H~F~H~~CId~ 331 (336)
....|.||-.. .|-.++--. |...| |..|...
T Consensus 54 ~~~~C~iC~~~--~G~~i~C~~~~C~~~f-H~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKS--GGACIKCSHPGCSTAF-HPTCARK 87 (110)
T ss_pred cCCcCcCCCCC--CceeEEcCCCCCCcCC-CHHHHHH
Confidence 35689999886 666665544 88899 9999764
No 133
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=21.00 E-value=56 Score=24.13 Aligned_cols=29 Identities=28% Similarity=0.595 Sum_probs=13.7
Q ss_pred cccccccccCCCCeeEEecCCceeCChhhHHH
Q 019783 300 TCAICLEDYQDGEKLKVLSCKHATCRVSCKLR 331 (336)
Q Consensus 300 ~CaICLe~f~~gd~vr~LpC~H~F~H~~CId~ 331 (336)
-|++|-+-++ +-|-.-.|.|.| =+.||..
T Consensus 9 rCs~C~~~l~--~pv~l~~CeH~f-Cs~Ci~~ 37 (65)
T PF14835_consen 9 RCSICFDILK--EPVCLGGCEHIF-CSSCIRD 37 (65)
T ss_dssp S-SSS-S--S--S-B---SSS--B--TTTGGG
T ss_pred CCcHHHHHhc--CCceeccCccHH-HHHHhHH
Confidence 5889987653 345555699999 8899875
No 134
>TIGR00343 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1. This protein had been believed to be a singlet oxygen resistance protein. Subsequent work showed that it is a protein of pyridoxine (vitamin B6) biosynthesis, and that pyridoxine quenches the highly toxic singlet form of oxygen produced by light in the presence of certain chemicals.
Probab=20.95 E-value=90 Score=29.83 Aligned_cols=51 Identities=14% Similarity=0.189 Sum_probs=35.1
Q ss_pred CChHHHHHHHHHcCCcEEEEeccCCC-----CceeecccCC------CcceeeEEEEeeecc
Q 019783 158 CIFEDKIRNAQAAGYRAAIVYNDREK-----GSLVSMTASH------EGVKVHAIFVSLETG 208 (336)
Q Consensus 158 CsF~~Kv~~Aq~aGA~avII~n~~~~-----~~l~~m~~~~------~~i~IP~v~I~~~~G 208 (336)
-+-.++++-|+++||.||......+. +...-|.+.. +.++||++-+-+.+.
T Consensus 17 v~~~eqa~iae~aga~avm~le~~p~d~r~~ggv~R~~~p~~I~~I~~~V~iPVig~~kigh 78 (287)
T TIGR00343 17 VVNPEQAKIAEEAGAVAVMALERVPADIRASGGVARMSDPKMIKEIMDAVSIPVMAKVRIGH 78 (287)
T ss_pred eCCHHHHHHHHHcCceEEEeeccCchhhHhcCCeeecCCHHHHHHHHHhCCCCEEEEeeccH
Confidence 35578999999999999998665542 2233333321 347999998887653
No 135
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=20.34 E-value=49 Score=23.97 Aligned_cols=25 Identities=32% Similarity=0.589 Sum_probs=20.0
Q ss_pred CccccccccccCCCCeeEEec-CCce
Q 019783 298 GETCAICLEDYQDGEKLKVLS-CKHA 322 (336)
Q Consensus 298 ~~~CaICLe~f~~gd~vr~Lp-C~H~ 322 (336)
.+-=-|-|||..+||.|.+.| |+-+
T Consensus 28 GDRFeIsLeDl~~GE~VArCPSCSLi 53 (67)
T COG5216 28 GDRFEISLEDLRNGEVVARCPSCSLI 53 (67)
T ss_pred CCEeEEEHHHhhCCceEEEcCCceEE
Confidence 334458899999999999999 8743
No 136
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=20.14 E-value=52 Score=31.39 Aligned_cols=51 Identities=22% Similarity=0.471 Sum_probs=36.1
Q ss_pred CCCHHHHhcCCeeeeccCCCCCCCCCccccccccccCCCCeeEEecCCceeCChhhHH
Q 019783 273 RLDSKVVEALPCFLFSSASSSQCHGGETCAICLEDYQDGEKLKVLSCKHATCRVSCKL 330 (336)
Q Consensus 273 ~l~~~~i~~lp~~~y~~~~~~~~~~~~~CaICLe~f~~gd~vr~LpC~H~F~H~~CId 330 (336)
.+..+.+..+.+...+ +.+...|.||+..-.+.|.+--=-|..-| |.-|+.
T Consensus 295 ~M~~elv~~~KTY~W~------C~~C~lC~IC~~P~~E~E~~FCD~CDRG~-HT~CVG 345 (381)
T KOG1512|consen 295 AMIPELVGQYKTYFWK------CSSCELCRICLGPVIESEHLFCDVCDRGP-HTLCVG 345 (381)
T ss_pred hcCHHHHhHHhhcchh------hcccHhhhccCCcccchheeccccccCCC-Cccccc
Confidence 3555666655555444 34578899999998887776655588888 888974
Done!