Query 005238
Match_columns 706
No_of_seqs 116 out of 139
Neff 4.3
Searched_HMMs 46136
Date Thu Mar 28 20:17:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005238.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005238hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd03572 ENTH_epsin_related ENT 100.0 3E-45 6.4E-50 340.0 12.9 121 12-133 1-121 (122)
2 PF01417 ENTH: ENTH domain; I 99.9 1E-25 2.2E-30 208.1 10.1 118 11-132 1-122 (125)
3 cd03571 ENTH_epsin ENTH domain 99.8 3.2E-20 7E-25 173.2 10.3 114 15-133 4-120 (123)
4 KOG2056 Equilibrative nucleosi 99.8 2.3E-18 4.9E-23 182.8 10.1 122 8-134 16-141 (336)
5 cd00197 VHS_ENTH_ANTH VHS, ENT 99.6 1.1E-14 2.5E-19 132.3 11.5 113 15-131 3-115 (115)
6 smart00273 ENTH Epsin N-termin 99.5 3.9E-14 8.5E-19 131.3 11.2 116 14-132 4-120 (127)
7 KOG2057 Predicted equilibrativ 99.3 2.2E-12 4.8E-17 136.1 9.0 130 2-134 12-146 (499)
8 cd03564 ANTH_AP180_CALM ANTH d 98.9 1.3E-08 2.9E-13 93.7 10.0 112 15-129 3-114 (117)
9 smart00288 VHS Domain present 98.2 1.3E-05 2.8E-10 75.9 10.3 109 15-131 3-111 (133)
10 cd03568 VHS_STAM VHS domain fa 98.0 4E-05 8.7E-10 73.9 10.5 108 15-131 3-110 (144)
11 PF01417 ENTH: ENTH domain; I 98.0 6E-05 1.3E-09 70.2 11.0 106 269-380 4-122 (125)
12 cd03561 VHS VHS domain family; 98.0 5.8E-05 1.3E-09 71.2 10.9 110 15-131 3-112 (133)
13 PF00790 VHS: VHS domain; Int 98.0 2.3E-05 5.1E-10 74.4 8.2 108 14-129 7-116 (140)
14 cd03567 VHS_GGA VHS domain fam 97.9 0.00012 2.6E-09 70.4 10.9 109 15-130 4-115 (139)
15 cd00197 VHS_ENTH_ANTH VHS, ENT 97.8 0.00055 1.2E-08 62.5 13.1 101 271-377 3-113 (115)
16 cd03571 ENTH_epsin ENTH domain 97.7 0.00058 1.3E-08 64.6 11.9 105 271-381 4-120 (123)
17 cd03569 VHS_Hrs_Vps27p VHS dom 97.7 0.00035 7.6E-09 67.2 10.5 108 15-131 7-114 (142)
18 cd03565 VHS_Tom1 VHS domain fa 97.5 0.00067 1.5E-08 65.2 10.2 109 15-130 4-114 (141)
19 PF07651 ANTH: ANTH domain; I 97.5 0.00031 6.8E-09 72.9 7.8 114 15-130 6-121 (280)
20 KOG2199 Signal transducing ada 97.3 0.0013 2.8E-08 72.5 10.9 112 15-134 11-124 (462)
21 KOG2056 Equilibrative nucleosi 97.2 0.0014 3E-08 71.3 9.3 96 285-384 36-143 (336)
22 KOG1087 Cytosolic sorting prot 96.8 0.0073 1.6E-07 68.5 10.8 109 14-131 3-112 (470)
23 KOG0251 Clathrin assembly prot 96.8 0.0068 1.5E-07 69.1 10.2 115 14-131 25-140 (491)
24 smart00273 ENTH Epsin N-termin 96.7 0.03 6.4E-07 52.3 12.2 105 269-380 4-120 (127)
25 cd03572 ENTH_epsin_related ENT 96.2 0.027 5.9E-07 53.5 8.9 86 289-379 23-119 (122)
26 cd03568 VHS_STAM VHS domain fa 95.9 0.065 1.4E-06 51.9 10.3 93 289-383 16-114 (144)
27 cd03561 VHS VHS domain family; 95.6 0.24 5.2E-06 46.9 12.6 110 271-384 3-117 (133)
28 PF00790 VHS: VHS domain; Int 95.6 0.1 2.2E-06 49.8 10.0 106 270-382 7-121 (140)
29 smart00288 VHS Domain present 95.4 0.34 7.5E-06 46.1 13.1 108 271-383 3-115 (133)
30 cd03567 VHS_GGA VHS domain fam 94.9 0.58 1.3E-05 45.3 12.9 107 271-382 4-119 (139)
31 cd03569 VHS_Hrs_Vps27p VHS dom 94.8 0.57 1.2E-05 45.3 12.7 110 271-384 7-119 (142)
32 cd03565 VHS_Tom1 VHS domain fa 93.9 0.59 1.3E-05 45.2 10.6 107 270-383 3-119 (141)
33 PF12348 CLASP_N: CLASP N term 90.3 1.4 3E-05 44.1 8.7 89 289-379 116-206 (228)
34 cd03562 CID CID (CTD-Interacti 89.7 2.7 5.9E-05 38.3 9.4 103 269-381 4-110 (114)
35 PF12755 Vac14_Fab1_bd: Vacuol 89.2 2.4 5.1E-05 38.7 8.5 72 303-378 25-96 (97)
36 PF12717 Cnd1: non-SMC mitotic 89.0 1.3 2.9E-05 43.6 7.3 82 36-132 12-93 (178)
37 PF12348 CLASP_N: CLASP N term 88.6 2 4.4E-05 42.9 8.4 71 50-131 130-206 (228)
38 KOG1818 Membrane trafficking a 87.3 2.1 4.6E-05 50.6 8.6 108 14-131 10-119 (634)
39 cd03564 ANTH_AP180_CALM ANTH d 86.8 4.6 9.9E-05 37.4 9.0 56 283-338 13-70 (117)
40 KOG1087 Cytosolic sorting prot 85.1 5 0.00011 46.2 10.0 107 270-383 3-116 (470)
41 KOG2374 Uncharacterized conser 81.0 14 0.00031 42.8 11.3 111 15-127 10-121 (661)
42 cd06224 REM Guanine nucleotide 80.8 3.4 7.4E-05 37.4 5.4 70 14-86 3-86 (122)
43 PF02985 HEAT: HEAT repeat; I 79.7 3.5 7.6E-05 29.6 4.1 29 306-334 1-29 (31)
44 KOG2374 Uncharacterized conser 78.7 17 0.00038 42.2 11.0 105 268-379 7-125 (661)
45 PF12830 Nipped-B_C: Sister ch 78.5 7.3 0.00016 39.0 7.4 60 315-382 18-77 (187)
46 PF13646 HEAT_2: HEAT repeats; 78.4 5 0.00011 33.8 5.4 59 307-379 1-60 (88)
47 PF11467 LEDGF: Lens epitheliu 76.7 7.7 0.00017 36.4 6.4 70 49-131 5-80 (106)
48 PF13513 HEAT_EZ: HEAT-like re 76.3 7.1 0.00015 30.8 5.3 55 319-377 1-55 (55)
49 smart00582 RPR domain present 75.8 14 0.0003 33.9 7.9 94 286-379 11-107 (121)
50 smart00229 RasGEFN Guanine nuc 74.6 12 0.00027 34.4 7.2 87 11-100 8-108 (127)
51 PF00618 RasGEF_N: RasGEF N-te 74.2 6.1 0.00013 35.2 5.0 74 14-90 8-96 (104)
52 PF13646 HEAT_2: HEAT repeats; 73.6 24 0.00053 29.6 8.3 73 288-374 14-87 (88)
53 PF12717 Cnd1: non-SMC mitotic 68.8 15 0.00033 36.2 6.8 71 304-381 24-94 (178)
54 PF08167 RIX1: rRNA processing 67.3 53 0.0012 32.3 10.2 93 272-379 4-97 (165)
55 PF14500 MMS19_N: Dos2-interac 66.4 27 0.00059 37.2 8.5 51 32-82 190-240 (262)
56 KOG0251 Clathrin assembly prot 65.7 15 0.00033 42.7 6.9 69 267-339 23-95 (491)
57 cd03562 CID CID (CTD-Interacti 64.3 39 0.00084 30.8 8.1 89 28-128 16-105 (114)
58 PRK09687 putative lyase; Provi 61.7 28 0.00062 37.2 7.7 74 290-381 12-85 (280)
59 PF07923 N1221: N1221-like pro 60.6 17 0.00037 39.0 5.9 53 49-101 59-117 (293)
60 PF12243 CTK3: CTD kinase subu 60.0 70 0.0015 31.4 9.4 95 284-379 17-119 (139)
61 COG5098 Chromosome condensatio 59.5 25 0.00054 42.7 7.2 77 304-385 345-421 (1128)
62 cd00020 ARM Armadillo/beta-cat 59.3 43 0.00094 28.9 7.3 69 305-378 49-119 (120)
63 cd00020 ARM Armadillo/beta-cat 58.8 44 0.00095 28.9 7.2 72 306-381 8-80 (120)
64 PF06371 Drf_GBD: Diaphanous G 56.1 40 0.00086 32.7 7.1 55 66-130 132-186 (187)
65 PF08167 RIX1: rRNA processing 56.0 46 0.001 32.8 7.6 71 47-131 22-97 (165)
66 COG5098 Chromosome condensatio 54.6 40 0.00086 41.1 7.8 35 47-81 343-377 (1128)
67 KOG1086 Cytosolic sorting prot 53.7 33 0.00071 39.6 6.7 88 290-379 28-123 (594)
68 KOG1086 Cytosolic sorting prot 53.1 65 0.0014 37.3 8.9 106 17-132 13-121 (594)
69 PF10274 ParcG: Parkin co-regu 52.0 1.2E+02 0.0027 31.1 10.0 111 14-131 40-164 (183)
70 PF07651 ANTH: ANTH domain; I 51.4 54 0.0012 34.3 7.6 68 268-338 4-73 (280)
71 COG0735 Fur Fe2+/Zn2+ uptake r 50.8 49 0.0011 32.1 6.7 61 273-333 8-69 (145)
72 PF02985 HEAT: HEAT repeat; I 49.5 22 0.00047 25.5 3.1 30 51-80 1-30 (31)
73 KOG2199 Signal transducing ada 48.8 84 0.0018 36.0 8.8 94 287-383 22-122 (462)
74 KOG2956 CLIP-associating prote 47.8 93 0.002 36.4 9.1 89 33-131 308-401 (516)
75 PRK13800 putative oxidoreducta 46.7 45 0.00098 41.2 7.1 22 354-375 874-895 (897)
76 PF04003 Utp12: Dip2/Utp12 Fam 46.7 80 0.0017 28.4 7.1 46 34-80 16-62 (110)
77 COG4396 Mu-like prophage host- 45.7 57 0.0012 32.4 6.2 66 284-357 13-83 (170)
78 PF12755 Vac14_Fab1_bd: Vacuol 44.8 1.3E+02 0.0028 27.5 8.1 72 46-128 23-94 (97)
79 PTZ00429 beta-adaptin; Provisi 44.0 7.2E+02 0.016 30.8 18.7 72 302-380 475-547 (746)
80 PRK09687 putative lyase; Provi 42.2 79 0.0017 33.9 7.3 28 50-77 23-50 (280)
81 KOG2259 Uncharacterized conser 41.8 56 0.0012 39.6 6.4 78 36-130 397-474 (823)
82 KOG0915 Uncharacterized conser 41.4 66 0.0014 42.1 7.3 105 305-414 1039-1143(1702)
83 KOG0414 Chromosome condensatio 40.6 57 0.0012 41.6 6.6 34 50-83 359-392 (1251)
84 PF14676 FANCI_S2: FANCI solen 40.6 1E+02 0.0022 30.7 7.2 67 34-104 39-105 (158)
85 KOG4380 Carnitine deficiency a 40.0 38 0.00082 35.2 4.2 76 304-384 135-214 (244)
86 PF01431 Peptidase_M13: Peptid 39.6 8.2 0.00018 38.5 -0.5 28 600-627 13-43 (206)
87 PRK13800 putative oxidoreducta 38.0 61 0.0013 40.1 6.3 58 306-377 808-865 (897)
88 KOG2025 Chromosome condensatio 37.9 45 0.00097 40.6 4.9 40 46-85 122-162 (892)
89 PF08252 Leader_CPA1: arg-2/CP 37.6 15 0.00032 26.0 0.6 10 689-698 11-20 (24)
90 KOG2160 Armadillo/beta-catenin 37.6 2E+02 0.0042 32.5 9.5 59 315-377 177-238 (342)
91 PF08620 RPAP1_C: RPAP1-like, 37.3 44 0.00094 29.6 3.6 22 24-45 32-53 (73)
92 PF12169 DNA_pol3_gamma3: DNA 36.8 1.8E+02 0.0039 27.2 8.0 82 34-123 4-89 (143)
93 KOG3091 Nuclear pore complex, 35.0 2.1E+02 0.0046 33.7 9.5 114 10-130 313-428 (508)
94 PF01602 Adaptin_N: Adaptin N 34.2 71 0.0015 35.8 5.7 66 19-87 86-151 (526)
95 PF11841 DUF3361: Domain of un 34.1 84 0.0018 31.7 5.5 46 304-349 101-146 (160)
96 smart00582 RPR domain present 33.6 2.4E+02 0.0052 25.7 8.1 87 30-128 13-104 (121)
97 PRK09462 fur ferric uptake reg 33.2 1E+02 0.0022 29.6 5.8 57 276-332 7-65 (148)
98 PF13513 HEAT_EZ: HEAT-like re 30.3 70 0.0015 25.1 3.5 54 64-128 1-54 (55)
99 PF08389 Xpo1: Exportin 1-like 27.7 84 0.0018 28.8 4.1 65 48-126 80-148 (148)
100 KOG0980 Actin-binding protein 27.5 1.5E+02 0.0033 37.0 7.0 111 14-131 8-120 (980)
101 PF12830 Nipped-B_C: Sister ch 27.2 2E+02 0.0044 28.8 7.0 69 48-133 6-76 (187)
102 PTZ00429 beta-adaptin; Provisi 26.4 2.7E+02 0.0059 34.3 9.1 85 30-132 463-547 (746)
103 PF14225 MOR2-PAG1_C: Cell mor 25.1 1.1E+02 0.0024 32.8 4.9 69 31-103 168-237 (262)
104 PF10363 DUF2435: Protein of u 24.6 3.6E+02 0.0079 24.5 7.4 70 22-91 13-84 (92)
105 KOG1242 Protein containing ada 24.5 2.7E+02 0.0059 33.4 8.2 113 268-384 213-329 (569)
106 PF03224 V-ATPase_H_N: V-ATPas 24.5 3E+02 0.0064 29.6 8.1 45 297-341 97-141 (312)
107 PRK11639 zinc uptake transcrip 24.4 1.5E+02 0.0032 29.6 5.3 57 275-331 15-72 (169)
108 PF12765 Cohesin_HEAT: HEAT re 24.3 68 0.0015 25.1 2.4 26 49-74 17-42 (42)
109 PF06878 Pkip-1: Pkip-1 protei 24.0 1.3E+02 0.0028 30.5 4.9 36 43-79 115-158 (163)
110 KOG1078 Vesicle coat complex C 23.8 3E+02 0.0065 34.3 8.5 106 270-384 208-316 (865)
111 KOG2057 Predicted equilibrativ 22.9 3.1E+02 0.0067 31.0 7.8 75 305-379 61-143 (499)
112 PF10508 Proteasom_PSMB: Prote 22.6 2.6E+02 0.0057 32.4 7.7 75 47-131 74-148 (503)
113 KOG1967 DNA repair/transcripti 22.5 2.6E+02 0.0056 35.4 7.7 68 30-98 236-304 (1030)
114 KOG0803 Predicted E3 ubiquitin 22.2 2E+02 0.0043 37.7 7.0 67 52-129 43-110 (1312)
115 KOG2171 Karyopherin (importin) 22.1 4.1E+02 0.0089 34.2 9.4 75 305-383 348-422 (1075)
116 KOG2023 Nuclear transport rece 21.7 1.1E+02 0.0023 37.5 4.3 62 303-368 391-452 (885)
117 PF14663 RasGEF_N_2: Rapamycin 21.6 1.6E+02 0.0035 27.6 4.7 34 48-81 6-39 (115)
118 PF05598 DUF772: Transposase d 21.1 2.6E+02 0.0056 23.5 5.5 64 64-132 7-75 (77)
119 PF03700 Sorting_nexin: Sortin 21.0 1.5E+02 0.0032 29.1 4.4 59 475-543 22-89 (129)
120 PF03281 Mab-21: Mab-21 protei 20.7 1.7E+02 0.0036 31.0 5.2 76 50-132 180-259 (292)
121 TIGR02270 conserved hypothetic 20.5 5.3E+02 0.011 29.5 9.3 79 287-380 99-177 (410)
No 1
>cd03572 ENTH_epsin_related ENTH domain, Epsin Related family; composed of hypothetical proteins containing an ENTH-like domain. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. ENTH and ANTH (E/ANTH) domains are structurally similar to the VHS domain and are composed of a superhelix of eight alpha helices. E/ANTH domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membranes. ENTH domains also function in the development of membrane curvature through lipid remodeling during the formation of clathrin-coated vesicles. E/ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the t
Probab=100.00 E-value=3e-45 Score=340.04 Aligned_cols=121 Identities=48% Similarity=0.692 Sum_probs=117.5
Q ss_pred hhhhhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHH
Q 005238 12 WRSRMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQR 91 (706)
Q Consensus 12 ~~~~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqr 91 (706)
|+|+||++|||||++|||||+|+|||++|++|.+ .|++|+|||++||++++||||+||||||||||++|+++|++|+|+
T Consensus 1 ~~~~ll~~ATsdd~~p~pgy~~~Eia~~t~~s~~-~~~ei~d~L~kRL~~~~~hVK~K~Lrilk~l~~~G~~~f~~~~~~ 79 (122)
T cd03572 1 MRRSLLSKATSDDDEPTPGYLYEEIAKLTRKSVG-SCQELLEYLLKRLKRSSPHVKLKVLKIIKHLCEKGNSDFKRELQR 79 (122)
T ss_pred CcHHHHHHHhcCCCCCCchHHHHHHHHHHHcCHH-HHHHHHHHHHHHhcCCCCcchHHHHHHHHHHHhhCCHHHHHHHHH
Confidence 4789999999999999999999999999999975 589999999999999999999999999999999999999999999
Q ss_pred hHHHHHHhhcccCCCCCCCCchhhHHHHHHHHHHHHHhhcCC
Q 005238 92 HSAVVRQLFHYKGQLDPLKGDALNKAVRDMAHEAISAIFSEE 133 (706)
Q Consensus 92 ns~~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll~aLFsd~ 133 (706)
|+++||+|++|+|+|||++||++|++||++|+||+++||+++
T Consensus 80 ~~~~Ik~~~~f~g~~Dp~~Gd~~~~~VR~~A~El~~~if~~~ 121 (122)
T cd03572 80 NSAQIRECANYKGPPDPLKGDSLNEKVREEAQELIKAIFSYS 121 (122)
T ss_pred hHHHHHHHHHcCCCCCcccCcchhHHHHHHHHHHHHHHhccC
Confidence 999999999999999999999999999999999999999965
No 2
>PF01417 ENTH: ENTH domain; InterPro: IPR001026 The ENTH (Epsin N-terminal homology) domain is approximately 150 amino acids in length and is always found located at the N-termini of proteins. The domain forms a compact globular structure, composed of 9 alpha-helices connected by loops of varying length. The general topology is determined by three helical hairpins that are stacked consecutively with a right hand twist []. An N-terminal helix folds back, forming a deep basic groove that forms the binding pocket for the Ins(1,4,5)P3 ligand []. The ligand is coordinated by residues from surrounding alpha-helices and all three phosphates are multiply coordinated. The coordination of Ins(1,4,5)P3 suggests that ENTH is specific for particular head groups. Proteins containing this domain have been found to bind PtdIns(4,5)P2 and PtdIns(1,4,5)P3 suggesting that the domain may be a membrane interacting module. The main function of proteins containing this domain appears to be to act as accessory clathrin adaptors in endocytosis, Epsin is able to recruit and promote clathrin polymerisation on a lipid monolayer, but may have additional roles in signalling and actin regulation []. Epsin causes a strong degree of membrane curvature and tubulation, even fragmentation of membranes with a high PtdIns(4,5)P2 content. Epsin binding to membranes facilitates their deformation by insertion of the N-terminal helix into the outer leaflet of the bilayer, pushing the head groups apart. This would reduce the energy needed to curve the membrane into a vesicle, making it easier for the clathrin cage to fix and stabilise the curved membrane. This points to a pioneering role for epsin in vesicle budding as it provides both a driving force and a link between membrane invagination and clathrin polymerisation. ; PDB: 1H0A_A 1EYH_A 1EDU_A 2QY7_B 1XGW_A 2V8S_E 1VDY_A 2DCP_A 1INZ_A 3ONL_B ....
Probab=99.93 E-value=1e-25 Score=208.08 Aligned_cols=118 Identities=29% Similarity=0.400 Sum_probs=104.6
Q ss_pred hhh-hhhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhh---ccCCCchHHHHHHHHHHHHhcCChhHH
Q 005238 11 YWR-SRMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRL---EHKSPVVKQKALRLIKYSVGKSGTDFR 86 (706)
Q Consensus 11 y~~-~~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL---~~ksphVKlKaLKILkyLc~~Gs~~F~ 86 (706)
|+. ..+|++||++|++|||+|+|.|||++||++ ..|.+||++|.+|| +++..++++|||+||.||+.+|++.|+
T Consensus 1 ys~~e~~v~eAT~~d~~gp~~~~l~eIa~~t~~~--~~~~~I~~~l~kRL~~~~~k~wr~~~KaL~ll~yLl~nG~~~~~ 78 (125)
T PF01417_consen 1 YSELELKVREATSNDPWGPPGKLLAEIAQLTYNS--KDCQEIMDVLWKRLSKSDGKNWRHVYKALTLLEYLLKNGSERFV 78 (125)
T ss_dssp --HHHHHHHHHTSSSSSS--HHHHHHHHHHTTSC--HHHHHHHHHHHHHHHSSTSSGHHHHHHHHHHHHHHHHHS-HHHH
T ss_pred CCHHHHHHHHHcCCCCCCcCHHHHHHHHHHHhcc--ccHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHHHHCCHHHH
Confidence 455 689999999999999999999999999998 35899999999999 777788999999999999999999999
Q ss_pred HHHHHhHHHHHHhhcccCCCCCCCCchhhHHHHHHHHHHHHHhhcC
Q 005238 87 REMQRHSAVVRQLFHYKGQLDPLKGDALNKAVRDMAHEAISAIFSE 132 (706)
Q Consensus 87 r~lqrns~~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll~aLFsd 132 (706)
.|++++...|+.|++|++ +|| +|++.++.||+.|++++++|+++
T Consensus 79 ~~~~~~~~~I~~l~~f~~-~d~-~g~d~~~~VR~~A~~i~~lL~d~ 122 (125)
T PF01417_consen 79 DELRDHIDIIRELQDFQY-VDP-KGKDQGQNVREKAKEILELLNDD 122 (125)
T ss_dssp HHHHHTHHHHHGGGG----BBT-TSTBHHHHHHHHHHHHHHHHTSH
T ss_pred HHHHHHHHHHhhcceeec-cCC-CCccHHHHHHHHHHHHHHHhCCc
Confidence 999999999999999999 799 99999999999999999999985
No 3
>cd03571 ENTH_epsin ENTH domain, Epsin family; The epsin (Eps15 interactor) N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. ENTH and ANTH (E/ANTH) domains are structurally similar to the VHS domain and are composed of a superhelix of eight alpha helices. E/ANTH domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membranes. ENTH domains also function in the development of membrane curvature through lipid remodeling during the formation of clathrin-coated vesicles. E/ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the trans-Golgi network, which suggests that E/ANTH domains are univ
Probab=99.82 E-value=3.2e-20 Score=173.21 Aligned_cols=114 Identities=21% Similarity=0.237 Sum_probs=106.5
Q ss_pred hhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccCC---CchHHHHHHHHHHHHhcCChhHHHHHHH
Q 005238 15 RMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHKS---PVVKQKALRLIKYSVGKSGTDFRREMQR 91 (706)
Q Consensus 15 ~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ks---phVKlKaLKILkyLc~~Gs~~F~r~lqr 91 (706)
.+|+.||++|+|+|++.+|.|||+.||+.. .+.+||++|.+||.++. +|| +|||.+|.||+.+|++.|+.|++.
T Consensus 4 ~~vreATs~d~wGp~~~~m~eIa~~t~~~~--~~~~Im~~l~kRL~~~~k~WR~v-yKaL~lleyLl~nGse~vv~~~r~ 80 (123)
T cd03571 4 LKVREATSNDPWGPSGTLMAEIARATYNYV--EFQEIMSMLWKRLNDKGKNWRHV-YKALTLLEYLLKNGSERVVDDARE 80 (123)
T ss_pred HHHHHHcCCCCCCCCHHHHHHHHHHhCCHH--HHHHHHHHHHHHHHhccccHHHH-HHHHHHHHHHHHhCCHHHHHHHHH
Confidence 689999999999999999999999999963 57999999999999774 888 999999999999999999999999
Q ss_pred hHHHHHHhhcccCCCCCCCCchhhHHHHHHHHHHHHHhhcCC
Q 005238 92 HSAVVRQLFHYKGQLDPLKGDALNKAVRDMAHEAISAIFSEE 133 (706)
Q Consensus 92 ns~~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll~aLFsd~ 133 (706)
|.++|++++.|...++ .|.+.+..||+.|++++++|-+++
T Consensus 81 ~~~~i~~L~~F~~~d~--~g~d~G~~VR~ka~~i~~Ll~D~~ 120 (123)
T cd03571 81 NLYIIRTLKDFQYIDE--NGKDQGINVREKAKEILELLEDDE 120 (123)
T ss_pred hHHHHHhhccceeeCC--CCCchhHHHHHHHHHHHHHhCCHh
Confidence 9999999999999755 899999999999999999998854
No 4
>KOG2056 consensus Equilibrative nucleoside transporter protein [Nucleotide transport and metabolism]
Probab=99.75 E-value=2.3e-18 Score=182.85 Aligned_cols=122 Identities=21% Similarity=0.245 Sum_probs=114.1
Q ss_pred hhhhhh-hhhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccCC---CchHHHHHHHHHHHHhcCCh
Q 005238 8 VESYWR-SRMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHKS---PVVKQKALRLIKYSVGKSGT 83 (706)
Q Consensus 8 v~~y~~-~~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ks---phVKlKaLKILkyLc~~Gs~ 83 (706)
|..|.. +.+|+.||++|.|+|.+-+|.|||+.||... + +++||++|.|||++++ +|| +|||.||.||+.+|++
T Consensus 16 v~~y~~~e~kVrdAT~nd~wGPs~~lm~eIA~~ty~~~-e-~~eIm~vi~kRl~d~gknWR~V-yKaLtlleyLl~~GSE 92 (336)
T KOG2056|consen 16 IKNYSEAELKVRDATSNDPWGPSGTLMAEIAQATYNFV-E-YQEIMDVLWKRLNDSGKNWRHV-YKALTLLEYLLKNGSE 92 (336)
T ss_pred HhcchHHHHHHHhccccccCCCchHHHHHHHHHhcCHH-H-HHHHHHHHHHHHhhccchHHHH-HHHHHHHHHHHhcCcH
Confidence 455777 8999999999999999999999999999985 3 6999999999999888 999 9999999999999999
Q ss_pred hHHHHHHHhHHHHHHhhcccCCCCCCCCchhhHHHHHHHHHHHHHhhcCCC
Q 005238 84 DFRREMQRHSAVVRQLFHYKGQLDPLKGDALNKAVRDMAHEAISAIFSEEN 134 (706)
Q Consensus 84 ~F~r~lqrns~~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll~aLFsd~~ 134 (706)
.|..|++.|.++|++|..|....+ .|.+.+..||+.|++|+++|=+++-
T Consensus 93 rv~~~~ren~~~I~tL~~Fq~iD~--~G~dqG~nVRkkak~l~~LL~D~er 141 (336)
T KOG2056|consen 93 RVVDETRENIYTIETLKDFQYIDE--DGKDQGLNVRKKAKELLSLLEDDER 141 (336)
T ss_pred HHHHHHHhhhHHHHHHhhceeeCC--CCccchHHHHHHHHHHHHHhccHHH
Confidence 999999999999999999999966 8999999999999999999988653
No 5
>cd00197 VHS_ENTH_ANTH VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It is located at the N-termini of proteins involved in intracellular membrane trafficking. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. VHS, ENTH and ANTH domains are structurally similar and are composed of a superhelix of eight alpha helices. ENTH adnd ANTH (E/ANTH) domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membra
Probab=99.58 E-value=1.1e-14 Score=132.26 Aligned_cols=113 Identities=32% Similarity=0.464 Sum_probs=101.6
Q ss_pred hhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHHhHH
Q 005238 15 RMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQRHSA 94 (706)
Q Consensus 15 ~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns~ 94 (706)
.+|.+||+++.+++....+.|||.++++.. +.+.+++++|.+||+++.++|++|||.+|+||+.+|++.|+++++++..
T Consensus 3 ~~v~~AT~~~~~~p~~~~i~~i~d~~~~~~-~~~~~~~~~l~kRl~~~~~~~~lkaL~lLe~lvkN~g~~f~~~i~~~~~ 81 (115)
T cd00197 3 KTVEKATSNENMGPDWPLIMEICDLINETN-VGPKEAVDAIKKRINNKNPHVVLKALTLLEYCVKNCGERFHQEVASNDF 81 (115)
T ss_pred HHHHHHcCCCCCCCCHHHHHHHHHHHHCCC-ccHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHccHHHHHHHHHhHH
Confidence 689999999999999999999999999885 4679999999999999999999999999999999999999999999986
Q ss_pred HHHHhhcccCCCCCCCCchhhHHHHHHHHHHHHHhhc
Q 005238 95 VVRQLFHYKGQLDPLKGDALNKAVRDMAHEAISAIFS 131 (706)
Q Consensus 95 ~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll~aLFs 131 (706)
.++ +..| ......|+.++..||+.+.+|+....+
T Consensus 82 ~~~-l~~~--~~~~~~~~~~~~~Vr~k~~~l~~~w~~ 115 (115)
T cd00197 82 AVE-LLKF--DKSKLLGDDVSTNVREKAIELVQLWAS 115 (115)
T ss_pred HHH-HHHh--hccccccCCCChHHHHHHHHHHHHHhC
Confidence 654 4455 555668899999999999999998753
No 6
>smart00273 ENTH Epsin N-terminal homology (ENTH) domain.
Probab=99.54 E-value=3.9e-14 Score=131.33 Aligned_cols=116 Identities=18% Similarity=0.200 Sum_probs=106.7
Q ss_pred hhhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccC-CCchHHHHHHHHHHHHhcCChhHHHHHHHh
Q 005238 14 SRMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHK-SPVVKQKALRLIKYSVGKSGTDFRREMQRH 92 (706)
Q Consensus 14 ~~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~k-sphVKlKaLKILkyLc~~Gs~~F~r~lqrn 92 (706)
...|.+||+++++||.+..++||+..|+.++. .+.+|++.|.+||.+. +..|-+|||-+|.||+.+|++.|..+.+++
T Consensus 4 e~~V~kAT~~~~~~p~~k~~~~I~~~t~~~~~-~~~~i~~~l~~Rl~~~~~w~~v~KsL~llh~ll~~G~~~~~~~~~~~ 82 (127)
T smart00273 4 EVKVRKATNNDEWGPKGKHLREIIQGTHNEKS-SFAEIMAVLWRRLNDTKNWRVVYKALILLHYLLRNGSPRVILEALRN 82 (127)
T ss_pred HHHHHHhcCCCCCCcCHHHHHHHHHHHccCHh-hHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHhcCCHHHHHHHHHh
Confidence 36799999999999999999999999999864 5799999999999987 555559999999999999999999999999
Q ss_pred HHHHHHhhcccCCCCCCCCchhhHHHHHHHHHHHHHhhcC
Q 005238 93 SAVVRQLFHYKGQLDPLKGDALNKAVRDMAHEAISAIFSE 132 (706)
Q Consensus 93 s~~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll~aLFsd 132 (706)
...|+++.+|.+. |+ .|.+.+..||..|+.|.+.|.+.
T Consensus 83 ~~~i~~L~~f~~~-~~-~~~d~g~~VR~ya~~L~~~l~~~ 120 (127)
T smart00273 83 RNRILNLSDFQDI-DS-RGKDQGANIRTYAKYLLERLEDD 120 (127)
T ss_pred hHHHhhHhhCeec-CC-CCeeCcHHHHHHHHHHHHHHcCH
Confidence 9999999999998 66 88999999999999999999873
No 7
>KOG2057 consensus Predicted equilibrative nucleoside transporter protein [Nucleotide transport and metabolism]
Probab=99.34 E-value=2.2e-12 Score=136.11 Aligned_cols=130 Identities=19% Similarity=0.212 Sum_probs=115.6
Q ss_pred chhhhhhhhhhh-hhhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccCC----CchHHHHHHHHHH
Q 005238 2 DSSRRAVESYWR-SRMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHKS----PVVKQKALRLIKY 76 (706)
Q Consensus 2 ~~~~~~v~~y~~-~~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ks----phVKlKaLKILky 76 (706)
|+.-+||-.|.. -.-||.||.+|+|++.|-+|.|||+.||.-.-+.+.+||.+|..|+=+.. +.| +|+|-+|.|
T Consensus 12 dkandaiMNY~e~e~~VREATNdDPWGPsG~lMgeIaeaTfmry~EdFpelmnmL~qRMLedNK~~WRRV-YKSLiLLaY 90 (499)
T KOG2057|consen 12 DKANDAIMNYPEAEMDVREATNDDPWGPSGPLMGEIAEATFMRYMEDFPELMNMLFQRMLEDNKDAWRRV-YKSLILLAY 90 (499)
T ss_pred HHHhHHHhcchHHHHHHHhhccCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHH-HHHHHHHHH
Confidence 455678888988 77899999999999999999999999988443445899999999975433 889 999999999
Q ss_pred HHhcCChhHHHHHHHhHHHHHHhhcccCCCCCCCCchhhHHHHHHHHHHHHHhhcCCC
Q 005238 77 SVGKSGTDFRREMQRHSAVVRQLFHYKGQLDPLKGDALNKAVRDMAHEAISAIFSEEN 134 (706)
Q Consensus 77 Lc~~Gs~~F~r~lqrns~~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll~aLFsd~~ 134 (706)
|+.+|++.|+++.|.|++-+|.|-+|..... ||.+.+-.||...+|+++..-+|+.
T Consensus 91 LikNGSER~VqeAREh~YdLR~LEnYhfiDE--hGKDQGINIR~kVKeilEfanDDd~ 146 (499)
T KOG2057|consen 91 LIKNGSERFVQEAREHAYDLRRLENYHFIDE--HGKDQGINIRHKVKEILEFANDDDL 146 (499)
T ss_pred HHhcccHHHHHHHHHHHHHHHhhhhccchhh--hCccccccHHHHHHHHHHHhccHHH
Confidence 9999999999999999999999999999855 9999999999999999998777553
No 8
>cd03564 ANTH_AP180_CALM ANTH domain family; composed of adaptor protein 180 (AP180), clathrin assembly lymphoid myeloid leukemia protein (CALM) and similar proteins. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. AP180 and CALM play important roles in clathrin-mediated endocytosis. AP180 is a brain-specific clathrin-binding protein which stimulates clathrin assembly during the recycling of synaptic vesicles. The ANTH domain is structurally similar to the VHS domain and is composed of a superhelix of eight alpha helices. ANTH domains bind both inositol phospholipids and proteins, and contribute to the nucleation and formation of clathrin coats on membranes. ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the trans-Golgi network, which suggests that the ANTH domain is a universal component of the machine
Probab=98.86 E-value=1.3e-08 Score=93.65 Aligned_cols=112 Identities=18% Similarity=0.162 Sum_probs=97.0
Q ss_pred hhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHHhHH
Q 005238 15 RMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQRHSA 94 (706)
Q Consensus 15 ~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns~ 94 (706)
..|.|||+.++.||-.=-+++|...|+.++. .+.+++++|.+||.+++..|=+|+|-+|-+|+..|++.|.++++++..
T Consensus 3 ~aV~kAT~~~~~~pk~k~v~~ii~~t~~~~~-~~~~~~~~l~~Rl~~~~w~v~~K~LillH~llr~G~~~~~~~~~~~~~ 81 (117)
T cd03564 3 KAVKKATSHDEAPPKDKHVRKIIAGTSSSPA-SIPSFASALSRRLLDRNWVVVLKALILLHRLLREGHPSFLQELLSRRG 81 (117)
T ss_pred hHHHhhcCCCCCCCChHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHHHHhcCCHHHHHHHHHccC
Confidence 4688999999999999999999999998765 479999999999999888888999999999999999999999999955
Q ss_pred HHHHhhcccCCCCCCCCchhhHHHHHHHHHHHHHh
Q 005238 95 VVRQLFHYKGQLDPLKGDALNKAVRDMAHEAISAI 129 (706)
Q Consensus 95 ~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll~aL 129 (706)
.+ ++..|+...+. .|++.+..||..|+-|.+.+
T Consensus 82 ~l-~l~~~~~~~~~-~~~~~~~~Vr~Ya~yL~~rl 114 (117)
T cd03564 82 WL-NLSNFLDKSSS-LGYGYSAFIRAYARYLDERL 114 (117)
T ss_pred ee-eccccccCCCC-CchhhhHHHHHHHHHHHHHH
Confidence 55 55667744332 57889999999999988765
No 9
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=98.16 E-value=1.3e-05 Score=75.87 Aligned_cols=109 Identities=27% Similarity=0.291 Sum_probs=84.2
Q ss_pred hhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHHhHH
Q 005238 15 RMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQRHSA 94 (706)
Q Consensus 15 ~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns~ 94 (706)
.+|.+||++...-+.-...-|||.+..... ...++.+..|.|||++++|||-+.||.+|..|+.+....|..++...-
T Consensus 3 ~~i~kATs~~l~~~dw~~~l~icD~i~~~~-~~~k~a~r~l~krl~~~n~~v~l~AL~lLe~~vkNcg~~f~~ev~s~~- 80 (133)
T smart00288 3 RLIDKATSPSLLEEDWELILEICDLINSTP-DGPKDAVRLLKKRLNNKNPHVALLALTLLDACVKNCGSKFHLEVASKE- 80 (133)
T ss_pred hHHHHHcCcCCCCcCHHHHHHHHHHHhCCC-ccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHhHH-
Confidence 689999999888888888899999998885 567999999999999999999999999999999999999999987543
Q ss_pred HHHHhhcccCCCCCCCCchhhHHHHHHHHHHHHHhhc
Q 005238 95 VVRQLFHYKGQLDPLKGDALNKAVRDMAHEAISAIFS 131 (706)
Q Consensus 95 ~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll~aLFs 131 (706)
++.++...--++. ... .||+.+-+++.....
T Consensus 81 fl~~L~~l~~~~~--~~~----~Vk~kil~li~~W~~ 111 (133)
T smart00288 81 FLNELVKLIKPKY--PLP----LVKKRILELIQEWAD 111 (133)
T ss_pred HHHHHHHHHcCCC--CcH----HHHHHHHHHHHHHHH
Confidence 3333332222211 111 177777766665443
No 10
>cd03568 VHS_STAM VHS domain family, STAM subfamily; members include STAM (Signal Transducing Adaptor Molecule), EAST (EGFR-associated protein with SH3 and TAM domains) and Hbp (Hrs-binding protein). Collectively, they are referred to as STAM. All STAMs have at their N-termini a VHS domain, which is involved in cytokine-mediated intracellular signal transduction and has a superhelical structure similar to the structure of ARM (Armadillo) repeats, followed by a SH3 (Src homology 3) domain, a well-established protein-protein interaction domain. At the C-termini of most vertebrate STAMS, an ITAM (Immunoreceptor Tyrosine-based Activation) motif is present, which mediates the binding of HRS (hepatocyte growth factor-regulated tyrosine kinase substrate) in endocytic and exocytic machineries.
Probab=98.01 E-value=4e-05 Score=73.91 Aligned_cols=108 Identities=20% Similarity=0.352 Sum_probs=87.3
Q ss_pred hhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHHhHH
Q 005238 15 RMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQRHSA 94 (706)
Q Consensus 15 ~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns~ 94 (706)
.+|.+||++.-.-.---+.-|||.+..... ...++.+..|.|||+++.|||-+.||.+|..|+.+.+..|.+++... .
T Consensus 3 ~~iekATse~l~~~dw~~il~icD~I~~~~-~~~k~a~ral~KRl~~~n~~v~l~AL~LLe~~vkNCG~~fh~evask-~ 80 (144)
T cd03568 3 DLVEKATDEKLTSENWGLILDVCDKVKSDE-NGAKDCLKAIMKRLNHKDPNVQLRALTLLDACAENCGKRFHQEVASR-D 80 (144)
T ss_pred HHHHHHcCccCCCcCHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHCCHHHHHHHhhH-H
Confidence 579999999877666667789999998875 56899999999999999999999999999999999999999999754 4
Q ss_pred HHHHhhcccCCCCCCCCchhhHHHHHHHHHHHHHhhc
Q 005238 95 VVRQLFHYKGQLDPLKGDALNKAVRDMAHEAISAIFS 131 (706)
Q Consensus 95 ~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll~aLFs 131 (706)
++.++...--.+ ....||+.+.+++...-.
T Consensus 81 Fl~eL~kl~~~~-------~~~~Vk~kil~li~~W~~ 110 (144)
T cd03568 81 FTQELKKLINDR-------VHPTVKEKLREVVKQWAD 110 (144)
T ss_pred HHHHHHHHhccc-------CCHHHHHHHHHHHHHHHH
Confidence 555554443221 345788888888877643
No 11
>PF01417 ENTH: ENTH domain; InterPro: IPR001026 The ENTH (Epsin N-terminal homology) domain is approximately 150 amino acids in length and is always found located at the N-termini of proteins. The domain forms a compact globular structure, composed of 9 alpha-helices connected by loops of varying length. The general topology is determined by three helical hairpins that are stacked consecutively with a right hand twist []. An N-terminal helix folds back, forming a deep basic groove that forms the binding pocket for the Ins(1,4,5)P3 ligand []. The ligand is coordinated by residues from surrounding alpha-helices and all three phosphates are multiply coordinated. The coordination of Ins(1,4,5)P3 suggests that ENTH is specific for particular head groups. Proteins containing this domain have been found to bind PtdIns(4,5)P2 and PtdIns(1,4,5)P3 suggesting that the domain may be a membrane interacting module. The main function of proteins containing this domain appears to be to act as accessory clathrin adaptors in endocytosis, Epsin is able to recruit and promote clathrin polymerisation on a lipid monolayer, but may have additional roles in signalling and actin regulation []. Epsin causes a strong degree of membrane curvature and tubulation, even fragmentation of membranes with a high PtdIns(4,5)P2 content. Epsin binding to membranes facilitates their deformation by insertion of the N-terminal helix into the outer leaflet of the bilayer, pushing the head groups apart. This would reduce the energy needed to curve the membrane into a vesicle, making it easier for the clathrin cage to fix and stabilise the curved membrane. This points to a pioneering role for epsin in vesicle budding as it provides both a driving force and a link between membrane invagination and clathrin polymerisation. ; PDB: 1H0A_A 1EYH_A 1EDU_A 2QY7_B 1XGW_A 2V8S_E 1VDY_A 2DCP_A 1INZ_A 3ONL_B ....
Probab=97.99 E-value=6e-05 Score=70.17 Aligned_cols=106 Identities=19% Similarity=0.282 Sum_probs=82.6
Q ss_pred HHHHHHHHhhcCCcccCCCHHHHHHHHHHHhh-CCHHHHHHHHHHHh---CCchHHHHHHHHHHHHHHHhccCchhHHHH
Q 005238 269 EEKLLETIVTYGGVRLQPTRDAIQVFLVEAAK-LDALAMSRALEAKL---QSPLWQVRMKAICVLESILRKKDDEKFSII 344 (706)
Q Consensus 269 E~~LVe~i~T~gGvr~~PSreeLq~Fl~~c~~-Ld~e~V~elL~~KL---~~~~WQvrlKALcvLEaLl~s~~~d~~~~v 344 (706)
-..+|++ +|.... .-|+...+..-.+.+-. -+|..|.+.|..+| ....|.+.+|||.+||.|++.+.. .+
T Consensus 4 ~e~~v~e-AT~~d~-~gp~~~~l~eIa~~t~~~~~~~~I~~~l~kRL~~~~~k~wr~~~KaL~ll~yLl~nG~~----~~ 77 (125)
T PF01417_consen 4 LELKVRE-ATSNDP-WGPPGKLLAEIAQLTYNSKDCQEIMDVLWKRLSKSDGKNWRHVYKALTLLEYLLKNGSE----RF 77 (125)
T ss_dssp HHHHHHH-HTSSSS-SS--HHHHHHHHHHTTSCHHHHHHHHHHHHHHHSSTSSGHHHHHHHHHHHHHHHHHS-H----HH
T ss_pred HHHHHHH-HcCCCC-CCcCHHHHHHHHHHHhccccHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHHHHCCH----HH
Confidence 3456777 565443 47888889888888866 67899999999999 789999999999999999998864 55
Q ss_pred HHHHHhhhHHHhhhhcCCC---------hhHHHHHHHHHHHhccc
Q 005238 345 LSYFCENNDVVVKCSESPQ---------SSLREKANKVLSLLGEE 380 (706)
Q Consensus 345 ~~yF~eN~~~L~r~~~s~Q---------~sLReKA~KVL~lLg~~ 380 (706)
...++.+...|+.|..-.- ..||+||++|+.+|.-+
T Consensus 78 ~~~~~~~~~~I~~l~~f~~~d~~g~d~~~~VR~~A~~i~~lL~d~ 122 (125)
T PF01417_consen 78 VDELRDHIDIIRELQDFQYVDPKGKDQGQNVREKAKEILELLNDD 122 (125)
T ss_dssp HHHHHHTHHHHHGGGG---BBTTSTBHHHHHHHHHHHHHHHHTSH
T ss_pred HHHHHHHHHHHhhcceeeccCCCCccHHHHHHHHHHHHHHHhCCc
Confidence 6777888888888876521 24999999999999754
No 12
>cd03561 VHS VHS domain family; The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It has a superhelical structure similar to that of the ARM (Armadillo) repeats and is present at the N-termini of proteins involved in intracellular membrane trafficking. There are four general groups of VHS domain containing proteins based on their association with other domains. The first group consists of proteins of the STAM/EAST/Hbp family which has the domain composition VHS-SH3-ITAM. The second consists of proteins with a FYVE domain C-terminal to VHS. The third consists of GGA proteins with a domain composition VHS-GAT (GGA and TOM)-GAE (gamma-adaptin ear) domain. The fourth consists of proteins with a VHS domain alone or with domains other than those mentioned above. In GGA proteins, VHS domains are involved in cargo recognition in trans-Golgi, thereby having a general me
Probab=97.98 E-value=5.8e-05 Score=71.21 Aligned_cols=110 Identities=24% Similarity=0.246 Sum_probs=84.6
Q ss_pred hhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHHhHH
Q 005238 15 RMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQRHSA 94 (706)
Q Consensus 15 ~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns~ 94 (706)
.+|.+||+....-.---+.-|||.+..... ...++.+..|.+||++++|||-+.||.||..|+.++...|..++...-.
T Consensus 3 ~~I~kATs~~~~~~D~~~il~icd~I~~~~-~~~k~a~raL~krl~~~n~~vql~AL~lLd~~vkNcg~~f~~~i~s~~f 81 (133)
T cd03561 3 SLIERATSPSLEEPDWALNLELCDLINLKP-NGPKEAARAIRKKIKYGNPHVQLLALTLLELLVKNCGKPFHLQVADKEF 81 (133)
T ss_pred HHHHHHcCcccCCccHHHHHHHHHHHhCCC-CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCChHHHHHHhhHHH
Confidence 579999998665555567789999998876 4679999999999999999999999999999999999999998887442
Q ss_pred HHHHhhcccCCCCCCCCchhhHHHHHHHHHHHHHhhc
Q 005238 95 VVRQLFHYKGQLDPLKGDALNKAVRDMAHEAISAIFS 131 (706)
Q Consensus 95 ~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll~aLFs 131 (706)
..++...--.. +.....||..+-+++.....
T Consensus 82 -l~~l~~l~~~~-----~~~~~~Vk~kil~ll~~W~~ 112 (133)
T cd03561 82 -LLELVKIAKNS-----PKYDPKVREKALELILAWSE 112 (133)
T ss_pred -HHHHHHHhCCC-----CCCCHHHHHHHHHHHHHHHH
Confidence 22222222121 23466788888888776544
No 13
>PF00790 VHS: VHS domain; InterPro: IPR002014 The VHS domain is a ~140 residues long domain, whose name is derived from its occurrence in VPS-27, Hrs and STAM. Based on regions surrounding the domain, VHS-proteins can be divided into 4 groups []: STAM/EAST/Hbp which all share the domain composition VHS-SH3-ITAM and carry one or two ubiquitin-interacting motifs Proteins with a FYVE domain (IPR000306 from INTERPRO) C-terminal to VHS which also carry one or two ubiquitin-interacting motifs GGA proteins with a domain composition VHS-GAT (GGA and Tom1) homology domain VHS domain alone or in combination with domains other than those listed above The VHS domain is always found at the N- terminus of proteins suggesting that such topology is important for function. The domain is considered to have a general membrane targeting/cargo recognition role in vesicular trafficking []. Resolution of the crystal structure of the VHS domain of Drosophila Hrs and human Tom1 revealed that it consists of eight helices arranged in a double-layer superhelix []. The existence of conserved patches of residues on the domain surface suggests that VHS domains may be involved in protein-protein recognition and docking. Overall, sequence similarity is low (approx 25%) amongst domain family members.; GO: 0006886 intracellular protein transport; PDB: 1X5B_A 2L0T_B 1DVP_A 3LDZ_C 3ZYQ_A 4AVX_A 3G2U_A 3G2W_A 1UJJ_A 3G2V_A ....
Probab=97.98 E-value=2.3e-05 Score=74.40 Aligned_cols=108 Identities=28% Similarity=0.360 Sum_probs=80.1
Q ss_pred hhhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHHhH
Q 005238 14 SRMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQRHS 93 (706)
Q Consensus 14 ~~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns 93 (706)
..+|.+||+..-.-+---..-+||++...++ ..+.+.+..|.|||++..|+|.+-||.||..|+.++++.|++++-+.-
T Consensus 7 ~~li~kATs~~~~~~Dw~~~l~icD~i~~~~-~~~kea~~~l~krl~~~~~~vq~~aL~lld~lvkNcg~~f~~ev~~~~ 85 (140)
T PF00790_consen 7 TELIEKATSESLPSPDWSLILEICDLINSSP-DGAKEAARALRKRLKHGNPNVQLLALTLLDALVKNCGPRFHREVASKE 85 (140)
T ss_dssp HHHHHHHT-TTSSS--HHHHHHHHHHHHTST-THHHHHHHHHHHHHTTSSHHHHHHHHHHHHHHHHHSHHHHHHHHTSHH
T ss_pred HHHHHHHhCcCCCCCCHHHHHHHHHHHHcCC-ccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHcCCHHHHHHHhHHH
Confidence 4789999998765555555678999999885 568999999999999999999999999999999999999999986653
Q ss_pred --HHHHHhhcccCCCCCCCCchhhHHHHHHHHHHHHHh
Q 005238 94 --AVVRQLFHYKGQLDPLKGDALNKAVRDMAHEAISAI 129 (706)
Q Consensus 94 --~~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll~aL 129 (706)
..++.+..-+.. .....||+.+.+++...
T Consensus 86 fl~~l~~l~~~~~~-------~~~~~Vk~k~l~ll~~W 116 (140)
T PF00790_consen 86 FLDELVKLIKSKKT-------DPETPVKEKILELLQEW 116 (140)
T ss_dssp HHHHHHHHHHHTTT-------HHHSHHHHHHHHHHHHH
T ss_pred HHHHHHHHHccCCC-------CchhHHHHHHHHHHHHH
Confidence 233333322211 11122888887777654
No 14
>cd03567 VHS_GGA VHS domain family, GGA subfamily; GGA (Golgi-localized, Gamma-ear-containing, Arf-binding) comprise a subfamily of ubiquitously expressed, monomeric, motif-binding cargo/clathrin adaptor proteins. The VHS domain has a superhelical structure similar to the structure of the ARM (Armadillo) repeats and is present at the N-termini of proteins. GGA proteins have a multidomain structure consisting of an N-terminal VHS domain linked by a short proline-rich linker to a GAT (GGA and TOM) domain, which is followed by a long flexible linker to the C-terminal appendage, GAE (gamma-adaptin ear) domain. The VHS domain of GGA proteins binds to the acidic-cluster dileucine (DxxLL) motif found on the cytoplasmic tails of cargo proteins trafficked between the trans-Golgi network and the endosomal system.
Probab=97.87 E-value=0.00012 Score=70.44 Aligned_cols=109 Identities=11% Similarity=0.195 Sum_probs=88.0
Q ss_pred hhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHHhHH
Q 005238 15 RMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQRHSA 94 (706)
Q Consensus 15 ~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns~ 94 (706)
.+|.+||++.-.-+---+.-|||.+....+ ...++.+..|.+||++++|||-+-||.+|..|+.+....|+.++.+.--
T Consensus 4 ~~iekAT~~~l~~~dw~~ileicD~In~~~-~~~k~a~rai~krl~~~n~~v~l~AL~LLe~~vkNCG~~fh~evas~~F 82 (139)
T cd03567 4 AWLNKATNPSNREEDWEAIQAFCEQINKEP-EGPQLAVRLLAHKIQSPQEKEALQALTVLEACMKNCGERFHSEVGKFRF 82 (139)
T ss_pred HHHHHHcCccCCCCCHHHHHHHHHHHHcCC-ccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCHHHHHHHHhHHH
Confidence 579999999987777777889999998876 4679999999999999999999999999999999999999999886542
Q ss_pred ---HHHHhhcccCCCCCCCCchhhHHHHHHHHHHHHHhh
Q 005238 95 ---VVRQLFHYKGQLDPLKGDALNKAVRDMAHEAISAIF 130 (706)
Q Consensus 95 ---~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll~aLF 130 (706)
.+|-+. +-+.|......||+..-+++..--
T Consensus 83 l~el~kl~~------~k~~~~~~~~~Vk~kil~li~~W~ 115 (139)
T cd03567 83 LNELIKLVS------PKYLGSRTSEKVKTKIIELLYSWT 115 (139)
T ss_pred HHHHHHHhc------cccCCCCCCHHHHHHHHHHHHHHH
Confidence 344332 112355667889988888876543
No 15
>cd00197 VHS_ENTH_ANTH VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It is located at the N-termini of proteins involved in intracellular membrane trafficking. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. VHS, ENTH and ANTH domains are structurally similar and are composed of a superhelix of eight alpha helices. ENTH adnd ANTH (E/ANTH) domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membra
Probab=97.77 E-value=0.00055 Score=62.50 Aligned_cols=101 Identities=18% Similarity=0.180 Sum_probs=74.3
Q ss_pred HHHHHHhhcCCcccCCCHHHHHHHHHHHhh--CCHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHHHH
Q 005238 271 KLLETIVTYGGVRLQPTRDAIQVFLVEAAK--LDALAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILSYF 348 (706)
Q Consensus 271 ~LVe~i~T~gGvr~~PSreeLq~Fl~~c~~--Ld~e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF 348 (706)
++|++ +|. ---..|....+..++..... -.+..+..+|..||.++.|.+++|||.+||+|++..+... ..++
T Consensus 3 ~~v~~-AT~-~~~~~p~~~~i~~i~d~~~~~~~~~~~~~~~l~kRl~~~~~~~~lkaL~lLe~lvkN~g~~f----~~~i 76 (115)
T cd00197 3 KTVEK-ATS-NENMGPDWPLIMEICDLINETNVGPKEAVDAIKKRINNKNPHVVLKALTLLEYCVKNCGERF----HQEV 76 (115)
T ss_pred HHHHH-HcC-CCCCCCCHHHHHHHHHHHHCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHccHHH----HHHH
Confidence 45666 343 23357888888888887766 3568999999999999999999999999999999987533 3455
Q ss_pred HhhhHHHhh--------hhcCCChhHHHHHHHHHHHh
Q 005238 349 CENNDVVVK--------CSESPQSSLREKANKVLSLL 377 (706)
Q Consensus 349 ~eN~~~L~r--------~~~s~Q~sLReKA~KVL~lL 377 (706)
..+.-..+. ........||+|+..++.+|
T Consensus 77 ~~~~~~~~l~~~~~~~~~~~~~~~~Vr~k~~~l~~~w 113 (115)
T cd00197 77 ASNDFAVELLKFDKSKLLGDDVSTNVREKAIELVQLW 113 (115)
T ss_pred HHhHHHHHHHHhhccccccCCCChHHHHHHHHHHHHH
Confidence 555322222 12344678999999998876
No 16
>cd03571 ENTH_epsin ENTH domain, Epsin family; The epsin (Eps15 interactor) N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. ENTH and ANTH (E/ANTH) domains are structurally similar to the VHS domain and are composed of a superhelix of eight alpha helices. E/ANTH domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membranes. ENTH domains also function in the development of membrane curvature through lipid remodeling during the formation of clathrin-coated vesicles. E/ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the trans-Golgi network, which suggests that E/ANTH domains are univ
Probab=97.66 E-value=0.00058 Score=64.59 Aligned_cols=105 Identities=18% Similarity=0.262 Sum_probs=83.0
Q ss_pred HHHHHHhhcCCcccCCCHHHHHHHHHHHhhC-CHHHHHHHHHHHhCC--chHHHHHHHHHHHHHHHhccCchhHHHHHHH
Q 005238 271 KLLETIVTYGGVRLQPTRDAIQVFLVEAAKL-DALAMSRALEAKLQS--PLWQVRMKAICVLESILRKKDDEKFSIILSY 347 (706)
Q Consensus 271 ~LVe~i~T~gGvr~~PSreeLq~Fl~~c~~L-d~e~V~elL~~KL~~--~~WQvrlKALcvLEaLl~s~~~d~~~~v~~y 347 (706)
..|++ +|..-. .-|+...+.+-.+.+-.- ++..|...|.++|.+ ..|..-+|||.+||.|++.+.. .|...
T Consensus 4 ~~vre-ATs~d~-wGp~~~~m~eIa~~t~~~~~~~~Im~~l~kRL~~~~k~WR~vyKaL~lleyLl~nGse----~vv~~ 77 (123)
T cd03571 4 LKVRE-ATSNDP-WGPSGTLMAEIARATYNYVEFQEIMSMLWKRLNDKGKNWRHVYKALTLLEYLLKNGSE----RVVDD 77 (123)
T ss_pred HHHHH-HcCCCC-CCCCHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHhCCH----HHHHH
Confidence 34566 555333 778888888888887663 568999999999954 5999999999999999998863 66888
Q ss_pred HHhhhHHHhhhhc-----C----CChhHHHHHHHHHHHhcccc
Q 005238 348 FCENNDVVVKCSE-----S----PQSSLREKANKVLSLLGEEQ 381 (706)
Q Consensus 348 F~eN~~~L~r~~~-----s----~Q~sLReKA~KVL~lLg~~~ 381 (706)
|++|...|+.|.+ . .-..||+||++|+.||.-+.
T Consensus 78 ~r~~~~~i~~L~~F~~~d~~g~d~G~~VR~ka~~i~~Ll~D~~ 120 (123)
T cd03571 78 ARENLYIIRTLKDFQYIDENGKDQGINVREKAKEILELLEDDE 120 (123)
T ss_pred HHHhHHHHHhhccceeeCCCCCchhHHHHHHHHHHHHHhCCHh
Confidence 8999999988752 1 11579999999999997653
No 17
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=97.66 E-value=0.00035 Score=67.21 Aligned_cols=108 Identities=30% Similarity=0.334 Sum_probs=84.9
Q ss_pred hhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHHhHH
Q 005238 15 RMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQRHSA 94 (706)
Q Consensus 15 ~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns~ 94 (706)
.+|.+||++...-+--.+.-|||.+...... ..++.+..|.|||+++.|||-+-||.+|..|+.+....|..++...-
T Consensus 7 ~~I~kATs~~l~~~dw~~ileicD~In~~~~-~~k~a~ral~krl~~~n~~vql~AL~LLe~~vkNCG~~fh~evas~~- 84 (142)
T cd03569 7 ELIEKATSELLGEPDLASILEICDMIRSKDV-QPKYAMRALKKRLLSKNPNVQLYALLLLESCVKNCGTHFHDEVASRE- 84 (142)
T ss_pred HHHHHHcCcccCccCHHHHHHHHHHHhCCCC-CHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHCCHHHHHHHhhHH-
Confidence 7899999998877777788999999988764 57999999999999999999999999999999999999999887533
Q ss_pred HHHHhhcccCCCCCCCCchhhHHHHHHHHHHHHHhhc
Q 005238 95 VVRQLFHYKGQLDPLKGDALNKAVRDMAHEAISAIFS 131 (706)
Q Consensus 95 ~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll~aLFs 131 (706)
++.++...--+ .....||+.+-+++..-..
T Consensus 85 fl~~l~~l~~~-------~~~~~Vk~kil~li~~W~~ 114 (142)
T cd03569 85 FMDELKDLIKT-------TKNEEVRQKILELIQAWAL 114 (142)
T ss_pred HHHHHHHHHcc-------cCCHHHHHHHHHHHHHHHH
Confidence 33333222111 3346688888877776544
No 18
>cd03565 VHS_Tom1 VHS domain family, Tom1 subfamily; The VHS domain is an essential part of Tom1 (Target of myb1 - retroviral oncogene) protein. The VHS domain has a superhelical structure similar to the structure of the ARM repeats and is present at the very N-termini of proteins. It is a right-handed superhelix of eight alpha helices. The VHS domain has been found in a number of proteins, some of which have been implicated in intracellular trafficking and sorting. The VHS domain of the Tom1 protein is essential for the negative regulation of Interleukin-1 and Tumor Necrosis Factor-induced signaling pathways.
Probab=97.51 E-value=0.00067 Score=65.22 Aligned_cols=109 Identities=18% Similarity=0.225 Sum_probs=82.6
Q ss_pred hhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhcc-CCCchHHHHHHHHHHHHhcCChhHHHHHHHhH
Q 005238 15 RMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEH-KSPVVKQKALRLIKYSVGKSGTDFRREMQRHS 93 (706)
Q Consensus 15 ~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~-ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns 93 (706)
.+|.+||+..-.-.---+.-|||.+..... ...++.+..|.|||++ +.|||-+-||.+|..|+.++...|..++...
T Consensus 4 ~~IekATse~l~~~dw~~ileicD~In~~~-~~~k~a~ralkkRl~~~~n~~v~l~aL~LLe~~vkNCG~~fh~eiask- 81 (141)
T cd03565 4 QLIEKATDGSLQSEDWGLNMEICDIINETE-DGPKDAVRALKKRLNGNKNHKEVMLTLTVLETCVKNCGHRFHVLVAKK- 81 (141)
T ss_pred HHHHHHcCcCCCCcCHHHHHHHHHHHhCCC-CcHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHHccHHHHHHHHHH-
Confidence 689999999976665667789999998764 4679999999999984 6899989999999999999999999999766
Q ss_pred HHHHH-hhcccCCCCCCCCchhhHHHHHHHHHHHHHhh
Q 005238 94 AVVRQ-LFHYKGQLDPLKGDALNKAVRDMAHEAISAIF 130 (706)
Q Consensus 94 ~~Ik~-~~~f~GppDpl~Gd~l~q~VR~aAqEll~aLF 130 (706)
.++.+ +...-.+ +++ +...||+..-+++...-
T Consensus 82 ~Fl~e~L~~~i~~----~~~-~~~~Vk~kil~li~~W~ 114 (141)
T cd03565 82 DFIKDVLVKLINP----KNN-PPTIVQEKVLALIQAWA 114 (141)
T ss_pred HhhhHHHHHHHcc----cCC-CcHHHHHHHHHHHHHHH
Confidence 45555 3333221 111 23457777777766554
No 19
>PF07651 ANTH: ANTH domain; InterPro: IPR011417 AP180 is an endocytotic accessory protein that has been implicated in the formation of clathrin-coated pits. The domain is involved in phosphatidylinositol 4,5-bisphosphate binding and is a universal adaptor for nucleation of clathrin coats [, ].; GO: 0005543 phospholipid binding; PDB: 1HX8_A 3ZYM_A 1HFA_A 1HG2_A 3ZYL_B 3ZYK_A 1HG5_A 1HF8_A.
Probab=97.46 E-value=0.00031 Score=72.89 Aligned_cols=114 Identities=19% Similarity=0.074 Sum_probs=82.9
Q ss_pred hhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccC-CCchHHHHHHHHHHHHhcCChhHHHHHHHhH
Q 005238 15 RMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHK-SPVVKQKALRLIKYSVGKSGTDFRREMQRHS 93 (706)
Q Consensus 15 ~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~k-sphVKlKaLKILkyLc~~Gs~~F~r~lqrns 93 (706)
..|.|||+.++.|+--==.++|...|+. .+. +..++..|.+||... +..|-+|+|=+|-.|.+.|++.|.+++.++.
T Consensus 6 ~av~KAT~~~~~ppk~Khv~~il~~t~~-~~~-~~~~~~~l~~Rl~~~~~w~V~~K~Lil~H~llr~G~~~~~~~~~~~~ 83 (280)
T PF07651_consen 6 KAVIKATSHDEAPPKEKHVREILSATSS-PES-VAFLFWALSRRLPLTRNWIVALKALILLHRLLRDGHPSFLQELLRYN 83 (280)
T ss_dssp HHHHHHT-SSS---HHHHHHHHHHHCST-TS--HHHHHHHHHHHCTSS-SHHHHHHHHHHHHHHHHHS-CHHHHHHHHTT
T ss_pred HHHHHHcCCCCCCCCHHHHHHHHHHhcC-Ccc-HHHHHHHHHHHccccccHHHHHHHHHHHHHHHHcCchHHHHHHHHcc
Confidence 5689999998888776556888888877 444 689999999999987 7999999999999999999999999999998
Q ss_pred HHHHHhhcccCCCC-CCCCchhhHHHHHHHHHHHHHhh
Q 005238 94 AVVRQLFHYKGQLD-PLKGDALNKAVRDMAHEAISAIF 130 (706)
Q Consensus 94 ~~Ik~~~~f~GppD-pl~Gd~l~q~VR~aAqEll~aLF 130 (706)
..+..+..+.+.++ -..+...+..||.-|+=|-+-+-
T Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~~~~ir~Y~~yL~~rl~ 121 (280)
T PF07651_consen 84 RRLFDLSNIWDFDDSSSKSWDYSAFIRAYAKYLDERLS 121 (280)
T ss_dssp -----TT---T---SSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred cchhhhccccccccCCccccchhHHHHHHHHHHHHHHH
Confidence 88888888887411 13677889999999988775543
No 20
>KOG2199 consensus Signal transducing adaptor protein STAM/STAM2 [Signal transduction mechanisms]
Probab=97.34 E-value=0.0013 Score=72.51 Aligned_cols=112 Identities=26% Similarity=0.406 Sum_probs=92.6
Q ss_pred hhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHHhH-
Q 005238 15 RMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQRHS- 93 (706)
Q Consensus 15 ~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns- 93 (706)
.+|.|||+.....----+.-+||.+...++ +..++.+..|+|||+++.|||-+-||.+|.-|+.+-...|++++.-+-
T Consensus 11 ~~v~KAT~e~nT~enW~~IlDvCD~v~~~~-~~~kd~lk~i~KRln~~dphV~L~AlTLlda~~~NCg~~~r~EVsSr~F 89 (462)
T KOG2199|consen 11 QDVEKATDEKNTSENWSLILDVCDKVGSDP-DGGKDCLKAIMKRLNHKDPHVVLQALTLLDACVANCGKRFRLEVSSRDF 89 (462)
T ss_pred HHHHHhcCcccccccHHHHHHHHHhhcCCC-cccHHHHHHHHHHhcCCCcchHHHHHHHHHHHHHhcchHHHHHHhhhhH
Confidence 688999998877777778889999998887 678999999999999999999999999999999999999999986554
Q ss_pred -HHHHHhhcccCCCCCCCCchhhHHHHHHHHHHHHHhhcCCC
Q 005238 94 -AVVRQLFHYKGQLDPLKGDALNKAVRDMAHEAISAIFSEEN 134 (706)
Q Consensus 94 -~~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll~aLFsd~~ 134 (706)
..++.+.+=+ -...++++||..-+|..+ .|-++.
T Consensus 90 ~~el~al~~~~------~h~kV~~k~~~lv~eWse-e~K~Dp 124 (462)
T KOG2199|consen 90 TTELRALIESK------AHPKVCEKMRDLVKEWSE-EFKKDP 124 (462)
T ss_pred HHHHHHHHhhc------ccHHHHHHHHHHHHHHHH-HhccCc
Confidence 2345444322 224899999999999998 777553
No 21
>KOG2056 consensus Equilibrative nucleoside transporter protein [Nucleotide transport and metabolism]
Probab=97.20 E-value=0.0014 Score=71.30 Aligned_cols=96 Identities=19% Similarity=0.258 Sum_probs=74.3
Q ss_pred CCCHHHHHHHHHHHhh-CCHHHHHHHHHHHh--CCchHHHHHHHHHHHHHHHhccCchhHHHHHHHHHhhhHHHhhhhcC
Q 005238 285 QPTRDAIQVFLVEAAK-LDALAMSRALEAKL--QSPLWQVRMKAICVLESILRKKDDEKFSIILSYFCENNDVVVKCSES 361 (706)
Q Consensus 285 ~PSreeLq~Fl~~c~~-Ld~e~V~elL~~KL--~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF~eN~~~L~r~~~s 361 (706)
-|+...|.+....--. -++..|...|..|| ....|...+|||.+||.||+-+.. .|...+++|...|..|.+-
T Consensus 36 GPs~~lm~eIA~~ty~~~e~~eIm~vi~kRl~d~gknWR~VyKaLtlleyLl~~GSE----rv~~~~ren~~~I~tL~~F 111 (336)
T KOG2056|consen 36 GPSGTLMAEIAQATYNFVEYQEIMDVLWKRLNDSGKNWRHVYKALTLLEYLLKNGSE----RVVDETRENIYTIETLKDF 111 (336)
T ss_pred CCchHHHHHHHHHhcCHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHhcCcH----HHHHHHHhhhHHHHHHhhc
Confidence 5566666555544322 55689999999999 479999999999999999996653 6788999998888877654
Q ss_pred CCh---------hHHHHHHHHHHHhcccccCC
Q 005238 362 PQS---------SLREKANKVLSLLGEEQAGG 384 (706)
Q Consensus 362 ~Q~---------sLReKA~KVL~lLg~~~~~~ 384 (706)
... -||+||++||.||.-++.-.
T Consensus 112 q~iD~~G~dqG~nVRkkak~l~~LL~D~erLk 143 (336)
T KOG2056|consen 112 QYIDEDGKDQGLNVRKKAKELLSLLEDDERLK 143 (336)
T ss_pred eeeCCCCccchHHHHHHHHHHHHHhccHHHHH
Confidence 332 38999999999999866544
No 22
>KOG1087 consensus Cytosolic sorting protein GGA2/TOM1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.79 E-value=0.0073 Score=68.52 Aligned_cols=109 Identities=27% Similarity=0.284 Sum_probs=85.8
Q ss_pred hhhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHHhH
Q 005238 14 SRMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQRHS 93 (706)
Q Consensus 14 ~~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns 93 (706)
.++|+|||+..-..+---+.-|||.+.-.... .+.+++..|.|||+++.+||.+-||.||.-|+-+-...|...+.+.=
T Consensus 3 ~~~IdkAT~~~l~~pDWa~NleIcD~IN~~~~-~~~eAvralkKRi~~k~s~vq~lALtlLE~cvkNCG~~fh~~Va~k~ 81 (470)
T KOG1087|consen 3 GKLIDKATSESLAEPDWALNLEICDLINSTEG-GPKEAVRALKKRLNSKNSKVQLLALTLLETCVKNCGYSFHLQVASKE 81 (470)
T ss_pred HHHHHHhhcccccCccHHHHHHHHHHHhcCcc-CcHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence 36899999998777777788899999988764 57899999999999999999999999999999888888886655442
Q ss_pred HHHHH-hhcccCCCCCCCCchhhHHHHHHHHHHHHHhhc
Q 005238 94 AVVRQ-LFHYKGQLDPLKGDALNKAVRDMAHEAISAIFS 131 (706)
Q Consensus 94 ~~Ik~-~~~f~GppDpl~Gd~l~q~VR~aAqEll~aLFs 131 (706)
++.+ ..-++ . ++ ...+||+.+=+||+.-..
T Consensus 82 -fL~emVk~~k---~--~~--~~~~Vr~kiL~LI~~W~~ 112 (470)
T KOG1087|consen 82 -FLNEMVKRPK---N--KP--RDLKVREKILELIDTWQQ 112 (470)
T ss_pred -HHHHHHhccc---c--CC--cchhHHHHHHHHHHHHHH
Confidence 3333 22222 2 22 678899999888887655
No 23
>KOG0251 consensus Clathrin assembly protein AP180 and related proteins, contain ENTH domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=96.76 E-value=0.0068 Score=69.14 Aligned_cols=115 Identities=21% Similarity=0.162 Sum_probs=90.7
Q ss_pred hhhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccC-CCchHHHHHHHHHHHHhcCChhHHHHHHHh
Q 005238 14 SRMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHK-SPVVKQKALRLIKYSVGKSGTDFRREMQRH 92 (706)
Q Consensus 14 ~~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~k-sphVKlKaLKILkyLc~~Gs~~F~r~lqrn 92 (706)
-+.|-|||+-++.|+--=-+++|-.+|..++.+ +..+++-|.+||++. +-.|=+|||=+|-+|+.+|.+.|..++...
T Consensus 25 ~~AV~KATsh~~~ppk~k~l~~Il~~ts~~~~~-i~~~v~aLs~Rl~~TrnW~VAlKsLIliH~ll~~G~~~f~~~l~~~ 103 (491)
T KOG0251|consen 25 EKAVVKATSHDDMPPKDKYLDEILSATSSSPAS-IPSCVHALSERLNKTRNWTVALKALILIHRLLKEGDPSFEQELLSR 103 (491)
T ss_pred HHHHHhhccCCCCCccHHHHHHHHHHhcCCccc-HHHHHHHHHHHhCCCcceeehHHHHHHHHHHHhcCcHHHHHHHHhc
Confidence 478999999996665544556777888887654 689999999999988 777889999999999999999999888877
Q ss_pred HHHHHHhhcccCCCCCCCCchhhHHHHHHHHHHHHHhhc
Q 005238 93 SAVVRQLFHYKGQLDPLKGDALNKAVRDMAHEAISAIFS 131 (706)
Q Consensus 93 s~~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll~aLFs 131 (706)
. .+-.|..|+-.-- -.+.+....||.-|+=|=+.+.-
T Consensus 104 ~-~~l~lS~F~d~s~-~~~~d~safVR~Ya~YLderl~~ 140 (491)
T KOG0251|consen 104 N-LILNLSDFRDKSS-SLTWDMSAFVRTYALYLDERLEC 140 (491)
T ss_pred c-cccchhhhhcccc-cccchhhHHHHHHHHHHHHHHHH
Confidence 7 4444566663321 14678899999999877666654
No 24
>smart00273 ENTH Epsin N-terminal homology (ENTH) domain.
Probab=96.68 E-value=0.03 Score=52.33 Aligned_cols=105 Identities=18% Similarity=0.257 Sum_probs=76.0
Q ss_pred HHHHHHHHhhcCCcccCCCHHHHHHHHHHHhhC--CHHHHHHHHHHHhCCc-hHHHHHHHHHHHHHHHhccCchhHHHHH
Q 005238 269 EEKLLETIVTYGGVRLQPTRDAIQVFLVEAAKL--DALAMSRALEAKLQSP-LWQVRMKAICVLESILRKKDDEKFSIIL 345 (706)
Q Consensus 269 E~~LVe~i~T~gGvr~~PSreeLq~Fl~~c~~L--d~e~V~elL~~KL~~~-~WQvrlKALcvLEaLl~s~~~d~~~~v~ 345 (706)
|..+.+ +|..-. ..|+..-++.-+..+..- ++..|...|..+|.+. .|.+-+|+|.+|+.||+.+.. .+.
T Consensus 4 e~~V~k--AT~~~~-~~p~~k~~~~I~~~t~~~~~~~~~i~~~l~~Rl~~~~~w~~v~KsL~llh~ll~~G~~----~~~ 76 (127)
T smart00273 4 EVKVRK--ATNNDE-WGPKGKHLREIIQGTHNEKSSFAEIMAVLWRRLNDTKNWRVVYKALILLHYLLRNGSP----RVI 76 (127)
T ss_pred HHHHHH--hcCCCC-CCcCHHHHHHHHHHHccCHhhHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHhcCCH----HHH
Confidence 444444 454333 677777777777776654 6799999999999665 999999999999999998864 233
Q ss_pred HHHHhhhHHHhhhhcCCC---------hhHHHHHHHHHHHhccc
Q 005238 346 SYFCENNDVVVKCSESPQ---------SSLREKANKVLSLLGEE 380 (706)
Q Consensus 346 ~yF~eN~~~L~r~~~s~Q---------~sLReKA~KVL~lLg~~ 380 (706)
..+..+...+..|..-.. .-||++|..|+.+|...
T Consensus 77 ~~~~~~~~~i~~L~~f~~~~~~~~d~g~~VR~ya~~L~~~l~~~ 120 (127)
T smart00273 77 LEALRNRNRILNLSDFQDIDSRGKDQGANIRTYAKYLLERLEDD 120 (127)
T ss_pred HHHHHhhHHHhhHhhCeecCCCCeeCcHHHHHHHHHHHHHHcCH
Confidence 444556556665554322 25999999999998754
No 25
>cd03572 ENTH_epsin_related ENTH domain, Epsin Related family; composed of hypothetical proteins containing an ENTH-like domain. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. ENTH and ANTH (E/ANTH) domains are structurally similar to the VHS domain and are composed of a superhelix of eight alpha helices. E/ANTH domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membranes. ENTH domains also function in the development of membrane curvature through lipid remodeling during the formation of clathrin-coated vesicles. E/ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the t
Probab=96.19 E-value=0.027 Score=53.51 Aligned_cols=86 Identities=13% Similarity=0.201 Sum_probs=67.4
Q ss_pred HHHHHHHHHHhhCCHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHHHHHhhhHHHhhhhcC-------
Q 005238 289 DAIQVFLVEAAKLDALAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILSYFCENNDVVVKCSES------- 361 (706)
Q Consensus 289 eeLq~Fl~~c~~Ld~e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF~eN~~~L~r~~~s------- 361 (706)
+||...... ..-.|..|++.|.+||++..--|++|||-+|-+|+..+.. .+..+.++|...|..|.+-
T Consensus 23 ~Eia~~t~~-s~~~~~ei~d~L~kRL~~~~~hVK~K~Lrilk~l~~~G~~----~f~~~~~~~~~~Ik~~~~f~g~~Dp~ 97 (122)
T cd03572 23 EEIAKLTRK-SVGSCQELLEYLLKRLKRSSPHVKLKVLKIIKHLCEKGNS----DFKRELQRNSAQIRECANYKGPPDPL 97 (122)
T ss_pred HHHHHHHHc-CHHHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHHhhCCH----HHHHHHHHhHHHHHHHHHcCCCCCcc
Confidence 344444444 3345789999999999888888999999999999998863 4467889999988888754
Q ss_pred ----CChhHHHHHHHHHHHhcc
Q 005238 362 ----PQSSLREKANKVLSLLGE 379 (706)
Q Consensus 362 ----~Q~sLReKA~KVL~lLg~ 379 (706)
+-..||++|+.++.+|-.
T Consensus 98 ~Gd~~~~~VR~~A~El~~~if~ 119 (122)
T cd03572 98 KGDSLNEKVREEAQELIKAIFS 119 (122)
T ss_pred cCcchhHHHHHHHHHHHHHHhc
Confidence 335699999999998743
No 26
>cd03568 VHS_STAM VHS domain family, STAM subfamily; members include STAM (Signal Transducing Adaptor Molecule), EAST (EGFR-associated protein with SH3 and TAM domains) and Hbp (Hrs-binding protein). Collectively, they are referred to as STAM. All STAMs have at their N-termini a VHS domain, which is involved in cytokine-mediated intracellular signal transduction and has a superhelical structure similar to the structure of ARM (Armadillo) repeats, followed by a SH3 (Src homology 3) domain, a well-established protein-protein interaction domain. At the C-termini of most vertebrate STAMS, an ITAM (Immunoreceptor Tyrosine-based Activation) motif is present, which mediates the binding of HRS (hepatocyte growth factor-regulated tyrosine kinase substrate) in endocytic and exocytic machineries.
Probab=95.91 E-value=0.065 Score=51.94 Aligned_cols=93 Identities=15% Similarity=0.167 Sum_probs=70.0
Q ss_pred HHHHHHHHHHhhC-----CHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHHHHHhhhHHHhhhhcC-C
Q 005238 289 DAIQVFLVEAAKL-----DALAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILSYFCENNDVVVKCSES-P 362 (706)
Q Consensus 289 eeLq~Fl~~c~~L-----d~e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF~eN~~~L~r~~~s-~ 362 (706)
+.....+.=|-.+ .+...+.+|..||.+..-.++++||.+||++++..+......|.. ++-.+.|.++... .
T Consensus 16 ~dw~~il~icD~I~~~~~~~k~a~ral~KRl~~~n~~v~l~AL~LLe~~vkNCG~~fh~evas--k~Fl~eL~kl~~~~~ 93 (144)
T cd03568 16 ENWGLILDVCDKVKSDENGAKDCLKAIMKRLNHKDPNVQLRALTLLDACAENCGKRFHQEVAS--RDFTQELKKLINDRV 93 (144)
T ss_pred cCHHHHHHHHHHHhcCCccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHCCHHHHHHHhh--HHHHHHHHHHhcccC
Confidence 3444444444443 346788999999998889999999999999999998765544443 2334556666666 8
Q ss_pred ChhHHHHHHHHHHHhcccccC
Q 005238 363 QSSLREKANKVLSLLGEEQAG 383 (706)
Q Consensus 363 Q~sLReKA~KVL~lLg~~~~~ 383 (706)
+..||+|+..++..|.....+
T Consensus 94 ~~~Vk~kil~li~~W~~~f~~ 114 (144)
T cd03568 94 HPTVKEKLREVVKQWADEFKN 114 (144)
T ss_pred CHHHHHHHHHHHHHHHHHhCC
Confidence 899999999999999887764
No 27
>cd03561 VHS VHS domain family; The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It has a superhelical structure similar to that of the ARM (Armadillo) repeats and is present at the N-termini of proteins involved in intracellular membrane trafficking. There are four general groups of VHS domain containing proteins based on their association with other domains. The first group consists of proteins of the STAM/EAST/Hbp family which has the domain composition VHS-SH3-ITAM. The second consists of proteins with a FYVE domain C-terminal to VHS. The third consists of GGA proteins with a domain composition VHS-GAT (GGA and TOM)-GAE (gamma-adaptin ear) domain. The fourth consists of proteins with a VHS domain alone or with domains other than those mentioned above. In GGA proteins, VHS domains are involved in cargo recognition in trans-Golgi, thereby having a general me
Probab=95.62 E-value=0.24 Score=46.94 Aligned_cols=110 Identities=17% Similarity=0.104 Sum_probs=77.5
Q ss_pred HHHHHHhhcCCcccCCCHHHHHHHHHHHhhC--CHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHHHH
Q 005238 271 KLLETIVTYGGVRLQPTRDAIQVFLVEAAKL--DALAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILSYF 348 (706)
Q Consensus 271 ~LVe~i~T~gGvr~~PSreeLq~Fl~~c~~L--d~e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF 348 (706)
.+|+..+.+ .-..|--+.+-.+......- .+...+.+|..||++++=.++++||.+||++++..+...+..+..
T Consensus 3 ~~I~kATs~--~~~~~D~~~il~icd~I~~~~~~~k~a~raL~krl~~~n~~vql~AL~lLd~~vkNcg~~f~~~i~s-- 78 (133)
T cd03561 3 SLIERATSP--SLEEPDWALNLELCDLINLKPNGPKEAARAIRKKIKYGNPHVQLLALTLLELLVKNCGKPFHLQVAD-- 78 (133)
T ss_pred HHHHHHcCc--ccCCccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCChHHHHHHhh--
Confidence 356663433 22355566666666666654 678999999999998889999999999999999887655444433
Q ss_pred HhhhHHHhhhhc---CCChhHHHHHHHHHHHhcccccCC
Q 005238 349 CENNDVVVKCSE---SPQSSLREKANKVLSLLGEEQAGG 384 (706)
Q Consensus 349 ~eN~~~L~r~~~---s~Q~sLReKA~KVL~lLg~~~~~~ 384 (706)
.+-...+.++.. .....||+|+..++..|.......
T Consensus 79 ~~fl~~l~~l~~~~~~~~~~Vk~kil~ll~~W~~~f~~~ 117 (133)
T cd03561 79 KEFLLELVKIAKNSPKYDPKVREKALELILAWSESFGGH 117 (133)
T ss_pred HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHhcCC
Confidence 111223445443 467889999999999998877665
No 28
>PF00790 VHS: VHS domain; InterPro: IPR002014 The VHS domain is a ~140 residues long domain, whose name is derived from its occurrence in VPS-27, Hrs and STAM. Based on regions surrounding the domain, VHS-proteins can be divided into 4 groups []: STAM/EAST/Hbp which all share the domain composition VHS-SH3-ITAM and carry one or two ubiquitin-interacting motifs Proteins with a FYVE domain (IPR000306 from INTERPRO) C-terminal to VHS which also carry one or two ubiquitin-interacting motifs GGA proteins with a domain composition VHS-GAT (GGA and Tom1) homology domain VHS domain alone or in combination with domains other than those listed above The VHS domain is always found at the N- terminus of proteins suggesting that such topology is important for function. The domain is considered to have a general membrane targeting/cargo recognition role in vesicular trafficking []. Resolution of the crystal structure of the VHS domain of Drosophila Hrs and human Tom1 revealed that it consists of eight helices arranged in a double-layer superhelix []. The existence of conserved patches of residues on the domain surface suggests that VHS domains may be involved in protein-protein recognition and docking. Overall, sequence similarity is low (approx 25%) amongst domain family members.; GO: 0006886 intracellular protein transport; PDB: 1X5B_A 2L0T_B 1DVP_A 3LDZ_C 3ZYQ_A 4AVX_A 3G2U_A 3G2W_A 1UJJ_A 3G2V_A ....
Probab=95.57 E-value=0.1 Score=49.83 Aligned_cols=106 Identities=20% Similarity=0.183 Sum_probs=69.6
Q ss_pred HHHHHHHhhcCCcccCCCHHHHHHHHHHHhh-----CCHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHH
Q 005238 270 EKLLETIVTYGGVRLQPTRDAIQVFLVEAAK-----LDALAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSII 344 (706)
Q Consensus 270 ~~LVe~i~T~gGvr~~PSreeLq~Fl~~c~~-----Ld~e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v 344 (706)
..+|+..|.. ....| +...++.-|-. -.+..++.+|..||.+.+-.++++||.++|++++..+......|
T Consensus 7 ~~li~kATs~--~~~~~---Dw~~~l~icD~i~~~~~~~kea~~~l~krl~~~~~~vq~~aL~lld~lvkNcg~~f~~ev 81 (140)
T PF00790_consen 7 TELIEKATSE--SLPSP---DWSLILEICDLINSSPDGAKEAARALRKRLKHGNPNVQLLALTLLDALVKNCGPRFHREV 81 (140)
T ss_dssp HHHHHHHT-T--TSSS-----HHHHHHHHHHHHTSTTHHHHHHHHHHHHHTTSSHHHHHHHHHHHHHHHHHSHHHHHHHH
T ss_pred HHHHHHHhCc--CCCCC---CHHHHHHHHHHHHcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence 4677774443 22333 44444444443 24588999999999999999999999999999998765443222
Q ss_pred HHHHHhhhHHHhhh-hcCCChh---HHHHHHHHHHHhccccc
Q 005238 345 LSYFCENNDVVVKC-SESPQSS---LREKANKVLSLLGEEQA 382 (706)
Q Consensus 345 ~~yF~eN~~~L~r~-~~s~Q~s---LReKA~KVL~lLg~~~~ 382 (706)
.. .+-.+.|.++ ....... ||+|+.++|..|+....
T Consensus 82 ~~--~~fl~~l~~l~~~~~~~~~~~Vk~k~l~ll~~W~~~f~ 121 (140)
T PF00790_consen 82 AS--KEFLDELVKLIKSKKTDPETPVKEKILELLQEWAEAFK 121 (140)
T ss_dssp TS--HHHHHHHHHHHHHTTTHHHSHHHHHHHHHHHHHHHHTT
T ss_pred hH--HHHHHHHHHHHccCCCCchhHHHHHHHHHHHHHHHHHC
Confidence 11 1122445553 3334444 89999999999998873
No 29
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=95.43 E-value=0.34 Score=46.05 Aligned_cols=108 Identities=13% Similarity=0.131 Sum_probs=74.8
Q ss_pred HHHHHHhhcCCcccCCCHHHHHHHHHHHhh--CCHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHHH-
Q 005238 271 KLLETIVTYGGVRLQPTRDAIQVFLVEAAK--LDALAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILSY- 347 (706)
Q Consensus 271 ~LVe~i~T~gGvr~~PSreeLq~Fl~~c~~--Ld~e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~y- 347 (706)
.+|+. +|. ..-..|--+.+-.|+...+. -.+...+.+|..||.++.-.++++||-++|++++..+......|.+.
T Consensus 3 ~~i~k-ATs-~~l~~~dw~~~l~icD~i~~~~~~~k~a~r~l~krl~~~n~~v~l~AL~lLe~~vkNcg~~f~~ev~s~~ 80 (133)
T smart00288 3 RLIDK-ATS-PSLLEEDWELILEICDLINSTPDGPKDAVRLLKKRLNNKNPHVALLALTLLDACVKNCGSKFHLEVASKE 80 (133)
T ss_pred hHHHH-HcC-cCCCCcCHHHHHHHHHHHhCCCccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHhHH
Confidence 45666 343 22235556666666665544 33688999999999988888999999999999999877655444433
Q ss_pred HHhhhHHHhhhhcCCCh-h-HHHHHHHHHHHhcccccC
Q 005238 348 FCENNDVVVKCSESPQS-S-LREKANKVLSLLGEEQAG 383 (706)
Q Consensus 348 F~eN~~~L~r~~~s~Q~-s-LReKA~KVL~lLg~~~~~ 383 (706)
|. +.|.++...... . ||+|+..++..+......
T Consensus 81 fl---~~L~~l~~~~~~~~~Vk~kil~li~~W~~~f~~ 115 (133)
T smart00288 81 FL---NELVKLIKPKYPLPLVKKRILELIQEWADAFKN 115 (133)
T ss_pred HH---HHHHHHHcCCCCcHHHHHHHHHHHHHHHHHHcC
Confidence 44 455554444333 3 899999999998876654
No 30
>cd03567 VHS_GGA VHS domain family, GGA subfamily; GGA (Golgi-localized, Gamma-ear-containing, Arf-binding) comprise a subfamily of ubiquitously expressed, monomeric, motif-binding cargo/clathrin adaptor proteins. The VHS domain has a superhelical structure similar to the structure of the ARM (Armadillo) repeats and is present at the N-termini of proteins. GGA proteins have a multidomain structure consisting of an N-terminal VHS domain linked by a short proline-rich linker to a GAT (GGA and TOM) domain, which is followed by a long flexible linker to the C-terminal appendage, GAE (gamma-adaptin ear) domain. The VHS domain of GGA proteins binds to the acidic-cluster dileucine (DxxLL) motif found on the cytoplasmic tails of cargo proteins trafficked between the trans-Golgi network and the endosomal system.
Probab=94.87 E-value=0.58 Score=45.33 Aligned_cols=107 Identities=21% Similarity=0.216 Sum_probs=72.4
Q ss_pred HHHHHHhhcCCcccCCCHHHHHHHHHHHhh--CCHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHH-H
Q 005238 271 KLLETIVTYGGVRLQPTRDAIQVFLVEAAK--LDALAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILS-Y 347 (706)
Q Consensus 271 ~LVe~i~T~gGvr~~PSreeLq~Fl~~c~~--Ld~e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~-y 347 (706)
.+|+. .|... -..|-=+.+-.+...+.. -.+...+.+|..||++++-.++++||.+||++++..+......|.. =
T Consensus 4 ~~iek-AT~~~-l~~~dw~~ileicD~In~~~~~~k~a~rai~krl~~~n~~v~l~AL~LLe~~vkNCG~~fh~evas~~ 81 (139)
T cd03567 4 AWLNK-ATNPS-NREEDWEAIQAFCEQINKEPEGPQLAVRLLAHKIQSPQEKEALQALTVLEACMKNCGERFHSEVGKFR 81 (139)
T ss_pred HHHHH-HcCcc-CCCCCHHHHHHHHHHHHcCCccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCHHHHHHHHhHH
Confidence 34555 33322 234545555555555543 2235678899999999999999999999999999998765544432 2
Q ss_pred HHhhhHHHhhhhc------CCChhHHHHHHHHHHHhccccc
Q 005238 348 FCENNDVVVKCSE------SPQSSLREKANKVLSLLGEEQA 382 (706)
Q Consensus 348 F~eN~~~L~r~~~------s~Q~sLReKA~KVL~lLg~~~~ 382 (706)
|. +.+.++.. ..+..||+|...++..|.....
T Consensus 82 Fl---~el~kl~~~k~~~~~~~~~Vk~kil~li~~W~~~f~ 119 (139)
T cd03567 82 FL---NELIKLVSPKYLGSRTSEKVKTKIIELLYSWTLELP 119 (139)
T ss_pred HH---HHHHHHhccccCCCCCCHHHHHHHHHHHHHHHHHhc
Confidence 22 34555553 2578999999999999987665
No 31
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=94.83 E-value=0.57 Score=45.33 Aligned_cols=110 Identities=18% Similarity=0.131 Sum_probs=73.3
Q ss_pred HHHHHHhhcCCcccCCCHHHHHHHHHHHhh--CCHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHHHH
Q 005238 271 KLLETIVTYGGVRLQPTRDAIQVFLVEAAK--LDALAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILSYF 348 (706)
Q Consensus 271 ~LVe~i~T~gGvr~~PSreeLq~Fl~~c~~--Ld~e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF 348 (706)
.+|+. +|.. .-..|--+.+-.+...... -.+...+.+|.+||....-.++++||-+||++++..+...+..|.+
T Consensus 7 ~~I~k-ATs~-~l~~~dw~~ileicD~In~~~~~~k~a~ral~krl~~~n~~vql~AL~LLe~~vkNCG~~fh~evas-- 82 (142)
T cd03569 7 ELIEK-ATSE-LLGEPDLASILEICDMIRSKDVQPKYAMRALKKRLLSKNPNVQLYALLLLESCVKNCGTHFHDEVAS-- 82 (142)
T ss_pred HHHHH-HcCc-ccCccCHHHHHHHHHHHhCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHCCHHHHHHHhh--
Confidence 45666 3331 2233333333333333332 4457889999999999999999999999999999887655543333
Q ss_pred HhhhHHHhhhhc-CCChhHHHHHHHHHHHhcccccCC
Q 005238 349 CENNDVVVKCSE-SPQSSLREKANKVLSLLGEEQAGG 384 (706)
Q Consensus 349 ~eN~~~L~r~~~-s~Q~sLReKA~KVL~lLg~~~~~~ 384 (706)
++-.+.+.++.. ..+..||+|+..++..|.....+.
T Consensus 83 ~~fl~~l~~l~~~~~~~~Vk~kil~li~~W~~~f~~~ 119 (142)
T cd03569 83 REFMDELKDLIKTTKNEEVRQKILELIQAWALAFRNK 119 (142)
T ss_pred HHHHHHHHHHHcccCCHHHHHHHHHHHHHHHHHhCCC
Confidence 222344555443 677889999999999998766543
No 32
>cd03565 VHS_Tom1 VHS domain family, Tom1 subfamily; The VHS domain is an essential part of Tom1 (Target of myb1 - retroviral oncogene) protein. The VHS domain has a superhelical structure similar to the structure of the ARM repeats and is present at the very N-termini of proteins. It is a right-handed superhelix of eight alpha helices. The VHS domain has been found in a number of proteins, some of which have been implicated in intracellular trafficking and sorting. The VHS domain of the Tom1 protein is essential for the negative regulation of Interleukin-1 and Tumor Necrosis Factor-induced signaling pathways.
Probab=93.87 E-value=0.59 Score=45.18 Aligned_cols=107 Identities=17% Similarity=0.204 Sum_probs=70.7
Q ss_pred HHHHHHHhhcCCcccCCCHHHHHHHHHHHhhC-----CHHHHHHHHHHHhC-CchHHHHHHHHHHHHHHHhccCchhHHH
Q 005238 270 EKLLETIVTYGGVRLQPTRDAIQVFLVEAAKL-----DALAMSRALEAKLQ-SPLWQVRMKAICVLESILRKKDDEKFSI 343 (706)
Q Consensus 270 ~~LVe~i~T~gGvr~~PSreeLq~Fl~~c~~L-----d~e~V~elL~~KL~-~~~WQvrlKALcvLEaLl~s~~~d~~~~ 343 (706)
..+|+. +|... .+.+..+-.++-|-.+ .+...+.+|.+||. ++.-+++++||.+||++++..+......
T Consensus 3 ~~~Iek-ATse~----l~~~dw~~ileicD~In~~~~~~k~a~ralkkRl~~~~n~~v~l~aL~LLe~~vkNCG~~fh~e 77 (141)
T cd03565 3 GQLIEK-ATDGS----LQSEDWGLNMEICDIINETEDGPKDAVRALKKRLNGNKNHKEVMLTLTVLETCVKNCGHRFHVL 77 (141)
T ss_pred hHHHHH-HcCcC----CCCcCHHHHHHHHHHHhCCCCcHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHHccHHHHHH
Confidence 356666 44412 2233555555555443 34678899999997 5678899999999999999988765544
Q ss_pred HHHHHHhhhHH-Hhhhhc---CCChhHHHHHHHHHHHhcccccC
Q 005238 344 ILSYFCENNDV-VVKCSE---SPQSSLREKANKVLSLLGEEQAG 383 (706)
Q Consensus 344 v~~yF~eN~~~-L~r~~~---s~Q~sLReKA~KVL~lLg~~~~~ 383 (706)
|.. ++-.+. |.++.. .++..||+|...++..|.....+
T Consensus 78 ias--k~Fl~e~L~~~i~~~~~~~~~Vk~kil~li~~W~~~f~~ 119 (141)
T cd03565 78 VAK--KDFIKDVLVKLINPKNNPPTIVQEKVLALIQAWADAFRG 119 (141)
T ss_pred HHH--HHhhhHHHHHHHcccCCCcHHHHHHHHHHHHHHHHHhCC
Confidence 432 122333 444443 24568999999999999876644
No 33
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=90.25 E-value=1.4 Score=44.10 Aligned_cols=89 Identities=20% Similarity=0.178 Sum_probs=58.1
Q ss_pred HHHHHHHHHHhhCCHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccC--chhHHHHHHHHHhhhHHHhhhhcCCChhH
Q 005238 289 DAIQVFLVEAAKLDALAMSRALEAKLQSPLWQVRMKAICVLESILRKKD--DEKFSIILSYFCENNDVVVKCSESPQSSL 366 (706)
Q Consensus 289 eeLq~Fl~~c~~Ld~e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~--~d~~~~v~~yF~eN~~~L~r~~~s~Q~sL 366 (706)
..|..+++.|. .....+...|..-+.+++|++|..++-.+..++..-. .+..+ ...++..-...|.+|...+.+.|
T Consensus 116 ~~L~~i~~~~~-~~~~~~~~~l~~~~~~Kn~~vR~~~~~~l~~~l~~~~~~~~~l~-~~~~~~~l~~~l~~~l~D~~~~V 193 (228)
T PF12348_consen 116 NALDAIIESCS-YSPKILLEILSQGLKSKNPQVREECAEWLAIILEKWGSDSSVLQ-KSAFLKQLVKALVKLLSDADPEV 193 (228)
T ss_dssp HHHHHHHTTS--H--HHHHHHHHHHTT-S-HHHHHHHHHHHHHHHTT-----GGG---HHHHHHHHHHHHHHHTSS-HHH
T ss_pred HHHHHHHHHCC-cHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHccchHhhhc-ccchHHHHHHHHHHHCCCCCHHH
Confidence 33444444444 2234457888888899999999999988988888776 22221 12234555688999999999999
Q ss_pred HHHHHHHHHHhcc
Q 005238 367 REKANKVLSLLGE 379 (706)
Q Consensus 367 ReKA~KVL~lLg~ 379 (706)
|+.|++++..|--
T Consensus 194 R~~Ar~~~~~l~~ 206 (228)
T PF12348_consen 194 REAARECLWALYS 206 (228)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 9999999988843
No 34
>cd03562 CID CID (CTD-Interacting Domain) domain family; CID is present in several RNA-processing factors such as Pcf11 and Nrd1. Pcf11 is a conserved and essential subunit of the yeast cleavage factor IA, which is required for polyadenylation-dependent 3'-RNA processing and transcription termination. Nrd1 is implicated in polyadenylation-independent 3'-RNA processing. CID binds tightly to the carboxy-terminal domain (CTD) of RNA polymerase (Pol) II. During transcription, Pol II synthesizes eukaryotic messenger RNA. Transcription is coupled to RNA processing through the CTD, which consists of up to 52 repeats of the sequence Tyr 1-Ser 2-Pro 3-Thr 4-Ser 5-Pro 6-Ser 7. CID contains eight alpha-helices in a right-handed superhelical arrangement, which closely resembles that of the VHS domains and ARM (Armadillo) repeat proteins, except for its two amino-terminal helices.
Probab=89.66 E-value=2.7 Score=38.32 Aligned_cols=103 Identities=17% Similarity=0.280 Sum_probs=69.7
Q ss_pred HHHHHHHHhhcCCcccCCCHHHHH---HHHHHHhhCCHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHH
Q 005238 269 EEKLLETIVTYGGVRLQPTRDAIQ---VFLVEAAKLDALAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIIL 345 (706)
Q Consensus 269 E~~LVe~i~T~gGvr~~PSreeLq---~Fl~~c~~Ld~e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~ 345 (706)
+..++++|.+.- -|+..|+ .++.+-. -.+..|++++.++|...+=..++-+|+++..+++..... | .
T Consensus 4 ~~~~l~~L~~~~-----~S~~~I~~lt~~a~~~~-~~a~~iv~~i~~~i~~~~~~~KL~~LYL~dsIvkn~~~~-~---~ 73 (114)
T cd03562 4 YNALLEKLTFNK-----NSQPSIQTLTKLAIENR-KHAKEIVEIIEKHIKKCPPEQKLPLLYLLDSIVKNVGRK-Y---K 73 (114)
T ss_pred HHHHHHHHHcCc-----ccHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHHHcccc-h---H
Confidence 455566655531 3444444 4444433 356799999999996544478999999999999986542 2 3
Q ss_pred HHHHhh-hHHHhhhhcCCChhHHHHHHHHHHHhcccc
Q 005238 346 SYFCEN-NDVVVKCSESPQSSLREKANKVLSLLGEEQ 381 (706)
Q Consensus 346 ~yF~eN-~~~L~r~~~s~Q~sLReKA~KVL~lLg~~~ 381 (706)
.+|.+. .+.+..........+|+|-.||+..+.-..
T Consensus 74 ~~~~~~~~~~f~~~~~~~~~~~r~kl~rl~~iW~~~~ 110 (114)
T cd03562 74 EFFSEFLVPLFLDAYEKVDEKTRKKLERLLNIWEERF 110 (114)
T ss_pred HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCC
Confidence 344444 455555666778899999999999886543
No 35
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=89.17 E-value=2.4 Score=38.72 Aligned_cols=72 Identities=25% Similarity=0.214 Sum_probs=57.5
Q ss_pred HHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHHHHHhhhHHHhhhhcCCChhHHHHHHHHHHHhc
Q 005238 303 ALAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILSYFCENNDVVVKCSESPQSSLREKANKVLSLLG 378 (706)
Q Consensus 303 ~e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF~eN~~~L~r~~~s~Q~sLReKA~KVL~lLg 378 (706)
.+.|++.+...+.++.|+||+=|.=+|=-|.+... ..+..||.+-=+.|.++...+...||.-|.-+-++|.
T Consensus 25 l~~Il~pVL~~~~D~d~rVRy~AcEaL~ni~k~~~----~~~l~~f~~IF~~L~kl~~D~d~~Vr~~a~~Ld~llk 96 (97)
T PF12755_consen 25 LDEILPPVLKCFDDQDSRVRYYACEALYNISKVAR----GEILPYFNEIFDALCKLSADPDENVRSAAELLDRLLK 96 (97)
T ss_pred HHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhc
Confidence 36788888899999999999877655545554432 3556799998999999999999999999988888874
No 36
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=88.97 E-value=1.3 Score=43.59 Aligned_cols=82 Identities=17% Similarity=0.288 Sum_probs=59.1
Q ss_pred HHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHHhHHHHHHhhcccCCCCCCCCchhh
Q 005238 36 ICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQRHSAVVRQLFHYKGQLDPLKGDALN 115 (706)
Q Consensus 36 Ia~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns~~Ik~~~~f~GppDpl~Gd~l~ 115 (706)
++.++...+ ..+...++.|.++|.+++|.|+.-||.+|.||..++--.++-.+- ..+++ |. -| .+
T Consensus 12 l~DL~~r~~-~~ve~~~~~l~~~L~D~~~~VR~~al~~Ls~Li~~d~ik~k~~l~--~~~l~-~l-----~D------~~ 76 (178)
T PF12717_consen 12 LGDLCIRYP-NLVEPYLPNLYKCLRDEDPLVRKTALLVLSHLILEDMIKVKGQLF--SRILK-LL-----VD------EN 76 (178)
T ss_pred HHHHHHhCc-HHHHhHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCceeehhhhh--HHHHH-HH-----cC------CC
Confidence 344454454 567889999999999999999999999999999886544443330 22232 33 13 25
Q ss_pred HHHHHHHHHHHHHhhcC
Q 005238 116 KAVRDMAHEAISAIFSE 132 (706)
Q Consensus 116 q~VR~aAqEll~aLFsd 132 (706)
..||+.|+.++.-+.-.
T Consensus 77 ~~Ir~~A~~~~~e~~~~ 93 (178)
T PF12717_consen 77 PEIRSLARSFFSELLKK 93 (178)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 67999999999888774
No 37
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=88.59 E-value=2 Score=42.94 Aligned_cols=71 Identities=18% Similarity=0.388 Sum_probs=45.2
Q ss_pred HH-HHHHHHhhccCCCchHHHHHHHHHHHHhcCC---hhHHHH--HHHhHHHHHHhhcccCCCCCCCCchhhHHHHHHHH
Q 005238 50 EV-SDFILKRLEHKSPVVKQKALRLIKYSVGKSG---TDFRRE--MQRHSAVVRQLFHYKGQLDPLKGDALNKAVRDMAH 123 (706)
Q Consensus 50 eI-~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs---~~F~r~--lqrns~~Ik~~~~f~GppDpl~Gd~l~q~VR~aAq 123 (706)
.+ ..+|..-+++|+|.|+.-|+.+|..++.+-. ..+... +..-...|..|. .+....||++|+
T Consensus 130 ~~~~~~l~~~~~~Kn~~vR~~~~~~l~~~l~~~~~~~~~l~~~~~~~~l~~~l~~~l-----------~D~~~~VR~~Ar 198 (228)
T PF12348_consen 130 KILLEILSQGLKSKNPQVREECAEWLAIILEKWGSDSSVLQKSAFLKQLVKALVKLL-----------SDADPEVREAAR 198 (228)
T ss_dssp HHHHHHHHHHTT-S-HHHHHHHHHHHHHHHTT-----GGG--HHHHHHHHHHHHHHH-----------TSS-HHHHHHHH
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHccchHhhhcccchHHHHHHHHHHHC-----------CCCCHHHHHHHH
Confidence 44 7777777888888888888888888876655 444332 233444455544 234567999999
Q ss_pred HHHHHhhc
Q 005238 124 EAISAIFS 131 (706)
Q Consensus 124 Ell~aLFs 131 (706)
+++..++.
T Consensus 199 ~~~~~l~~ 206 (228)
T PF12348_consen 199 ECLWALYS 206 (228)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 99999987
No 38
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=87.31 E-value=2.1 Score=50.58 Aligned_cols=108 Identities=24% Similarity=0.313 Sum_probs=79.2
Q ss_pred hhhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHH--HH
Q 005238 14 SRMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREM--QR 91 (706)
Q Consensus 14 ~~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~l--qr 91 (706)
.+++.+||+..---.--=.+-||..+++.--. -++.-|.-+-+|+++..|||++=+|+++++||.++...|+.++ |.
T Consensus 10 ~~l~~~at~~~~~~~~~e~~~e~~d~ir~~~~-~~k~slr~~~~~i~h~np~~~~~~~~~~d~cvkn~G~gv~~ei~tre 88 (634)
T KOG1818|consen 10 KRLIEKATSETLGSGDWEAILEISDMIRSGGV-PPKPSLRGIKKRIDHENPNVQLFTLKLTDHCVKNCGHGVHCEIATRE 88 (634)
T ss_pred HhhhhhhhhhhhcCcchhhhhhHHHHHHhcCC-CCchhHHHHHHHHhccCCCcccchhhhHHHHHhcCCcchhHHHHHHH
Confidence 47889999988744444567789999887654 3678889999999999999999999999999988876666554 34
Q ss_pred hHHHHHHhhcccCCCCCCCCchhhHHHHHHHHHHHHHhhc
Q 005238 92 HSAVVRQLFHYKGQLDPLKGDALNKAVRDMAHEAISAIFS 131 (706)
Q Consensus 92 ns~~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll~aLFs 131 (706)
...-++.|..-.- .+.-||..-.+++..++.
T Consensus 89 ~m~~~~~~l~~~~---------~~e~v~~~~l~~~q~wa~ 119 (634)
T KOG1818|consen 89 FMDLLKSLLESQR---------IHEEVKNKILELIQNWAA 119 (634)
T ss_pred HHHHHHhhhcccc---------ccchHHHHHHHHHHHHHH
Confidence 4456777765442 344466666666665554
No 39
>cd03564 ANTH_AP180_CALM ANTH domain family; composed of adaptor protein 180 (AP180), clathrin assembly lymphoid myeloid leukemia protein (CALM) and similar proteins. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. AP180 and CALM play important roles in clathrin-mediated endocytosis. AP180 is a brain-specific clathrin-binding protein which stimulates clathrin assembly during the recycling of synaptic vesicles. The ANTH domain is structurally similar to the VHS domain and is composed of a superhelix of eight alpha helices. ANTH domains bind both inositol phospholipids and proteins, and contribute to the nucleation and formation of clathrin coats on membranes. ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the trans-Golgi network, which suggests that the ANTH domain is a universal component of the machine
Probab=86.82 E-value=4.6 Score=37.44 Aligned_cols=56 Identities=20% Similarity=0.376 Sum_probs=48.4
Q ss_pred ccCCCHHHHHHHHHHHhh--CCHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCc
Q 005238 283 RLQPTRDAIQVFLVEAAK--LDALAMSRALEAKLQSPLWQVRMKAICVLESILRKKDD 338 (706)
Q Consensus 283 r~~PSreeLq~Fl~~c~~--Ld~e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~ 338 (706)
-..|...-++.-+..+.. -++..+..+|.++|....|.+-+|+|.+|..||+.+..
T Consensus 13 ~~~pk~k~v~~ii~~t~~~~~~~~~~~~~l~~Rl~~~~w~v~~K~LillH~llr~G~~ 70 (117)
T cd03564 13 EAPPKDKHVRKIIAGTSSSPASIPSFASALSRRLLDRNWVVVLKALILLHRLLREGHP 70 (117)
T ss_pred CCCCChHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHHHHhcCCH
Confidence 566777777777777766 78899999999999889999999999999999998864
No 40
>KOG1087 consensus Cytosolic sorting protein GGA2/TOM1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=85.13 E-value=5 Score=46.25 Aligned_cols=107 Identities=19% Similarity=0.212 Sum_probs=72.9
Q ss_pred HHHHHHHhhcCCcccCCCHHHHHHHHHHHhhCCH-----HHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHH
Q 005238 270 EKLLETIVTYGGVRLQPTRDAIQVFLVEAAKLDA-----LAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSII 344 (706)
Q Consensus 270 ~~LVe~i~T~gGvr~~PSreeLq~Fl~~c~~Ld~-----e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v 344 (706)
.++|+..|.. ....+.+.-+++=|-.+|. ..++.+|.+||++..=.|++.||.+||.+++..+.-++..|
T Consensus 3 ~~~IdkAT~~-----~l~~pDWa~NleIcD~IN~~~~~~~eAvralkKRi~~k~s~vq~lALtlLE~cvkNCG~~fh~~V 77 (470)
T KOG1087|consen 3 GKLIDKATSE-----SLAEPDWALNLEICDLINSTEGGPKEAVRALKKRLNSKNSKVQLLALTLLETCVKNCGYSFHLQV 77 (470)
T ss_pred HHHHHHhhcc-----cccCccHHHHHHHHHHHhcCccCcHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence 3566663332 2234456666666766644 57888999999755557999999999999998876544333
Q ss_pred HH-HHHhhhHHHhhhhcC-CChhHHHHHHHHHHHhcccccC
Q 005238 345 LS-YFCENNDVVVKCSES-PQSSLREKANKVLSLLGEEQAG 383 (706)
Q Consensus 345 ~~-yF~eN~~~L~r~~~s-~Q~sLReKA~KVL~lLg~~~~~ 383 (706)
.+ =|. .+-|.+-... +...||+|+--+|..|+-...+
T Consensus 78 a~k~fL--~emVk~~k~~~~~~~Vr~kiL~LI~~W~~af~~ 116 (470)
T KOG1087|consen 78 ASKEFL--NEMVKRPKNKPRDLKVREKILELIDTWQQAFCG 116 (470)
T ss_pred HHHHHH--HHHHhccccCCcchhHHHHHHHHHHHHHHHccC
Confidence 32 222 2344444555 6678999999999999887777
No 41
>KOG2374 consensus Uncharacterized conserved protein [Function unknown]
Probab=80.95 E-value=14 Score=42.84 Aligned_cols=111 Identities=17% Similarity=0.157 Sum_probs=89.2
Q ss_pred hhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHHhHH
Q 005238 15 RMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQRHSA 94 (706)
Q Consensus 15 ~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns~ 94 (706)
.||.++|-+...-.---+|.+|-++++.|.++ |.-...-|+.-+.+.+.-|++=+|.|+.-|..+ ++-|+..+..|..
T Consensus 10 ~lIeelT~sg~~~~~p~~~k~lkkiv~~sdee-~~~~~~~L~~~~~~~h~~vR~l~lqii~elF~r-s~~FR~lii~n~~ 87 (661)
T KOG2374|consen 10 GLIEELTKSGAQEVDPRLLKALKKIVRYSDEE-VRLSSQTLMELMRHNHSQVRYLTLQIIDELFMR-SKLFRTLIIENLD 87 (661)
T ss_pred HHHHHHhhcCCcccChHHHHHHHHHHhccHHH-HHHHHHHHHHHHhhcCchHHHHHHHHHHHHHHh-hHHHHHHHHhCHH
Confidence 57888888777666667899999999998765 888999999999999999999999999999887 7899999999998
Q ss_pred HHHHhhcccCCCCCCCC-chhhHHHHHHHHHHHH
Q 005238 95 VVRQLFHYKGQLDPLKG-DALNKAVRDMAHEAIS 127 (706)
Q Consensus 95 ~Ik~~~~f~GppDpl~G-d~l~q~VR~aAqEll~ 127 (706)
..-+|+-=.-|-=||-+ ....+..|.+|-++++
T Consensus 88 efLeL~~gt~p~~PLP~p~~~a~~Lr~~ai~~~e 121 (661)
T KOG2374|consen 88 EFLELSIGTRPNLPLPAPPAVATTLRSKAIEFLE 121 (661)
T ss_pred HHHHHhhcCCCCCCCCCChHHHHHHHHHHHHHHH
Confidence 77777644434345544 2445678888877765
No 42
>cd06224 REM Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal domain (RasGef_N), also called REM domain (Ras exchanger motif). This domain is common in nucleotide exchange factors for Ras-like small GTPases and is typically found immediately N-terminal to the RasGef (Cdc25-like) domain. REM contacts the GTPase and is assumed to participate in the catalytic activity of the exchange factor. Proteins with the REM domain include Sos1 and Sos2, which relay signals from tyrosine-kinase mediated signalling to Ras, RasGRP1-4, RasGRF1,2, CNrasGEF, and RAP-specific nucleotide exchange factors, to name a few.
Probab=80.79 E-value=3.4 Score=37.36 Aligned_cols=70 Identities=20% Similarity=0.216 Sum_probs=55.0
Q ss_pred hhhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccCC--------------CchHHHHHHHHHHHHh
Q 005238 14 SRMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHKS--------------PVVKQKALRLIKYSVG 79 (706)
Q Consensus 14 ~~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ks--------------phVKlKaLKILkyLc~ 79 (706)
-.||.+.|..+. .+...|-++-=+||.+-.+ -.++++.|..|-+... ..|+.+++++|++-+.
T Consensus 3 ~~Li~~L~~~~~--~~d~~f~~~FllTyrsF~s-~~~ll~~L~~rf~~~~~~~~~~~~~~~~~~~~~~~~v~~~l~~Wv~ 79 (122)
T cd06224 3 EALIEHLTSTFD--MPDPSFVSTFLLTYRSFTT-PTELLEKLIERYEIAPPENLEYNDWDKKKSKPIRLRVLNVLRTWVE 79 (122)
T ss_pred HHHHHHHcCCCc--cccHHHHHHHHHHhhhhCC-HHHHHHHHHHHhCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 368888888876 4555666777778887654 3799999999999543 3378899999999999
Q ss_pred cCChhHH
Q 005238 80 KSGTDFR 86 (706)
Q Consensus 80 ~Gs~~F~ 86 (706)
+-..+|.
T Consensus 80 ~~~~df~ 86 (122)
T cd06224 80 NYPYDFF 86 (122)
T ss_pred hCCCccc
Confidence 9999994
No 43
>PF02985 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT repeat is a tandemly repeated, 37-47 amino acid long module occurring in a number of cytoplasmic proteins, including the four name-giving proteins huntingtin, elongation factor 3 (EF3), the 65 Kd alpha regulatory subunit of protein phosphatase 2A (PP2A) and the yeast PI3-kinase TOR1 []. Arrays of HEAT repeats consists of 3 to 36 units forming a rod-like helical structure and appear to function as protein-protein interaction surfaces. It has been noted that many HEAT repeat-containing proteins are involved in intracellular transport processes. In the crystal structure of PP2A PR65/A [], the HEAT repeats consist of pairs of antiparallel alpha helices [].; GO: 0005515 protein binding; PDB: 3FGA_A 2PF4_C 2IAE_A 2BKU_D 3EA5_B 3ND2_A 2BPT_A 2NYL_A 2NPP_D 2PKG_B ....
Probab=79.73 E-value=3.5 Score=29.62 Aligned_cols=29 Identities=28% Similarity=0.210 Sum_probs=23.9
Q ss_pred HHHHHHHHhCCchHHHHHHHHHHHHHHHh
Q 005238 306 MSRALEAKLQSPLWQVRMKAICVLESILR 334 (706)
Q Consensus 306 V~elL~~KL~~~~WQvrlKALcvLEaLl~ 334 (706)
|+..|.+-|+++.|.||.-|+.+|-.|.+
T Consensus 1 llp~l~~~l~D~~~~VR~~a~~~l~~i~~ 29 (31)
T PF02985_consen 1 LLPILLQLLNDPSPEVRQAAAECLGAIAE 29 (31)
T ss_dssp HHHHHHHHHT-SSHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHcCCCCHHHHHHHHHHHHHHHh
Confidence 46677888899999999999999888875
No 44
>KOG2374 consensus Uncharacterized conserved protein [Function unknown]
Probab=78.70 E-value=17 Score=42.23 Aligned_cols=105 Identities=19% Similarity=0.251 Sum_probs=78.3
Q ss_pred hHHHHHHHHhhcCCcccCCCHHHHHHHHHHHhhCC--HHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHH
Q 005238 268 REEKLLETIVTYGGVRLQPTRDAIQVFLVEAAKLD--ALAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIIL 345 (706)
Q Consensus 268 ~E~~LVe~i~T~gGvr~~PSreeLq~Fl~~c~~Ld--~e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~ 345 (706)
.-.+||++++++|-.++-| ..++..-+.|..-| |+.+.+.|...|....-|+|+-+|-.|+.|+-+. ....
T Consensus 7 kl~~lIeelT~sg~~~~~p--~~~k~lkkiv~~sdee~~~~~~~L~~~~~~~h~~vR~l~lqii~elF~rs-----~~FR 79 (661)
T KOG2374|consen 7 KLIGLIEELTKSGAQEVDP--RLLKALKKIVRYSDEEVRLSSQTLMELMRHNHSQVRYLTLQIIDELFMRS-----KLFR 79 (661)
T ss_pred HHHHHHHHHhhcCCcccCh--HHHHHHHHHHhccHHHHHHHHHHHHHHHhhcCchHHHHHHHHHHHHHHhh-----HHHH
Confidence 4578999999998888876 45666666666544 5678889999998888899999999999988643 2335
Q ss_pred HHHHhhhHHHhhhhcCCC------------hhHHHHHHHHHHHhcc
Q 005238 346 SYFCENNDVVVKCSESPQ------------SSLREKANKVLSLLGE 379 (706)
Q Consensus 346 ~yF~eN~~~L~r~~~s~Q------------~sLReKA~KVL~lLg~ 379 (706)
....+|.+.+..|+-.-. ..||.+|.++|.-|+.
T Consensus 80 ~lii~n~~efLeL~~gt~p~~PLP~p~~~a~~Lr~~ai~~~e~Wne 125 (661)
T KOG2374|consen 80 TLIIENLDEFLELSIGTRPNLPLPAPPAVATTLRSKAIEFLEKWNE 125 (661)
T ss_pred HHHHhCHHHHHHHhhcCCCCCCCCCChHHHHHHHHHHHHHHHHHHH
Confidence 556777777777664322 3589999999887653
No 45
>PF12830 Nipped-B_C: Sister chromatid cohesion C-terminus
Probab=78.46 E-value=7.3 Score=39.02 Aligned_cols=60 Identities=30% Similarity=0.300 Sum_probs=50.2
Q ss_pred CCchHHHHHHHHHHHHHHHhccCchhHHHHHHHHHhhhHHHhhhhcCCChhHHHHHHHHHHHhccccc
Q 005238 315 QSPLWQVRMKAICVLESILRKKDDEKFSIILSYFCENNDVVVKCSESPQSSLREKANKVLSLLGEEQA 382 (706)
Q Consensus 315 ~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF~eN~~~L~r~~~s~Q~sLReKA~KVL~lLg~~~~ 382 (706)
-++.-++|+.|+.+|+.+++.+-.-+.+ ..+.|+.|..++...+|++|.++|+.|..--+
T Consensus 18 ~~~~~~vr~~Al~~l~~il~qGLvnP~~--------cvp~lIAL~ts~~~~ir~~A~~~l~~l~eK~~ 77 (187)
T PF12830_consen 18 LSSDDSVRLAALQVLELILRQGLVNPKQ--------CVPTLIALETSPNPSIRSRAYQLLKELHEKHE 77 (187)
T ss_pred hCCCHHHHHHHHHHHHHHHhcCCCChHH--------HHhHhhhhhCCCChHHHHHHHHHHHHHHHHhH
Confidence 3677789999999999999998655543 34888899999999999999999999965443
No 46
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A.
Probab=78.38 E-value=5 Score=33.77 Aligned_cols=59 Identities=25% Similarity=0.293 Sum_probs=43.0
Q ss_pred HHHHHHHh-CCchHHHHHHHHHHHHHHHhccCchhHHHHHHHHHhhhHHHhhhhcCCChhHHHHHHHHHHHhcc
Q 005238 307 SRALEAKL-QSPLWQVRMKAICVLESILRKKDDEKFSIILSYFCENNDVVVKCSESPQSSLREKANKVLSLLGE 379 (706)
Q Consensus 307 ~elL~~KL-~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF~eN~~~L~r~~~s~Q~sLReKA~KVL~lLg~ 379 (706)
++.|.+.| +++.|.+|..|+-+|..+ +.. +-.+.|..+..++...||..|-..|..+|.
T Consensus 1 i~~L~~~l~~~~~~~vr~~a~~~L~~~---~~~-----------~~~~~L~~~l~d~~~~vr~~a~~aL~~i~~ 60 (88)
T PF13646_consen 1 IPALLQLLQNDPDPQVRAEAARALGEL---GDP-----------EAIPALIELLKDEDPMVRRAAARALGRIGD 60 (88)
T ss_dssp HHHHHHHHHTSSSHHHHHHHHHHHHCC---THH-----------HHHHHHHHHHTSSSHHHHHHHHHHHHCCHH
T ss_pred CHHHHHHHhcCCCHHHHHHHHHHHHHc---CCH-----------hHHHHHHHHHcCCCHHHHHHHHHHHHHhCC
Confidence 35677777 899999999887777622 211 112555566678889999999999999874
No 47
>PF11467 LEDGF: Lens epithelium-derived growth factor (LEDGF) ; InterPro: IPR021567 LEDGF is a chromatin-associated protein that protects cells from stress-induced apoptosis. It is the binding partner of HIV-1 integrase in human cells. The integrase binding domain (IBD) of LEDGF is a compact right-handed bundle composed of five alpha-helices. The residues essential for the interaction with the integrase are present in the inter-helical loop regions of the bundle structure. ; PDB: 3F9K_K 3HPG_G 3U88_C 3HPH_H 2B4J_D 1Z9E_A.
Probab=76.70 E-value=7.7 Score=36.38 Aligned_cols=70 Identities=23% Similarity=0.337 Sum_probs=46.5
Q ss_pred HHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHHhHH---HHHHhhcccCCCCCCCCchhhHHHHHHHHHH
Q 005238 49 KEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQRHSA---VVRQLFHYKGQLDPLKGDALNKAVRDMAHEA 125 (706)
Q Consensus 49 ~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns~---~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEl 125 (706)
.+|-.-|-.-|.-..|.| -|||.+|+-|-.= +-=..-|+||.. .||.|+.|.|. +.||+.|.++
T Consensus 5 ~~l~~~Ik~~L~~~~~Dv-~kcL~~LdeL~~l--~vT~~mL~kn~e~V~TlkklRrY~gn----------~~Ir~KA~~l 71 (106)
T PF11467_consen 5 QELHSEIKSSLKVDNPDV-KKCLKALDELKSL--QVTSLMLQKNPECVETLKKLRRYKGN----------QQIRKKATEL 71 (106)
T ss_dssp HHHHHHHHHTCETTEE-H-HHHHHHHHHHHTS-----HHHHTTTHHHHHHHHHHTT-TT-----------HHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcc--CCCHHHHHhCHHHHHHHHHHHHhhcc----------HHHHHHHHHH
Confidence 344444556676677899 8999999988643 112355777776 46667888887 7899999998
Q ss_pred H---HHhhc
Q 005238 126 I---SAIFS 131 (706)
Q Consensus 126 l---~aLFs 131 (706)
- ..+|-
T Consensus 72 YnkfK~~f~ 80 (106)
T PF11467_consen 72 YNKFKSLFL 80 (106)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHhC
Confidence 5 46674
No 48
>PF13513 HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O_A 2H4M_A 2QMR_A 1QBK_B 2Z5M_A 2Z5K_A 2Z5N_A 1GCJ_B ....
Probab=76.32 E-value=7.1 Score=30.84 Aligned_cols=55 Identities=20% Similarity=0.171 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHHHHHhccCchhHHHHHHHHHhhhHHHhhhhcCCChhHHHHHHHHHHHh
Q 005238 319 WQVRMKAICVLESILRKKDDEKFSIILSYFCENNDVVVKCSESPQSSLREKANKVLSLL 377 (706)
Q Consensus 319 WQvrlKALcvLEaLl~s~~~d~~~~v~~yF~eN~~~L~r~~~s~Q~sLReKA~KVL~lL 377 (706)
|.||..|+.+|=.|..... ..+..|..+-.+.|..+-.++...||..|-.-|..|
T Consensus 1 p~vR~~A~~aLg~l~~~~~----~~~~~~~~~~~~~L~~~L~d~~~~VR~~A~~aLg~l 55 (55)
T PF13513_consen 1 PRVRRAAAWALGRLAEGCP----ELLQPYLPELLPALIPLLQDDDDSVRAAAAWALGNL 55 (55)
T ss_dssp HHHHHHHHHHHHCTTTTTH----HHHHHHHHHHHHHHHHHTTSSSHHHHHHHHHHHHCH
T ss_pred CHHHHHHHHHHhhHhcccH----HHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHhcC
Confidence 8999999998866554332 245567777778888888888889999998777543
No 49
>smart00582 RPR domain present in proteins, which are involved in regulation of nuclear pre-mRNA.
Probab=75.78 E-value=14 Score=33.88 Aligned_cols=94 Identities=14% Similarity=0.146 Sum_probs=58.0
Q ss_pred CCHHHHHHHHHHHhh--CCHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHHHHHhh-hHHHhhhhcCC
Q 005238 286 PTRDAIQVFLVEAAK--LDALAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILSYFCEN-NDVVVKCSESP 362 (706)
Q Consensus 286 PSreeLq~Fl~~c~~--Ld~e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF~eN-~~~L~r~~~s~ 362 (706)
++++.|+.-..-|-. -....|++++.+++...+=..++-.|+++..+++............-|... .+.+.......
T Consensus 11 ~s~~~I~~lt~~~~~~~~~a~~Iv~~i~~~~~~~~~~~kL~~LYlindIl~n~~~~~~~~f~~~~~~~~~~~~~~~~~~~ 90 (121)
T smart00582 11 NSQESIQTLTKWAIEHASHAKEIVELWEKYIKKAPPPRKLPLLYLLDSIVQNSKRKYGSEFGDELGPVFQDALRDVLGAA 90 (121)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccceehhHHhHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHhC
Confidence 566666665555443 234679999999995333358888999999999976432111111111111 23333444444
Q ss_pred ChhHHHHHHHHHHHhcc
Q 005238 363 QSSLREKANKVLSLLGE 379 (706)
Q Consensus 363 Q~sLReKA~KVL~lLg~ 379 (706)
+..+|.|..|||+.+.-
T Consensus 91 ~~~~~~ki~kll~iW~~ 107 (121)
T smart00582 91 NDETKKKIRRLLNIWEE 107 (121)
T ss_pred CHHHHHHHHHHHHHHhc
Confidence 56799999999999875
No 50
>smart00229 RasGEFN Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif. A subset of guanine nucleotide exchange factor for Ras-like small GTPases appear to possess this domain N-terminal to the RasGef (Cdc25-like) domain. The recent crystal structureof Sos shows that this domain is alpha-helical and plays a "purely structural role" (Nature 394, 337-343).
Probab=74.55 E-value=12 Score=34.35 Aligned_cols=87 Identities=20% Similarity=0.181 Sum_probs=62.8
Q ss_pred hhhhhhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccCCCc-----------hHHHHHHHHHHHHh
Q 005238 11 YWRSRMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHKSPV-----------VKQKALRLIKYSVG 79 (706)
Q Consensus 11 y~~~~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksph-----------VKlKaLKILkyLc~ 79 (706)
-+--.||...|..++.+ -..|-+.==+||.+-.+ ..++++.|..|.....+. +|.+++++|++-+.
T Consensus 8 gtl~~Li~~L~~~~~~~--d~~f~~~Flltyr~F~t-p~~ll~~L~~rf~~~~~~~~~~~~~~~~~~~~rv~~~l~~Wv~ 84 (127)
T smart00229 8 GTLEKLIEHLTEAFDKA--DPFFVETFLLTYRSFIT-TQELLQLLLYRYNAIPPESWVERKVNPLRVKNRVLNILRHWVE 84 (127)
T ss_pred ecHHHHHHHHcCCCcCC--CHHHHHHHHHHhhhhCC-HHHHHHHHHHHhCCCCcHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence 34457888888876653 35555655667777654 479999999999976553 88999999999999
Q ss_pred cCChhHHHH--HHHhHH-HHHHhh
Q 005238 80 KSGTDFRRE--MQRHSA-VVRQLF 100 (706)
Q Consensus 80 ~Gs~~F~r~--lqrns~-~Ik~~~ 100 (706)
+-..+|... |.+... ++....
T Consensus 85 ~~~~dF~~~~~l~~~l~~f~~~~~ 108 (127)
T smart00229 85 NYWQDFEDDPKLILRLLEFLDLVD 108 (127)
T ss_pred HCCcccccCHHHHHHHHHHHHHHh
Confidence 888899887 555553 444433
No 51
>PF00618 RasGEF_N: RasGEF N-terminal motif; InterPro: IPR000651 The crystal structure of the guanine nucleotide exchange factor (GEF) region of human Sos1 complexes with Ras has been solved []. The structure consists of two distinct alpha helical structural domains: the N-terminal domain which seems to have a purely structural role and the C-terminal domain which is sufficient for catalytic activity and contains all residues that interact with Ras. A main feature of the catalytic domain is the protrusion of a helical hairpin important for the nucleotide-exchange mechanism. The N-terminal domain is likely to be important for the stability and correct placement of the hairpin structure. This entry represents a domain found in several GEF for Ras-like small GTPases which lies N-terminal to the RasGef (Cdc25-like) domain. ; GO: 0005085 guanyl-nucleotide exchange factor activity, 0051056 regulation of small GTPase mediated signal transduction, 0005622 intracellular; PDB: 3CF6_E 2BYV_E 1NVW_S 1BKD_S 1XDV_A 2II0_A 1NVU_S 1NVX_S 1NVV_S 1XD4_B ....
Probab=74.18 E-value=6.1 Score=35.17 Aligned_cols=74 Identities=20% Similarity=0.335 Sum_probs=52.1
Q ss_pred hhhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccCCC---------------chHHHHHHHHHHHH
Q 005238 14 SRMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHKSP---------------VVKQKALRLIKYSV 78 (706)
Q Consensus 14 ~~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksp---------------hVKlKaLKILkyLc 78 (706)
-.||.+.|+.....- ..|-+.-=+||.+-.+ -.++++.|..|.+...| .|+.+++++|++.+
T Consensus 8 ~~Li~~L~~~~~~~d--~~f~~~FllTyr~F~t-p~~Ll~~L~~ry~~~~~~~~~~~~~~~~~~~~~i~~rv~~~l~~Wi 84 (104)
T PF00618_consen 8 EKLIERLTSSFNSDD--EEFVDTFLLTYRSFTT-PEELLDKLIQRYNIPPPNGLSQDESWDQDSQEPIRLRVLNVLKYWI 84 (104)
T ss_dssp HHHHHHHCHC-SS-H--HHHHHHHHHHHHHCS--HHHHHHHHHHHHT---SSS-HHHHT-HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhcccccCC--HHHHHHHHHHhHhhCC-HHHHHHHHHHHhcccCCccccccchhhhhhhHHHHHHHHHHHHHHH
Confidence 478888898844442 3666777777887654 47999999999953222 27889999999999
Q ss_pred hcCChhHHHHHH
Q 005238 79 GKSGTDFRREMQ 90 (706)
Q Consensus 79 ~~Gs~~F~r~lq 90 (706)
..-..+|.....
T Consensus 85 ~~~~~df~~~~~ 96 (104)
T PF00618_consen 85 ENYPDDFRDDPE 96 (104)
T ss_dssp HHHCCCCHH-HH
T ss_pred HHChHhhCCCHH
Confidence 888888887754
No 52
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A.
Probab=73.63 E-value=24 Score=29.58 Aligned_cols=73 Identities=19% Similarity=0.080 Sum_probs=50.2
Q ss_pred HHHHHHHHHHHhhCCHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHHHHHhhhHHHhh-hhcCCChhH
Q 005238 288 RDAIQVFLVEAAKLDALAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILSYFCENNDVVVK-CSESPQSSL 366 (706)
Q Consensus 288 reeLq~Fl~~c~~Ld~e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF~eN~~~L~r-~~~s~Q~sL 366 (706)
...-..-++....+..+.+.+.|..-|+++.|.||..|+-+|..+-... -.+.|.+ +.++....+
T Consensus 14 ~~vr~~a~~~L~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~i~~~~--------------~~~~L~~~l~~~~~~~v 79 (88)
T PF13646_consen 14 PQVRAEAARALGELGDPEAIPALIELLKDEDPMVRRAAARALGRIGDPE--------------AIPALIKLLQDDDDEVV 79 (88)
T ss_dssp HHHHHHHHHHHHCCTHHHHHHHHHHHHTSSSHHHHHHHHHHHHCCHHHH--------------THHHHHHHHTC-SSHHH
T ss_pred HHHHHHHHHHHHHcCCHhHHHHHHHHHcCCCHHHHHHHHHHHHHhCCHH--------------HHHHHHHHHcCCCcHHH
Confidence 3334445555567888899999999999999999999999888774211 1134444 444455667
Q ss_pred HHHHHHHH
Q 005238 367 REKANKVL 374 (706)
Q Consensus 367 ReKA~KVL 374 (706)
|..|.+.|
T Consensus 80 r~~a~~aL 87 (88)
T PF13646_consen 80 REAAAEAL 87 (88)
T ss_dssp HHHHHHHH
T ss_pred HHHHHhhc
Confidence 88887765
No 53
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=68.82 E-value=15 Score=36.22 Aligned_cols=71 Identities=18% Similarity=0.109 Sum_probs=54.2
Q ss_pred HHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHHHHHhhhHHHhhhhcCCChhHHHHHHHHHHHhcccc
Q 005238 304 LAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILSYFCENNDVVVKCSESPQSSLREKANKVLSLLGEEQ 381 (706)
Q Consensus 304 e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF~eN~~~L~r~~~s~Q~sLReKA~KVL~lLg~~~ 381 (706)
+.....|..+|+++.+.||..||.+|-.|+..+-...-. .+| ..+..|...+.+.||+-|...+..+....
T Consensus 24 e~~~~~l~~~L~D~~~~VR~~al~~Ls~Li~~d~ik~k~---~l~----~~~l~~l~D~~~~Ir~~A~~~~~e~~~~~ 94 (178)
T PF12717_consen 24 EPYLPNLYKCLRDEDPLVRKTALLVLSHLILEDMIKVKG---QLF----SRILKLLVDENPEIRSLARSFFSELLKKR 94 (178)
T ss_pred HhHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCceeehh---hhh----HHHHHHHcCCCHHHHHHHHHHHHHHHHhc
Confidence 556778889999999999999999999999875221111 011 34556778888999999999999988763
No 54
>PF08167 RIX1: rRNA processing/ribosome biogenesis
Probab=67.30 E-value=53 Score=32.35 Aligned_cols=93 Identities=22% Similarity=0.233 Sum_probs=64.1
Q ss_pred HHHHHhhcCCcccCCCHHHHHHHHHHHhhCCHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhH-HHHHHHHHh
Q 005238 272 LLETIVTYGGVRLQPTRDAIQVFLVEAAKLDALAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKF-SIILSYFCE 350 (706)
Q Consensus 272 LVe~i~T~gGvr~~PSreeLq~Fl~~c~~Ld~e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~-~~v~~yF~e 350 (706)
+++.+...+-+...|+..++++++.+ +..-|+++.+..|..++|.+-.+++...-|.+ +.+..|++.
T Consensus 4 ll~~l~~~~~~~~~~~~~~l~~l~~r------------i~~LL~s~~~~~rw~G~~Ll~~~~~~~~~e~l~~~~~~W~~~ 71 (165)
T PF08167_consen 4 LLSTLRSCGLLLSAPSKSALHKLVTR------------INSLLQSKSAYSRWAGLCLLKVTVEQCSWEILLSHGSQWLRA 71 (165)
T ss_pred HHHHHHccchhhcccCHHHHHHHHHH------------HHHHhCCCChhhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence 45565555555667777777777665 33455788888999999999999998755555 566667765
Q ss_pred hhHHHhhhhcCCChhHHHHHHHHHHHhcc
Q 005238 351 NNDVVVKCSESPQSSLREKANKVLSLLGE 379 (706)
Q Consensus 351 N~~~L~r~~~s~Q~sLReKA~KVL~lLg~ 379 (706)
-...|++ .....+++-|-..|..|=.
T Consensus 72 Ll~~L~~---~~~~~~~~~ai~~L~~l~~ 97 (165)
T PF08167_consen 72 LLSILEK---PDPPSVLEAAIITLTRLFD 97 (165)
T ss_pred HHHHHcC---CCCHHHHHHHHHHHHHHHH
Confidence 5555554 4456677777777766643
No 55
>PF14500 MMS19_N: Dos2-interacting transcription regulator of RNA-Pol-II
Probab=66.38 E-value=27 Score=37.20 Aligned_cols=51 Identities=24% Similarity=0.275 Sum_probs=39.4
Q ss_pred hHHHHHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCC
Q 005238 32 KLEEICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSG 82 (706)
Q Consensus 32 l~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs 82 (706)
.+.+--+-+..+...+....+.+|+.||+..++.||.-+|+.|+.||.+-+
T Consensus 190 dLk~~L~~cl~s~~~fa~~~~p~LleKL~s~~~~~K~D~L~tL~~c~~~y~ 240 (262)
T PF14500_consen 190 DLKRALRNCLSSTPLFAPFAFPLLLEKLDSTSPSVKLDSLQTLKACIENYG 240 (262)
T ss_pred HHHHHHHHHhcCcHhhHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHCC
Confidence 333333444444446788999999999999999999999999999997543
No 56
>KOG0251 consensus Clathrin assembly protein AP180 and related proteins, contain ENTH domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=65.68 E-value=15 Score=42.66 Aligned_cols=69 Identities=20% Similarity=0.338 Sum_probs=51.5
Q ss_pred hhHHHHHHHHhhcCCcccCCCHHHHHHHHHHHhh---CCHHHHHHHHHHHhCCc-hHHHHHHHHHHHHHHHhccCch
Q 005238 267 TREEKLLETIVTYGGVRLQPTRDAIQVFLVEAAK---LDALAMSRALEAKLQSP-LWQVRMKAICVLESILRKKDDE 339 (706)
Q Consensus 267 t~E~~LVe~i~T~gGvr~~PSreeLq~Fl~~c~~---Ld~e~V~elL~~KL~~~-~WQvrlKALcvLEaLl~s~~~d 339 (706)
+.|..+|+. | --...|+.+.--+++=.|.. .+...++++|.+||+.. .|.|-+|+|-+|=.||+.++..
T Consensus 23 ~l~~AV~KA--T--sh~~~ppk~k~l~~Il~~ts~~~~~i~~~v~aLs~Rl~~TrnW~VAlKsLIliH~ll~~G~~~ 95 (491)
T KOG0251|consen 23 DLEKAVVKA--T--SHDDMPPKDKYLDEILSATSSSPASIPSCVHALSERLNKTRNWTVALKALILIHRLLKEGDPS 95 (491)
T ss_pred hHHHHHHhh--c--cCCCCCccHHHHHHHHHHhcCCcccHHHHHHHHHHHhCCCcceeehHHHHHHHHHHHhcCcHH
Confidence 355655653 2 33466666666666666655 46899999999999877 9999999999999999877543
No 57
>cd03562 CID CID (CTD-Interacting Domain) domain family; CID is present in several RNA-processing factors such as Pcf11 and Nrd1. Pcf11 is a conserved and essential subunit of the yeast cleavage factor IA, which is required for polyadenylation-dependent 3'-RNA processing and transcription termination. Nrd1 is implicated in polyadenylation-independent 3'-RNA processing. CID binds tightly to the carboxy-terminal domain (CTD) of RNA polymerase (Pol) II. During transcription, Pol II synthesizes eukaryotic messenger RNA. Transcription is coupled to RNA processing through the CTD, which consists of up to 52 repeats of the sequence Tyr 1-Ser 2-Pro 3-Thr 4-Ser 5-Pro 6-Ser 7. CID contains eight alpha-helices in a right-handed superhelical arrangement, which closely resembles that of the VHS domains and ARM (Armadillo) repeat proteins, except for its two amino-terminal helices.
Probab=64.28 E-value=39 Score=30.82 Aligned_cols=89 Identities=13% Similarity=0.228 Sum_probs=58.9
Q ss_pred CchhhHHHHHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHHh-HHHHHHhhcccCCC
Q 005238 28 TPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQRH-SAVVRQLFHYKGQL 106 (706)
Q Consensus 28 tPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrn-s~~Ik~~~~f~Gpp 106 (706)
...=...++..|+.+.. ....+|++.+.+++++..|.-|+=+|=+++-+|.+............ ..++..+. +..
T Consensus 16 ~S~~~I~~lt~~a~~~~-~~a~~iv~~i~~~i~~~~~~~KL~~LYL~dsIvkn~~~~~~~~~~~~~~~~f~~~~--~~~- 91 (114)
T cd03562 16 NSQPSIQTLTKLAIENR-KHAKEIVEIIEKHIKKCPPEQKLPLLYLLDSIVKNVGRKYKEFFSEFLVPLFLDAY--EKV- 91 (114)
T ss_pred ccHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHH--HhC-
Confidence 34445667777776654 45789999999999999999999999999999987654444444333 33343332 222
Q ss_pred CCCCCchhhHHHHHHHHHHHHH
Q 005238 107 DPLKGDALNKAVRDMAHEAISA 128 (706)
Q Consensus 107 Dpl~Gd~l~q~VR~aAqEll~a 128 (706)
...+|..-+.|++.
T Consensus 92 --------~~~~r~kl~rl~~i 105 (114)
T cd03562 92 --------DEKTRKKLERLLNI 105 (114)
T ss_pred --------CHHHHHHHHHHHHH
Confidence 23466666666553
No 58
>PRK09687 putative lyase; Provisional
Probab=61.67 E-value=28 Score=37.19 Aligned_cols=74 Identities=20% Similarity=0.218 Sum_probs=54.4
Q ss_pred HHHHHHHHHhhCCHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHHHHHhhhHHHhhhhcCCChhHHHH
Q 005238 290 AIQVFLVEAAKLDALAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILSYFCENNDVVVKCSESPQSSLREK 369 (706)
Q Consensus 290 eLq~Fl~~c~~Ld~e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF~eN~~~L~r~~~s~Q~sLReK 369 (706)
....|...|.+++.+.+.++|. ++...||..|+.+|..+- ..+-+ +.+.++..+....+|.-
T Consensus 12 ~~~~~~~~~~~~~~~~L~~~L~----d~d~~vR~~A~~aL~~~~---~~~~~-----------~~l~~ll~~~d~~vR~~ 73 (280)
T PRK09687 12 KEYSLYSQCKKLNDDELFRLLD----DHNSLKRISSIRVLQLRG---GQDVF-----------RLAIELCSSKNPIERDI 73 (280)
T ss_pred HHHHHHHHHhhccHHHHHHHHh----CCCHHHHHHHHHHHHhcC---cchHH-----------HHHHHHHhCCCHHHHHH
Confidence 3456788899999888777775 889999999888876553 22222 44556667777889999
Q ss_pred HHHHHHHhcccc
Q 005238 370 ANKVLSLLGEEQ 381 (706)
Q Consensus 370 A~KVL~lLg~~~ 381 (706)
|..+|..||...
T Consensus 74 A~~aLg~lg~~~ 85 (280)
T PRK09687 74 GADILSQLGMAK 85 (280)
T ss_pred HHHHHHhcCCCc
Confidence 999999988744
No 59
>PF07923 N1221: N1221-like protein; InterPro: IPR012486 The sequences featured in this family are similar to a hypothetical protein product of ORF N1221 in the CPT1-SPC98 intergenic region of the yeast genome (P53917 from SWISSPROT). This encodes an acidic polypeptide with several possible transmembrane regions [].
Probab=60.57 E-value=17 Score=38.95 Aligned_cols=53 Identities=19% Similarity=0.203 Sum_probs=43.7
Q ss_pred HHHHHHHHHhhccCCCchHHHHHHHHHHHHh------cCChhHHHHHHHhHHHHHHhhc
Q 005238 49 KEVSDFILKRLEHKSPVVKQKALRLIKYSVG------KSGTDFRREMQRHSAVVRQLFH 101 (706)
Q Consensus 49 ~eI~dyLlkRL~~ksphVKlKaLKILkyLc~------~Gs~~F~r~lqrns~~Ik~~~~ 101 (706)
...+..|+..|.+..+.++++|||+|.|++. ....+-..|+++|...+.+|--
T Consensus 59 ~~~i~~ll~~L~~~~~~~R~~al~~LlYi~~G~~~~~~s~~~ql~~i~~N~~lL~~~g~ 117 (293)
T PF07923_consen 59 KDFIEKLLDQLESSDSEDRLEALRALLYIAQGTWGETASEEEQLQWIRRNVFLLYECGG 117 (293)
T ss_pred HHHHHHHHHhccccchhhHHHHHHHHHHHHcCCccccCCHHHHHHHHHHHHHHHHHhhh
Confidence 3567788899999999999999999999973 3457889999999988777543
No 60
>PF12243 CTK3: CTD kinase subunit gamma CTK3
Probab=59.95 E-value=70 Score=31.43 Aligned_cols=95 Identities=14% Similarity=0.202 Sum_probs=58.8
Q ss_pred cCCCHHH---HHHHHHHHhhCCHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchh--HHHHHHHHHhhhHHHhhh
Q 005238 284 LQPTRDA---IQVFLVEAAKLDALAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEK--FSIILSYFCENNDVVVKC 358 (706)
Q Consensus 284 ~~PSree---Lq~Fl~~c~~Ld~e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~--~~~v~~yF~eN~~~L~r~ 358 (706)
+.||.+. ...|+=+|..+ .+.+.+++.+.|++..--.|...++.||+|....-... ...+.++.......|..+
T Consensus 17 L~aS~qSi~kaa~fAlk~~~~-~edL~~cIle~le~~~lN~R~nI~~fID~l~e~~~~~~~~~~~Yv~~l~~dL~~Iv~~ 95 (139)
T PF12243_consen 17 LNASQQSIQKAAQFALKNRDM-EEDLWSCILEQLEKENLNTRINIFYFIDSLCESSQKSKKYNYPYVSMLQRDLPRIVDA 95 (139)
T ss_pred cchhHHHHHHHHHHHHHcccc-HHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHHH
Confidence 4455444 45677777323 26677788888988888889999999999887653333 222334444444444444
Q ss_pred hcCCChh---HHHHHHHHHHHhcc
Q 005238 359 SESPQSS---LREKANKVLSLLGE 379 (706)
Q Consensus 359 ~~s~Q~s---LReKA~KVL~lLg~ 379 (706)
+--+... =+.-+.|||+.|..
T Consensus 96 V~P~~~~g~~N~~~~~kvL~~~~~ 119 (139)
T PF12243_consen 96 VAPPDNSGAANLKSVRKVLKNWSK 119 (139)
T ss_pred hCCCCCccchHHHHHHHHHHHHHH
Confidence 4443332 34567778887754
No 61
>COG5098 Chromosome condensation complex Condensin, subunit D2 [Chromatin structure and dynamics / Cell division and chromosome partitioning]
Probab=59.52 E-value=25 Score=42.69 Aligned_cols=77 Identities=22% Similarity=0.078 Sum_probs=57.2
Q ss_pred HHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHHHHHhhhHHHhhhhcCCChhHHHHHHHHHHHhcccccC
Q 005238 304 LAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILSYFCENNDVVVKCSESPQSSLREKANKVLSLLGEEQAG 383 (706)
Q Consensus 304 e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF~eN~~~L~r~~~s~Q~sLReKA~KVL~lLg~~~~~ 383 (706)
..+..+|.+||++...-+|.|||-++|-|......-.- --.|-...+.||....-.-||.+|.|++..|=.--|=
T Consensus 345 ~~Lv~ll~ERl~D~~py~RtKalqv~~kifdl~sk~~~-----~r~ev~~lv~r~lqDrss~VRrnaikl~SkLL~~HPF 419 (1128)
T COG5098 345 NDLVGLLVERLSDTYPYTRTKALQVLEKIFDLNSKTVG-----RRHEVIRLVGRRLQDRSSVVRRNAIKLCSKLLMRHPF 419 (1128)
T ss_pred HHHHHHHHHHhhccchHHHHHHHHHHHHHHhCcccccc-----hHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhcCCh
Confidence 46788999999998888999999999999876532110 0122235677888888899999999999877654444
Q ss_pred Cc
Q 005238 384 GL 385 (706)
Q Consensus 384 ~~ 385 (706)
+.
T Consensus 420 ~~ 421 (1128)
T COG5098 420 AS 421 (1128)
T ss_pred hh
Confidence 33
No 62
>cd00020 ARM Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.
Probab=59.33 E-value=43 Score=28.92 Aligned_cols=69 Identities=20% Similarity=0.093 Sum_probs=50.8
Q ss_pred HHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHHHHHhh--hHHHhhhhcCCChhHHHHHHHHHHHhc
Q 005238 305 AMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILSYFCEN--NDVVVKCSESPQSSLREKANKVLSLLG 378 (706)
Q Consensus 305 ~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF~eN--~~~L~r~~~s~Q~sLReKA~KVL~lLg 378 (706)
.+++.|.+-|.+..+.++..|+.+|-.|..... ...+.+.++ ...|.++.......+|+.|..+|..|.
T Consensus 49 ~~i~~l~~~l~~~~~~v~~~a~~~L~~l~~~~~-----~~~~~~~~~g~l~~l~~~l~~~~~~~~~~a~~~l~~l~ 119 (120)
T cd00020 49 GGLPALVQLLKSEDEEVVKAALWALRNLAAGPE-----DNKLIVLEAGGVPKLVNLLDSSNEDIQKNATGALSNLA 119 (120)
T ss_pred CChHHHHHHHhCCCHHHHHHHHHHHHHHccCcH-----HHHHHHHHCCChHHHHHHHhcCCHHHHHHHHHHHHHhh
Confidence 445555555667889999999999999987542 223333333 678888888888999999999998763
No 63
>cd00020 ARM Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.
Probab=58.85 E-value=44 Score=28.90 Aligned_cols=72 Identities=18% Similarity=0.052 Sum_probs=52.3
Q ss_pred HHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHHHHHhh-hHHHhhhhcCCChhHHHHHHHHHHHhcccc
Q 005238 306 MSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILSYFCEN-NDVVVKCSESPQSSLREKANKVLSLLGEEQ 381 (706)
Q Consensus 306 V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF~eN-~~~L~r~~~s~Q~sLReKA~KVL~lLg~~~ 381 (706)
+++.|.+.|.+..|.+|..++.+|..+..... . ....++..+ .+.+.++.......++..|-.+|..|-...
T Consensus 8 ~i~~l~~~l~~~~~~~~~~a~~~l~~l~~~~~--~--~~~~~~~~~~i~~l~~~l~~~~~~v~~~a~~~L~~l~~~~ 80 (120)
T cd00020 8 GLPALVSLLSSSDENVQREAAWALSNLSAGNN--D--NIQAVVEAGGLPALVQLLKSEDEEVVKAALWALRNLAAGP 80 (120)
T ss_pred ChHHHHHHHHcCCHHHHHHHHHHHHHHhcCCH--H--HHHHHHHCCChHHHHHHHhCCCHHHHHHHHHHHHHHccCc
Confidence 55667777778889999999999999887532 1 112233323 477777778888999999999999985433
No 64
>PF06371 Drf_GBD: Diaphanous GTPase-binding Domain; InterPro: IPR010473 Diaphanous-related formins (Drfs) are a family of formin homology (FH) proteins that act as effectors of Rho small GTPases during growth factor-induced cytoskeletal remodelling, stress fibre formation, and cell division []. Drf proteins are characterised by a variety of shared domains: an N-terminal GTPase-binding domain (GBD), formin-homology domains FH1, FH2 (IPR003104 from INTERPRO) and FH3 (IPR010472 from INTERPRO), and a C-terminal conserved Dia-autoregulatory domain (DAD) that binds the GBD. This entry represents the GBD, which is a bifunctional autoinhibitory domain that interacts with and is regulated by activated Rho family members. Mammalian Drf3 contains a CRIB-like motif within its GBD for binding to Cdc42, which is required for Cdc42 to activate and guide Drf3 towards the cell cortex where it remodels the actin skeleton [].; GO: 0003779 actin binding, 0017048 Rho GTPase binding, 0030036 actin cytoskeleton organization; PDB: 3OBV_A 2BNX_A 3EG5_D 2BAP_B 3O4X_B 1Z2C_B 2F31_A.
Probab=56.10 E-value=40 Score=32.68 Aligned_cols=55 Identities=18% Similarity=0.215 Sum_probs=37.5
Q ss_pred hHHHHHHHHHHHHhcCChhHHHHHHHhHHHHHHhhcccCCCCCCCCchhhHHHHHHHHHHHHHhh
Q 005238 66 VKQKALRLIKYSVGKSGTDFRREMQRHSAVVRQLFHYKGQLDPLKGDALNKAVRDMAHEAISAIF 130 (706)
Q Consensus 66 VKlKaLKILkyLc~~Gs~~F~r~lqrns~~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll~aLF 130 (706)
+-..||||||.|+... .. +..+..+...|..+...-.. .+-.+|..|-|++.+|.
T Consensus 132 ~~~~~l~Clkal~n~~-~G-~~~v~~~~~~v~~i~~~L~s--------~~~~~r~~~leiL~~lc 186 (187)
T PF06371_consen 132 IEHECLRCLKALMNTK-YG-LEAVLSHPDSVNLIALSLDS--------PNIKTRKLALEILAALC 186 (187)
T ss_dssp HHHHHHHHHHHHTSSH-HH-HHHHHCSSSHHHHHHHT--T--------TSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHccH-HH-HHHHHcCcHHHHHHHHHHCC--------CCHHHHHHHHHHHHHHH
Confidence 5578999999999864 33 34444466666665555433 34579999999999874
No 65
>PF08167 RIX1: rRNA processing/ribosome biogenesis
Probab=55.97 E-value=46 Score=32.77 Aligned_cols=71 Identities=18% Similarity=0.208 Sum_probs=54.2
Q ss_pred hhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCC-hhHHH----HHHHhHHHHHHhhcccCCCCCCCCchhhHHHHHH
Q 005238 47 IGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSG-TDFRR----EMQRHSAVVRQLFHYKGQLDPLKGDALNKAVRDM 121 (706)
Q Consensus 47 ~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs-~~F~r----~lqrns~~Ik~~~~f~GppDpl~Gd~l~q~VR~a 121 (706)
.+..+...|.+.|+++++.-+.+.+.+++-+|+.++ +-|.+ |++.-..+++. +|| ..+++.
T Consensus 22 ~l~~l~~ri~~LL~s~~~~~rw~G~~Ll~~~~~~~~~e~l~~~~~~W~~~Ll~~L~~-------~~~-------~~~~~~ 87 (165)
T PF08167_consen 22 ALHKLVTRINSLLQSKSAYSRWAGLCLLKVTVEQCSWEILLSHGSQWLRALLSILEK-------PDP-------PSVLEA 87 (165)
T ss_pred HHHHHHHHHHHHhCCCChhhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHcC-------CCC-------HHHHHH
Confidence 467888899999999999999999999999999984 44433 44443333333 342 458899
Q ss_pred HHHHHHHhhc
Q 005238 122 AHEAISAIFS 131 (706)
Q Consensus 122 AqEll~aLFs 131 (706)
|-.++..||.
T Consensus 88 ai~~L~~l~~ 97 (165)
T PF08167_consen 88 AIITLTRLFD 97 (165)
T ss_pred HHHHHHHHHH
Confidence 9999999998
No 66
>COG5098 Chromosome condensation complex Condensin, subunit D2 [Chromatin structure and dynamics / Cell division and chromosome partitioning]
Probab=54.62 E-value=40 Score=41.10 Aligned_cols=35 Identities=17% Similarity=0.329 Sum_probs=31.7
Q ss_pred hhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcC
Q 005238 47 IGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKS 81 (706)
Q Consensus 47 ~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~G 81 (706)
.+..+++.|-.||.+.+|+++.|||.++-.+|...
T Consensus 343 ~~~~Lv~ll~ERl~D~~py~RtKalqv~~kifdl~ 377 (1128)
T COG5098 343 KLNDLVGLLVERLSDTYPYTRTKALQVLEKIFDLN 377 (1128)
T ss_pred HHHHHHHHHHHHhhccchHHHHHHHHHHHHHHhCc
Confidence 45689999999999999999999999999999754
No 67
>KOG1086 consensus Cytosolic sorting protein/ADP-ribosylation factor effector GGA [Intracellular trafficking, secretion, and vesicular transport]
Probab=53.66 E-value=33 Score=39.59 Aligned_cols=88 Identities=22% Similarity=0.198 Sum_probs=56.0
Q ss_pred HHHHHHHHHhh--CCHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHHHHHhhhHHHhhhh------cC
Q 005238 290 AIQVFLVEAAK--LDALAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILSYFCENNDVVVKCS------ES 361 (706)
Q Consensus 290 eLq~Fl~~c~~--Ld~e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF~eN~~~L~r~~------~s 361 (706)
.|+-|++...+ -....-..+|..||+++....-|-||.|||.+++..+...++.|-.|---| +|++.+ .-
T Consensus 28 ai~~fceqinkdp~gp~lAv~LlaHKiqSPqe~EAl~altvLe~cmkncGekfH~evgkfrFLN--ELIkvvsPKYlG~~ 105 (594)
T KOG1086|consen 28 AIDGFCEQINKDPEGPLLAVRLLAHKIQSPQEWEALQALTVLEYCMKNCGEKFHEEVGKFRFLN--ELIKVVSPKYLGSR 105 (594)
T ss_pred HHHHHHHHHhcCCCCchhHHHHHHhhcCChhHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--HHHHHhCchhcchh
Confidence 35555555444 122456678999999988889999999999999999987777776654322 233321 11
Q ss_pred CChhHHHHHHHHHHHhcc
Q 005238 362 PQSSLREKANKVLSLLGE 379 (706)
Q Consensus 362 ~Q~sLReKA~KVL~lLg~ 379 (706)
.-..||.|..++|=-+..
T Consensus 106 tSekvKtkiIelLfsWtv 123 (594)
T KOG1086|consen 106 TSEKVKTKIIELLFSWTV 123 (594)
T ss_pred hhHHHHHHHHHHHhhhee
Confidence 223466665555554444
No 68
>KOG1086 consensus Cytosolic sorting protein/ADP-ribosylation factor effector GGA [Intracellular trafficking, secretion, and vesicular transport]
Probab=53.06 E-value=65 Score=37.30 Aligned_cols=106 Identities=14% Similarity=0.279 Sum_probs=68.5
Q ss_pred hhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHHhHH--
Q 005238 17 IDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQRHSA-- 94 (706)
Q Consensus 17 v~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns~-- 94 (706)
|.|||.-...------+.-+|+-.++.++. -.-..+.|..++++..--=-+-||++|.||+.++.+.|..++-|.-.
T Consensus 13 lnrATdp~~~eedw~ai~~fceqinkdp~g-p~lAv~LlaHKiqSPqe~EAl~altvLe~cmkncGekfH~evgkfrFLN 91 (594)
T KOG1086|consen 13 LNRATDPSNDEEDWKAIDGFCEQINKDPEG-PLLAVRLLAHKIQSPQEWEALQALTVLEYCMKNCGEKFHEEVGKFRFLN 91 (594)
T ss_pred HHhccCccchHHHHHHHHHHHHHHhcCCCC-chhHHHHHHhhcCChhHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence 788886544322222334455555555542 23455667778887665556889999999999999999999887653
Q ss_pred -HHHHhhcccCCCCCCCCchhhHHHHHHHHHHHHHhhcC
Q 005238 95 -VVRQLFHYKGQLDPLKGDALNKAVRDMAHEAISAIFSE 132 (706)
Q Consensus 95 -~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll~aLFsd 132 (706)
.||-.. | -+-|+--..+|. .++|++||+=
T Consensus 92 ELIkvvs----P--KYlG~~tSekvK---tkiIelLfsW 121 (594)
T KOG1086|consen 92 ELIKVVS----P--KYLGSRTSEKVK---TKIIELLFSW 121 (594)
T ss_pred HHHHHhC----c--hhcchhhhHHHH---HHHHHHHhhh
Confidence 455433 2 234444445554 3689999993
No 69
>PF10274 ParcG: Parkin co-regulated protein; InterPro: IPR019399 This family of proteins is transcribed anti-sense along the DNA to the Parkin gene product and the two appear to be transcribed under the same promoter. The protein has predicted alpha-helical and beta-sheet domains which suggest its function is in the ubiquitin/proteasome system []. Mutations in parkin are the genetic cause of early-onset and autosomal recessive juvenile parkinsonism.
Probab=52.02 E-value=1.2e+02 Score=31.10 Aligned_cols=111 Identities=15% Similarity=0.163 Sum_probs=70.0
Q ss_pred hhhhhcccCCCCCCCchhhHHHHHHHHhh-Cccch---hHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcC---Chh--
Q 005238 14 SRMIDGATSDEDKVTPVYKLEEICELLRS-SHVSI---GKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKS---GTD-- 84 (706)
Q Consensus 14 ~~lv~kATSddd~PtPGYl~~EIa~~t~~-S~~s~---~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~G---s~~-- 84 (706)
.+++-.+-...++|--.....-+-+++.. ..+.. +-.|+--|-+-|+.+++.|...+|++|..||.-+ .+.
T Consensus 40 Lpif~dGL~Et~~Py~flA~~g~~dll~~~~~~kilPvlPqLI~plk~AL~tr~~~V~~~~L~~Lq~Lv~~~~~vG~aLv 119 (183)
T PF10274_consen 40 LPIFFDGLRETEHPYRFLARQGIKDLLERGGGEKILPVLPQLIIPLKRALNTRDPEVFCATLKALQQLVTSSDMVGEALV 119 (183)
T ss_pred HHHHHhhhhccCccHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHhhhhhhHHHH
Confidence 46677777788888777777777777766 43222 1245556667888999999999999999996442 233
Q ss_pred -HHHHHHHhHHHHHHhhcccCCCCCCCCc----hhhHHHHHHHHHHHHHhhc
Q 005238 85 -FRREMQRHSAVVRQLFHYKGQLDPLKGD----ALNKAVRDMAHEAISAIFS 131 (706)
Q Consensus 85 -F~r~lqrns~~Ik~~~~f~GppDpl~Gd----~l~q~VR~aAqEll~aLFs 131 (706)
|.|.|-......|....= .|| .-.+.+++..+|.|++|=-
T Consensus 120 PyyrqLLp~ln~f~~k~~n-------~gd~i~y~~~~~~~dlI~etL~~lE~ 164 (183)
T PF10274_consen 120 PYYRQLLPVLNLFKNKNVN-------LGDGIDYRKRKNLGDLIQETLELLER 164 (183)
T ss_pred HHHHHHHHHHHHHHhcccC-------CCcccccccccchhHHHHHHHHHHHH
Confidence 233333333333333311 233 3346788888888887744
No 70
>PF07651 ANTH: ANTH domain; InterPro: IPR011417 AP180 is an endocytotic accessory protein that has been implicated in the formation of clathrin-coated pits. The domain is involved in phosphatidylinositol 4,5-bisphosphate binding and is a universal adaptor for nucleation of clathrin coats [, ].; GO: 0005543 phospholipid binding; PDB: 1HX8_A 3ZYM_A 1HFA_A 1HG2_A 3ZYL_B 3ZYK_A 1HG5_A 1HF8_A.
Probab=51.40 E-value=54 Score=34.31 Aligned_cols=68 Identities=21% Similarity=0.306 Sum_probs=47.7
Q ss_pred hHHHHHHHHhhcCCcccCCCHHHHHHHHHHHhh-CCHHHHHHHHHHHhCCc-hHHHHHHHHHHHHHHHhccCc
Q 005238 268 REEKLLETIVTYGGVRLQPTRDAIQVFLVEAAK-LDALAMSRALEAKLQSP-LWQVRMKAICVLESILRKKDD 338 (706)
Q Consensus 268 ~E~~LVe~i~T~gGvr~~PSreeLq~Fl~~c~~-Ld~e~V~elL~~KL~~~-~WQvrlKALcvLEaLl~s~~~ 338 (706)
.|..+++. |. .--..|-..=++.-+..... .++..+..+|.+||... .|.|-+|+|.+|=.||+.+..
T Consensus 4 l~~av~KA--T~-~~~~ppk~Khv~~il~~t~~~~~~~~~~~~l~~Rl~~~~~w~V~~K~Lil~H~llr~G~~ 73 (280)
T PF07651_consen 4 LEKAVIKA--TS-HDEAPPKEKHVREILSATSSPESVAFLFWALSRRLPLTRNWIVALKALILLHRLLRDGHP 73 (280)
T ss_dssp HHHHHHHH--T--SSS---HHHHHHHHHHHCSTTS-HHHHHHHHHHHCTSS-SHHHHHHHHHHHHHHHHHS-C
T ss_pred HHHHHHHH--cC-CCCCCCCHHHHHHHHHHhcCCccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHcCch
Confidence 45555553 33 23344445556666666666 88899999999999776 999999999999999998764
No 71
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=50.77 E-value=49 Score=32.12 Aligned_cols=61 Identities=23% Similarity=0.219 Sum_probs=50.9
Q ss_pred HHHHhhcCCcccCCCHHHHHHHHHHHhh-CCHHHHHHHHHHHhCCchHHHHHHHHHHHHHHH
Q 005238 273 LETIVTYGGVRLQPTRDAIQVFLVEAAK-LDALAMSRALEAKLQSPLWQVRMKAICVLESIL 333 (706)
Q Consensus 273 Ve~i~T~gGvr~~PSreeLq~Fl~~c~~-Ld~e~V~elL~~KL~~~~WQvrlKALcvLEaLl 333 (706)
+.+++..-|+|++|+|..|-.++.+... +.++.|.+.|.+....-.--+.+|+|-.++.+.
T Consensus 8 ~~~~lk~~glr~T~qR~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~G 69 (145)
T COG0735 8 AIERLKEAGLRLTPQRLAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAG 69 (145)
T ss_pred HHHHHHHcCCCcCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCC
Confidence 4455667799999999999999998855 999999999999877777788999997776543
No 72
>PF02985 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT repeat is a tandemly repeated, 37-47 amino acid long module occurring in a number of cytoplasmic proteins, including the four name-giving proteins huntingtin, elongation factor 3 (EF3), the 65 Kd alpha regulatory subunit of protein phosphatase 2A (PP2A) and the yeast PI3-kinase TOR1 []. Arrays of HEAT repeats consists of 3 to 36 units forming a rod-like helical structure and appear to function as protein-protein interaction surfaces. It has been noted that many HEAT repeat-containing proteins are involved in intracellular transport processes. In the crystal structure of PP2A PR65/A [], the HEAT repeats consist of pairs of antiparallel alpha helices [].; GO: 0005515 protein binding; PDB: 3FGA_A 2PF4_C 2IAE_A 2BKU_D 3EA5_B 3ND2_A 2BPT_A 2NYL_A 2NPP_D 2PKG_B ....
Probab=49.49 E-value=22 Score=25.51 Aligned_cols=30 Identities=23% Similarity=0.277 Sum_probs=25.3
Q ss_pred HHHHHHHhhccCCCchHHHHHHHHHHHHhc
Q 005238 51 VSDFILKRLEHKSPVVKQKALRLIKYSVGK 80 (706)
Q Consensus 51 I~dyLlkRL~~ksphVKlKaLKILkyLc~~ 80 (706)
|+..|++-|++.++.|+.-|.+.|.-++++
T Consensus 1 llp~l~~~l~D~~~~VR~~a~~~l~~i~~~ 30 (31)
T PF02985_consen 1 LLPILLQLLNDPSPEVRQAAAECLGAIAEH 30 (31)
T ss_dssp HHHHHHHHHT-SSHHHHHHHHHHHHHHHHT
T ss_pred CHHHHHHHcCCCCHHHHHHHHHHHHHHHhh
Confidence 567889999999999999999999888764
No 73
>KOG2199 consensus Signal transducing adaptor protein STAM/STAM2 [Signal transduction mechanisms]
Probab=48.76 E-value=84 Score=36.01 Aligned_cols=94 Identities=15% Similarity=0.130 Sum_probs=62.3
Q ss_pred CHHHHHHHHHHHhhCCH-----HHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhH-HHHHHHHHhhhHHHhhhhc
Q 005238 287 TRDAIQVFLVEAAKLDA-----LAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKF-SIILSYFCENNDVVVKCSE 360 (706)
Q Consensus 287 SreeLq~Fl~~c~~Ld~-----e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~-~~v~~yF~eN~~~L~r~~~ 360 (706)
+.|.-+-.+.-|-++.. ...+.+|.+||....--|.|+||.++.+++...+.... +....=|. ..|.++.+
T Consensus 22 T~enW~~IlDvCD~v~~~~~~~kd~lk~i~KRln~~dphV~L~AlTLlda~~~NCg~~~r~EVsSr~F~---~el~al~~ 98 (462)
T KOG2199|consen 22 TSENWSLILDVCDKVGSDPDGGKDCLKAIMKRLNHKDPHVVLQALTLLDACVANCGKRFRLEVSSRDFT---TELRALIE 98 (462)
T ss_pred ccccHHHHHHHHHhhcCCCcccHHHHHHHHHHhcCCCcchHHHHHHHHHHHHHhcchHHHHHHhhhhHH---HHHHHHHh
Confidence 34555555555555432 56677888888766667899999999999987664322 22223333 45555444
Q ss_pred -CCChhHHHHHHHHHHHhcccccC
Q 005238 361 -SPQSSLREKANKVLSLLGEEQAG 383 (706)
Q Consensus 361 -s~Q~sLReKA~KVL~lLg~~~~~ 383 (706)
+.|..|++|-+-|++.|-.+.-+
T Consensus 99 ~~~h~kV~~k~~~lv~eWsee~K~ 122 (462)
T KOG2199|consen 99 SKAHPKVCEKMRDLVKEWSEEFKK 122 (462)
T ss_pred hcccHHHHHHHHHHHHHHHHHhcc
Confidence 88999999999998888664433
No 74
>KOG2956 consensus CLIP-associating protein [General function prediction only]
Probab=47.75 E-value=93 Score=36.39 Aligned_cols=89 Identities=18% Similarity=0.264 Sum_probs=60.5
Q ss_pred HHHHHHHHhhCcc----chhHHHHHHHHHhhcc-CCCchHHHHHHHHHHHHhcCChhHHHHHHHhHHHHHHhhcccCCCC
Q 005238 33 LEEICELLRSSHV----SIGKEVSDFILKRLEH-KSPVVKQKALRLIKYSVGKSGTDFRREMQRHSAVVRQLFHYKGQLD 107 (706)
Q Consensus 33 ~~EIa~~t~~S~~----s~~~eI~dyLlkRL~~-ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns~~Ik~~~~f~GppD 107 (706)
+.||-+|+.+... +...+|+.-|+.=|.+ ++..+|.=|||||.-+|.+-...|...--- .+-|.+-...
T Consensus 308 lsel~~m~~e~sfsvWeq~f~~iL~~l~EvL~d~~~~~~k~laLrvL~~ml~~Q~~~l~DstE~--ai~K~Leaa~---- 381 (516)
T KOG2956|consen 308 LSELPKMLCEGSFSVWEQHFAEILLLLLEVLSDSEDEIIKKLALRVLREMLTNQPARLFDSTEI--AICKVLEAAK---- 381 (516)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHhchHhhhchHHH--HHHHHHHHHh----
Confidence 4566677655422 2234688999999998 789999999999999999877666533211 1222222222
Q ss_pred CCCCchhhHHHHHHHHHHHHHhhc
Q 005238 108 PLKGDALNKAVRDMAHEAISAIFS 131 (706)
Q Consensus 108 pl~Gd~l~q~VR~aAqEll~aLFs 131 (706)
|...+-||.++++|+..+-+
T Consensus 382 ----ds~~~v~~~Aeed~~~~las 401 (516)
T KOG2956|consen 382 ----DSQDEVMRVAEEDCLTTLAS 401 (516)
T ss_pred ----CCchhHHHHHHHHHHHHHHh
Confidence 34556699999998888877
No 75
>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional
Probab=46.74 E-value=45 Score=41.19 Aligned_cols=22 Identities=14% Similarity=0.285 Sum_probs=11.3
Q ss_pred HHhhhhcCCChhHHHHHHHHHH
Q 005238 354 VVVKCSESPQSSLREKANKVLS 375 (706)
Q Consensus 354 ~L~r~~~s~Q~sLReKA~KVL~ 375 (706)
.|.++.+.....||..|.+-|+
T Consensus 874 ~L~~al~D~d~~Vr~~A~~aL~ 895 (897)
T PRK13800 874 ALTTALTDSDADVRAYARRALA 895 (897)
T ss_pred HHHHHHhCCCHHHHHHHHHHHh
Confidence 3444444555556665555554
No 76
>PF04003 Utp12: Dip2/Utp12 Family; InterPro: IPR007148 A large ribonuclear protein complex is required for the processing of the small-ribosomal-subunit rRNA - the small-subunit (SSU) processome [, ]. This preribosomal complex contains the U3 snoRNA and at least 40 proteins, which have the following properties: They are nucleolar. They are able to coimmunoprecipitate with the U3 snoRNA and Mpp10 (a protein specific to the SSU processome). They are required for 18S rRNA biogenesis. There appears to be a linkage between polymerase I transcription and the formation of the SSU processome; as some, but not all, of the SSU processome components are required for pre-rRNA transcription initiation. These SSU processome components have been termed t-Utps. They form a pre-complex with pre-18S rRNA in the absence of snoRNA U3 and other SSU processome components. It has been proposed that the t-Utp complex proteins are both rDNA and rRNA binding proteins that are involved in the initiation of pre18S rRNA transcription. Initially binding to rDNA then associating with the 5' end of the nascent pre18S rRNA. The t-Utpcomplex forms the nucleus around which the rest of the SSU processome components, including snoRNA U3, assemble []. From electron microscopy the SSU processome may correspond to the terminal knobs visualized at the 5' ends of nascent 18S rRNA. This domain is found at the C terminus of proteins containing WD40 repeats. These proteins are part of the U3 ribonucleoprotein. In yeast, these proteins are called Utp5, Utp1 or Pwp2, Utp12 or DIP2 Q12220 from SWISSPROT. They interact with snoRNA U3 and with MPP10 []. Pwp2 is an essential Saccharomyces cerevisiae (Baker's yeast) protein involved in cell separation.
Probab=46.71 E-value=80 Score=28.37 Aligned_cols=46 Identities=30% Similarity=0.402 Sum_probs=34.9
Q ss_pred HHHHHHHhhCccchhHHHHHHHHHhhc-cCCCchHHHHHHHHHHHHhc
Q 005238 34 EEICELLRSSHVSIGKEVSDFILKRLE-HKSPVVKQKALRLIKYSVGK 80 (706)
Q Consensus 34 ~EIa~~t~~S~~s~~~eI~dyLlkRL~-~ksphVKlKaLKILkyLc~~ 80 (706)
++|......=+.+.+..++++|..+++ .+++|| -=+|+.++++|..
T Consensus 16 ~~I~~tv~~Lp~~~~~~LL~~l~~~l~~~~~~~~-e~~l~Wl~~ll~~ 62 (110)
T PF04003_consen 16 SDIENTVRSLPFSYAERLLQFLSERLQTRKSPHV-EFLLRWLKALLKT 62 (110)
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHHHhcccCCCch-hHHHHHHHHHHHH
Confidence 344444444455567799999999999 888999 6679999999864
No 77
>COG4396 Mu-like prophage host-nuclease inhibitor protein Gam [General function prediction only]
Probab=45.67 E-value=57 Score=32.44 Aligned_cols=66 Identities=11% Similarity=0.233 Sum_probs=49.2
Q ss_pred cCCCHHHHHHHHHHHhhCCHH--HHHHHHHHHhC--CchHHHHHHHHHH-HHHHHhccCchhHHHHHHHHHhhhHHHhh
Q 005238 284 LQPTRDAIQVFLVEAAKLDAL--AMSRALEAKLQ--SPLWQVRMKAICV-LESILRKKDDEKFSIILSYFCENNDVVVK 357 (706)
Q Consensus 284 ~~PSreeLq~Fl~~c~~Ld~e--~V~elL~~KL~--~~~WQvrlKALcv-LEaLl~s~~~d~~~~v~~yF~eN~~~L~r 357 (706)
.+.++++++.|++....|.-+ .+--...+|.- +..+--+++.||. |+.|.+ .|.+|-..|.+.|-.
T Consensus 13 a~q~~eeV~~~Ir~iGDlqRE~~RLeTemnDk~aai~e~Yapq~~~lk~EI~~L~k--------~vq~yCeanrDELTe 83 (170)
T COG4396 13 AAQDKEEVTAFIRQIGDLQREVKRLETEMNDKKAAIEEEYAPQAAPLKAEIMSLTK--------RVQAYCEANRDELTE 83 (170)
T ss_pred ccccHHHHHHHHHHHHHHHHHHHHHHHHhcchHhHHHHHhhhhhHHHHHHHHHHHH--------HHHHHHHhCHHHHhc
Confidence 566899999999999988765 34444455542 4567778889988 787765 678888888888765
No 78
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=44.81 E-value=1.3e+02 Score=27.53 Aligned_cols=72 Identities=13% Similarity=0.067 Sum_probs=47.8
Q ss_pred chhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHHhHHHHHHhhcccCCCCCCCCchhhHHHHHHHHHH
Q 005238 46 SIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQRHSAVVRQLFHYKGQLDPLKGDALNKAVRDMAHEA 125 (706)
Q Consensus 46 s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns~~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEl 125 (706)
....+|+.-+++-+.+....|++-|...|=.++.....++....-. +.-.+..-.. ++...||..|+-|
T Consensus 23 ~~l~~Il~pVL~~~~D~d~rVRy~AcEaL~ni~k~~~~~~l~~f~~---IF~~L~kl~~--------D~d~~Vr~~a~~L 91 (97)
T PF12755_consen 23 KYLDEILPPVLKCFDDQDSRVRYYACEALYNISKVARGEILPYFNE---IFDALCKLSA--------DPDENVRSAAELL 91 (97)
T ss_pred HHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHc--------CCchhHHHHHHHH
Confidence 4567899999999999999999999998888876655555442222 2222222222 2345599999554
Q ss_pred HHH
Q 005238 126 ISA 128 (706)
Q Consensus 126 l~a 128 (706)
-.+
T Consensus 92 d~l 94 (97)
T PF12755_consen 92 DRL 94 (97)
T ss_pred HHH
Confidence 443
No 79
>PTZ00429 beta-adaptin; Provisional
Probab=43.98 E-value=7.2e+02 Score=30.81 Aligned_cols=72 Identities=11% Similarity=0.164 Sum_probs=43.1
Q ss_pred CHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHHHHHhhhHHHhhh-hcCCChhHHHHHHHHHHHhccc
Q 005238 302 DALAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILSYFCENNDVVVKC-SESPQSSLREKANKVLSLLGEE 380 (706)
Q Consensus 302 d~e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF~eN~~~L~r~-~~s~Q~sLReKA~KVL~lLg~~ 380 (706)
|+..+++.+.+.+....-.||+-.|.++--|+-..-.+....+ ...|..| .++...-||+||.-..++|...
T Consensus 475 ~a~~~L~~~i~~f~~E~~~VqlqlLta~vKlfl~~p~~~~~~l-------~~vL~~~t~~~~d~DVRDRA~~Y~rLLs~~ 547 (746)
T PTZ00429 475 NGKDIIQRFIDTIMEHEQRVQLAILSAAVKMFLRDPQGMEPQL-------NRVLETVTTHSDDPDVRDRAFAYWRLLSKG 547 (746)
T ss_pred hHHHHHHHHHhhhccCCHHHHHHHHHHHHHHHhcCcHHHHHHH-------HHHHHHHHhcCCChhHHHHHHHHHHHHcCC
Confidence 5556665555665555567888888666555544322111111 2344455 3456678999999999999754
No 80
>PRK09687 putative lyase; Provisional
Probab=42.23 E-value=79 Score=33.88 Aligned_cols=28 Identities=11% Similarity=0.312 Sum_probs=21.9
Q ss_pred HHHHHHHHhhccCCCchHHHHHHHHHHH
Q 005238 50 EVSDFILKRLEHKSPVVKQKALRLIKYS 77 (706)
Q Consensus 50 eI~dyLlkRL~~ksphVKlKaLKILkyL 77 (706)
.-++.|.+.|.+.+..|+..+++.|..+
T Consensus 23 ~~~~~L~~~L~d~d~~vR~~A~~aL~~~ 50 (280)
T PRK09687 23 LNDDELFRLLDDHNSLKRISSIRVLQLR 50 (280)
T ss_pred ccHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence 3467788889999999988888876543
No 81
>KOG2259 consensus Uncharacterized conserved protein [Function unknown]
Probab=41.79 E-value=56 Score=39.61 Aligned_cols=78 Identities=17% Similarity=0.213 Sum_probs=57.3
Q ss_pred HHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHHhHHHHHHhhcccCCCCCCCCchhh
Q 005238 36 ICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQRHSAVVRQLFHYKGQLDPLKGDALN 115 (706)
Q Consensus 36 Ia~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns~~Ik~~~~f~GppDpl~Gd~l~ 115 (706)
++.+.-.++ .+...-+|||..-+++.--.|++||+.-|+++..++ ..-..+..+|-.|. ++-.
T Consensus 397 l~~La~ssP-~FA~~aldfLvDMfNDE~~~VRL~ai~aL~~Is~~l-----~i~eeql~~il~~L-----------~D~s 459 (823)
T KOG2259|consen 397 LCSLATSSP-GFAVRALDFLVDMFNDEIEVVRLKAIFALTMISVHL-----AIREEQLRQILESL-----------EDRS 459 (823)
T ss_pred HHHHHcCCC-CcHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHh-----eecHHHHHHHHHHH-----------HhcC
Confidence 444555566 577889999999999999999999999999998872 11123344555555 2346
Q ss_pred HHHHHHHHHHHHHhh
Q 005238 116 KAVRDMAHEAISAIF 130 (706)
Q Consensus 116 q~VR~aAqEll~aLF 130 (706)
..||+++.|+|.+.-
T Consensus 460 ~dvRe~l~elL~~~~ 474 (823)
T KOG2259|consen 460 VDVREALRELLKNAR 474 (823)
T ss_pred HHHHHHHHHHHHhcC
Confidence 679999999988653
No 82
>KOG0915 consensus Uncharacterized conserved protein [Function unknown]
Probab=41.37 E-value=66 Score=42.13 Aligned_cols=105 Identities=18% Similarity=0.201 Sum_probs=70.9
Q ss_pred HHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHHHHHhhhHHHhhhhcCCChhHHHHHHHHHHHhcccccCC
Q 005238 305 AMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILSYFCENNDVVVKCSESPQSSLREKANKVLSLLGEEQAGG 384 (706)
Q Consensus 305 ~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF~eN~~~L~r~~~s~Q~sLReKA~KVL~lLg~~~~~~ 384 (706)
.|+..|..-|-+..|+||--+=.+|--|++.+..|.+ .+-..|--+.+-|-++..+.+||+.|+|..+-|.=--...
T Consensus 1039 eIl~eLL~~lt~kewRVReasclAL~dLl~g~~~~~~---~e~lpelw~~~fRvmDDIKEsVR~aa~~~~~~lsKl~vr~ 1115 (1702)
T KOG0915|consen 1039 EILDELLVNLTSKEWRVREASCLALADLLQGRPFDQV---KEKLPELWEAAFRVMDDIKESVREAADKAARALSKLCVRI 1115 (1702)
T ss_pred HHHHHHHHhccchhHHHHHHHHHHHHHHHcCCChHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 4566777777899999999998899999999876654 2223333456778899999999998887766654322211
Q ss_pred cccCCcccccccccccccCCCccccCCCCC
Q 005238 385 LVSGSERSVKAETTTVVQMPDLIDTADPED 414 (706)
Q Consensus 385 ~~~~se~svk~e~~~vvq~~DLId~g~~dd 414 (706)
- + +...++...+-.+-+|=|||.|-..+
T Consensus 1116 ~-d-~~~~~~~~~~l~~iLPfLl~~gims~ 1143 (1702)
T KOG0915|consen 1116 C-D-VTNGAKGKEALDIILPFLLDEGIMSK 1143 (1702)
T ss_pred c-c-cCCcccHHHHHHHHHHHHhccCcccc
Confidence 1 0 11222444556667888998876643
No 83
>KOG0414 consensus Chromosome condensation complex Condensin, subunit D2 [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=40.62 E-value=57 Score=41.59 Aligned_cols=34 Identities=21% Similarity=0.322 Sum_probs=31.0
Q ss_pred HHHHHHHHhhccCCCchHHHHHHHHHHHHhcCCh
Q 005238 50 EVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGT 83 (706)
Q Consensus 50 eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~ 83 (706)
++++.|..||.+-++||+.|||-|..+||..-+.
T Consensus 359 ~~le~l~erl~Dvsa~vRskVLqv~~~l~~~~s~ 392 (1251)
T KOG0414|consen 359 ELLELLRERLLDVSAYVRSKVLQVFRRLFQQHSI 392 (1251)
T ss_pred HHHHHHHHHhhcccHHHHHHHHHHHHHHHHccCC
Confidence 4899999999999999999999999999987543
No 84
>PF14676 FANCI_S2: FANCI solenoid 2; PDB: 3S51_A 3S4Z_A 3S4W_A.
Probab=40.59 E-value=1e+02 Score=30.75 Aligned_cols=67 Identities=22% Similarity=0.230 Sum_probs=45.1
Q ss_pred HHHHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHHhHHHHHHhhcccC
Q 005238 34 EEICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQRHSAVVRQLFHYKG 104 (706)
Q Consensus 34 ~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns~~Ik~~~~f~G 104 (706)
.+|-..+++-++....+|++.|.+|+-.++...-..=.++|.+||.+ +-..+.++...|+++..|--
T Consensus 39 ~~IL~~~fk~h~~~r~~Ile~l~~rI~~~s~~~~~~~idlL~~lv~~----~p~~vle~~~~l~~~ld~l~ 105 (158)
T PF14676_consen 39 IQILLELFKVHEMIRSEILEQLLNRIVTKSSSPSSQYIDLLSELVRK----APLTVLECSSKLKELLDYLS 105 (158)
T ss_dssp HHHHHHHHHH-GGGHHHHHHHHHHHHHH--SS--HHHHHHHHHHHHH-----HHHHS-S-HHHHGGGGGTT
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHH----ChHHHHHHHHHHHHHHHHHH
Confidence 34555566666677889999999999977766224558999999987 44567778888888887663
No 85
>KOG4380 consensus Carnitine deficiency associated protein [General function prediction only]
Probab=39.95 E-value=38 Score=35.20 Aligned_cols=76 Identities=17% Similarity=0.143 Sum_probs=43.3
Q ss_pred HHHHHHHHHHhCCchHHHHHHHHHHH--HHHHhccCchhHHHHHHHHHhhhHHHh--hhhcCCChhHHHHHHHHHHHhcc
Q 005238 304 LAMSRALEAKLQSPLWQVRMKAICVL--ESILRKKDDEKFSIILSYFCENNDVVV--KCSESPQSSLREKANKVLSLLGE 379 (706)
Q Consensus 304 e~V~elL~~KL~~~~WQvrlKALcvL--EaLl~s~~~d~~~~v~~yF~eN~~~L~--r~~~s~Q~sLReKA~KVL~lLg~ 379 (706)
.++|.+|.=. ..+...|-|||.|.+ |.|.+-...+..+.+ ..|...|. -++..+...+-.-|-+|||||.+
T Consensus 135 ~AL~~iL~I~-~H~D~~VmmKA~~i~i~E~L~~D~iA~~~~~~----~~~~~~L~~~I~~~~~~~~~~~~sA~iLRLi~i 209 (244)
T KOG4380|consen 135 MALANLLQIQ-RHDDYLVMLKAIRILVQERLTQDAVAKANQTK----EGLPVALDKHILGFDTGDAVLNEAAQILRLLHI 209 (244)
T ss_pred HHHHHHhccc-cCCCHHHHHHHHHHHHHHHhhhHHHHHhHHHH----hcCcceecccccccCCcchHHHHHHHHHHHHHH
Confidence 4555555433 567888888888764 444432111111111 11111111 14667777888899999999999
Q ss_pred cccCC
Q 005238 380 EQAGG 384 (706)
Q Consensus 380 ~~~~~ 384 (706)
.+.--
T Consensus 210 ~~LR~ 214 (244)
T KOG4380|consen 210 EELRE 214 (244)
T ss_pred HHHHH
Confidence 77543
No 86
>PF01431 Peptidase_M13: Peptidase family M13 This is family M13 in the peptidase classification. ; InterPro: IPR018497 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M13 (neprilysin family, clan MA(E)). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA and the predicted active site residues for members of this family and thermolysin occur in the motif HEXXH []. M13 peptidases are well-studied proteases found in a wide range of organisms including mammals and bacteria. In mammals they participate in processes such as cardiovascular development, blood-pressure regulation, nervous control of respiration, and regulation of the function of neuropeptides in the central nervous system. In bacteria they may be used for digestion of milk [, ]. The family includes eukaryotic and prokaryotic oligopeptidases, as well as some of the proteins responsible for the molecular basis of the blood group antigens e.g. Kell []. Neprilysin (3.4.24.11 from EC), is another member of this group, it is variously known as common acute lymphoblastic leukemia antigen (CALLA), enkephalinase (gp100) and neutral endopeptidase metalloendopeptidase (NEP). It is a plasma membrane-bound mammalian enzyme that is able to digest biologically-active peptides, including enkephalins []. The zinc ligands of neprilysin are known and are analogous to those in thermolysin, a related peptidase [, ]. Neprilysins, like thermolysin, are inhibited by phosphoramidon, which appears to selectively inhibit this family in mammals. The enzymes are all oligopeptidases, digesting oligo- and polypeptides, but not proteins []. Neprilysin consists of a short cytoplasmic domain, a membrane-spanning region and a large extracellular domain. The cytoplasmic domain contains a conformationally-restrained octapeptide, which is thought to act as a stop transfer sequence that prevents proteolysis and secretion [, ].; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 2QPJ_A 1R1I_A 1R1J_A 1Y8J_A 1R1H_A 1DMT_A 2YB9_A 3DWB_A 3ZUK_A.
Probab=39.57 E-value=8.2 Score=38.48 Aligned_cols=28 Identities=32% Similarity=0.679 Sum_probs=19.3
Q ss_pred CCCccccCCCCCC---CCCchhHHHhHHHHH
Q 005238 600 IPAGMTLNPSIAS---QPMNYSAMGNLFAQQ 627 (706)
Q Consensus 600 ~~~~~~~~~~~~~---~~~~~~~~~~~~~~~ 627 (706)
||+|||.=|=|.. ..+|||.||.+||++
T Consensus 13 ip~~~l~~P~f~~~~p~~~~yg~lG~ilahe 43 (206)
T PF01431_consen 13 IPAGILQPPFFDPNYPPALNYGGLGFILAHE 43 (206)
T ss_dssp EEGGGSSTTT--TTS-HHHHHHTHHHHHHHH
T ss_pred ecHHHhCCccCCCCCCHHHHHHHHHHHHHHH
Confidence 5666644443332 679999999999987
No 87
>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional
Probab=37.96 E-value=61 Score=40.13 Aligned_cols=58 Identities=24% Similarity=0.257 Sum_probs=38.5
Q ss_pred HHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHHHHHhhhHHHhhhhcCCChhHHHHHHHHHHHh
Q 005238 306 MSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILSYFCENNDVVVKCSESPQSSLREKANKVLSLL 377 (706)
Q Consensus 306 V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF~eN~~~L~r~~~s~Q~sLReKA~KVL~lL 377 (706)
+.+.|..-|.++.|+||..|+-+|..|-.. +. ...|..+-.++...||..|...|..|
T Consensus 808 ~~~~l~~aL~d~d~~VR~~Aa~aL~~l~~~---~a-----------~~~L~~~L~D~~~~VR~~A~~aL~~~ 865 (897)
T PRK13800 808 DVAAATAALRASAWQVRQGAARALAGAAAD---VA-----------VPALVEALTDPHLDVRKAAVLALTRW 865 (897)
T ss_pred hHHHHHHHhcCCChHHHHHHHHHHHhcccc---ch-----------HHHHHHHhcCCCHHHHHHHHHHHhcc
Confidence 334455566667777777766666544221 11 25666777888899999999999887
No 88
>KOG2025 consensus Chromosome condensation complex Condensin, subunit G [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=37.88 E-value=45 Score=40.64 Aligned_cols=40 Identities=15% Similarity=0.262 Sum_probs=33.5
Q ss_pred chhHHHHHHHHHhhccCCCchHHHHHHHHHHHH-hcCChhH
Q 005238 46 SIGKEVSDFILKRLEHKSPVVKQKALRLIKYSV-GKSGTDF 85 (706)
Q Consensus 46 s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc-~~Gs~~F 85 (706)
+....|.+.|+.||.++.|.|+..|+++|-++- ..+.++|
T Consensus 122 ~vfn~l~e~l~~Rl~Drep~VRiqAv~aLsrlQ~d~~dee~ 162 (892)
T KOG2025|consen 122 DVFNKLNEKLLIRLKDREPNVRIQAVLALSRLQGDPKDEEC 162 (892)
T ss_pred HHHHHHHHHHHHHHhccCchHHHHHHHHHHHHhcCCCCCcc
Confidence 455679999999999999999999999999987 4455554
No 89
>PF08252 Leader_CPA1: arg-2/CPA1 leader peptide ; InterPro: IPR013203 In this family there are leaders peptides involved in the regulation of the glutaminase subunit (small subunit) of arginine-specific carbamoyl phosphate synthetase. In Neurospora crassa it is a small upstream ORF of 24 codons above the arg-2 locus []. In yeast it is the leader peptide of the CPA1 gene. The 5' region of CPA1 mRNA contains a 25 codon upstream open reading frame. The leader peptide, the product of the upstream open reading frame, plays an essential, negative role in the specific repression of CPA1 by arginine [].; PDB: 2XL1_A.
Probab=37.62 E-value=15 Score=26.04 Aligned_cols=10 Identities=50% Similarity=0.780 Sum_probs=7.9
Q ss_pred chhhhhhhhh
Q 005238 689 FDFISDHLAS 698 (706)
Q Consensus 689 ~~~~~~~~~~ 698 (706)
=||||||+=-
T Consensus 11 qDYiSDhiWk 20 (24)
T PF08252_consen 11 QDYISDHIWK 20 (24)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHH
Confidence 3999999854
No 90
>KOG2160 consensus Armadillo/beta-catenin-like repeat-containing protein [Posttranslational modification, protein turnover, chaperones]
Probab=37.58 E-value=2e+02 Score=32.45 Aligned_cols=59 Identities=27% Similarity=0.284 Sum_probs=44.0
Q ss_pred CCchHHHHHHHHHHHHHHHhccCchhHHHHHHHHHhhh-HHHhhhhcC--CChhHHHHHHHHHHHh
Q 005238 315 QSPLWQVRMKAICVLESILRKKDDEKFSIILSYFCENN-DVVVKCSES--PQSSLREKANKVLSLL 377 (706)
Q Consensus 315 ~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF~eN~-~~L~r~~~s--~Q~sLReKA~KVL~lL 377 (706)
.+.+--+|-|||++|-+|++..-. ...+||+.|. ..|+++.++ ....++.||.-+|..|
T Consensus 177 ~~~~~~~r~kaL~AissLIRn~~~----g~~~fl~~~G~~~L~~vl~~~~~~~~lkrK~~~Ll~~L 238 (342)
T KOG2160|consen 177 SDDPNTVRTKALFAISSLIRNNKP----GQDEFLKLNGYQVLRDVLQSNNTSVKLKRKALFLLSLL 238 (342)
T ss_pred cCCCchHHHHHHHHHHHHHhcCcH----HHHHHHhcCCHHHHHHHHHcCCcchHHHHHHHHHHHHH
Confidence 578888999999999999997532 4577888885 778888888 4555666666655554
No 91
>PF08620 RPAP1_C: RPAP1-like, C-terminal; InterPro: IPR013929 Inhibition of RNA polymerase II-associated protein 1 (RPAP1) synthesis in Saccharomyces cerevisiae (Baker's yeast) results in changes in global gene expression that are similar to those caused by the loss of the RNAPII subunit Rpb11 []. This entry represents the C-terminal region that contains the motif GLHHH. This region is conserved from yeast to humans.
Probab=37.31 E-value=44 Score=29.60 Aligned_cols=22 Identities=36% Similarity=0.440 Sum_probs=18.7
Q ss_pred CCCCCchhhHHHHHHHHhhCcc
Q 005238 24 EDKVTPVYKLEEICELLRSSHV 45 (706)
Q Consensus 24 dd~PtPGYl~~EIa~~t~~S~~ 45 (706)
++.-.|||-+.|++.+++++..
T Consensus 32 ~~p~~aGYTi~El~~L~RSsv~ 53 (73)
T PF08620_consen 32 EDPEAAGYTIQELFHLSRSSVP 53 (73)
T ss_pred CCCCcCCcCHHHHHHHHhcCcH
Confidence 4555899999999999999864
No 92
>PF12169 DNA_pol3_gamma3: DNA polymerase III subunits gamma and tau domain III; InterPro: IPR022754 This domain is found in bacteria and eukaryotes, and is approximately 110 amino acids in length. It is found in association with PF00004 from PFAM. This domain is also present in the tau subunit before it undergoes cleavage. Domains I-III are shared between the tau and the gamma subunits, while most of the DnaB-binding Domain IV and all of the alpha-interacting Domain V are unique to tau. ; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G.
Probab=36.81 E-value=1.8e+02 Score=27.22 Aligned_cols=82 Identities=22% Similarity=0.247 Sum_probs=46.0
Q ss_pred HHHHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHHhHHHHHHhhcccCCCCCC----
Q 005238 34 EEICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQRHSAVVRQLFHYKGQLDPL---- 109 (706)
Q Consensus 34 ~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns~~Ik~~~~f~GppDpl---- 109 (706)
+++.+++=--..+...++++.|. ++. ..++|+++.-++..| .++.+.+..-...+|.+.-|+-.+++.
T Consensus 4 e~V~~~lG~v~~~~i~~l~~ai~---~~d----~~~~l~~~~~l~~~G-~d~~~~l~~L~~~~R~ll~~k~~~~~~~~~~ 75 (143)
T PF12169_consen 4 EDVREILGLVDEEQIFELLDAIL---EGD----AAEALELLNELLEQG-KDPKQFLDDLIEYLRDLLLYKITGDKSNLLE 75 (143)
T ss_dssp HHHHHHHTHTSTHHHHHHHHHHH---TT-----HHHHHHHHHHHHHCT---HHHHHHHHHHHHHHHHHHTTSGGGS-SG-
T ss_pred HHHHHHHCCCCHHHHHHHHHHHH---cCC----HHHHHHHHHHHHHhC-CCHHHHHHHHHHHHHHHHHHHhCCchhhccc
Confidence 45555553333233445555553 223 379999999999997 555666666666777777776665421
Q ss_pred CCchhhHHHHHHHH
Q 005238 110 KGDALNKAVRDMAH 123 (706)
Q Consensus 110 ~Gd~l~q~VR~aAq 123 (706)
........+++.|+
T Consensus 76 ~~~~~~~~~~~~a~ 89 (143)
T PF12169_consen 76 LSEEEEEKLKELAK 89 (143)
T ss_dssp -CTTTHHHHHHHHH
T ss_pred CCHHHHHHHHHHHH
Confidence 22333445555444
No 93
>KOG3091 consensus Nuclear pore complex, p54 component (sc Nup57) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=35.04 E-value=2.1e+02 Score=33.67 Aligned_cols=114 Identities=14% Similarity=0.221 Sum_probs=66.7
Q ss_pred hhhhhhhhhcccCCCCCCCchhhHHHHHHHHhhCccc--hhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHH
Q 005238 10 SYWRSRMIDGATSDEDKVTPVYKLEEICELLRSSHVS--IGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRR 87 (706)
Q Consensus 10 ~y~~~~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s--~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r 87 (706)
-.|++.++++=-++.=+|.|.|=|+||-+...--.+. .-+..++.|.+|+..-..|=--=+-||++|=-+ +.+.-+
T Consensus 313 ~~W~QA~~dnp~s~kliPVpvvGF~dL~~R~K~Q~q~~~~~r~ri~~i~e~v~eLqk~~ad~~~KI~~~k~r--~~~Ls~ 390 (508)
T KOG3091|consen 313 RIWRQAMKDNPPSNKLIPVPVVGFEDLRQRLKVQDQEVKQHRIRINAIGERVTELQKHHADAVAKIEEAKNR--HVELSH 390 (508)
T ss_pred HHHHHHhhcCCCcccccceeccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHH--HHHHHH
Confidence 3588888888889999999999999999876442211 123566666666553322211334556555221 222222
Q ss_pred HHHHhHHHHHHhhcccCCCCCCCCchhhHHHHHHHHHHHHHhh
Q 005238 88 EMQRHSAVVRQLFHYKGQLDPLKGDALNKAVRDMAHEAISAIF 130 (706)
Q Consensus 88 ~lqrns~~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll~aLF 130 (706)
.+-|- -++.+|+.-+|- |+.=| .+.+|+.++.|+.-|=
T Consensus 391 RiLRv-~ikqeilr~~G~--~L~~~--EE~Lr~Kldtll~~ln 428 (508)
T KOG3091|consen 391 RILRV-MIKQEILRKRGY--ALTPD--EEELRAKLDTLLAQLN 428 (508)
T ss_pred HHHHH-HHHHHHHhccCC--cCCcc--HHHHHHHHHHHHHHhc
Confidence 22222 234455555554 33323 5789999988887663
No 94
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=34.18 E-value=71 Score=35.78 Aligned_cols=66 Identities=14% Similarity=0.116 Sum_probs=47.9
Q ss_pred cccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHH
Q 005238 19 GATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRR 87 (706)
Q Consensus 19 kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r 87 (706)
|-..+++...-+.-+.=|+.+. ++ +.+..+...+.+-|.+++|+|+.||+-.+.+++...+..+..
T Consensus 86 kdl~~~n~~~~~lAL~~l~~i~--~~-~~~~~l~~~v~~ll~~~~~~VRk~A~~~l~~i~~~~p~~~~~ 151 (526)
T PF01602_consen 86 KDLNSPNPYIRGLALRTLSNIR--TP-EMAEPLIPDVIKLLSDPSPYVRKKAALALLKIYRKDPDLVED 151 (526)
T ss_dssp HHHCSSSHHHHHHHHHHHHHH---SH-HHHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCHCCHHG
T ss_pred HhhcCCCHHHHHHHHhhhhhhc--cc-chhhHHHHHHHHHhcCCchHHHHHHHHHHHHHhccCHHHHHH
Confidence 3344444444455666666664 33 577889999999999999999999999999999885554444
No 95
>PF11841 DUF3361: Domain of unknown function (DUF3361)
Probab=34.06 E-value=84 Score=31.67 Aligned_cols=46 Identities=22% Similarity=0.244 Sum_probs=37.5
Q ss_pred HHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHHHHH
Q 005238 304 LAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILSYFC 349 (706)
Q Consensus 304 e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF~ 349 (706)
|.=++-|..+|+..+-+++.+|+.+|=||+.+.+++.-+.+.+++.
T Consensus 101 evt~~~Li~hLq~~~~~iq~naiaLinAL~~kA~~~~r~~i~~~l~ 146 (160)
T PF11841_consen 101 EVTLESLIRHLQVSNQEIQTNAIALINALFLKADDSKRKEIAETLS 146 (160)
T ss_pred cCCHHHHHHHHHcCCHHHHHHHHHHHHHHHhcCChHHHHHHHHHHH
Confidence 4445667778888999999999999999999998777667777764
No 96
>smart00582 RPR domain present in proteins, which are involved in regulation of nuclear pre-mRNA.
Probab=33.58 E-value=2.4e+02 Score=25.72 Aligned_cols=87 Identities=16% Similarity=0.203 Sum_probs=54.9
Q ss_pred hhhHHHHHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCC----hhHHHHHHHhHH-HHHHhhcccC
Q 005238 30 VYKLEEICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSG----TDFRREMQRHSA-VVRQLFHYKG 104 (706)
Q Consensus 30 GYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs----~~F~r~lqrns~-~Ik~~~~f~G 104 (706)
.-...++..++.+.. +...+|++.+.+++.+..+.-|+-.|=++..++.+.. ..|+..+..... ..+.+....
T Consensus 13 ~~~I~~lt~~~~~~~-~~a~~Iv~~i~~~~~~~~~~~kL~~LYlindIl~n~~~~~~~~f~~~~~~~~~~~~~~~~~~~- 90 (121)
T smart00582 13 QESIQTLTKWAIEHA-SHAKEIVELWEKYIKKAPPPRKLPLLYLLDSIVQNSKRKYGSEFGDELGPVFQDALRDVLGAA- 90 (121)
T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhCCccceehhHHhHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHhC-
Confidence 334556666666644 3567999999999998888788888878877776653 345555544433 222222111
Q ss_pred CCCCCCCchhhHHHHHHHHHHHHH
Q 005238 105 QLDPLKGDALNKAVRDMAHEAISA 128 (706)
Q Consensus 105 ppDpl~Gd~l~q~VR~aAqEll~a 128 (706)
...+|+....++++
T Consensus 91 ----------~~~~~~ki~kll~i 104 (121)
T smart00582 91 ----------NDETKKKIRRLLNI 104 (121)
T ss_pred ----------CHHHHHHHHHHHHH
Confidence 14677777777665
No 97
>PRK09462 fur ferric uptake regulator; Provisional
Probab=33.20 E-value=1e+02 Score=29.62 Aligned_cols=57 Identities=12% Similarity=0.093 Sum_probs=46.4
Q ss_pred HhhcCCcccCCCHHHHHHHHHHH--hhCCHHHHHHHHHHHhCCchHHHHHHHHHHHHHH
Q 005238 276 IVTYGGVRLQPTRDAIQVFLVEA--AKLDALAMSRALEAKLQSPLWQVRMKAICVLESI 332 (706)
Q Consensus 276 i~T~gGvr~~PSreeLq~Fl~~c--~~Ld~e~V~elL~~KL~~~~WQvrlKALcvLEaL 332 (706)
++..-|.|.+|.|..|-.++... .-+.++.|.+.|.++...-.--+-+|+|-.|+..
T Consensus 7 ~l~~~glr~T~qR~~Il~~l~~~~~~h~sa~eI~~~l~~~~~~i~~aTVYR~L~~L~e~ 65 (148)
T PRK09462 7 ALKKAGLKVTLPRLKILEVLQEPDNHHVSAEDLYKRLIDMGEEIGLATVYRVLNQFDDA 65 (148)
T ss_pred HHHHcCCCCCHHHHHHHHHHHhCCCCCCCHHHHHHHHHhhCCCCCHHHHHHHHHHHHHC
Confidence 34445999999999999999975 3799999999999887666667889999776554
No 98
>PF13513 HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O_A 2H4M_A 2QMR_A 1QBK_B 2Z5M_A 2Z5K_A 2Z5N_A 1GCJ_B ....
Probab=30.27 E-value=70 Score=25.12 Aligned_cols=54 Identities=17% Similarity=0.138 Sum_probs=34.5
Q ss_pred CchHHHHHHHHHHHHhcCChhHHHHHHHhHHHHHHhhcccCCCCCCCCchhhHHHHHHHHHHHHH
Q 005238 64 PVVKQKALRLIKYSVGKSGTDFRREMQRHSAVVRQLFHYKGQLDPLKGDALNKAVRDMAHEAISA 128 (706)
Q Consensus 64 phVKlKaLKILkyLc~~Gs~~F~r~lqrns~~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll~a 128 (706)
|.|+..|++.|-.|+......+..-+.+-...+..+. -|+ ...||.+|-.+|..
T Consensus 1 p~vR~~A~~aLg~l~~~~~~~~~~~~~~~~~~L~~~L-----~d~------~~~VR~~A~~aLg~ 54 (55)
T PF13513_consen 1 PRVRRAAAWALGRLAEGCPELLQPYLPELLPALIPLL-----QDD------DDSVRAAAAWALGN 54 (55)
T ss_dssp HHHHHHHHHHHHCTTTTTHHHHHHHHHHHHHHHHHHT-----TSS------SHHHHHHHHHHHHC
T ss_pred CHHHHHHHHHHhhHhcccHHHHHHHHHHHHHHHHHHH-----cCC------CHHHHHHHHHHHhc
Confidence 4578889999988777766666554444444444444 121 22799999877754
No 99
>PF08389 Xpo1: Exportin 1-like protein; InterPro: IPR013598 The exchange of macromolecules between the nucleus and cytoplasm takes place through nuclear pore complexes within the nuclear membrane. Active transport of large molecules through these pore complexes require carrier proteins, called karyopherins (importins and exportins), which shuttle between the two compartments. This domain is found close to the N terminus of yeast exportin 1 (Xpo1, Crm1, P14068 from SWISSPROT), as well as adjacent to the N-terminal domain of importin-beta (IPR001494 from INTERPRO). Exportin 1 is a nuclear export receptor that translocates proteins out of the nucleus; it interacts with leucine-rich nuclear export signal (NES) sequences in proteins to be transported, as well as with RanGTP [, ]. Importin-beta is a nuclear import receptor that translocates proteins into the nucleus; it interacts with RanGTP and importin-alpha, the latter binding with the nuclear localisation signal (NLS) sequences in proteins to be transported []. More information about these proteins can be found at Protein of the Month: Importins [].; PDB: 3IBV_A 3ICQ_U 3M1I_C 3NC1_A 3NBY_D 3NBZ_D 3NC0_A 3GJX_D 2XWU_B 2X19_B ....
Probab=27.67 E-value=84 Score=28.79 Aligned_cols=65 Identities=15% Similarity=0.251 Sum_probs=40.8
Q ss_pred hHHHHHHHHHhhccCC----CchHHHHHHHHHHHHhcCChhHHHHHHHhHHHHHHhhcccCCCCCCCCchhhHHHHHHHH
Q 005238 48 GKEVSDFILKRLEHKS----PVVKQKALRLIKYSVGKSGTDFRREMQRHSAVVRQLFHYKGQLDPLKGDALNKAVRDMAH 123 (706)
Q Consensus 48 ~~eI~dyLlkRL~~ks----phVKlKaLKILkyLc~~Gs~~F~r~lqrns~~Ik~~~~f~GppDpl~Gd~l~q~VR~aAq 123 (706)
+..|++++.+-|+... ..+..++|+++++.+.-...+... +..++.-+.++-..++ .|++|-
T Consensus 80 ~~~i~~~l~~~l~~~~~~~~~~~~~~~L~~l~s~i~~~~~~~i~----~~~~l~~~~~~l~~~~----------~~~~A~ 145 (148)
T PF08389_consen 80 SPDILEILSQILSQSSSEANEELVKAALKCLKSWISWIPIELII----NSNLLNLIFQLLQSPE----------LREAAA 145 (148)
T ss_dssp HHHHHHHHHHHHHHHCHCCHHHHHHHHHHHHHHHTTTS-HHHHH----SSSHHHHHHHHTTSCC----------CHHHHH
T ss_pred HHHHHHHHHHHHHhhccccHHHHHHHHHHHHHHHHHhCCHHHhc----cHHHHHHHHHHcCCHH----------HHHHHH
Confidence 3567777777777544 677789999999999855444333 2335555555543322 277777
Q ss_pred HHH
Q 005238 124 EAI 126 (706)
Q Consensus 124 Ell 126 (706)
|||
T Consensus 146 ~cl 148 (148)
T PF08389_consen 146 ECL 148 (148)
T ss_dssp HHH
T ss_pred HhC
Confidence 765
No 100
>KOG0980 consensus Actin-binding protein SLA2/Huntingtin-interacting protein Hip1 [Cytoskeleton]
Probab=27.45 E-value=1.5e+02 Score=37.02 Aligned_cols=111 Identities=16% Similarity=0.123 Sum_probs=82.3
Q ss_pred hhhhhcccCCCCCCCchhhHHHHHHHHhhCccchhHHHHHHHHHhhc-cCCCchHHHHHHHHHHHHhcCChhHHHHHHHh
Q 005238 14 SRMIDGATSDEDKVTPVYKLEEICELLRSSHVSIGKEVSDFILKRLE-HKSPVVKQKALRLIKYSVGKSGTDFRREMQRH 92 (706)
Q Consensus 14 ~~lv~kATSddd~PtPGYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~-~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrn 92 (706)
..-|.||++-++.|+=-=-.+-|.=.|++-. ...+.=...+|+. -+++..-.|.+-+|--+++.||+...++.+|+
T Consensus 8 ~~av~KAis~~Et~~K~KH~Rt~I~gTh~ek---sa~~FWt~ik~~PL~~~~VltwKfchllHKvLreGHpsal~es~r~ 84 (980)
T KOG0980|consen 8 LEAVQKAISKDETPPKRKHVRTIIVGTHDEK---SSKIFWTTIKRQPLENHEVLTWKFCHLLHKVLREGHPSALEESQRY 84 (980)
T ss_pred HHHHHHHhccccCCCchhhhhheeeeecccc---cchhHHHHhhccccccchHHHHHHHHHHHHHHHcCCcchhHHHHHH
Confidence 5679999999998876555555544443322 1244455678888 55677779999999999999999999999999
Q ss_pred HHHHHHhhcccCCCCCCCCchhhHHHHHHHHHHHHH-hhc
Q 005238 93 SAVVRQLFHYKGQLDPLKGDALNKAVRDMAHEAISA-IFS 131 (706)
Q Consensus 93 s~~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll~a-LFs 131 (706)
-.-|++|-.+-|.-. +..+..||+.-+=|..- .|-
T Consensus 85 r~~i~~l~r~w~~ls----~~Yg~lI~~Y~klL~~Kl~FH 120 (980)
T KOG0980|consen 85 KKWITQLGRMWGHLS----DGYGPLIRAYVKLLHDKLSFH 120 (980)
T ss_pred HHHHHHHHHHhcccc----ccchHHHHHHHHHHHHHHhHh
Confidence 999999866555433 46678899998877654 344
No 101
>PF12830 Nipped-B_C: Sister chromatid cohesion C-terminus
Probab=27.23 E-value=2e+02 Score=28.80 Aligned_cols=69 Identities=14% Similarity=0.193 Sum_probs=50.1
Q ss_pred hHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcC--ChhHHHHHHHhHHHHHHhhcccCCCCCCCCchhhHHHHHHHHHH
Q 005238 48 GKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKS--GTDFRREMQRHSAVVRQLFHYKGQLDPLKGDALNKAVRDMAHEA 125 (706)
Q Consensus 48 ~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~G--s~~F~r~lqrns~~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEl 125 (706)
++.-++.+++-.-+....|.+.||++|..+.+.| +|. +.-..+|- +.. +++..||..|.++
T Consensus 6 ~Qryl~~Il~~~~~~~~~vr~~Al~~l~~il~qGLvnP~-----~cvp~lIA-----------L~t-s~~~~ir~~A~~~ 68 (187)
T PF12830_consen 6 VQRYLKNILELCLSSDDSVRLAALQVLELILRQGLVNPK-----QCVPTLIA-----------LET-SPNPSIRSRAYQL 68 (187)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhcCCCChH-----HHHhHhhh-----------hhC-CCChHHHHHHHHH
Confidence 4555667777777888999999999999999999 331 12222332 222 3677899999999
Q ss_pred HHHhhcCC
Q 005238 126 ISAIFSEE 133 (706)
Q Consensus 126 l~aLFsd~ 133 (706)
+..||..-
T Consensus 69 l~~l~eK~ 76 (187)
T PF12830_consen 69 LKELHEKH 76 (187)
T ss_pred HHHHHHHh
Confidence 99999843
No 102
>PTZ00429 beta-adaptin; Provisional
Probab=26.40 E-value=2.7e+02 Score=34.29 Aligned_cols=85 Identities=16% Similarity=0.250 Sum_probs=58.0
Q ss_pred hhhHHHHHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHHhHHHHHHhhcccCCCCCC
Q 005238 30 VYKLEEICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQRHSAVVRQLFHYKGQLDPL 109 (706)
Q Consensus 30 GYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns~~Ik~~~~f~GppDpl 109 (706)
.|++.|.++..- .|.++++.+.++....++-||+-.|...-.|.-+-+++.+..+++ +++.|+++.-.||
T Consensus 463 iWILGEy~~~I~-----~a~~~L~~~i~~f~~E~~~VqlqlLta~vKlfl~~p~~~~~~l~~---vL~~~t~~~~d~D-- 532 (746)
T PTZ00429 463 LWMLGEYCDFIE-----NGKDIIQRFIDTIMEHEQRVQLAILSAAVKMFLRDPQGMEPQLNR---VLETVTTHSDDPD-- 532 (746)
T ss_pred HHHHHhhHhhHh-----hHHHHHHHHHhhhccCCHHHHHHHHHHHHHHHhcCcHHHHHHHHH---HHHHHHhcCCChh--
Confidence 566666665431 245677666788777888999998887776665555555444433 5667777765555
Q ss_pred CCchhhHHHHHHHHHHHHHhhcC
Q 005238 110 KGDALNKAVRDMAHEAISAIFSE 132 (706)
Q Consensus 110 ~Gd~l~q~VR~aAqEll~aLFsd 132 (706)
||+.|...+.+|-.+
T Consensus 533 --------VRDRA~~Y~rLLs~~ 547 (746)
T PTZ00429 533 --------VRDRAFAYWRLLSKG 547 (746)
T ss_pred --------HHHHHHHHHHHHcCC
Confidence 999999988887654
No 103
>PF14225 MOR2-PAG1_C: Cell morphogenesis C-terminal
Probab=25.10 E-value=1.1e+02 Score=32.85 Aligned_cols=69 Identities=17% Similarity=0.291 Sum_probs=46.3
Q ss_pred hhHHHHHHHHhhCc-cchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHHhHHHHHHhhccc
Q 005238 31 YKLEEICELLRSSH-VSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQRHSAVVRQLFHYK 103 (706)
Q Consensus 31 Yl~~EIa~~t~~S~-~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns~~Ik~~~~f~ 103 (706)
--+..+++..++.. .+...+++.||+.=|.++-+-+|.|+|+||++|..+-... +- ..++.|+-+..+-
T Consensus 168 dfl~~v~~~l~~~f~P~~~~~~l~~Ll~lL~n~~~w~~~~~L~iL~~ll~~~d~~--~~--~~~dlispllrlL 237 (262)
T PF14225_consen 168 DFLSQVVSYLREAFFPDHEFQILTFLLGLLENGPPWLRRKTLQILKVLLPHVDMR--SP--HGADLISPLLRLL 237 (262)
T ss_pred HHHHHHHHHHHHHhCchhHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHhccccCC--CC--cchHHHHHHHHHh
Confidence 34566666665532 1334578888999999988999999999999998764332 11 5555666655443
No 104
>PF10363 DUF2435: Protein of unknown function (DUF2435)
Probab=24.56 E-value=3.6e+02 Score=24.49 Aligned_cols=70 Identities=14% Similarity=0.102 Sum_probs=55.2
Q ss_pred CCCCCCCchhhHHHHHHHHhhCc--cchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHH
Q 005238 22 SDEDKVTPVYKLEEICELLRSSH--VSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQR 91 (706)
Q Consensus 22 Sddd~PtPGYl~~EIa~~t~~S~--~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqr 91 (706)
.|..-|.=++=+.+|.++..+.. ......|++.++.-|++..++|-+=|.|.|--||..-+.....+|-+
T Consensus 13 ~dp~~PvRa~gL~~L~~Li~~~~~~~~~~~~il~l~l~~L~d~DsyVYL~aI~~L~~La~~~p~~vl~~L~~ 84 (92)
T PF10363_consen 13 NDPLPPVRAHGLVLLRKLIESKSEPVIDIPKILDLFLSQLKDEDSYVYLNAIKGLAALADRHPDEVLPILLD 84 (92)
T ss_pred cCCCcchHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHcCCCCchHHHHHHHHHHHHHHHChHHHHHHHHH
Confidence 45666777889999999887643 22346799999999999999999999999999998876656665543
No 105
>KOG1242 consensus Protein containing adaptin N-terminal region [Translation, ribosomal structure and biogenesis]
Probab=24.53 E-value=2.7e+02 Score=33.36 Aligned_cols=113 Identities=15% Similarity=0.144 Sum_probs=69.9
Q ss_pred hHHHHHHHHhhcCCcccCCCHHHHHHHHHHHhh-CCHH---HHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHH
Q 005238 268 REEKLLETIVTYGGVRLQPTRDAIQVFLVEAAK-LDAL---AMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSI 343 (706)
Q Consensus 268 ~E~~LVe~i~T~gGvr~~PSreeLq~Fl~~c~~-Ld~e---~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~ 343 (706)
|+..++-.+++.-|-+..==|+.-..=++.... ++.. .++.=|..-|.+..||.++-+|-+|-.+..... . .
T Consensus 213 yiv~~lp~il~~~~d~~~~Vr~Aa~~a~kai~~~~~~~aVK~llpsll~~l~~~kWrtK~aslellg~m~~~ap---~-q 288 (569)
T KOG1242|consen 213 YIVPILPSILTNFGDKINKVREAAVEAAKAIMRCLSAYAVKLLLPSLLGSLLEAKWRTKMASLELLGAMADCAP---K-Q 288 (569)
T ss_pred hHHhhHHHHHHHhhccchhhhHHHHHHHHHHHHhcCcchhhHhhhhhHHHHHHHhhhhHHHHHHHHHHHHHhch---H-H
Confidence 678888888887776543222222222222211 3333 233333333344599999999999987765443 2 2
Q ss_pred HHHHHHhhhHHHhhhhcCCChhHHHHHHHHHHHhcccccCC
Q 005238 344 ILSYFCENNDVVVKCSESPQSSLREKANKVLSLLGEEQAGG 384 (706)
Q Consensus 344 v~~yF~eN~~~L~r~~~s~Q~sLReKA~KVL~lLg~~~~~~ 384 (706)
+..++..-...|..-....++.||+.+.+.|..++.-..+.
T Consensus 289 Ls~~lp~iiP~lsevl~DT~~evr~a~~~~l~~~~svidN~ 329 (569)
T KOG1242|consen 289 LSLCLPDLIPVLSEVLWDTKPEVRKAGIETLLKFGSVIDNP 329 (569)
T ss_pred HHHHHhHhhHHHHHHHccCCHHHHHHHHHHHHHHHHhhccH
Confidence 33444444677777777889999999999998888655544
No 106
>PF03224 V-ATPase_H_N: V-ATPase subunit H; InterPro: IPR004908 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents subunit H (also known as Vma13p) found in the V1 complex of V-ATPases. This subunit has a regulatory function, being responsible for activating ATPase activity and coupling ATPase activity to proton flow []. The yeast enzyme contains five motifs similar to the HEAT or Armadillo repeats seen in the importins, and can be divided into two distinct domains: a large N-terminal domain consisting of stacked alpha helices, and a smaller C-terminal alpha-helical domain with a similar superhelical topology to an armadillo repeat []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=24.49 E-value=3e+02 Score=29.59 Aligned_cols=45 Identities=22% Similarity=0.141 Sum_probs=29.0
Q ss_pred HHhhCCHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhH
Q 005238 297 EAAKLDALAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKF 341 (706)
Q Consensus 297 ~c~~Ld~e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~ 341 (706)
+....+.......|.+.|..+.|.++.+|+.++-.|+........
T Consensus 97 ~~~~~~~~~~~~~fl~ll~~~D~~i~~~a~~iLt~Ll~~~~~~~~ 141 (312)
T PF03224_consen 97 ELAKQDDSDPYSPFLKLLDRNDSFIQLKAAFILTSLLSQGPKRSE 141 (312)
T ss_dssp HHHH-TTH--HHHHHHH-S-SSHHHHHHHHHHHHHHHTSTTT--H
T ss_pred HhcccccchhHHHHHHHhcCCCHHHHHHHHHHHHHHHHcCCcccc
Confidence 333333333666666688889999999999999999998765444
No 107
>PRK11639 zinc uptake transcriptional repressor; Provisional
Probab=24.39 E-value=1.5e+02 Score=29.56 Aligned_cols=57 Identities=16% Similarity=0.146 Sum_probs=46.2
Q ss_pred HHhhcCCcccCCCHHHHHHHHHHHh-hCCHHHHHHHHHHHhCCchHHHHHHHHHHHHH
Q 005238 275 TIVTYGGVRLQPTRDAIQVFLVEAA-KLDALAMSRALEAKLQSPLWQVRMKAICVLES 331 (706)
Q Consensus 275 ~i~T~gGvr~~PSreeLq~Fl~~c~-~Ld~e~V~elL~~KL~~~~WQvrlKALcvLEa 331 (706)
+++...|.|.+|.|..|-.++.... -++++.|.+.|.++.....--+-+|.|-.++.
T Consensus 15 ~~L~~~GlR~T~qR~~IL~~l~~~~~hlSa~eI~~~L~~~~~~is~aTVYRtL~~L~e 72 (169)
T PRK11639 15 KLCAQRNVRLTPQRLEVLRLMSLQPGAISAYDLLDLLREAEPQAKPPTVYRALDFLLE 72 (169)
T ss_pred HHHHHcCCCCCHHHHHHHHHHHhcCCCCCHHHHHHHHHhhCCCCCcchHHHHHHHHHH
Confidence 4455679999999999999998765 49999999999988766667788888866654
No 108
>PF12765 Cohesin_HEAT: HEAT repeat associated with sister chromatid cohesion
Probab=24.30 E-value=68 Score=25.06 Aligned_cols=26 Identities=35% Similarity=0.646 Sum_probs=22.6
Q ss_pred HHHHHHHHHhhccCCCchHHHHHHHH
Q 005238 49 KEVSDFILKRLEHKSPVVKQKALRLI 74 (706)
Q Consensus 49 ~eI~dyLlkRL~~ksphVKlKaLKIL 74 (706)
..|.+.|.+||.+.+|.|+--||-+|
T Consensus 17 ~~v~~~i~~rl~D~s~~VR~aav~ll 42 (42)
T PF12765_consen 17 SDVQSAIIRRLSDSSPSVREAAVDLL 42 (42)
T ss_pred HHHHHHHHHHhcCCChHHHHHHHHHC
Confidence 38999999999999999988887654
No 109
>PF06878 Pkip-1: Pkip-1 protein; InterPro: IPR009672 This family consists of several Pkip-1 proteins, which seem to be specific to Nucleopolyhedroviruses. The function of this family is unknown although it has been found that Pkip-1 is not essential for virus replication in cell culture or by in vivo intrahaemocoelic injection [].
Probab=23.98 E-value=1.3e+02 Score=30.49 Aligned_cols=36 Identities=28% Similarity=0.148 Sum_probs=23.5
Q ss_pred CccchhHHHHHHHHHhhc-cCC-Cc------hHHHHHHHHHHHHh
Q 005238 43 SHVSIGKEVSDFILKRLE-HKS-PV------VKQKALRLIKYSVG 79 (706)
Q Consensus 43 S~~s~~~eI~dyLlkRL~-~ks-ph------VKlKaLKILkyLc~ 79 (706)
....+++=+..|+.+|-. ++. .+ |++||. +|||||.
T Consensus 115 n~~~F~kvl~qFv~Krn~~rk~~~~~lL~ELV~LKs~-lIKHLC~ 158 (163)
T PF06878_consen 115 NSKKFIKVLEQFVDKRNAYRKNNNNALLDELVLLKSN-LIKHLCI 158 (163)
T ss_pred hhHHHHHHHHHHHHHHHHHHcCchhhHHHHHHHHHHH-HHHHHHH
Confidence 334566667778887765 333 33 788875 7888884
No 110
>KOG1078 consensus Vesicle coat complex COPI, gamma subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.84 E-value=3e+02 Score=34.29 Aligned_cols=106 Identities=18% Similarity=0.128 Sum_probs=74.5
Q ss_pred HHHHHHHhhcCCcccCCCHHHHHHHHHHHhhCCHH---HHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHH
Q 005238 270 EKLLETIVTYGGVRLQPTRDAIQVFLVEAAKLDAL---AMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILS 346 (706)
Q Consensus 270 ~~LVe~i~T~gGvr~~PSreeLq~Fl~~c~~Ld~e---~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~ 346 (706)
.+||.. .+.++++..-.+-.+.+-..+|..-+.. .+...|+.+|.++..-|.++|--+|-+|-..-..
T Consensus 208 sklv~~-~~~~~~~~~~A~~~lir~~~~~l~~~~~~~s~~~~fl~s~l~~K~emV~~EaArai~~l~~~~~r-------- 278 (865)
T KOG1078|consen 208 SKLVQK-FTRGSLKSPLAVCMLIRIASELLKENQQADSPLFPFLESCLRHKSEMVIYEAARAIVSLPNTNSR-------- 278 (865)
T ss_pred HHHHHH-HccccccchhHHHHHHHHHHHHhhhcccchhhHHHHHHHHHhchhHHHHHHHHHHHhhccccCHh--------
Confidence 445554 3446777777777777777777766654 6677788888888888888887666665543221
Q ss_pred HHHhhhHHHhhhhcCCChhHHHHHHHHHHHhcccccCC
Q 005238 347 YFCENNDVVVKCSESPQSSLREKANKVLSLLGEEQAGG 384 (706)
Q Consensus 347 yF~eN~~~L~r~~~s~Q~sLReKA~KVL~lLg~~~~~~ 384 (706)
-+.--...|+.+..++.+.||-+|.|+|..+-..-+..
T Consensus 279 ~l~pavs~Lq~flssp~~~lRfaAvRtLnkvAm~~P~~ 316 (865)
T KOG1078|consen 279 ELAPAVSVLQLFLSSPKVALRFAAVRTLNKVAMKHPQA 316 (865)
T ss_pred hcchHHHHHHHHhcCcHHHHHHHHHHHHHHHHHhCCcc
Confidence 11223477888999999999999999999987655443
No 111
>KOG2057 consensus Predicted equilibrative nucleoside transporter protein [Nucleotide transport and metabolism]
Probab=22.94 E-value=3.1e+02 Score=30.99 Aligned_cols=75 Identities=12% Similarity=0.252 Sum_probs=44.2
Q ss_pred HHHHHHHHHh---CCchHHHHHHHHHHHHHHHhccCchhHHHHH----HHH-HhhhHHHhhhhcCCChhHHHHHHHHHHH
Q 005238 305 AMSRALEAKL---QSPLWQVRMKAICVLESILRKKDDEKFSIIL----SYF-CENNDVVVKCSESPQSSLREKANKVLSL 376 (706)
Q Consensus 305 ~V~elL~~KL---~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~----~yF-~eN~~~L~r~~~s~Q~sLReKA~KVL~l 376 (706)
.|.-.|-+++ ....|+..+|.|.+|..|++.+.....+..+ +.- .||-..|-+-...--.-+|.|.+.||..
T Consensus 61 elmnmL~qRMLedNK~~WRRVYKSLiLLaYLikNGSER~VqeAREh~YdLR~LEnYhfiDEhGKDQGINIR~kVKeilEf 140 (499)
T KOG2057|consen 61 ELMNMLFQRMLEDNKDAWRRVYKSLILLAYLIKNGSERFVQEAREHAYDLRRLENYHFIDEHGKDQGINIRHKVKEILEF 140 (499)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhhhCccccccHHHHHHHHHHH
Confidence 3444444444 3689999999999999999987642221111 111 2222222222233335689999999876
Q ss_pred hcc
Q 005238 377 LGE 379 (706)
Q Consensus 377 Lg~ 379 (706)
.+-
T Consensus 141 anD 143 (499)
T KOG2057|consen 141 AND 143 (499)
T ss_pred hcc
Confidence 654
No 112
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=22.64 E-value=2.6e+02 Score=32.39 Aligned_cols=75 Identities=19% Similarity=0.234 Sum_probs=52.6
Q ss_pred hhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHHhHHHHHHhhcccCCCCCCCCchhhHHHHHHHHHHH
Q 005238 47 IGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQRHSAVVRQLFHYKGQLDPLKGDALNKAVRDMAHEAI 126 (706)
Q Consensus 47 ~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns~~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll 126 (706)
....+.++|.+-|.+.++.||.-||+.|.++.++. .....++.. ..++..+....+.+| ..|..+|-.+|
T Consensus 74 l~~~~~~~L~~gL~h~~~~Vr~l~l~~l~~~~~~~-~~~~~~~~~-~~l~~~i~~~L~~~d--------~~Va~~A~~~L 143 (503)
T PF10508_consen 74 LLPQYQPFLQRGLTHPSPKVRRLALKQLGRIARHS-EGAAQLLVD-NELLPLIIQCLRDPD--------LSVAKAAIKAL 143 (503)
T ss_pred HHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhcCC-HHHHHHhcC-ccHHHHHHHHHcCCc--------HHHHHHHHHHH
Confidence 35679999999999999999999999999988764 444444433 334444444444444 34777777777
Q ss_pred HHhhc
Q 005238 127 SAIFS 131 (706)
Q Consensus 127 ~aLFs 131 (706)
..|..
T Consensus 144 ~~l~~ 148 (503)
T PF10508_consen 144 KKLAS 148 (503)
T ss_pred HHHhC
Confidence 77766
No 113
>KOG1967 consensus DNA repair/transcription protein Mms19 [Replication, recombination and repair; Transcription]
Probab=22.53 E-value=2.6e+02 Score=35.39 Aligned_cols=68 Identities=15% Similarity=0.145 Sum_probs=48.2
Q ss_pred hhhHHHHHHHHhhCccchhHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcCC-hhHHHHHHHhHHHHHH
Q 005238 30 VYKLEEICELLRSSHVSIGKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKSG-TDFRREMQRHSAVVRQ 98 (706)
Q Consensus 30 GYl~~EIa~~t~~S~~s~~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs-~~F~r~lqrns~~Ik~ 98 (706)
-|+-.-+....-+++ .+.....-.|+.||+.+.|.+|.-+|++|+-||.+-+ ....-..+..-..||.
T Consensus 236 eDL~~sLr~al~stP-~Fa~~~lp~LlEKL~as~~~~K~DsL~~L~ec~~~ygv~~~~~~~~~lWsaik~ 304 (1030)
T KOG1967|consen 236 EDLKASLRSALVSTP-SFAPFALPLLLEKLNASDPSAKVDSLDTLNECCLKYGVRRMLPAQKKLWSAIKP 304 (1030)
T ss_pred HHHHHHHHHHHhcCc-cchhhHHHHHHHHhccccchhhhhHHHHHHHHHHHhCchhhhhhHHHHHHHHHH
Confidence 344444455555565 6778899999999999999999999999999997644 3333334444455554
No 114
>KOG0803 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.16 E-value=2e+02 Score=37.68 Aligned_cols=67 Identities=22% Similarity=0.313 Sum_probs=0.0
Q ss_pred HHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHH-HHHhHHHHHHhhcccCCCCCCCCchhhHHHHHHHHHHHHHh
Q 005238 52 SDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRRE-MQRHSAVVRQLFHYKGQLDPLKGDALNKAVRDMAHEAISAI 129 (706)
Q Consensus 52 ~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~-lqrns~~Ik~~~~f~GppDpl~Gd~l~q~VR~aAqEll~aL 129 (706)
+..++|||.++++..|.|||.-|.-+|.....+-... +=.-..+...|. -+.+..||..-+.++..+
T Consensus 43 l~~I~kkL~KkD~~TK~KaL~eL~eli~~~~~e~~~~il~~w~~i~~kl~-----------~d~~~~VR~~t~~v~s~l 110 (1312)
T KOG0803|consen 43 LDIIVKKLLKRDETTKIKALQELSELIDTSDTEELKGILPEWLVIYAKLI-----------IDEDRTVRLLTHDVFSKL 110 (1312)
T ss_pred HHHHHHHHhccChHHHHHHHHhHHHhcccccchHHhhhHHHHHHHHHHHh-----------cCccHHHHHHHHHHHHHH
No 115
>KOG2171 consensus Karyopherin (importin) beta 3 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=22.07 E-value=4.1e+02 Score=34.20 Aligned_cols=75 Identities=21% Similarity=0.298 Sum_probs=56.1
Q ss_pred HHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHHHHHhhhHHHhhhhcCCChhHHHHHHHHHHHhcccccC
Q 005238 305 AMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILSYFCENNDVVVKCSESPQSSLREKANKVLSLLGEEQAG 383 (706)
Q Consensus 305 ~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF~eN~~~L~r~~~s~Q~sLReKA~KVL~lLg~~~~~ 383 (706)
.+.+.|..-|+++.|+.|.-||-+|-++.. ++.. .+..-+-+=-+.|...-.++++-||-.|-..+..+-.+...
T Consensus 348 ~~~~~l~~~l~S~~w~~R~AaL~Als~i~E--Gc~~--~m~~~l~~Il~~Vl~~l~DphprVr~AA~naigQ~stdl~p 422 (1075)
T KOG2171|consen 348 PLFEALEAMLQSTEWKERHAALLALSVIAE--GCSD--VMIGNLPKILPIVLNGLNDPHPRVRYAALNAIGQMSTDLQP 422 (1075)
T ss_pred HHHHHHHHHhcCCCHHHHHHHHHHHHHHHc--ccHH--HHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHhhhhhhcH
Confidence 466777888899999999999999999886 3322 23333333347778888999999999998888877655443
No 116
>KOG2023 consensus Nuclear transport receptor Karyopherin-beta2/Transportin (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=21.71 E-value=1.1e+02 Score=37.47 Aligned_cols=62 Identities=16% Similarity=0.160 Sum_probs=48.2
Q ss_pred HHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHHHHHhhhHHHhhhhcCCChhHHH
Q 005238 303 ALAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILSYFCENNDVVVKCSESPQSSLRE 368 (706)
Q Consensus 303 ~e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF~eN~~~L~r~~~s~Q~sLRe 368 (706)
...+..+|.++|.+..|.+|=-++.++=|+..-.- +.+..|.-|-...+..|-.+..+.||.
T Consensus 391 L~~l~PlLk~~L~~~~W~vrEagvLAlGAIAEGcM----~g~~p~LpeLip~l~~~L~DKkplVRs 452 (885)
T KOG2023|consen 391 LPILLPLLKEHLSSEEWKVREAGVLALGAIAEGCM----QGFVPHLPELIPFLLSLLDDKKPLVRS 452 (885)
T ss_pred HHHHHHHHHHHcCcchhhhhhhhHHHHHHHHHHHh----hhcccchHHHHHHHHHHhccCccceee
Confidence 36788999999999999999999999988876321 234556666677888888888887775
No 117
>PF14663 RasGEF_N_2: Rapamycin-insensitive companion of mTOR RasGEF_N domain
Probab=21.59 E-value=1.6e+02 Score=27.56 Aligned_cols=34 Identities=18% Similarity=0.228 Sum_probs=29.9
Q ss_pred hHHHHHHHHHhhccCCCchHHHHHHHHHHHHhcC
Q 005238 48 GKEVSDFILKRLEHKSPVVKQKALRLIKYSVGKS 81 (706)
Q Consensus 48 ~~eI~dyLlkRL~~ksphVKlKaLKILkyLc~~G 81 (706)
..=.+++|.+.|.+.++-|-.+|++||.-.|...
T Consensus 6 ~~w~i~lLv~QL~D~~~~V~~~A~~iL~e~c~~~ 39 (115)
T PF14663_consen 6 EDWGIELLVTQLYDPSPEVVAAALEILEEACEDK 39 (115)
T ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhch
Confidence 3457899999999999999999999999999875
No 118
>PF05598 DUF772: Transposase domain (DUF772); InterPro: IPR008490 This presumed domain is found at the N terminus of transposase insH and other related transposases.
Probab=21.11 E-value=2.6e+02 Score=23.55 Aligned_cols=64 Identities=22% Similarity=0.319 Sum_probs=40.9
Q ss_pred CchHHHHHHHHHHHHhc-CChhHHHHHHHhHHHHHHhhcc---cCCCCCCCCchhhHHHHHHH-HHHHHHhhcC
Q 005238 64 PVVKQKALRLIKYSVGK-SGTDFRREMQRHSAVVRQLFHY---KGQLDPLKGDALNKAVRDMA-HEAISAIFSE 132 (706)
Q Consensus 64 phVKlKaLKILkyLc~~-Gs~~F~r~lqrns~~Ik~~~~f---~GppDpl~Gd~l~q~VR~aA-qEll~aLFsd 132 (706)
|.+.+|+| |++++..- ........++.+.....-|- + ...|| -.+++.-.+.-+ .++++.||.+
T Consensus 7 ~~~ml~~l-l~~~~~~~~S~r~l~~~l~~~~~~r~~~g-~~~~~~~pd---~stl~rfr~rl~~~~~~~~lf~~ 75 (77)
T PF05598_consen 7 PRMMLKAL-LLKYLFGLRSDRELEERLRDNLSFRYFCG-LSLEEPVPD---HSTLSRFRKRLIQHGLIEKLFDQ 75 (77)
T ss_pred HHHHHHHH-HHHHHHhcchHHHHHhhHhhhhHHHHHHh-cccCCCCCC---hHHHHHHHHHHhhccHHHHHHHH
Confidence 55556655 67787776 56777777777777666666 4 33444 367775553444 4689999863
No 119
>PF03700 Sorting_nexin: Sorting nexin, N-terminal domain ; InterPro: IPR005329 SNXs are hydrophilic molecules that are localized in the cytoplasm and have the potential for membrane association either through their lipid-binding PX domains (IPR001683 from INTERPRO) or through protein-protein interactions with membrane-associated protein complexes []. Indeed, several of the SNXs require several targeting motifs for their appropriate cellular localization. In almost every case studied, mammalian SNXs can be shown to have a role in protein sorting, with the most commonly used experimental model being plasma-membrane receptor endocytosis and sorting through the endosomal pathway. However, it is equally probable that SNXs sort vesicles that are not derived from the plasma membrane, and have a function in the accurate targeting of these vesicles and their cargo. The N-terminal domain appears to be specific to sorting nexins 1 and 2. SNX1 is both membrane-associated and cytosolic, where it probably exists as a tetramer in large protein complexes and may hetero-oligomerize with SNX2.; GO: 0008565 protein transporter activity, 0006886 intracellular protein transport
Probab=21.02 E-value=1.5e+02 Score=29.09 Aligned_cols=59 Identities=24% Similarity=0.374 Sum_probs=32.4
Q ss_pred cccccccccccccccCCCccccccccccCCCCCccccccCCCCCC---Cccccc--ccCchhhhccc----cccCCCC
Q 005238 475 GKEHVEDLFSGMTVDSKPVASGNLLAADKSGSEPFDDIFGSHTEI---LPKQEN--QKNNFNDLMAG----FSINEDQ 543 (706)
Q Consensus 475 ~~~~~~dlfsg~tv~~~~~~~~~~~~~~~~~~~~~~d~fg~~~~~---~~~~~~--~~~~~~~l~~~----~~~~~~~ 543 (706)
....++|||.|--+..+ -+. ..++.. |+|...... -+.++| +..+-.||.|. ||++...
T Consensus 22 d~deGEDiFt~~~s~~~-------~~~--~~~epa-~lp~e~~S~~~ng~~~~ng~~sDD~~DLFAEATvElSLDsp~ 89 (129)
T PF03700_consen 22 DDDEGEDIFTSAVSTLE-------SPP--SKPEPA-SLPSEEISTKSNGPKEENGVHSDDDQDLFAEATVELSLDSPE 89 (129)
T ss_pred ccccccccccccccccc-------CCC--CCCCcc-cccccccccccCCCCccccccccchhhhhhhccccccccCCc
Confidence 67789999998543211 111 122333 777544331 333333 45556789886 6777664
No 120
>PF03281 Mab-21: Mab-21 protein
Probab=20.75 E-value=1.7e+02 Score=30.95 Aligned_cols=76 Identities=16% Similarity=0.136 Sum_probs=46.2
Q ss_pred HHHHHHHHhhccCCCchHHHHHHHHHHHHhcCChhHHHHHHHhHHHHHHhhccc---CCCC-CCCCchhhHHHHHHHHHH
Q 005238 50 EVSDFILKRLEHKSPVVKQKALRLIKYSVGKSGTDFRREMQRHSAVVRQLFHYK---GQLD-PLKGDALNKAVRDMAHEA 125 (706)
Q Consensus 50 eI~dyLlkRL~~ksphVKlKaLKILkyLc~~Gs~~F~r~lqrns~~Ik~~~~f~---GppD-pl~Gd~l~q~VR~aAqEl 125 (706)
.....|++.+ .....|||||||+|+..-. ...-.-.++.+|++.-+. .|.+ .=+.+.+..++...-.+|
T Consensus 180 ~~E~~ll~~~----~~~~~~~l~llk~l~~~~~---~~~~~l~syhLkt~ll~~~~~~p~~~~W~~~~l~~~l~~~l~~L 252 (292)
T PF03281_consen 180 VAERQLLKNL----NGCRKKCLRLLKALRDRHL---TNLSGLSSYHLKTVLLWLCEKHPSSSDWSEENLGERLLDLLDFL 252 (292)
T ss_pred HHHHHHHHhc----cccHHHHHHHHHHHHHhcc---ccCCCccHHHHHHHHHHHHHcCCCCCCCChHHHHHHHHHHHHHH
Confidence 4556666666 3345899999999997654 111111245666644331 1222 223477888888888888
Q ss_pred HHHhhcC
Q 005238 126 ISAIFSE 132 (706)
Q Consensus 126 l~aLFsd 132 (706)
+..|-..
T Consensus 253 ~~~L~~~ 259 (292)
T PF03281_consen 253 IKCLQEG 259 (292)
T ss_pred HHHHhcC
Confidence 8888553
No 121
>TIGR02270 conserved hypothetical protein. Members are found in Myxococcus xanthus (six members), Geobacter sulfurreducens, and Pseudomonas aeruginosa; a short protein homologous to the N-terminal region is found in Mesorhizobium loti. All sequence are from Proteobacteria. The function is unknown.
Probab=20.46 E-value=5.3e+02 Score=29.53 Aligned_cols=79 Identities=13% Similarity=0.026 Sum_probs=48.8
Q ss_pred CHHHHHHHHHHHhhCCHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHhccCchhHHHHHHHHHhhhHHHhhhhcCCChhH
Q 005238 287 TRDAIQVFLVEAAKLDALAMSRALEAKLQSPLWQVRMKAICVLESILRKKDDEKFSIILSYFCENNDVVVKCSESPQSSL 366 (706)
Q Consensus 287 SreeLq~Fl~~c~~Ld~e~V~elL~~KL~~~~WQvrlKALcvLEaLl~s~~~d~~~~v~~yF~eN~~~L~r~~~s~Q~sL 366 (706)
....-...++....+.-......|..-|.+....||.-+|.++. ... .+.+ +.+.++..+....|
T Consensus 99 ~~~vr~aaa~ALg~i~~~~a~~~L~~~L~~~~p~vR~aal~al~---~r~-~~~~-----------~~L~~~L~d~d~~V 163 (410)
T TIGR02270 99 PEGLCAGIQAALGWLGGRQAEPWLEPLLAASEPPGRAIGLAALG---AHR-HDPG-----------PALEAALTHEDALV 163 (410)
T ss_pred CHHHHHHHHHHHhcCCchHHHHHHHHHhcCCChHHHHHHHHHHH---hhc-cChH-----------HHHHHHhcCCCHHH
Confidence 34455666666677777777788888887777777765554333 222 2233 33444455666777
Q ss_pred HHHHHHHHHHhccc
Q 005238 367 REKANKVLSLLGEE 380 (706)
Q Consensus 367 ReKA~KVL~lLg~~ 380 (706)
|..|-++|..|+..
T Consensus 164 ra~A~raLG~l~~~ 177 (410)
T TIGR02270 164 RAAALRALGELPRR 177 (410)
T ss_pred HHHHHHHHHhhccc
Confidence 77777777776653
Done!