Query psy17773
Match_columns 165
No_of_seqs 172 out of 1186
Neff 6.8
Searched_HMMs 46136
Date Fri Aug 16 22:36:30 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17773.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17773hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0703|consensus 100.0 1.7E-36 3.6E-41 250.6 6.9 95 62-158 13-107 (287)
2 KOG0705|consensus 100.0 1.1E-35 2.4E-40 262.0 8.9 139 19-160 442-596 (749)
3 PF01412 ArfGap: Putative GTPa 100.0 1.2E-35 2.6E-40 218.4 4.1 84 63-148 2-85 (116)
4 KOG0521|consensus 100.0 2.1E-34 4.6E-39 266.2 8.0 141 9-152 317-502 (785)
5 smart00105 ArfGap Putative GTP 100.0 1.5E-34 3.2E-39 211.5 5.0 84 73-157 1-84 (112)
6 COG5347 GTPase-activating prot 100.0 1.6E-33 3.5E-38 237.6 7.3 86 64-151 10-95 (319)
7 KOG0706|consensus 100.0 1.1E-31 2.3E-36 231.1 3.9 102 62-165 11-115 (454)
8 KOG0704|consensus 100.0 2.3E-31 4.9E-36 223.4 4.1 99 65-165 10-113 (386)
9 PLN03114 ADP-ribosylation fact 100.0 3.7E-31 8.1E-36 223.3 5.1 102 62-165 10-115 (395)
10 PLN03119 putative ADP-ribosyla 99.9 3.3E-28 7.2E-33 214.8 8.9 90 61-155 10-99 (648)
11 PLN03131 hypothetical protein; 99.9 7.7E-28 1.7E-32 214.0 8.3 88 62-154 11-98 (705)
12 KOG1117|consensus 99.9 1.2E-26 2.7E-31 211.5 4.3 137 14-153 238-377 (1186)
13 KOG0818|consensus 99.8 1.2E-19 2.5E-24 158.9 1.3 81 72-153 5-85 (669)
14 cd01251 PH_centaurin_alpha Cen 98.9 1.2E-09 2.5E-14 78.6 4.9 34 23-57 68-101 (103)
15 cd01265 PH_PARIS-1 PARIS-1 ple 98.9 2.6E-09 5.6E-14 75.6 4.5 54 1-55 31-93 (95)
16 cd01264 PH_melted Melted pleck 98.8 5.4E-09 1.2E-13 75.2 4.9 33 22-55 68-100 (101)
17 cd01238 PH_Tec Tec pleckstrin 98.8 4.7E-09 1E-13 75.7 4.4 33 21-54 73-105 (106)
18 KOG0702|consensus 98.8 5.8E-09 1.3E-13 91.9 5.6 85 63-150 14-99 (524)
19 cd01244 PH_RasGAP_CG9209 RAS_G 98.8 5.7E-09 1.2E-13 74.7 4.5 32 22-54 66-97 (98)
20 cd01247 PH_GPBP Goodpasture an 98.8 1E-08 2.2E-13 72.2 4.6 54 1-54 27-90 (91)
21 cd01260 PH_CNK Connector enhan 98.7 1.3E-08 2.8E-13 71.5 3.9 45 10-55 47-96 (96)
22 cd01249 PH_oligophrenin Oligop 98.7 1.7E-08 3.7E-13 72.9 4.3 44 9-53 53-102 (104)
23 cd01233 Unc104 Unc-104 pleckst 98.7 3.6E-08 7.8E-13 70.2 5.1 35 21-56 64-98 (100)
24 cd01250 PH_centaurin Centaurin 98.6 3.8E-08 8.3E-13 67.8 3.9 33 21-54 61-93 (94)
25 cd01220 PH_CDEP Chondrocyte-de 98.6 4.5E-08 9.8E-13 70.1 4.2 54 3-57 40-98 (99)
26 cd01219 PH_FGD FGD (faciogenit 98.5 1.1E-07 2.5E-12 67.9 4.2 53 4-57 44-100 (101)
27 cd01257 PH_IRS Insulin recepto 98.5 1.2E-07 2.6E-12 68.2 4.3 33 21-54 68-100 (101)
28 cd01246 PH_oxysterol_bp Oxyste 98.4 2.6E-07 5.6E-12 63.2 4.2 37 19-55 55-91 (91)
29 cd01218 PH_phafin2 Phafin2 Pl 98.4 3.8E-07 8.2E-12 65.9 5.2 56 4-60 42-102 (104)
30 cd01236 PH_outspread Outspread 98.4 7E-07 1.5E-11 64.5 5.0 33 21-54 70-102 (104)
31 cd01253 PH_beta_spectrin Beta- 98.3 6.8E-07 1.5E-11 63.6 4.7 35 20-54 69-103 (104)
32 cd01252 PH_cytohesin Cytohesin 98.3 8.4E-07 1.8E-11 65.4 4.9 58 1-58 28-115 (125)
33 cd01245 PH_RasGAP_CG5898 RAS G 98.3 7E-07 1.5E-11 63.9 3.9 52 1-54 32-97 (98)
34 cd01235 PH_SETbf Set binding f 98.3 1.1E-06 2.4E-11 61.7 5.0 35 21-56 67-101 (101)
35 cd01266 PH_Gab Gab (Grb2-assoc 98.2 2.6E-06 5.6E-11 61.4 5.0 32 22-54 75-106 (108)
36 cd01237 Unc112 Unc-112 pleckst 98.2 2.3E-06 5.1E-11 62.0 4.2 54 1-55 32-102 (106)
37 PF15409 PH_8: Pleckstrin homo 98.1 3.1E-06 6.7E-11 59.6 4.2 54 1-55 28-88 (89)
38 PF00169 PH: PH domain; Inter 98.1 1E-05 2.2E-10 55.2 5.9 37 20-56 67-103 (104)
39 cd01230 PH_EFA6 EFA6 Pleckstri 98.0 1.8E-05 3.8E-10 58.4 5.8 39 19-57 74-112 (117)
40 PF15410 PH_9: Pleckstrin homo 97.9 3.4E-05 7.4E-10 56.6 5.6 36 19-54 81-116 (119)
41 cd01261 PH_SOS Son of Sevenles 97.8 2.4E-05 5.2E-10 57.3 4.2 38 21-58 74-111 (112)
42 cd01241 PH_Akt Akt pleckstrin 97.7 4E-05 8.6E-10 54.8 3.8 35 19-55 62-101 (102)
43 cd01226 PH_exo84 Exocyst compl 97.7 4.9E-05 1.1E-09 54.6 4.2 35 21-56 64-98 (100)
44 cd01254 PH_PLD Phospholipase D 97.7 7.7E-05 1.7E-09 55.0 5.0 36 19-55 86-121 (121)
45 cd00821 PH Pleckstrin homology 97.6 0.0001 2.2E-09 48.7 4.9 34 21-54 62-95 (96)
46 KOG1451|consensus 97.6 5.1E-05 1.1E-09 68.9 3.9 118 19-157 329-468 (812)
47 smart00233 PH Pleckstrin homol 97.6 0.00016 3.5E-09 48.2 5.4 36 21-56 66-101 (102)
48 PF15413 PH_11: Pleckstrin hom 97.6 0.00015 3.3E-09 52.7 5.2 33 22-55 80-112 (112)
49 cd00900 PH-like Pleckstrin hom 97.5 0.00016 3.6E-09 48.1 4.5 34 21-54 63-98 (99)
50 cd01222 PH_clg Clg (common-sit 97.3 0.00042 9E-09 49.5 4.6 39 19-57 56-96 (97)
51 cd01263 PH_anillin Anillin Ple 97.1 0.00057 1.2E-08 50.7 3.8 20 35-54 102-121 (122)
52 KOG4424|consensus 97.1 0.00075 1.6E-08 61.2 4.6 59 2-61 312-374 (623)
53 PTZ00283 serine/threonine prot 96.7 0.0022 4.8E-08 57.3 5.0 40 18-57 451-490 (496)
54 cd01223 PH_Vav Vav pleckstrin 96.7 0.0046 9.9E-08 45.5 5.6 37 22-58 76-113 (116)
55 KOG0930|consensus 96.3 0.0098 2.1E-07 50.3 6.0 50 9-58 303-377 (395)
56 PF14593 PH_3: PH domain; PDB: 96.3 0.0082 1.8E-07 43.4 4.6 35 22-58 67-101 (104)
57 PTZ00267 NIMA-related protein 96.2 0.0089 1.9E-07 52.9 5.3 37 20-56 440-476 (478)
58 KOG0932|consensus 95.9 0.01 2.2E-07 54.2 4.5 36 19-54 580-615 (774)
59 cd01228 PH_BCR-related BCR (br 95.8 0.0086 1.9E-07 42.6 2.9 30 25-54 63-92 (96)
60 KOG0521|consensus 95.7 0.0026 5.6E-08 60.3 -0.2 71 72-145 627-698 (785)
61 cd01232 PH_TRIO Trio pleckstri 95.6 0.03 6.5E-07 41.1 5.3 38 19-56 71-112 (114)
62 PF15406 PH_6: Pleckstrin homo 95.6 0.024 5.1E-07 41.3 4.6 31 22-53 80-110 (112)
63 cd01262 PH_PDK1 3-Phosphoinosi 95.5 0.019 4.1E-07 40.4 3.6 45 9-55 41-87 (89)
64 cd01221 PH_ephexin Ephexin Ple 95.4 0.022 4.7E-07 42.5 3.8 33 21-53 82-119 (125)
65 cd01258 PH_syntrophin Syntroph 94.6 0.071 1.5E-06 38.8 4.7 35 20-54 72-107 (108)
66 cd01231 PH_Lnk LNK-family Plec 94.6 0.091 2E-06 37.9 5.0 36 19-54 71-106 (107)
67 cd01224 PH_Collybistin Collybi 94.5 0.097 2.1E-06 38.2 5.1 33 22-54 72-105 (109)
68 cd01242 PH_ROK Rok (Rho- assoc 94.5 0.087 1.9E-06 38.5 4.7 39 19-57 72-111 (112)
69 PF12814 Mcp5_PH: Meiotic cell 94.3 0.1 2.2E-06 38.4 5.0 33 21-54 87-119 (123)
70 cd01256 PH_dynamin Dynamin ple 94.2 0.096 2.1E-06 37.8 4.4 53 1-53 31-102 (110)
71 cd01248 PH_PLC Phospholipase C 94.0 0.14 3E-06 36.9 5.2 34 20-53 77-113 (115)
72 cd01227 PH_Dbs Dbs (DBL's big 93.5 0.3 6.4E-06 36.8 6.2 40 19-58 77-117 (133)
73 KOG0690|consensus 93.2 0.28 6.1E-06 42.9 6.4 66 19-86 76-144 (516)
74 cd01225 PH_Cool_Pix Cool (clon 93.2 0.23 4.9E-06 36.3 4.9 55 2-56 50-109 (111)
75 PF08458 PH_2: Plant pleckstri 92.2 0.45 9.7E-06 34.8 5.4 37 20-57 68-104 (110)
76 cd01243 PH_MRCK MRCK (myotonic 92.0 0.34 7.3E-06 36.0 4.7 36 19-54 76-117 (122)
77 PF15405 PH_5: Pleckstrin homo 91.9 0.3 6.5E-06 36.7 4.4 35 21-55 98-134 (135)
78 KOG2059|consensus 91.5 0.29 6.3E-06 45.9 4.6 34 21-55 630-663 (800)
79 cd01239 PH_PKD Protein kinase 90.1 0.5 1.1E-05 34.8 4.0 35 20-55 63-117 (117)
80 KOG3551|consensus 89.9 0.98 2.1E-05 39.9 6.2 55 7-61 215-276 (506)
81 PF15404 PH_4: Pleckstrin homo 86.7 0.73 1.6E-05 36.6 3.2 34 22-55 148-184 (185)
82 PRK12495 hypothetical protein; 83.4 3.5 7.5E-05 33.7 5.6 30 72-105 39-68 (226)
83 cd01234 PH_CADPS CADPS (Ca2+-d 81.6 2.2 4.8E-05 31.1 3.5 36 20-56 75-110 (117)
84 PF00643 zf-B_box: B-box zinc 81.4 1.1 2.5E-05 26.1 1.7 33 75-107 3-36 (42)
85 PF08271 TF_Zn_Ribbon: TFIIB z 81.2 1 2.3E-05 26.9 1.5 27 77-104 2-28 (43)
86 PF01286 XPA_N: XPA protein N- 80.8 0.5 1.1E-05 27.4 -0.0 27 76-102 4-31 (34)
87 KOG3549|consensus 80.4 3.1 6.7E-05 36.5 4.6 40 19-58 349-388 (505)
88 PRK00085 recO DNA repair prote 79.9 0.85 1.8E-05 36.8 1.0 34 72-105 146-180 (247)
89 KOG1117|consensus 79.7 3.6 7.7E-05 39.9 5.1 56 1-56 530-601 (1186)
90 COG1734 DksA DnaK suppressor p 79.6 1.6 3.4E-05 32.3 2.3 34 73-106 78-112 (120)
91 KOG0689|consensus 77.9 7.3 0.00016 35.0 6.4 65 19-84 320-392 (448)
92 TIGR02419 C4_traR_proteo phage 77.9 1.5 3.2E-05 28.7 1.5 34 72-105 28-62 (63)
93 PF12760 Zn_Tnp_IS1595: Transp 76.0 5.2 0.00011 24.2 3.5 30 72-102 15-44 (46)
94 PRK11019 hypothetical protein; 73.9 1.1 2.4E-05 31.4 0.1 39 72-111 33-73 (88)
95 smart00401 ZnF_GATA zinc finge 72.9 3.4 7.4E-05 25.8 2.2 37 74-110 2-40 (52)
96 PF11781 RRN7: RNA polymerase 72.7 2.8 6E-05 24.4 1.6 27 74-103 7-33 (36)
97 TIGR02890 spore_yteA sporulati 71.2 3.9 8.4E-05 31.6 2.6 44 62-107 75-119 (159)
98 PRK13715 conjugal transfer pro 70.9 2.6 5.6E-05 28.4 1.4 34 73-106 32-66 (73)
99 PF00320 GATA: GATA zinc finge 70.5 1.9 4.1E-05 24.9 0.6 32 78-109 1-34 (36)
100 TIGR00613 reco DNA repair prot 70.1 3.7 8E-05 32.9 2.4 33 72-104 144-177 (241)
101 PF14803 Nudix_N_2: Nudix N-te 69.9 1.9 4.1E-05 24.9 0.5 29 76-105 1-32 (34)
102 KOG1739|consensus 69.9 4.2 9.1E-05 37.0 2.9 53 1-54 52-114 (611)
103 PF15408 PH_7: Pleckstrin homo 66.9 3.4 7.4E-05 29.1 1.3 32 23-54 64-95 (104)
104 PF15277 Sec3-PIP2_bind: Exocy 66.4 16 0.00034 25.5 4.7 31 22-54 56-86 (91)
105 cd01240 PH_beta-ARK Beta adren 65.4 28 0.00061 25.5 5.9 40 21-60 63-102 (116)
106 cd07171 NR_DBD_ER DNA-binding 64.3 3.9 8.4E-05 28.1 1.2 31 74-107 2-32 (82)
107 cd07160 NR_DBD_LXR DNA-binding 64.2 4.4 9.6E-05 29.0 1.6 31 74-107 17-47 (101)
108 cd06966 NR_DBD_CAR DNA-binding 64.1 4.3 9.3E-05 28.6 1.4 29 76-107 1-29 (94)
109 PF01258 zf-dskA_traR: Prokary 63.2 0.54 1.2E-05 27.1 -2.8 30 76-105 4-34 (36)
110 PRK10778 dksA RNA polymerase-b 62.9 7.1 0.00015 29.9 2.6 43 63-107 101-144 (151)
111 cd07163 NR_DBD_TLX DNA-binding 62.7 5.4 0.00012 27.9 1.8 31 74-107 5-35 (92)
112 COG1381 RecO Recombinational D 61.0 4.4 9.6E-05 33.3 1.2 31 72-102 151-182 (251)
113 cd07170 NR_DBD_ERR DNA-binding 60.2 4.4 9.5E-05 28.7 0.9 29 76-107 5-33 (97)
114 TIGR02420 dksA RNA polymerase- 60.0 10 0.00022 27.2 2.8 31 72-102 77-108 (110)
115 KOG3723|consensus 59.9 10 0.00023 35.4 3.4 35 23-58 804-838 (851)
116 cd07173 NR_DBD_AR DNA-binding 59.8 3.9 8.5E-05 28.0 0.6 31 74-107 2-32 (82)
117 KOG1090|consensus 58.9 4 8.7E-05 40.4 0.7 36 19-56 1696-1731(1732)
118 cd06955 NR_DBD_VDR DNA-binding 57.8 8.3 0.00018 27.9 2.0 31 74-107 5-35 (107)
119 cd07157 2DBD_NR_DBD1 The first 57.7 7.3 0.00016 26.9 1.7 28 77-107 2-29 (86)
120 PHA00080 DksA-like zinc finger 56.4 2.1 4.5E-05 28.8 -1.2 33 72-105 28-62 (72)
121 cd06968 NR_DBD_ROR DNA-binding 55.9 6.6 0.00014 27.7 1.3 31 74-107 4-34 (95)
122 PF02318 FYVE_2: FYVE-type zin 55.7 68 0.0015 23.1 6.7 66 40-105 3-89 (118)
123 COG1997 RPL43A Ribosomal prote 55.1 19 0.00041 25.3 3.3 32 72-105 32-63 (89)
124 PLN02866 phospholipase D 54.0 36 0.00078 33.9 6.2 35 21-56 273-307 (1068)
125 cd07172 NR_DBD_GR_PR DNA-bindi 53.8 6.5 0.00014 26.6 0.9 29 76-107 3-31 (78)
126 KOG1170|consensus 53.7 6.1 0.00013 38.1 1.0 127 22-153 61-194 (1099)
127 KOG1729|consensus 53.6 8.7 0.00019 32.6 1.8 38 23-61 108-145 (288)
128 cd07161 NR_DBD_EcR DNA-binding 53.5 6.7 0.00015 27.4 1.0 29 76-107 2-30 (91)
129 cd06962 NR_DBD_FXR DNA-binding 53.3 8.6 0.00019 26.4 1.5 29 76-107 2-30 (84)
130 cd01259 PH_Apbb1ip Apbb1ip (Am 53.0 26 0.00056 25.7 4.0 37 19-55 65-107 (114)
131 cd06970 NR_DBD_PNR DNA-binding 52.8 11 0.00024 26.4 1.9 32 73-107 4-35 (92)
132 PF07282 OrfB_Zn_ribbon: Putat 51.6 9.6 0.00021 24.6 1.4 28 74-103 27-54 (69)
133 cd06967 NR_DBD_TR2_like DNA-bi 51.4 11 0.00023 26.1 1.7 30 75-107 3-32 (87)
134 cd07162 NR_DBD_PXR DNA-binding 51.0 7.5 0.00016 26.8 0.9 28 77-107 1-28 (87)
135 cd07156 NR_DBD_VDR_like The DN 50.7 8.7 0.00019 25.5 1.1 27 78-107 1-27 (72)
136 KOG3507|consensus 50.7 7.8 0.00017 25.2 0.8 23 77-102 22-44 (62)
137 KOG0517|consensus 50.6 4.1 8.9E-05 42.4 -0.7 43 19-61 2372-2414(2473)
138 cd06964 NR_DBD_RAR DNA-binding 50.4 13 0.00029 25.5 2.0 30 75-107 4-33 (85)
139 PRK00423 tfb transcription ini 50.4 13 0.00029 31.4 2.5 34 72-106 8-41 (310)
140 cd06965 NR_DBD_Ppar DNA-bindin 50.4 6.7 0.00015 26.9 0.5 27 78-107 2-28 (84)
141 cd07166 NR_DBD_REV_ERB DNA-bin 50.3 7.6 0.00016 27.0 0.8 30 75-107 3-32 (89)
142 cd06957 NR_DBD_PNR_like_2 DNA- 49.9 11 0.00024 25.7 1.6 27 78-107 1-27 (82)
143 cd07168 NR_DBD_DHR4_like DNA-b 49.5 10 0.00022 26.4 1.3 32 73-107 4-35 (90)
144 PF10764 Gin: Inhibitor of sig 49.5 7.9 0.00017 23.8 0.7 26 77-103 1-26 (46)
145 KOG0119|consensus 49.2 49 0.0011 30.3 5.8 105 35-141 207-332 (554)
146 cd06960 NR_DBD_HNF4A DNA-bindi 49.0 11 0.00025 25.1 1.5 27 78-107 1-27 (76)
147 PF09297 zf-NADH-PPase: NADH p 48.5 15 0.00032 20.4 1.7 26 74-105 2-31 (32)
148 PF00105 zf-C4: Zinc finger, C 47.9 7.2 0.00016 25.4 0.4 28 76-106 1-28 (70)
149 cd07158 NR_DBD_Ppar_like The D 47.2 7.9 0.00017 25.7 0.5 27 78-107 1-27 (73)
150 cd06956 NR_DBD_RXR DNA-binding 47.0 9.5 0.00021 25.7 0.9 28 77-107 2-29 (77)
151 KOG3523|consensus 47.0 14 0.00029 34.6 2.1 20 34-53 572-591 (695)
152 cd07169 NR_DBD_GCNF_like DNA-b 46.9 9.6 0.00021 26.5 0.9 32 73-107 4-35 (90)
153 KOG0248|consensus 46.9 25 0.00053 33.6 3.7 93 4-97 290-385 (936)
154 cd06963 NR_DBD_GR_like The DNA 46.8 10 0.00022 25.3 0.9 27 78-107 1-27 (73)
155 cd07154 NR_DBD_PNR_like The DN 46.7 13 0.00028 24.7 1.5 27 78-107 1-27 (73)
156 PRK11788 tetratricopeptide rep 46.5 22 0.00048 29.7 3.2 35 65-106 345-379 (389)
157 cd06916 NR_DBD_like DNA-bindin 45.8 13 0.00029 24.5 1.5 27 78-107 1-27 (72)
158 COG2158 Uncharacterized protei 45.7 16 0.00036 26.5 1.9 32 78-111 45-78 (112)
159 KOG3520|consensus 45.5 42 0.00091 33.7 5.2 40 19-58 682-723 (1167)
160 cd07179 2DBD_NR_DBD2 The secon 44.8 9.8 0.00021 25.4 0.6 27 78-107 1-27 (74)
161 cd07155 NR_DBD_ER_like DNA-bin 44.7 7.8 0.00017 25.9 0.1 27 78-107 1-27 (75)
162 cd06958 NR_DBD_COUP_TF DNA-bin 44.1 10 0.00022 25.2 0.6 27 78-107 1-27 (73)
163 PF08792 A2L_zn_ribbon: A2L zi 43.9 16 0.00034 20.8 1.3 29 75-105 3-31 (33)
164 smart00399 ZnF_C4 c4 zinc fing 43.7 11 0.00025 24.6 0.9 27 78-107 2-28 (70)
165 cd07165 NR_DBD_DmE78_like DNA- 43.7 8.3 0.00018 26.2 0.2 27 78-107 1-27 (81)
166 smart00659 RPOLCX RNA polymera 42.3 13 0.00028 22.5 0.8 23 77-102 4-26 (44)
167 smart00290 ZnF_UBP Ubiquitin C 41.9 20 0.00043 21.5 1.7 23 77-99 1-23 (50)
168 cd00202 ZnF_GATA Zinc finger D 41.8 9.9 0.00021 24.0 0.3 34 77-110 1-36 (54)
169 cd06959 NR_DBD_EcR_like The DN 41.6 12 0.00026 24.8 0.7 27 78-107 2-28 (73)
170 cd06969 NR_DBD_NGFI-B DNA-bind 41.3 17 0.00037 24.3 1.4 28 77-107 2-29 (75)
171 PLN00188 enhanced disease resi 40.5 55 0.0012 31.3 5.0 37 23-59 74-112 (719)
172 cd07164 NR_DBD_PNR_like_1 DNA- 40.0 13 0.00028 25.1 0.6 27 78-107 1-27 (78)
173 KOG3362|consensus 39.1 12 0.00027 28.6 0.5 35 72-107 115-150 (156)
174 cd06961 NR_DBD_TR DNA-binding 38.2 11 0.00025 25.8 0.2 27 78-107 2-28 (85)
175 smart00661 RPOL9 RNA polymeras 37.6 24 0.00053 21.2 1.6 30 76-107 1-32 (52)
176 PF14471 DUF4428: Domain of un 36.9 9 0.00019 23.9 -0.5 44 77-121 1-46 (51)
177 PF02831 gpW: gpW; InterPro: 36.8 55 0.0012 21.7 3.3 30 28-57 26-55 (68)
178 KOG4215|consensus 36.7 15 0.00032 32.4 0.7 31 73-106 17-47 (432)
179 PF03604 DNA_RNApol_7kD: DNA d 36.7 13 0.00029 21.0 0.3 23 77-102 2-24 (32)
180 PF06827 zf-FPG_IleRS: Zinc fi 36.5 15 0.00032 20.0 0.4 28 76-103 2-29 (30)
181 PF13119 DUF3973: Domain of un 35.8 15 0.00033 21.9 0.4 14 96-109 2-15 (41)
182 PTZ00255 60S ribosomal protein 35.7 56 0.0012 23.0 3.3 30 72-103 33-62 (90)
183 PLN02958 diacylglycerol kinase 35.2 48 0.001 29.9 3.7 25 33-57 82-106 (481)
184 cd03031 GRX_GRX_like Glutaredo 35.1 32 0.0007 26.1 2.2 36 63-108 88-123 (147)
185 cd01269 PLX Pollux (PLX) Phosp 35.0 1.4E+02 0.0031 22.4 5.5 24 34-57 103-126 (129)
186 PF08274 PhnA_Zn_Ribbon: PhnA 33.3 24 0.00051 19.7 0.9 24 77-103 4-27 (30)
187 cd07167 NR_DBD_Lrh-1_like The 32.8 15 0.00033 25.7 0.1 27 78-107 1-27 (93)
188 smart00834 CxxC_CXXC_SSSS Puta 31.7 19 0.0004 20.6 0.3 27 77-103 7-34 (41)
189 PF15411 PH_10: Pleckstrin hom 31.3 45 0.00096 24.3 2.4 32 21-52 82-116 (116)
190 KOG4217|consensus 31.2 17 0.00037 33.1 0.1 31 72-105 266-296 (605)
191 TIGR01384 TFS_arch transcripti 31.1 41 0.00089 23.5 2.1 30 74-103 61-98 (104)
192 TIGR00598 rad14 DNA repair pro 31.0 7.5 0.00016 30.6 -1.9 28 78-105 1-29 (172)
193 smart00653 eIF2B_5 domain pres 30.8 40 0.00087 24.4 2.0 29 75-103 80-109 (110)
194 KOG2996|consensus 30.5 97 0.0021 29.3 4.8 38 21-58 475-513 (865)
195 PRK00432 30S ribosomal protein 30.4 36 0.00078 21.1 1.5 26 74-102 19-44 (50)
196 PF06677 Auto_anti-p27: Sjogre 30.4 28 0.0006 20.8 0.9 25 74-101 16-40 (41)
197 PF13453 zf-TFIIB: Transcripti 29.9 40 0.00086 19.6 1.6 28 77-104 1-28 (41)
198 KOG4846|consensus 29.4 22 0.00048 31.9 0.5 30 74-106 131-160 (538)
199 cd06409 PB1_MUG70 The MUG70 pr 29.4 1E+02 0.0022 21.4 3.8 22 23-44 1-22 (86)
200 COG0675 Transposase and inacti 29.4 29 0.00063 28.3 1.2 25 73-104 307-331 (364)
201 TIGR03847 conserved hypothetic 27.1 45 0.00098 26.3 1.9 42 32-74 21-63 (177)
202 TIGR00373 conserved hypothetic 26.9 1.1E+02 0.0024 23.3 4.0 28 77-105 111-138 (158)
203 PF04170 NlpE: NlpE N-terminal 26.8 26 0.00057 24.0 0.5 16 93-108 2-17 (87)
204 KOG3640|consensus 26.8 60 0.0013 32.1 2.9 22 34-55 1084-1105(1116)
205 PRK08665 ribonucleotide-diphos 26.8 1.8E+02 0.0038 28.0 6.1 23 76-102 725-747 (752)
206 PHA02942 putative transposase; 26.7 40 0.00087 29.5 1.7 27 74-103 324-350 (383)
207 KOG1597|consensus 26.4 51 0.0011 28.2 2.2 28 77-104 2-30 (308)
208 KOG1264|consensus 25.9 80 0.0017 31.1 3.5 38 19-56 871-910 (1267)
209 KOG3521|consensus 25.7 67 0.0014 30.7 3.0 26 33-58 503-528 (846)
210 PF06689 zf-C4_ClpX: ClpX C4-t 25.5 52 0.0011 19.4 1.5 28 76-103 2-32 (41)
211 TIGR00100 hypA hydrogenase nic 24.9 41 0.00089 24.3 1.2 30 72-105 67-96 (115)
212 PF04161 Arv1: Arv1-like famil 24.8 32 0.0007 27.4 0.7 27 77-103 2-32 (208)
213 KOG3531|consensus 24.1 26 0.00056 34.1 0.0 47 8-55 965-1018(1036)
214 PF05965 FYRC: F/Y rich C-term 23.4 2.4E+02 0.0051 18.9 5.3 57 22-80 3-79 (86)
215 KOG3549|consensus 23.3 1.3E+02 0.0029 26.6 4.2 39 20-58 223-262 (505)
216 PRK00420 hypothetical protein; 23.2 57 0.0012 23.8 1.7 29 74-105 22-50 (112)
217 PF00641 zf-RanBP: Zn-finger i 22.8 50 0.0011 17.8 1.0 15 72-86 15-29 (30)
218 PRK03681 hypA hydrogenase nick 22.5 37 0.0008 24.5 0.6 31 72-105 67-97 (114)
219 PTZ00218 40S ribosomal protein 22.4 32 0.0007 21.9 0.2 29 72-102 13-41 (54)
220 PF01780 Ribosomal_L37ae: Ribo 22.2 63 0.0014 22.7 1.7 30 72-103 32-61 (90)
221 TIGR02605 CxxC_CxxC_SSSS putat 21.9 37 0.00081 20.5 0.4 27 77-103 7-34 (52)
222 PF14376 Haem_bd: Haem-binding 21.8 47 0.001 24.8 1.0 14 76-89 42-55 (137)
223 smart00542 FYRC "FY-rich" doma 21.6 2.7E+02 0.0059 18.9 5.8 45 34-80 11-75 (86)
224 COG2816 NPY1 NTP pyrophosphohy 21.5 97 0.0021 26.2 2.9 34 63-103 100-137 (279)
225 KOG4424|consensus 21.5 90 0.0019 29.2 2.9 50 7-57 540-596 (623)
226 PF13248 zf-ribbon_3: zinc-rib 21.2 46 0.001 17.5 0.6 10 74-83 15-24 (26)
227 PF08671 SinI: Anti-repressor 21.1 1.7E+02 0.0036 16.3 3.3 21 46-66 3-23 (30)
228 smart00782 PhnA_Zn_Ribbon PhnA 20.2 52 0.0011 20.2 0.8 31 73-103 5-44 (47)
229 cd01255 PH_TIAM TIAM Pleckstri 20.2 2E+02 0.0042 22.3 4.1 40 19-58 110-156 (160)
No 1
>KOG0703|consensus
Probab=100.00 E-value=1.7e-36 Score=250.62 Aligned_cols=95 Identities=34% Similarity=0.736 Sum_probs=90.6
Q ss_pred HHHHHHHHhhCCCCCCCCCCCCCCCCeeeecccceeeeccccccccCCCccceeeeccCCCCCCchHHHHHHHhhHHHHH
Q psy17773 62 TASLQSIRSRVPGNLTCADCAEAGPTWASLNLGLLLCIQCCGVHRCLGAHVSRVRSLELDEWPESNPRIIDEARARRLAS 141 (165)
Q Consensus 62 ~~~l~~l~~~~~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~lg~~is~VkSl~ld~w~~~~v~~~~~~~GN~~~n 141 (165)
+..|+.|++ .|+|+.|||||++.|.|||+|+|||||+.|+||||+||+|||+|||++||.|++++|+.| ...||.+||
T Consensus 13 ~~~l~~Ll~-~~~N~~CADC~a~~P~WaSwnlGvFiC~~C~giHR~lg~hiSkVkSv~LD~W~~eqv~~m-~~~GN~~an 90 (287)
T KOG0703|consen 13 KRRLRELLR-EPDNKVCADCGAKGPRWASWNLGVFICLRCAGIHRSLGVHISKVKSVTLDEWTDEQVDFM-ISMGNAKAN 90 (287)
T ss_pred HHHHHHHHc-CcccCcccccCCCCCCeEEeecCeEEEeecccccccccchhheeeeeeccccCHHHHHHH-HHHcchhhh
Confidence 567889998 999999999999999999999999999999999999999999999999999999999999 999999999
Q ss_pred HHhhhcCCCCCCCCCCC
Q psy17773 142 DLKRCSYYETCATYGLN 158 (165)
Q Consensus 142 ~~~e~~~~~~~~~~~~~ 158 (165)
.+||+.+|+.+.+|...
T Consensus 91 ~~~ea~~p~~~~~p~~d 107 (287)
T KOG0703|consen 91 SYYEAKLPDPFRRPGPD 107 (287)
T ss_pred hhccccCCccccCCChH
Confidence 99999999999877644
No 2
>KOG0705|consensus
Probab=100.00 E-value=1.1e-35 Score=262.03 Aligned_cols=139 Identities=45% Similarity=0.796 Sum_probs=128.4
Q ss_pred CCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHHHHhHH----------------HHHHHHHHhhCCCCCCCCCCC
Q psy17773 19 DSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQILSSLQ----------------TASLQSIRSRVPGNLTCADCA 82 (165)
Q Consensus 19 ~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i~~~l~----------------~~~l~~l~~~~~~N~~CaDCg 82 (165)
++..|||+||+....+|+|.|.+-|||+.||+||+.+|..+|+ +.+++.+++ .+||..|+||+
T Consensus 442 dEEde~F~IVs~tgqtWhFeAtt~EERdaWvQai~sqIlaSlq~cessk~Ks~~~sqsea~a~qairn-~rgn~~c~dc~ 520 (749)
T KOG0705|consen 442 DEEDECFEIVSNTGQTWHFEATTYEERDAWVQAIQSQILASLQSCESSKSKSRLTSQSEAMALQAIRN-MRGNSHCVDCG 520 (749)
T ss_pred ccccceEEEeccccchhhhhhcchhhHHHHHHHHHHHHHHHHhhhhhhcchhccchhhhHHHHHHHhc-CcCCceeeecC
Confidence 5667999999867999999999999999999999999999976 467899999 99999999999
Q ss_pred CCCCCeeeecccceeeeccccccccCCCccceeeeccCCCCCCchHHHHHHHhhHHHHHHHhhhcCCCCCCCCCCCCC
Q psy17773 83 EAGPTWASLNLGLLLCIQCCGVHRCLGAHVSRVRSLELDEWPESNPRIIDEARARRLASDLKRCSYYETCATYGLNVD 160 (165)
Q Consensus 83 ~~~p~w~s~n~Gv~lC~~Cs~iHR~lg~~is~VkSl~ld~w~~~~v~~~~~~~GN~~~n~~~e~~~~~~~~~~~~~~~ 160 (165)
.++|.|+|+|+|+++|++|+||||.||+|+|+|+||.||.|..+.+.+| ..+||+.||.+||. ...+..||.....
T Consensus 521 ~~n~~wAslnlg~l~cieCsgihr~lgt~lSrvr~LeLDdWPvEl~~Vm-~aiGN~~AN~vWE~-~~~G~~KPs~~s~ 596 (749)
T KOG0705|consen 521 TPNPKWASLNLGVLMCIECSGIHRNLGTHLSRVRSLELDDWPVELLKVM-SAIGNDLANSVWEG-SSQGQTKPSPDSS 596 (749)
T ss_pred CCCcccccccCCeEEEEEchhhhhhhhhhhhhhhccccccCcHHHHHHH-HHhhhhHHHHHhhh-hccCCcCCCcccc
Confidence 9999999999999999999999999999999999999999999999999 99999999999999 5566666655543
No 3
>PF01412 ArfGap: Putative GTPase activating protein for Arf; InterPro: IPR001164 This entry describes a family of small GTPase activating proteins, for example ARF1-directed GTPase-activating protein, the cycle control GTPase activating protein (GAP) GCS1 which is important for the regulation of the ADP ribosylation factor ARF, a member of the Ras superfamily of GTP-binding proteins []. The GTP-bound form of ARF is essential for the maintenance of normal Golgi morphology, it participates in recruitment of coat proteins which are required for budding and fission of membranes. Before the fusion with an acceptor compartment the membrane must be uncoated. This step required the hydrolysis of GTP associated to ARF. These proteins contain a characteristic zinc finger motif (Cys-x2-Cys-x(16,17)-x2-Cys) which displays some similarity to the C4-type GATA zinc finger. The ARFGAP domain display no obvious similarity to other GAP proteins. The 3D structure of the ARFGAP domain of the PYK2-associated protein beta has been solved []. It consists of a three-stranded beta-sheet surrounded by 5 alpha helices. The domain is organised around a central zinc atom which is coordinated by 4 cysteines. The ARFGAP domain is clearly unrelated to the other GAP proteins structures which are exclusively helical. Classical GAP proteins accelerate GTPase activity by supplying an arginine finger to the active site. The crystal structure of ARFGAP bound to ARF revealed that the ARFGAP domain does not supply an arginine to the active site which suggests a more indirect role of the ARFGAP domain in the GTPase hydrolysis []. The Rev protein of human immunodeficiency virus type 1 (HIV-1) facilitates nuclear export of unspliced and partly-spliced viral RNAs []. Rev contains an RNA-binding domain and an effector domain; the latter is believed to interact with a cellular cofactor required for the Rev response and hence HIV-1 replication. Human Rev interacting protein (hRIP) specifically interacts with the Rev effector. The amino acid sequence of hRIP is characterised by an N-terminal, C-4 class zinc finger motif.; GO: 0008060 ARF GTPase activator activity, 0008270 zinc ion binding, 0032312 regulation of ARF GTPase activity; PDB: 2P57_A 2CRR_A 2OWA_B 3O47_B 3DWD_A 1DCQ_A 2CRW_A 3MDB_D 3FEH_A 3LJU_X ....
Probab=100.00 E-value=1.2e-35 Score=218.43 Aligned_cols=84 Identities=38% Similarity=0.853 Sum_probs=71.6
Q ss_pred HHHHHHHhhCCCCCCCCCCCCCCCCeeeecccceeeeccccccccCCCccceeeeccCCCCCCchHHHHHHHhhHHHHHH
Q psy17773 63 ASLQSIRSRVPGNLTCADCAEAGPTWASLNLGLLLCIQCCGVHRCLGAHVSRVRSLELDEWPESNPRIIDEARARRLASD 142 (165)
Q Consensus 63 ~~l~~l~~~~~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~lg~~is~VkSl~ld~w~~~~v~~~~~~~GN~~~n~ 142 (165)
++|+.|++ .|+|+.|||||+++|+|+|++||+|+|+.|+|+||.||+|+|+||||+||+|++++|+.| +.+||..+|+
T Consensus 2 ~~l~~l~~-~~~N~~CaDCg~~~p~w~s~~~GiflC~~Cag~HR~lg~~is~VkSi~~d~w~~~ev~~~-~~~GN~~~n~ 79 (116)
T PF01412_consen 2 KILRELLK-KPGNKVCADCGAPNPTWASLNYGIFLCLECAGIHRSLGVHISRVKSITMDNWSPEEVQRM-REGGNKRANS 79 (116)
T ss_dssp HHHHHHHC-STTCTB-TTT-SBS--EEETTTTEEE-HHHHHHHHHHTTTT--EEETTTS---HHHHHHH-HHSHHHHHHH
T ss_pred HHHHHHHc-CcCcCcCCCCCCCCCCEEEeecChhhhHHHHHHHHHhcccchhccccccCCCCHHHHHHH-HHHChHHHHH
Confidence 46889999 999999999999999999999999999999999999999999999999999999999999 9999999999
Q ss_pred HhhhcC
Q psy17773 143 LKRCSY 148 (165)
Q Consensus 143 ~~e~~~ 148 (165)
+||++.
T Consensus 80 ~~e~~~ 85 (116)
T PF01412_consen 80 IWEANS 85 (116)
T ss_dssp HHTTTS
T ss_pred HHHcCC
Confidence 999993
No 4
>KOG0521|consensus
Probab=100.00 E-value=2.1e-34 Score=266.17 Aligned_cols=141 Identities=35% Similarity=0.684 Sum_probs=127.7
Q ss_pred cccccccccc-----CCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHHHHhHH----------------------
Q psy17773 9 EIPIILVGTQ-----DSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQILSSLQ---------------------- 61 (165)
Q Consensus 9 ~i~~~~~~~~-----~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i~~~l~---------------------- 61 (165)
.+++..+.++ .+++|||+|+| |.|+|+|||+++.+++.||.+|++.|...++
T Consensus 317 ~~dL~~csvk~~~~~~drr~CF~iiS-~tks~~lQAes~~d~~~Wi~~i~nsi~s~l~~~~~~~~~~~~~~~~~~~~~~~ 395 (785)
T KOG0521|consen 317 IEDLRTCSVKPDAEQRDRRFCFEIIS-PTKSYLLQAESEKDCQDWISALQNSILSALNSAFLGQDSTGGRNTQSGHSSSA 395 (785)
T ss_pred cccchhccccCCcccccceeeEEEec-CCcceEEecCchhHHHHHHHHHHHHHHHHHhccCcccccccCCCccccccccc
Confidence 3455566664 47899999999 9999999999999999999999999988765
Q ss_pred ------------------HHHHHHHHhhCCCCCCCCCCCCCCCCeeeecccceeeeccccccccCCCccceeeeccCCCC
Q psy17773 62 ------------------TASLQSIRSRVPGNLTCADCAEAGPTWASLNLGLLLCIQCCGVHRCLGAHVSRVRSLELDEW 123 (165)
Q Consensus 62 ------------------~~~l~~l~~~~~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~lg~~is~VkSl~ld~w 123 (165)
...+..++. .|||..|+|||+++|+|+|+|+||.+||+|+|+||+||+|+|+|+||+||.|
T Consensus 396 s~~~~~s~~~s~~~~~~~~~~~~~vq~-~pgN~~c~Dcg~p~ptw~S~NLgv~~CIecSGvhRslGvh~SkvrsLtLD~~ 474 (785)
T KOG0521|consen 396 SYSTITSANTSRERLNKGISVIEEVQS-VPGNAQCCDCGAPEPTWASINLGVLLCIECSGVHRSLGVHISKVRSLTLDVW 474 (785)
T ss_pred cccccccccccccccccCcchhhhhhc-CCchhhhhhcCCCCCchHhhhhchhhHhhccccccccCchhhhhhhhhhhcc
Confidence 012566777 9999999999999999999999999999999999999999999999999999
Q ss_pred CCchHHHHHHHhhHHHHHHHhhhcCCCCC
Q psy17773 124 PESNPRIIDEARARRLASDLKRCSYYETC 152 (165)
Q Consensus 124 ~~~~v~~~~~~~GN~~~n~~~e~~~~~~~ 152 (165)
.++.+.+| +.+||..+|.+||+.+++..
T Consensus 475 ~~~l~~l~-~~lgn~~~N~i~e~~l~~~~ 502 (785)
T KOG0521|consen 475 EPELLLLF-KNLGNKYVNEIYEALLPSYD 502 (785)
T ss_pred CcHHHHHH-HHhCcchhhhhhhccccccc
Confidence 99999999 99999999999999999763
No 5
>smart00105 ArfGap Putative GTP-ase activating proteins for the small GTPase, ARF. Putative zinc fingers with GTPase activating proteins (GAPs) towards the small GTPase, Arf. The GAP of ARD1 stimulates GTPase hydrolysis for ARD1 but not ARFs.
Probab=100.00 E-value=1.5e-34 Score=211.54 Aligned_cols=84 Identities=42% Similarity=0.834 Sum_probs=80.0
Q ss_pred CCCCCCCCCCCCCCCeeeecccceeeeccccccccCCCccceeeeccCCCCCCchHHHHHHHhhHHHHHHHhhhcCCCCC
Q psy17773 73 PGNLTCADCAEAGPTWASLNLGLLLCIQCCGVHRCLGAHVSRVRSLELDEWPESNPRIIDEARARRLASDLKRCSYYETC 152 (165)
Q Consensus 73 ~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~lg~~is~VkSl~ld~w~~~~v~~~~~~~GN~~~n~~~e~~~~~~~ 152 (165)
|+|+.|||||+++|+|+|+|||+|+|+.|+|+||.||+|||+||||+||+|++++|+.| +.+||..+|++||+++++..
T Consensus 1 ~~N~~CaDC~~~~p~w~s~~~GifvC~~CsgiHR~lg~his~VkSl~md~w~~~~i~~~-~~~GN~~~n~~~e~~~~~~~ 79 (112)
T smart00105 1 PGNKKCFDCGAPNPTWASVNLGVFLCIECSGIHRSLGVHISKVRSLTLDTWTEEELRLL-QKGGNENANSIWESNLDDFS 79 (112)
T ss_pred CCCCcccCCCCCCCCcEEeccceeEhHHhHHHHHhcCCCcCeeeecccCCCCHHHHHHH-HHhhhHHHHHHHHhhCCccc
Confidence 68999999999999999999999999999999999999999999999999999999999 99999999999999999876
Q ss_pred CCCCC
Q psy17773 153 ATYGL 157 (165)
Q Consensus 153 ~~~~~ 157 (165)
.+++.
T Consensus 80 ~~~~~ 84 (112)
T smart00105 80 LKPPD 84 (112)
T ss_pred cCCCC
Confidence 55543
No 6
>COG5347 GTPase-activating protein that regulates ARFs (ADP-ribosylation factors), involved in ARF-mediated vesicular transport [Intracellular trafficking and secretion]
Probab=100.00 E-value=1.6e-33 Score=237.58 Aligned_cols=86 Identities=43% Similarity=0.831 Sum_probs=81.1
Q ss_pred HHHHHHhhCCCCCCCCCCCCCCCCeeeecccceeeeccccccccCCCccceeeeccCCCCCCchHHHHHHHhhHHHHHHH
Q psy17773 64 SLQSIRSRVPGNLTCADCAEAGPTWASLNLGLLLCIQCCGVHRCLGAHVSRVRSLELDEWPESNPRIIDEARARRLASDL 143 (165)
Q Consensus 64 ~l~~l~~~~~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~lg~~is~VkSl~ld~w~~~~v~~~~~~~GN~~~n~~ 143 (165)
.+..|+. .++|+.|||||+++|+|+|+|||||||++||||||.||+|||+||||+||+|++++|+.| +.+||.+||.|
T Consensus 10 ~l~~l~~-~~~Nk~CaDCga~~P~W~S~nlGvfiCi~CagvHRsLGvhiS~VKSitLD~wt~~~l~~m-~~gGN~~a~~~ 87 (319)
T COG5347 10 LLKLLKS-DSSNKKCADCGAPNPTWASVNLGVFLCIDCAGVHRSLGVHISKVKSLTLDNWTEEELRRM-EVGGNSNANRF 87 (319)
T ss_pred HHHHHhh-ccccCccccCCCCCCceEecccCeEEEeecchhhhccccceeeeeeeecccCCHHHHHHH-HHhcchhhhhH
Confidence 4555666 999999999999999999999999999999999999999999999999999999999999 99999999999
Q ss_pred hhhcCCCC
Q psy17773 144 KRCSYYET 151 (165)
Q Consensus 144 ~e~~~~~~ 151 (165)
|+.++-..
T Consensus 88 ~e~~~~~~ 95 (319)
T COG5347 88 YEKNLLDQ 95 (319)
T ss_pred hccCCCcc
Confidence 99988763
No 7
>KOG0706|consensus
Probab=99.97 E-value=1.1e-31 Score=231.14 Aligned_cols=102 Identities=32% Similarity=0.614 Sum_probs=92.9
Q ss_pred HHHHHHHHhhCCCCCCCCCCCCCCCCeeeecccceeeeccccccccCCCccceeeeccCCCCCCchHHHHHHHhhHHHHH
Q psy17773 62 TASLQSIRSRVPGNLTCADCAEAGPTWASLNLGLLLCIQCCGVHRCLGAHVSRVRSLELDEWPESNPRIIDEARARRLAS 141 (165)
Q Consensus 62 ~~~l~~l~~~~~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~lg~~is~VkSl~ld~w~~~~v~~~~~~~GN~~~n 141 (165)
+..++.|+. .+.|+.|+|||+++|+|+|++||||||++|+++||.||||||+|||..||.|+..+|+.| +.+||.+|+
T Consensus 11 ~~vfkkLRs-~~~NKvCFDCgAknPtWaSVTYGIFLCiDCSAvHRnLGVHiSFVRSTnLDsWs~~qLR~M-~~GGN~nA~ 88 (454)
T KOG0706|consen 11 QTVFKKLRS-QSENKVCFDCGAKNPTWASVTYGIFLCIDCSAVHRNLGVHISFVRSTNLDSWSWEQLRRM-QVGGNANAR 88 (454)
T ss_pred HHHHHHHhc-CCCCceecccCCCCCCceeecceEEEEEecchhhhccccceEEEeecccccCCHHHHhHh-hhcCchhHH
Confidence 456889999 999999999999999999999999999999999999999999999999999999999999 999999999
Q ss_pred HHhhhcC-CCC--CCCCCCCCCccccC
Q psy17773 142 DLKRCSY-YET--CATYGLNVDRVFQD 165 (165)
Q Consensus 142 ~~~e~~~-~~~--~~~~~~~~~~~~~~ 165 (165)
.|+..+- ... ..+|++++.+.|++
T Consensus 89 ~FFkqhg~~t~d~~aKY~SraA~~Yr~ 115 (454)
T KOG0706|consen 89 VFFKQHGCVTLDANAKYNSRAAKLYRE 115 (454)
T ss_pred HHHHHcCCcchhhhhhhccHHHHHHHH
Confidence 9998753 333 35899888888864
No 8
>KOG0704|consensus
Probab=99.97 E-value=2.3e-31 Score=223.41 Aligned_cols=99 Identities=29% Similarity=0.645 Sum_probs=88.0
Q ss_pred HHHHHhhCCCCCCCCCCCCCCCCeeeecccceeeeccccccccCCCccceeeeccCCCCCCchHHHHHHHhhHHHHHHHh
Q psy17773 65 LQSIRSRVPGNLTCADCAEAGPTWASLNLGLLLCIQCCGVHRCLGAHVSRVRSLELDEWPESNPRIIDEARARRLASDLK 144 (165)
Q Consensus 65 l~~l~~~~~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~lg~~is~VkSl~ld~w~~~~v~~~~~~~GN~~~n~~~ 144 (165)
|+.++. ..+|+.|+||++++|+|||++||||||.+|+|+||.||+|||.|||||||+|.+.+|+.| +++||.++++|+
T Consensus 10 L~~lkp-~deNk~CfeC~a~NPQWvSvsyGIfICLECSG~HRgLGVhiSFVRSVTMD~wkeiel~kM-eaGGN~~~~eFL 87 (386)
T KOG0704|consen 10 LLELKP-QDENKKCFECGAPNPQWVSVSYGIFICLECSGKHRGLGVHISFVRSVTMDKWKEIELKKM-EAGGNERFREFL 87 (386)
T ss_pred HHhcCc-cccCCceeecCCCCCCeEeecccEEEEEecCCcccccceeeEEEEeeecccccHHHHHHH-HhccchhHHHHH
Confidence 344333 449999999999999999999999999999999999999999999999999999999999 999999999999
Q ss_pred hhcC--CCC---CCCCCCCCCccccC
Q psy17773 145 RCSY--YET---CATYGLNVDRVFQD 165 (165)
Q Consensus 145 e~~~--~~~---~~~~~~~~~~~~~~ 165 (165)
+..- .+. ..||+.++..+|||
T Consensus 88 ~s~~~~~e~~~i~eKYns~aAa~yRd 113 (386)
T KOG0704|consen 88 SSQGIYKETWPIREKYNSRAAALYRD 113 (386)
T ss_pred hhCccccccccHHHhhccHHHHHHHH
Confidence 8753 333 24899999999986
No 9
>PLN03114 ADP-ribosylation factor GTPase-activating protein AGD10; Provisional
Probab=99.97 E-value=3.7e-31 Score=223.34 Aligned_cols=102 Identities=30% Similarity=0.620 Sum_probs=93.0
Q ss_pred HHHHHHHHhhCCCCCCCCCCCCCCCCeeeecccceeeeccccccccCCCccceeeeccCCCCCCchHHHHHHHhhHHHHH
Q psy17773 62 TASLQSIRSRVPGNLTCADCAEAGPTWASLNLGLLLCIQCCGVHRCLGAHVSRVRSLELDEWPESNPRIIDEARARRLAS 141 (165)
Q Consensus 62 ~~~l~~l~~~~~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~lg~~is~VkSl~ld~w~~~~v~~~~~~~GN~~~n 141 (165)
.++++.|+. .|+|+.|+|||+++|+|+|+|||||||++|+|+||.||+|||+|||++||.|++++|+.| +.+||.++|
T Consensus 10 ~~vfrkL~~-kPgNk~CaDCga~nPtWASvn~GIFLCl~CSGVHRsLGvHISfVRSltLD~Ws~eqL~~M-k~GGN~rA~ 87 (395)
T PLN03114 10 ISVFKKLKA-KSDNKICFDCNAKNPTWASVTYGIFLCIDCSAVHRSLGVHISFVRSTNLDSWSSEQLKMM-IYGGNNRAQ 87 (395)
T ss_pred HHHHHHHHh-CcCCCcCccCCCCCCCceeeccceeehhhhhHhhccCCCCCceeecccCCCCCHHHHHHH-HHhcCHHHH
Confidence 356888998 999999999999999999999999999999999999999999999999999999999999 999999999
Q ss_pred HHhhhcCC----CCCCCCCCCCCccccC
Q psy17773 142 DLKRCSYY----ETCATYGLNVDRVFQD 165 (165)
Q Consensus 142 ~~~e~~~~----~~~~~~~~~~~~~~~~ 165 (165)
.||+.+-- ....+|.+++...||+
T Consensus 88 ~fF~qhG~~~~~~~~~KY~S~aA~~Yre 115 (395)
T PLN03114 88 VFFKQYGWSDGGKTEAKYTSRAADLYKQ 115 (395)
T ss_pred HHHHHcCCCCCCCcccccCCHHHHHHHH
Confidence 99988643 2346888888888864
No 10
>PLN03119 putative ADP-ribosylation factor GTPase-activating protein AGD14; Provisional
Probab=99.95 E-value=3.3e-28 Score=214.83 Aligned_cols=90 Identities=17% Similarity=0.476 Sum_probs=84.1
Q ss_pred HHHHHHHHHhhCCCCCCCCCCCCCCCCeeeecccceeeeccccccccCCCccceeeeccCCCCCCchHHHHHHHhhHHHH
Q psy17773 61 QTASLQSIRSRVPGNLTCADCAEAGPTWASLNLGLLLCIQCCGVHRCLGAHVSRVRSLELDEWPESNPRIIDEARARRLA 140 (165)
Q Consensus 61 ~~~~l~~l~~~~~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~lg~~is~VkSl~ld~w~~~~v~~~~~~~GN~~~ 140 (165)
++++|++|++ .|+|+.|+|||+.+|.|||+|+|||||++|+||||.|| +|||||+||+|++++|++| +.+||.+|
T Consensus 10 nekILreLlk-lPgNk~CADCgs~~P~WASiNlGIFICi~CSGIHRsLG---hRVKSLSLDkWT~EEVe~M-k~gGN~~A 84 (648)
T PLN03119 10 NEKIIRGLMK-LPPNRRCINCNSLGPQYVCTTFWTFVCMACSGIHREFT---HRVKSVSMSKFTSKEVEVL-QNGGNQRA 84 (648)
T ss_pred HHHHHHHHhh-CcCCCccccCCCCCCCceeeccceEEeccchhhhccCC---ceeeccccCCCCHHHHHHH-HHhchHHH
Confidence 3567899998 99999999999999999999999999999999999998 3999999999999999999 99999999
Q ss_pred HHHhhhcCCCCCCCC
Q psy17773 141 SDLKRCSYYETCATY 155 (165)
Q Consensus 141 n~~~e~~~~~~~~~~ 155 (165)
|++||++|++...++
T Consensus 85 N~iyeanw~~~~~~~ 99 (648)
T PLN03119 85 REIYLKNWDHQRQRL 99 (648)
T ss_pred HHHHHhhcccccCCC
Confidence 999999998876543
No 11
>PLN03131 hypothetical protein; Provisional
Probab=99.94 E-value=7.7e-28 Score=214.03 Aligned_cols=88 Identities=18% Similarity=0.493 Sum_probs=82.8
Q ss_pred HHHHHHHHhhCCCCCCCCCCCCCCCCeeeecccceeeeccccccccCCCccceeeeccCCCCCCchHHHHHHHhhHHHHH
Q psy17773 62 TASLQSIRSRVPGNLTCADCAEAGPTWASLNLGLLLCIQCCGVHRCLGAHVSRVRSLELDEWPESNPRIIDEARARRLAS 141 (165)
Q Consensus 62 ~~~l~~l~~~~~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~lg~~is~VkSl~ld~w~~~~v~~~~~~~GN~~~n 141 (165)
+++|++|++ .|+|+.|+|||+++|.|||+|||||||++|+||||.|| ++||||+||.|++++|+.| +.+||.+||
T Consensus 11 ekiLreLlk-~PgNk~CADCga~~P~WASiNlGIFICi~CSGIHRsLg---hRVKSVTLD~WtdeEV~~M-k~gGN~~AN 85 (705)
T PLN03131 11 EKIIRGLMK-LPPNRRCINCNSLGPQFVCTNFWTFICMTCSGIHREFT---HRVKSVSMSKFTSQDVEAL-QNGGNQRAR 85 (705)
T ss_pred HHHHHHHhh-CcCCCccccCCCCCCCeeEeccceEEchhchhhhcccC---cccccccCCCCCHHHHHHH-HHhccHHHH
Confidence 567899998 99999999999999999999999999999999999998 3999999999999999999 999999999
Q ss_pred HHhhhcCCCCCCC
Q psy17773 142 DLKRCSYYETCAT 154 (165)
Q Consensus 142 ~~~e~~~~~~~~~ 154 (165)
++||++|++...+
T Consensus 86 ~iyeanwd~~r~~ 98 (705)
T PLN03131 86 EIYLKDWDQQRQR 98 (705)
T ss_pred HHHHhhcccccCC
Confidence 9999999876544
No 12
>KOG1117|consensus
Probab=99.93 E-value=1.2e-26 Score=211.51 Aligned_cols=137 Identities=27% Similarity=0.457 Sum_probs=125.1
Q ss_pred cccccCCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHHHHhHH-HHHHHHHHhhCCCCCCCCCCCCCCCCeeeec
Q psy17773 14 LVGTQDSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQILSSLQ-TASLQSIRSRVPGNLTCADCAEAGPTWASLN 92 (165)
Q Consensus 14 ~~~~~~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i~~~l~-~~~l~~l~~~~~~N~~CaDCg~~~p~w~s~n 92 (165)
.++++.-++-.|.++| |.|.|.|.|+++.+++.|+.|+|.+|...+. .+...++.. ...|+.|||||++.|.|+|+|
T Consensus 238 ~~nvk~vdr~sfdl~T-p~r~fsftaese~erq~w~ea~q~siAeTlSd~evaeriW~-ne~nr~cadC~ssrPdwasiN 315 (1186)
T KOG1117|consen 238 VSNVKEVDRRSFDLNT-PYREFSFTAESETERQIWGEAPQPSIAETLSDYEVAERIWL-NEENRECADCGSSRPDWASIN 315 (1186)
T ss_pred cccccccccceeccCC-ceeeeeeeeccchhhhhhhhccCcccccccChHHHHHHHHh-ccccccccccCCCCCcccccc
Confidence 3344444557899999 9999999999999999999999999998887 456677777 899999999999999999999
Q ss_pred ccceeeeccccccccCCCccceeeeccCC--CCCCchHHHHHHHhhHHHHHHHhhhcCCCCCC
Q psy17773 93 LGLLLCIQCCGVHRCLGAHVSRVRSLELD--EWPESNPRIIDEARARRLASDLKRCSYYETCA 153 (165)
Q Consensus 93 ~Gv~lC~~Cs~iHR~lg~~is~VkSl~ld--~w~~~~v~~~~~~~GN~~~n~~~e~~~~~~~~ 153 (165)
+++.||-.|+|-||+||..+|+|+|++|| .|+.+.+++| ..+||.++|.||..+++++..
T Consensus 316 L~vvIck~caGqhrslgs~dSkvrslkmd~svwsneliElf-ivlgn~~an~Fwa~nl~~~e~ 377 (1186)
T KOG1117|consen 316 LCVVICKPCAGQHRSLGSGDSKVRSLKMDPSVWSNELIELF-IVLGNPRANRFWAGNLPPNEH 377 (1186)
T ss_pred cceEEcccCCCccccCCCccccccccccCcccccchhhhhh-eeecCcccccccccCCCCccc
Confidence 99999999999999999999999999999 4999999999 999999999999999998764
No 13
>KOG0818|consensus
Probab=99.76 E-value=1.2e-19 Score=158.91 Aligned_cols=81 Identities=36% Similarity=0.749 Sum_probs=76.8
Q ss_pred CCCCCCCCCCCCCCCCeeeecccceeeeccccccccCCCccceeeeccCCCCCCchHHHHHHHhhHHHHHHHhhhcCCCC
Q psy17773 72 VPGNLTCADCAEAGPTWASLNLGLLLCIQCCGVHRCLGAHVSRVRSLELDEWPESNPRIIDEARARRLASDLKRCSYYET 151 (165)
Q Consensus 72 ~~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~lg~~is~VkSl~ld~w~~~~v~~~~~~~GN~~~n~~~e~~~~~~ 151 (165)
....++|+|||+++|.|+|+|-|+|+|.+|+.+||.||.|||.||+|.-..|.++.|++. ..+.|..+|.|||..|-++
T Consensus 5 ~l~~evC~DC~~~dp~WASvnrGt~lC~eCcsvHrsLGrhIS~vrhLR~s~W~pt~l~~V-~tLn~~gaNsIWEh~Lld~ 83 (669)
T KOG0818|consen 5 LLSSEVCADCSGPDPSWASVNRGTFLCDECCSVHRSLGRHISQVRHLRHTPWPPTLLQMV-ETLNNNGANSIWEHSLLDP 83 (669)
T ss_pred chhhhhhcccCCCCCcceeecCceEehHhhhHHHhhhcchHHHHHHhccCCCCHHHHHHH-HHHHhcCcchhhhhhccCc
Confidence 456789999999999999999999999999999999999999999999999999999988 9999999999999999887
Q ss_pred CC
Q psy17773 152 CA 153 (165)
Q Consensus 152 ~~ 153 (165)
..
T Consensus 84 st 85 (669)
T KOG0818|consen 84 AT 85 (669)
T ss_pred hh
Confidence 64
No 14
>cd01251 PH_centaurin_alpha Centaurin alpha Pleckstrin homology (PH) domain. Centaurin alpha Pleckstrin homology (PH) domain. Centaurin alpha is a phophatidlyinositide binding protein consisting of an N-terminal ArfGAP domain and two PH domains. In response to growth factor activation, PI3K phosphorylates phosphatidylinositol 4,5-bisphosphate to phosphatidylinositol 3,4,5-trisphosphate. Centaurin alpha 1 is recruited to the plasma membrane following growth factor stimulation by specific binding of its PH domain to phosphatidylinositol 3,4,5-trisphosphate. Centaurin alpha 2 is constitutively bound to the plasma membrane since it binds phosphatidylinositol 4,5-bisphosphate and phosphatidylinositol 3,4,5-trisphosphate with equal affinity. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specifici
Probab=98.94 E-value=1.2e-09 Score=78.56 Aligned_cols=34 Identities=24% Similarity=0.640 Sum_probs=31.9
Q ss_pred ceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHHH
Q psy17773 23 FELLIVSLDNKQWQFEAANSEERDDWIAAIQQQIL 57 (165)
Q Consensus 23 ~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i~ 57 (165)
++|.|+| |+|+|+|+|+|++||++||+||+.++.
T Consensus 68 ~~F~i~t-~~Rty~l~a~s~~e~~~Wi~ai~~v~~ 101 (103)
T cd01251 68 YGVTLVT-PERKFLFACETEQDRREWIAAFQNVLS 101 (103)
T ss_pred ceEEEEe-CCeEEEEECCCHHHHHHHHHHHHHHhc
Confidence 5999999 899999999999999999999998764
No 15
>cd01265 PH_PARIS-1 PARIS-1 pleckstrin homology (PH) domain. PARIS-1 pleckstrin homology (PH) domain. PARIS-1 contains a PH domain and a TBC-type GTPase catalytic domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=98.87 E-value=2.6e-09 Score=75.62 Aligned_cols=54 Identities=15% Similarity=0.302 Sum_probs=40.5
Q ss_pred CCCCCCCccc------cccccccc---CCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHH
Q psy17773 1 MSHYRNAAEI------PIILVGTQ---DSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQ 55 (165)
Q Consensus 1 ~s~y~~~~~i------~~~~~~~~---~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~ 55 (165)
|.||+.+.+. ++..+... .++++.|.|+| ++|+|+|+|+|++||+.||++|+.+
T Consensus 31 L~Yyk~~~d~~p~G~I~L~~~~~~~~~~~~~~~F~i~t-~~r~y~l~A~s~~e~~~Wi~al~~~ 93 (95)
T cd01265 31 LYYYKDSQDAKPLGRVDLSGAAFTYDPREEKGRFEIHS-NNEVIALKASSDKQMNYWLQALQSK 93 (95)
T ss_pred EEEECCCCcccccceEECCccEEEcCCCCCCCEEEEEc-CCcEEEEECCCHHHHHHHHHHHHhh
Confidence 4678776532 33322221 33478999999 8999999999999999999999864
No 16
>cd01264 PH_melted Melted pleckstrin homology (PH) domain. Melted pleckstrin homology (PH) domain. The melted protein has a C-terminal PH domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=98.83 E-value=5.4e-09 Score=75.22 Aligned_cols=33 Identities=12% Similarity=0.429 Sum_probs=31.1
Q ss_pred cceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHH
Q psy17773 22 SFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQ 55 (165)
Q Consensus 22 ~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~ 55 (165)
+|+|+|+| |+|||+|+|+|++|+++||++|+.+
T Consensus 68 ~~~Fei~t-p~rt~~l~A~se~e~e~WI~~i~~a 100 (101)
T cd01264 68 PKAFEIFT-ADKTYILKAKDEKNAEEWLQCLNIA 100 (101)
T ss_pred CcEEEEEc-CCceEEEEeCCHHHHHHHHHHHHhh
Confidence 59999999 8999999999999999999999865
No 17
>cd01238 PH_Tec Tec pleckstrin homology (PH) domain. Tec pleckstrin homology (PH) domain. Proteins in the Tec family of cytoplasmic protein tyrosine kinases that includes Bruton's tyrosine kinase (BTK), BMX, IL2-inducible T-cell kinase (Itk) and Tec. These proteins generally have an N-terminal PH domain, followed by a Tek homology (TH) domain, a SH3 domain, a SH2 domain and a kinase domain. Tec PH domains tether these proteins to membranes following the activation of PI3K and its subsequent phosphorylation of phosphoinositides. The importance of PH domain membrane anchoring is confirmed by the discovery of a mutation of a critical arginine residue in the BTK PH domain, which causes X-linked agammaglobulinemia (XLA) in humans and a related disorder is mice. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few dis
Probab=98.82 E-value=4.7e-09 Score=75.72 Aligned_cols=33 Identities=27% Similarity=0.420 Sum_probs=30.9
Q ss_pred CcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHH
Q psy17773 21 DSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQ 54 (165)
Q Consensus 21 ~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~ 54 (165)
+.++|+|+| ++|+|+++|+|++||++||++|++
T Consensus 73 ~~~~F~i~t-~~r~~yl~A~s~~er~~WI~ai~~ 105 (106)
T cd01238 73 FKYPFQVVH-DEGTLYVFAPTEELRKRWIKALKQ 105 (106)
T ss_pred cCccEEEEe-CCCeEEEEcCCHHHHHHHHHHHHh
Confidence 579999999 899999999999999999999975
No 18
>KOG0702|consensus
Probab=98.81 E-value=5.8e-09 Score=91.94 Aligned_cols=85 Identities=15% Similarity=0.432 Sum_probs=76.3
Q ss_pred HHHHHHHhhCCCCCCCCCCCCCCC-CeeeecccceeeeccccccccCCCccceeeeccCCCCCCchHHHHHHHhhHHHHH
Q psy17773 63 ASLQSIRSRVPGNLTCADCAEAGP-TWASLNLGLLLCIQCCGVHRCLGAHVSRVRSLELDEWPESNPRIIDEARARRLAS 141 (165)
Q Consensus 63 ~~l~~l~~~~~~N~~CaDCg~~~p-~w~s~n~Gv~lC~~Cs~iHR~lg~~is~VkSl~ld~w~~~~v~~~~~~~GN~~~n 141 (165)
.+++.|++ +|+|++|++|.+..+ +|+...-|-|+|..|+|.-|.|.. -.+|||+.|-.++..++..+ +..||....
T Consensus 14 k~iR~l~k-LP~NrrC~nCnsl~~~t~~~~~~g~fv~~~~sg~ls~l~~-ahRvksiSmttft~qevs~l-QshgNq~~k 90 (524)
T KOG0702|consen 14 KEIRRLLK-LPENRRCINCNSLVAATYVVYTVGSFVCTMCSGLLSGLNP-AHRVKSISMTTFTDQEVSFL-QSHGNQVCK 90 (524)
T ss_pred HHHHHHhc-CCCCCceeeccccccceEEEeeccceeeeccchhhccCCC-ccccceeeeeeccccchHHH-hhcchhhhh
Confidence 45677888 999999999999877 999999999999999999998733 56999999999999999999 999999999
Q ss_pred HHhhhcCCC
Q psy17773 142 DLKRCSYYE 150 (165)
Q Consensus 142 ~~~e~~~~~ 150 (165)
++|..-.+.
T Consensus 91 ~i~fkl~D~ 99 (524)
T KOG0702|consen 91 EIWFKLFDF 99 (524)
T ss_pred hhhhcchhh
Confidence 999875544
No 19
>cd01244 PH_RasGAP_CG9209 RAS_GTPase activating protein (GAP)_CG9209 pleckstrin homology (PH) domain. RAS_GTPase activating protein (GAP)_CG9209 pleckstrin homology (PH) domain. This protein consists of two C2 domains, followed by a RasGAP domain, a PH domain and a BTK domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPAses, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=98.81 E-value=5.7e-09 Score=74.68 Aligned_cols=32 Identities=22% Similarity=0.421 Sum_probs=30.1
Q ss_pred cceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHH
Q psy17773 22 SFELLIVSLDNKQWQFEAANSEERDDWIAAIQQ 54 (165)
Q Consensus 22 ~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~ 54 (165)
.++|+|+| |+|+|++||+|++|+++||+||++
T Consensus 66 ~~~fqivt-~~r~~yi~a~s~~E~~~Wi~al~k 97 (98)
T cd01244 66 VDIITIVC-EDDTMQLQFEAPVEATDWLNALEK 97 (98)
T ss_pred CceEEEEe-CCCeEEEECCCHHHHHHHHHHHhc
Confidence 47999999 899999999999999999999975
No 20
>cd01247 PH_GPBP Goodpasture antigen binding protein (GPBP) Pleckstrin homology (PH) domain. Goodpasture antigen binding protein (GPBP) Pleckstrin homology (PH) domain. The GPBP protein is a kinase that phosphorylates an N-terminal region of the alpha 3 chain of type IV collagen , which is commonly known as the goodpasture antigen. It has has an N-terminal PH domain and a C-terminal START domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cyt
Probab=98.76 E-value=1e-08 Score=72.15 Aligned_cols=54 Identities=26% Similarity=0.364 Sum_probs=40.6
Q ss_pred CCCCCCCcc--------ccccccccc--CCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHH
Q psy17773 1 MSHYRNAAE--------IPIILVGTQ--DSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQ 54 (165)
Q Consensus 1 ~s~y~~~~~--------i~~~~~~~~--~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~ 54 (165)
|+||+++.+ |++..+.+. +.+++.|+|+++++|+|+|.|+|++|++.||+||+.
T Consensus 27 L~Yyk~~~~~~~~~~G~I~L~~~~i~~~~~~~~~F~i~~~~~r~~~L~A~s~~e~~~Wi~al~~ 90 (91)
T cd01247 27 LSYYKSEAEKSHGCRGSIFLKKAIIAAHEFDENRFDISVNENVVWYLRAENSQSRLLWMDSVVR 90 (91)
T ss_pred EEEEecCccCcCCCcEEEECcccEEEcCCCCCCEEEEEeCCCeEEEEEeCCHHHHHHHHHHHhh
Confidence 578887554 333433332 445689999874569999999999999999999985
No 21
>cd01260 PH_CNK Connector enhancer of KSR (Kinase suppressor of ras) (CNK) pleckstrin homology (PH) domain. Connector enhancer of KSR (Kinase suppressor of ras) (CNK) pleckstrin homology (PH) domain. CNK is believed to regulate the activity and the subcellular localization of RAS activated RAF. CNK is composed of N-terminal SAM and PDZ domains along with a central or C-terminal PH domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPAses, adaptors, a well as cytoskelet
Probab=98.71 E-value=1.3e-08 Score=71.47 Aligned_cols=45 Identities=11% Similarity=0.256 Sum_probs=35.9
Q ss_pred ccccccccc----CCCcceEEEEeCCC-CeEEEEeCCHHHHHHHHHHHHHH
Q psy17773 10 IPIILVGTQ----DSDSFELLIVSLDN-KQWQFEAANSEERDDWIAAIQQQ 55 (165)
Q Consensus 10 i~~~~~~~~----~~~~~~F~ivt~~~-rt~~fqa~se~E~~~Wi~ai~~~ 55 (165)
|++..+.+. ..++++|.|++ |+ |+|+|+|+|++|+++||.+|+.|
T Consensus 47 I~L~~~~v~~~~~~~k~~~F~I~~-~~~~~~~f~a~s~~e~~~Wi~ai~~~ 96 (96)
T cd01260 47 IFLSGFTIESAKEVKKKYAFKVCH-PVYKSFYFAAETLDDLSQWVNHLITA 96 (96)
T ss_pred EEccCCEEEEchhcCCceEEEECC-CCCcEEEEEeCCHHHHHHHHHHHHhC
Confidence 455544332 55689999998 65 99999999999999999999764
No 22
>cd01249 PH_oligophrenin Oligophrenin Pleckstrin homology (PH) domain. Oligophrenin Pleckstrin homology (PH) domain. Oligophrenin is composed of a PH domain, a rhoGAP domain and a proline rich region. Closely related proteins have a C-terminal SH3 domain. PH domains a share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=98.71 E-value=1.7e-08 Score=72.86 Aligned_cols=44 Identities=16% Similarity=0.302 Sum_probs=37.3
Q ss_pred cccccccccc----CCCcceEEEEeCCCC--eEEEEeCCHHHHHHHHHHHH
Q psy17773 9 EIPIILVGTQ----DSDSFELLIVSLDNK--QWQFEAANSEERDDWIAAIQ 53 (165)
Q Consensus 9 ~i~~~~~~~~----~~~~~~F~ivt~~~r--t~~fqa~se~E~~~Wi~ai~ 53 (165)
.|.+.+++++ .+|+|||+|++ +.+ ++.|||+|+.|+..||+|++
T Consensus 53 ~~~l~sc~~r~~~~~dRRFCFei~~-~~~~~~~~lQA~Se~~~~~Wi~A~d 102 (104)
T cd01249 53 TLTLKSCSRRKTESIDKRFCFDVEV-EEKPGVITMQALSEKDRRLWIEAMD 102 (104)
T ss_pred EEeeeeccccccCCccceeeEeeee-cCCCCeEEEEecCHHHHHHHHHhhc
Confidence 3556666664 78999999998 666 89999999999999999986
No 23
>cd01233 Unc104 Unc-104 pleckstrin homology (PH) domain. Unc-104 pleckstrin homology (PH) domain. Unc-104 is a kinesin-like protein containing an N-terminal kinesin catalytic domain, followed by a forkhead associated domain with a C-terminal PH domain. These proteins are responsible for the transport of membrane vesicles along microtubules. The mechanism involves the binding of the PH domain to phosphatidiylinositol (4,5) P2-containing liposomes.
Probab=98.67 E-value=3.6e-08 Score=70.23 Aligned_cols=35 Identities=17% Similarity=0.402 Sum_probs=32.1
Q ss_pred CcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHH
Q psy17773 21 DSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQI 56 (165)
Q Consensus 21 ~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i 56 (165)
++++|.|+| ++|+|+|+|+|++|+++||++|+..+
T Consensus 64 ~~~~F~I~t-~~rt~~~~A~s~~e~~~Wi~ai~~~~ 98 (100)
T cd01233 64 GPNTFAVCT-KHRGYLFQALSDKEMIDWLYALNPLY 98 (100)
T ss_pred CCcEEEEEC-CCCEEEEEcCCHHHHHHHHHHhhhhh
Confidence 579999998 89999999999999999999998654
No 24
>cd01250 PH_centaurin Centaurin Pleckstrin homology (PH) domain. Centaurin Pleckstrin homology (PH) domain. Centaurin beta and gamma consist of a PH domain, an ArfGAP domain and three ankyrin repeats. Centaurain gamma also has an N-terminal Ras homology domain. Centaurin alpha has a different domain architecture and its PH domain is in a different subfamily. Centaurin can bind to phosphatidlyinositol (3,4,5)P3. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=98.62 E-value=3.8e-08 Score=67.79 Aligned_cols=33 Identities=48% Similarity=0.937 Sum_probs=30.9
Q ss_pred CcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHH
Q psy17773 21 DSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQ 54 (165)
Q Consensus 21 ~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~ 54 (165)
++++|.|++ ++++|+|+|+|++|+++||.||++
T Consensus 61 ~~~~f~i~~-~~~~~~f~a~s~~~~~~Wi~al~~ 93 (94)
T cd01250 61 RRFCFEVIS-PTKTWHFQADSEEERDDWISAIQE 93 (94)
T ss_pred CceEEEEEc-CCcEEEEECCCHHHHHHHHHHHhc
Confidence 689999999 779999999999999999999975
No 25
>cd01220 PH_CDEP Chondrocyte-derived ezrin-like domain containing protein (CDEP) Pleckstrin homology (PH) domain. Chondrocyte-derived ezrin-like domain containing protein (CDEP) Pleckstrin homology (PH) domain. CDEP consists of a Ferm domain, a rhoGEF (DH) domain followed by two PH domains. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=98.61 E-value=4.5e-08 Score=70.06 Aligned_cols=54 Identities=17% Similarity=0.312 Sum_probs=44.7
Q ss_pred CCCCCccccccccccc---C--CCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHHH
Q psy17773 3 HYRNAAEIPIILVGTQ---D--SDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQIL 57 (165)
Q Consensus 3 ~y~~~~~i~~~~~~~~---~--~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i~ 57 (165)
.|++...||+....+. + +.+++|+|.+ +.++|.++|.|++|+++||++|+++|.
T Consensus 40 ~y~~~~~i~L~~~~V~~~~~~~~~~~~F~I~~-~~ks~~l~A~s~~Ek~~Wi~~i~~aI~ 98 (99)
T cd01220 40 SFRILGHLPLRGMLTEESEHEWGVPHCFTIFG-GQCAITVAASTRAEKEKWLADLSKAIA 98 (99)
T ss_pred eEEEEEEEEcCceEEeeccCCcCCceeEEEEc-CCeEEEEECCCHHHHHHHHHHHHHHhh
Confidence 4566667777766664 2 3469999998 899999999999999999999999885
No 26
>cd01219 PH_FGD FGD (faciogenital dysplasia protein) pleckstrin homology (PH) domain. FGD (faciogenital dysplasia protein) pleckstrin homology (PH) domain. FGD has a RhoGEF (DH) domain, followed by a PH domain, a FYVE domain and a C-terminal PH domain. FGD is a guanine nucleotide exchange factor that activates the Rho GTPase Cdc42. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=98.52 E-value=1.1e-07 Score=67.88 Aligned_cols=53 Identities=19% Similarity=0.337 Sum_probs=40.2
Q ss_pred CCCCccccccccccc----CCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHHH
Q psy17773 4 YRNAAEIPIILVGTQ----DSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQIL 57 (165)
Q Consensus 4 y~~~~~i~~~~~~~~----~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i~ 57 (165)
|+....|++....+. .+.+++|.|.+ ++|+|+++|+|++|+++||++|+.+|.
T Consensus 44 y~~~~~i~l~~~~v~~~~~~~~~~~F~I~~-~~rsf~l~A~s~eEk~~W~~ai~~~i~ 100 (101)
T cd01219 44 FKVRARIDVSGMQVCEGDNLERPHSFLVSG-KQRCLELQARTQKEKNDWVQAIFSIID 100 (101)
T ss_pred EEEEEEEecccEEEEeCCCCCcCceEEEec-CCcEEEEEcCCHHHHHHHHHHHHHHhh
Confidence 333344555443332 23579999998 789999999999999999999998875
No 27
>cd01257 PH_IRS Insulin receptor substrate (IRS) pleckstrin homology (PH) domain. Insulin receptor substrate (IRS) pleckstrin homology (PH) domain. PH domains are only found in eukaryotes, and are often involved in targeting proteins to the plasma membrane via lipid binding. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPases, adaptors, a well as cytoskeletal associated molecules and in lipid associated enzymes. The IRS PH domain targets IRS molecules to the plasma membrane, usually in response to insulin stimulation.
Probab=98.52 E-value=1.2e-07 Score=68.17 Aligned_cols=33 Identities=18% Similarity=0.428 Sum_probs=30.2
Q ss_pred CcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHH
Q psy17773 21 DSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQ 54 (165)
Q Consensus 21 ~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~ 54 (165)
++|.|+|+| |+|+|+|+|+||+|+++||.+|..
T Consensus 68 ~~~~f~i~t-~dr~f~l~aese~E~~~Wi~~i~~ 100 (101)
T cd01257 68 HRHLIALYT-RDEYFAVAAENEAEQDSWYQALLE 100 (101)
T ss_pred cCeEEEEEe-CCceEEEEeCCHHHHHHHHHHHhh
Confidence 359999999 889999999999999999999953
No 28
>cd01246 PH_oxysterol_bp Oxysterol binding protein (OSBP) Pleckstrin homology (PH) domain. Oxysterol binding protein (OSBP) Pleckstrin homology (PH) domain. Oxysterol binding proteins are a multigene family that is conserved in yeast, flies, worms, mammals and plants. They all contain a C-terminal oxysterol binding domain, and most contain an N-terminal PH domain. OSBP PH domains bind to membrane phosphoinositides and thus likely play an important role in intracellular targeting. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=98.44 E-value=2.6e-07 Score=63.23 Aligned_cols=37 Identities=30% Similarity=0.460 Sum_probs=31.9
Q ss_pred CCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHH
Q psy17773 19 DSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQ 55 (165)
Q Consensus 19 ~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~ 55 (165)
..++++|.|.++.+++|+|+|+|++|+..||.+|+.+
T Consensus 55 ~~~~~~F~i~~~~~~~~~~~a~s~~e~~~Wi~al~~a 91 (91)
T cd01246 55 DSDDKCFTIDTGGDKTLHLRANSEEERQRWVDALELA 91 (91)
T ss_pred CCCCcEEEEEcCCCCEEEEECCCHHHHHHHHHHHHhC
Confidence 4447999999844599999999999999999999864
No 29
>cd01218 PH_phafin2 Phafin2 Pleckstrin Homology (PH) domain. Phafin2 Pleckstrin Homology (PH) domain. Phafin contains a PH domain and a FYVE domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=98.44 E-value=3.8e-07 Score=65.94 Aligned_cols=56 Identities=21% Similarity=0.380 Sum_probs=44.9
Q ss_pred CCCCccccccccccc---C--CCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHHHHhH
Q psy17773 4 YRNAAEIPIILVGTQ---D--SDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQILSSL 60 (165)
Q Consensus 4 y~~~~~i~~~~~~~~---~--~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i~~~l 60 (165)
|+....+|+....+. + +-++.|.|.+ +.|+|.++|+|++|+.+||++|+++|...+
T Consensus 42 ~~~~~~i~L~~~~v~~~~d~~~~~n~f~I~~-~~kSf~v~A~s~~eK~eWl~~i~~ai~~~l 102 (104)
T cd01218 42 YNKQHILPLEGVQVESIEDDGIERNGWIIKT-PTKSFAVYAATETEKREWMLHINKCVTDLL 102 (104)
T ss_pred eeEeeEEEccceEEEecCCcccccceEEEec-CCeEEEEEcCCHHHHHHHHHHHHHHHHHHh
Confidence 556666677655442 2 2368999999 899999999999999999999999998754
No 30
>cd01236 PH_outspread Outspread Pleckstrin homology (PH) domain. Outspread Pleckstrin homology (PH) domain. Outspread contains two PH domains and a C-terminal coiled-coil region. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPAses, adaptors, a well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=98.36 E-value=7e-07 Score=64.53 Aligned_cols=33 Identities=21% Similarity=0.419 Sum_probs=30.3
Q ss_pred CcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHH
Q psy17773 21 DSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQ 54 (165)
Q Consensus 21 ~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~ 54 (165)
+.++|.|+| |+|+|+|.|+|++|+++||.+|..
T Consensus 70 ~~~~f~I~t-p~R~f~l~Aete~E~~~Wi~~l~~ 102 (104)
T cd01236 70 QKFSICILT-PDKEHFIKAETKEEISWWLNMLMV 102 (104)
T ss_pred CccEEEEEC-CCceEEEEeCCHHHHHHHHHHHHh
Confidence 358999999 899999999999999999999964
No 31
>cd01253 PH_beta_spectrin Beta-spectrin pleckstrin homology (PH) domain. Beta-spectrin pleckstrin homology (PH) domain. Beta spectrin binds actin and functions as a major component of the cytoskeleton underlying cellular membranes. Beta spectrin consists of multiple spectrin repeats followed by a PH domain, which binds to Inositol-1,4,5-Trisphosphate. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. PH domains are often involved in targeting proteins to the plasma membrane via lipid binding. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=98.35 E-value=6.8e-07 Score=63.55 Aligned_cols=35 Identities=20% Similarity=0.451 Sum_probs=31.4
Q ss_pred CCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHH
Q psy17773 20 SDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQ 54 (165)
Q Consensus 20 ~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~ 54 (165)
.+++.|.|.++++++|+|||+|++|+..||.+|+.
T Consensus 69 k~~~~F~l~~~~~~~~~f~a~s~e~~~~Wi~aL~~ 103 (104)
T cd01253 69 KKKHVFRLRLPDGAEFLFQAPDEEEMSSWVRALKS 103 (104)
T ss_pred cCceEEEEEecCCCEEEEECCCHHHHHHHHHHHhc
Confidence 55699999886689999999999999999999974
No 32
>cd01252 PH_cytohesin Cytohesin Pleckstrin homology (PH) domain. Cytohesin Pleckstrin homology (PH) domain. Cytohesin is an ARF-Guanine nucleotide Exchange Factor (GEF), which has a Sec7-type Arf-GEFdomain and a pleckstrin homology domain. It specifically binds phosphatidylinositol-3,4,5-trisphosphate (PtdIns(3,4, 5)P3) via its PH domain and it acts as a PI 3-kinase effector mediating biological responses such as cell adhesion and membrane trafficking. PH domains are only found in eukaryotes. They share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=98.33 E-value=8.4e-07 Score=65.41 Aligned_cols=58 Identities=28% Similarity=0.460 Sum_probs=41.8
Q ss_pred CCCCCCCc------cccccccccc----CCCcceEEEEeCCC--------------------CeEEEEeCCHHHHHHHHH
Q psy17773 1 MSHYRNAA------EIPIILVGTQ----DSDSFELLIVSLDN--------------------KQWQFEAANSEERDDWIA 50 (165)
Q Consensus 1 ~s~y~~~~------~i~~~~~~~~----~~~~~~F~ivt~~~--------------------rt~~fqa~se~E~~~Wi~ 50 (165)
|.||+... .|++..+.+. ..+++||+|.++.+ ++|+|+|+|++|+++||+
T Consensus 28 L~yyk~~~~~~~~g~I~L~~~~v~~~~~~~~~~~F~i~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~A~s~~e~~~Wi~ 107 (125)
T cd01252 28 LYYFEYTTDKEPRGIIPLENVSIREVEDPSKPFCFELFSPSDKQQIKACKTESDGRVVEGNHSVYRISAANDEEMDEWIK 107 (125)
T ss_pred EEEEcCCCCCCceEEEECCCcEEEEcccCCCCeeEEEECCccccccccccccccccccccCceEEEEECCCHHHHHHHHH
Confidence 45666543 2455533332 34679999987443 689999999999999999
Q ss_pred HHHHHHHH
Q psy17773 51 AIQQQILS 58 (165)
Q Consensus 51 ai~~~i~~ 58 (165)
+|+.++..
T Consensus 108 al~~~~~~ 115 (125)
T cd01252 108 SIKASISP 115 (125)
T ss_pred HHHHHHhc
Confidence 99987754
No 33
>cd01245 PH_RasGAP_CG5898 RAS GTPase-activating protein (GAP) CG5898 Pleckstrin homology (PH) domain. RAS GTPase-activating protein (GAP) CG5898 Pleckstrin homology (PH) domain. This protein has a domain architecture of SH2-SH3-SH2-PH-C2-Ras_GAP. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPAses, adaptors, a well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=98.31 E-value=7e-07 Score=63.91 Aligned_cols=52 Identities=21% Similarity=0.174 Sum_probs=37.0
Q ss_pred CCCCCCCcc------ccccccccc------CCCcceEEEEeCCCC--eEEEEeCCHHHHHHHHHHHHH
Q psy17773 1 MSHYRNAAE------IPIILVGTQ------DSDSFELLIVSLDNK--QWQFEAANSEERDDWIAAIQQ 54 (165)
Q Consensus 1 ~s~y~~~~~------i~~~~~~~~------~~~~~~F~ivt~~~r--t~~fqa~se~E~~~Wi~ai~~ 54 (165)
|+||+.+.. |++..+.+. .+++|||+|++ +++ +|++-|++ +|+++||++|+.
T Consensus 32 l~yf~~~~~~~p~gli~l~~~~V~~v~ds~~~r~~cFel~~-~~~~~~y~~~a~~-~er~~Wi~~l~~ 97 (98)
T cd01245 32 ESLLSSPKKTKPIGLIDLSDAYLYPVHDSLFGRPNCFQIVE-RALPTVYYSCRSS-EERDKWIESLQA 97 (98)
T ss_pred EEEEcCCCCCCccceeeccccEEEEccccccCCCeEEEEec-CCCCeEEEEeCCH-HHHHHHHHHHhc
Confidence 456655543 344445443 26679999998 655 78777777 999999999975
No 34
>cd01235 PH_SETbf Set binding factor Pleckstrin Homology (PH) domain. Set binding factor Pleckstrin Homology (PH) domain. Set binding factor is a myotubularin-related pseudo-phosphatase consisting of a Denn domain, a Gram domain, an inactive phosphatase domain, a SID motif and a C-terminal PH domain. Its PH domain is predicted to bind lipids based upon its ability to respond to phosphatidylinositol 3-kinase .
Probab=98.31 E-value=1.1e-06 Score=61.71 Aligned_cols=35 Identities=26% Similarity=0.343 Sum_probs=31.3
Q ss_pred CcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHH
Q psy17773 21 DSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQI 56 (165)
Q Consensus 21 ~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i 56 (165)
+.+.|+|.| +.|+|+|.|+|++|+.+||.+|++.|
T Consensus 67 ~~~~f~i~t-~~r~~~~~a~s~~e~~~Wi~ai~~~i 101 (101)
T cd01235 67 RKGFFDLKT-SKRTYNFLAENINEAQRWKEKIQQCI 101 (101)
T ss_pred CceEEEEEe-CCceEEEECCCHHHHHHHHHHHHhhC
Confidence 457899888 89999999999999999999998754
No 35
>cd01266 PH_Gab Gab (Grb2-associated binder) pleckstrin homology (PH) domain. Gab (Grb2-associated binder) pleckstrin homology (PH) domain. The Gab subfamily includes several Gab proteins, Drosophila DOS and C. elegans SOC-1. They are scaffolding adaptor proteins, which possess N-terminal PH domains and a C-terminus with proline-rich regions and multiple phosphorylation sites. Following activation of growth factor receptors, Gab proteins are tyrosine phosphorylated and activate PI3K, which generates 3-phosphoinositide lipids. By binding to these lipids via the PH domain, Gab proteins remain in proximity to the receptor, leading to further signaling. While not all Gab proteins depend on the PH domain for recruitment, it is required for Gab activity. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display str
Probab=98.20 E-value=2.6e-06 Score=61.39 Aligned_cols=32 Identities=22% Similarity=0.311 Sum_probs=29.3
Q ss_pred cceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHH
Q psy17773 22 SFELLIVSLDNKQWQFEAANSEERDDWIAAIQQ 54 (165)
Q Consensus 22 ~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~ 54 (165)
.|.|.|+| +.|+|+|.|+|++||++||.+|.+
T Consensus 75 ~~~f~i~t-~~r~y~l~A~s~ee~~~Wi~~I~~ 106 (108)
T cd01266 75 GYGFDIET-IVRDLYLVAKNEEEMTLWVNCICK 106 (108)
T ss_pred ceEEEEEe-CCccEEEEECCHHHHHHHHHHHHh
Confidence 36799998 899999999999999999999964
No 36
>cd01237 Unc112 Unc-112 pleckstrin homology (PH) domain. Unc-112 pleckstrin homology (PH) domain. Unc-112 and related proteins contain two FERM domains with a PH domain between them. Both the PH and FERM domains have a PH-like fold. The FERM domains are likely responsible for the role of Unc-112 in organizing beta-integrin. The specific role of the Unc-112 PH domain is not known, but it is predicted to be involved in mediating membrane interactions. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=98.17 E-value=2.3e-06 Score=61.97 Aligned_cols=54 Identities=20% Similarity=0.440 Sum_probs=41.3
Q ss_pred CCCCCCCcc---ccc---cccccc-------CCCcceEEEEeCCC----CeEEEEeCCHHHHHHHHHHHHHH
Q psy17773 1 MSHYRNAAE---IPI---ILVGTQ-------DSDSFELLIVSLDN----KQWQFEAANSEERDDWIAAIQQQ 55 (165)
Q Consensus 1 ~s~y~~~~~---i~~---~~~~~~-------~~~~~~F~ivt~~~----rt~~fqa~se~E~~~Wi~ai~~~ 55 (165)
|+||++.++ .|+ ++.+.. ..++|+|.+++ |. |+|+|.|+||+++..||+|.+.|
T Consensus 32 L~YyK~kee~~~~p~i~lnl~gcev~~dv~~~~~kf~I~l~~-ps~~~~r~y~l~cdsEeqya~Wmaa~rla 102 (106)
T cd01237 32 ISYYKSKEDSNGAPIGQLNLKGCEVTPDVNVAQQKFHIKLLI-PTAEGMNEVWLRCDNEKQYAKWMAACRLA 102 (106)
T ss_pred EEEEccchhcCCCCeEEEecCceEEcccccccccceEEEEec-CCccCCeEEEEECCCHHHHHHHHHHHHHh
Confidence 578888776 233 333332 25579999998 66 99999999999999999999754
No 37
>PF15409 PH_8: Pleckstrin homology domain
Probab=98.14 E-value=3.1e-06 Score=59.57 Aligned_cols=54 Identities=26% Similarity=0.459 Sum_probs=43.7
Q ss_pred CCCCCCCccc------cccccccc-CCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHH
Q psy17773 1 MSHYRNAAEI------PIILVGTQ-DSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQ 55 (165)
Q Consensus 1 ~s~y~~~~~i------~~~~~~~~-~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~ 55 (165)
||||+++.+. |+.++.+. ..+..+|.|.| ...+|++.|.|++|.+.|+.||+.+
T Consensus 28 LsYy~~~~~~~~rGsi~v~~a~is~~~~~~~I~ids-g~~i~hLKa~s~~~f~~Wv~aL~~a 88 (89)
T PF15409_consen 28 LSYYRNQNSGKLRGSIDVSLAVISANKKSRRIDIDS-GDEIWHLKAKSQEDFQRWVSALQKA 88 (89)
T ss_pred EEEEecCCCCeeEeEEEccceEEEecCCCCEEEEEc-CCeEEEEEcCCHHHHHHHHHHHHhc
Confidence 6899987753 55555554 44567899988 7889999999999999999999864
No 38
>PF00169 PH: PH domain; InterPro: IPR001849 The pleckstrin homology (PH) domain is a domain of about 100 residues that occurs in a wide range of proteins involved in intracellular signalling or as constituents of the cytoskeleton [, , , , , , ]. The pleckstrin homology domain commonly found in eukaryotic signalling proteins. The domain family possesses multiple functions including the abilities to bind inositol phosphates, and various proteins. PH domains have been found to possess inserted domains (such as in PLC gamma, syntrophins) and to be inserted within other domains. Mutations in Brutons tyrosine kinase (Btk) within its PH domain cause X-linked agammaglobulinaemia (XLA) in patients. Point mutations cluster into the positively charged end of the molecule around the predicted binding site for phosphatidylinositol lipids. The 3D structure of several PH domains has been determined []. All known cases have a common structure consisting of two perpendicular anti-parallel beta sheets, followed by a C-terminal amphipathic helix. The loops connecting the beta-strands differ greatly in length, making the PH domain relatively difficult to detect. There are no totally invariant residues within the PH domain. Proteins reported to contain one more PH domains belong to the following families: Pleckstrin, the protein where this domain was first detected, is the major substrate of protein kinase C in platelets. Pleckstrin is one of the rare proteins to contains two PH domains. Ser/Thr protein kinases such as the Akt/Rac family, the beta-adrenergic receptor kinases, the mu isoform of PKC and the trypanosomal NrkA family. Tyrosine protein kinases belonging to the Btk/Itk/Tec subfamily. Insulin Receptor Substrate 1 (IRS-1). Regulators of small G-proteins like guanine nucleotide releasing factor GNRP (Ras-GRF) (which contains 2 PH domains), guanine nucleotide exchange proteins like vav, dbl, SoS and Saccharomyces cerevisiae CDC24, GTPase activating proteins like rasGAP and BEM2/IPL2, and the human break point cluster protein bcr. Cytoskeletal proteins such as dynamin (see IPR001401 from INTERPRO), Caenorhabditis elegans kinesin-like protein unc-104 (see IPR001752 from INTERPRO), spectrin beta-chain, syntrophin (2 PH domains) and S. cerevisiae nuclear migration protein NUM1. Mammalian phosphatidylinositol-specific phospholipase C (PI-PLC) (see IPR000909 from INTERPRO) isoforms gamma and delta. Isoform gamma contains two PH domains, the second one is split into two parts separated by about 400 residues. Oxysterol binding proteins OSBP, S. cerevisiae OSH1 and YHR073w. Mouse protein citron, a putative rho/rac effector that binds to the GTP-bound forms of rho and rac. Several S. cerevisiae proteins involved in cell cycle regulation and bud formation like BEM2, BEM3, BUD4 and the BEM1-binding proteins BOI2 (BEB1) and BOI1 (BOB1). C. elegans protein MIG-10. C. elegans hypothetical proteins C04D8.1, K06H7.4 and ZK632.12. S. cerevisiae hypothetical proteins YBR129c and YHR155w. ; GO: 0005515 protein binding; PDB: 1DYN_B 2DYN_B 3SNH_A 3ZYS_C 1X05_A 2I5F_A 1ZM0_B 1XX0_A 2I5C_C 3A8P_D ....
Probab=98.08 E-value=1e-05 Score=55.22 Aligned_cols=37 Identities=35% Similarity=0.540 Sum_probs=32.4
Q ss_pred CCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHH
Q psy17773 20 SDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQI 56 (165)
Q Consensus 20 ~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i 56 (165)
+..++|.|.++.+++|+|+|+|++|+..|+.+|+.++
T Consensus 67 ~~~~~f~i~~~~~~~~~~~~~s~~~~~~W~~~i~~~~ 103 (104)
T PF00169_consen 67 KRKNCFEITTPNGKSYLFSAESEEERKRWIQAIQKAI 103 (104)
T ss_dssp SSSSEEEEEETTSEEEEEEESSHHHHHHHHHHHHHHH
T ss_pred CCCcEEEEEeCCCcEEEEEcCCHHHHHHHHHHHHHHh
Confidence 4679999999444599999999999999999999875
No 39
>cd01230 PH_EFA6 EFA6 Pleckstrin Homology (PH) domain. EFA6 Pleckstrin Homology (PH) domain. EFA6 is an guanine nucleotide exchange factor for ARF6, which is involved in membrane recycling. It consists of a SEC7 domain followed by a PH domain. The EFA6 PH domain regulates its association with the plasma membrane. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=97.98 E-value=1.8e-05 Score=58.39 Aligned_cols=39 Identities=15% Similarity=0.330 Sum_probs=34.7
Q ss_pred CCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHHH
Q psy17773 19 DSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQIL 57 (165)
Q Consensus 19 ~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i~ 57 (165)
..+++.|.|.++.++.|.|||.+++||+.||.+|+.+..
T Consensus 74 ~Kr~~VF~L~~~~g~~~lfqA~~~ee~~~Wi~~I~~~~~ 112 (117)
T cd01230 74 SKKPHVFRLRTADWREFLFQTSSLKELQSWIERINVVAA 112 (117)
T ss_pred cCCCcEEEEEcCCCCEEEEECCCHHHHHHHHHHHHHHHH
Confidence 677899999996679999999999999999999987553
No 40
>PF15410 PH_9: Pleckstrin homology domain; PDB: 1WJM_A 1BTN_A 1MPH_A.
Probab=97.86 E-value=3.4e-05 Score=56.61 Aligned_cols=36 Identities=25% Similarity=0.496 Sum_probs=30.3
Q ss_pred CCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHH
Q psy17773 19 DSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQ 54 (165)
Q Consensus 19 ~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~ 54 (165)
..|++.|.|.++.+..|.|||.+++||.+||.+|+.
T Consensus 81 ~Kr~~VFrL~~~dg~e~Lfqa~~~~~m~~Wi~~IN~ 116 (119)
T PF15410_consen 81 TKRKNVFRLRTADGSEYLFQASDEEEMNEWIDAINY 116 (119)
T ss_dssp TTCSSEEEEE-TTS-EEEEE-SSHHHHHHHHHHHHH
T ss_pred ccCCeEEEEEeCCCCEEEEECCCHHHHHHHHHHHhh
Confidence 668899999996689999999999999999999975
No 41
>cd01261 PH_SOS Son of Sevenless (SOS) Pleckstrin homology (PH) domain. Son of Sevenless (SOS) Pleckstrin homology (PH) domain. SOS is a Ras guanine nucleotide exchange factor. It has a RhoGEF (DbH) domain, a PH domain, and a RasGEF domain. The SOS PH domain can bind to inositol 1,4,5-triphosphate. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=97.82 E-value=2.4e-05 Score=57.31 Aligned_cols=38 Identities=26% Similarity=0.390 Sum_probs=33.3
Q ss_pred CcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHHHH
Q psy17773 21 DSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQILS 58 (165)
Q Consensus 21 ~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i~~ 58 (165)
-++.|.|++.++++|.|+|.|++|+.+||++|..++.+
T Consensus 74 ~knaF~I~~~~~~s~~l~Akt~eeK~~Wm~~l~~~~~~ 111 (112)
T cd01261 74 YKNAFEIILKDGNSVIFSAKNAEEKNNWMAALISVQTK 111 (112)
T ss_pred cCceEEEEcCCCCEEEEEECCHHHHHHHHHHHHHHhcC
Confidence 36899999855789999999999999999999887654
No 42
>cd01241 PH_Akt Akt pleckstrin homology (PH) domain. Akt pleckstrin homology (PH) domain. Akt (Protein Kinase B (PKB)) is a phosphatidylinositol 3'-kinase (PI3K)-dependent Ser/Thr kinase. The PH domain recruits Akt to the plasma membrane by binding to phosphoinositides (PtdIns-3,4-P2) and is required for activation. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=97.72 E-value=4e-05 Score=54.75 Aligned_cols=35 Identities=29% Similarity=0.553 Sum_probs=26.7
Q ss_pred CCCcceEEEE----e-CCCCeEEEEeCCHHHHHHHHHHHHHH
Q psy17773 19 DSDSFELLIV----S-LDNKQWQFEAANSEERDDWIAAIQQQ 55 (165)
Q Consensus 19 ~~~~~~F~iv----t-~~~rt~~fqa~se~E~~~Wi~ai~~~ 55 (165)
..+.+.|.|. + +++|+ |.|+|++||++||.||+..
T Consensus 62 ~~~~~~F~i~~~~~~~~~~r~--f~a~s~ee~~eWi~ai~~v 101 (102)
T cd01241 62 RPRPNTFIIRCLQWTTVIERT--FHVESPEEREEWIHAIQTV 101 (102)
T ss_pred CCCcceEEEEeccCCcccCEE--EEeCCHHHHHHHHHHHHhh
Confidence 3456899997 2 24554 4699999999999999864
No 43
>cd01226 PH_exo84 Exocyst complex 84-kDa subunit Pleckstrin Homology (PH) domain. Exocyst complex 84-kDa subunit Pleckstrin Homology (PH) domain. Exo84 is a subunit of the exocyt complex, which is important in intracellular trafficking. In metazoa, Exo84 has a PH domain towards its N-terminus. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPases, adaptors, a well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=97.71 E-value=4.9e-05 Score=54.57 Aligned_cols=35 Identities=9% Similarity=0.233 Sum_probs=32.2
Q ss_pred CcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHH
Q psy17773 21 DSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQI 56 (165)
Q Consensus 21 ~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i 56 (165)
-++.|.|+| +.+++.|||+|++++.+||+.|++++
T Consensus 64 ~kNafki~t-~~~s~i~qaes~~~K~eWl~~le~a~ 98 (100)
T cd01226 64 AKKVLKLLI-FPESRIYQCESARIKTEWFEELEQAK 98 (100)
T ss_pred cCceEEEEe-CCccEEEEeCCHHHHHHHHHHHHHHh
Confidence 368999999 78999999999999999999999876
No 44
>cd01254 PH_PLD Phospholipase D (PLD) pleckstrin homology (PH) domain. Phospholipase D (PLD) pleckstrin homology (PH) domain. PLD hydrolyzes phosphatidylcholine to phosphatidic acid (PtdOH), which can bind target proteins. PLD contains a PH domain, a PX domain and four conserved PLD signature domains. The PLD PH domain is specific for bisphosphorylated inositides. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=97.68 E-value=7.7e-05 Score=54.96 Aligned_cols=36 Identities=19% Similarity=0.408 Sum_probs=32.4
Q ss_pred CCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHH
Q psy17773 19 DSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQ 55 (165)
Q Consensus 19 ~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~ 55 (165)
..+++.|.|.| ++|+|.|.|+|+.++++||++|+.+
T Consensus 86 ~~~~~~~~i~t-~~R~~~l~a~s~~~~~~Wi~~i~~a 121 (121)
T cd01254 86 TGLRHGLKITN-SNRSLKLKCKSSRKLKQWMASIEDA 121 (121)
T ss_pred CCCceEEEEEc-CCcEEEEEeCCHHHHHHHHHHHHhC
Confidence 35578999998 8999999999999999999999864
No 45
>cd00821 PH Pleckstrin homology (PH) domain. Pleckstrin homology (PH) domain. PH domains are only found in eukaryotes. They share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=97.65 E-value=0.0001 Score=48.72 Aligned_cols=34 Identities=29% Similarity=0.544 Sum_probs=30.2
Q ss_pred CcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHH
Q psy17773 21 DSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQ 54 (165)
Q Consensus 21 ~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~ 54 (165)
..++|.|++.+++.|+|+|+|++|+..|+.+|+.
T Consensus 62 ~~~~f~i~~~~~~~~~~~~~s~~~~~~W~~~l~~ 95 (96)
T cd00821 62 RKNCFEIRTPDGRSYLLQAESEEEREEWIEALQS 95 (96)
T ss_pred CCcEEEEecCCCcEEEEEeCCHHHHHHHHHHHhc
Confidence 4799999984459999999999999999999975
No 46
>KOG1451|consensus
Probab=97.62 E-value=5.1e-05 Score=68.93 Aligned_cols=118 Identities=19% Similarity=0.243 Sum_probs=76.1
Q ss_pred CCCcceEEEEeCCCC--eEEEEeCCHHHHHHHHHHHHHHH-------------HHhHHHHHHHHHHhhCCCCCCCCCCCC
Q psy17773 19 DSDSFELLIVSLDNK--QWQFEAANSEERDDWIAAIQQQI-------------LSSLQTASLQSIRSRVPGNLTCADCAE 83 (165)
Q Consensus 19 ~~~~~~F~ivt~~~r--t~~fqa~se~E~~~Wi~ai~~~i-------------~~~l~~~~l~~l~~~~~~N~~CaDCg~ 83 (165)
.+++|||.|-+ .+| +..+||-||+++..||+|+..+- ...|..-.+..+++ |.|
T Consensus 329 IdKRFCFDve~-~erpgviTmQALSE~drrlWmeAMDG~ep~Y~s~~~~~~~~~~qLd~iGF~fvrk-------CI~--- 397 (812)
T KOG1451|consen 329 IDKRFCFDVEV-EERPGVITMQALSEKDRRLWMEAMDGAEPSYTSGENCSTYKQTQLDDIGFEFVRK-------CID--- 397 (812)
T ss_pred cccceeeeeee-cccCCeeehHhhhhhHHHHHHHHhcCCCccccCccccchhhhhhhhhhhHHHHHH-------HHH---
Confidence 78899999987 655 88999999999999999998541 00111233444555 111
Q ss_pred CCCCeeeecccceeeeccccccccCCCc--cceeeeccCCCCCCchHH-----HHHHHhhHHHHHHHhhhcCCCCCCCCC
Q psy17773 84 AGPTWASLNLGLLLCIQCCGVHRCLGAH--VSRVRSLELDEWPESNPR-----IIDEARARRLASDLKRCSYYETCATYG 156 (165)
Q Consensus 84 ~~p~w~s~n~Gv~lC~~Cs~iHR~lg~~--is~VkSl~ld~w~~~~v~-----~~~~~~GN~~~n~~~e~~~~~~~~~~~ 156 (165)
.--.-=+.=.|+.|..|++ +.+.-++.+|.-++.++. .+ +.---..+-+.|..+||+..++|.
T Consensus 398 ---------i~Et~GI~eqGlYR~vGvns~VQKlln~~fDPK~ase~d~dn~~eW-eiKTITSaLKtYLRnLpEPLMTY~ 467 (812)
T KOG1451|consen 398 ---------ILETSGIHEQGLYRNVGVNSKVQKLLNLGFDPKKASEKDGDNLDEW-EIKTITSALKTYLRNLPEPLMTYE 467 (812)
T ss_pred ---------HHHhcCcccccchhhccchHHHHHHHHhcCCCCCccccccchhhhh-hhhhHHHHHHHHHHhCCchhhHHH
Confidence 0000001123455777876 456777888876554443 23 333446788999999999999987
Q ss_pred C
Q psy17773 157 L 157 (165)
Q Consensus 157 ~ 157 (165)
+
T Consensus 468 L 468 (812)
T KOG1451|consen 468 L 468 (812)
T ss_pred H
Confidence 5
No 47
>smart00233 PH Pleckstrin homology domain. Domain commonly found in eukaryotic signalling proteins. The domain family possesses multiple functions including the abilities to bind inositol phosphates, and various proteins. PH domains have been found to possess inserted domains (such as in PLC gamma, syntrophins) and to be inserted within other domains. Mutations in Brutons tyrosine kinase (Btk) within its PH domain cause X-linked agammaglobulinaemia (XLA) in patients. Point mutations cluster into the positively charged end of the molecule around the predicted binding site for phosphatidylinositol lipids.
Probab=97.61 E-value=0.00016 Score=48.22 Aligned_cols=36 Identities=25% Similarity=0.589 Sum_probs=31.0
Q ss_pred CcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHH
Q psy17773 21 DSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQI 56 (165)
Q Consensus 21 ~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i 56 (165)
..++|.|.+++.++|+|+|+|++|+..|+.+|+.++
T Consensus 66 ~~~~f~l~~~~~~~~~f~~~s~~~~~~W~~~i~~~~ 101 (102)
T smart00233 66 KPHCFEIKTADRRSYLLQAESEEEREEWVDALRKAI 101 (102)
T ss_pred CceEEEEEecCCceEEEEcCCHHHHHHHHHHHHHhh
Confidence 579999998434499999999999999999998754
No 48
>PF15413 PH_11: Pleckstrin homology domain; PDB: 3MDB_D 3FEH_A 3LJU_X 3FM8_C.
Probab=97.57 E-value=0.00015 Score=52.72 Aligned_cols=33 Identities=27% Similarity=0.503 Sum_probs=27.0
Q ss_pred cceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHH
Q psy17773 22 SFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQ 55 (165)
Q Consensus 22 ~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~ 55 (165)
...|.|.| |.|+|+|.|++++|+..||+||+.+
T Consensus 80 ~~~~~i~T-~~kt~~l~~~t~~d~~~Wi~aL~~~ 112 (112)
T PF15413_consen 80 LKVFSIFT-PTKTFHLRCETREDRYDWIEALQEA 112 (112)
T ss_dssp SEEEEEE--SS-EEEEEESSHHHHHHHHHHHHH-
T ss_pred CCCcEEEC-CCcEEEEEECCHHHHHHHHHHHHhC
Confidence 35678888 8999999999999999999999864
No 49
>cd00900 PH-like Pleckstrin homology-like domain. Pleckstrin homology-like domain. This family includes the PH domain, both the Shc-like and IRS-like PTB domains, the ran-binding domain, the EVH1 domain, a domain in neurobeachin and the third domain of FERM. All of these domains have a PH fold, but lack significant sequence similarity. They are generally involved in targeting to protein to the appropriate cellular location or interacting with a binding partner. The PH domain is commonly found in eukaryotic signaling proteins. This domain family possesses multiple functions including the ability to bind inositol phosphates and to other proteins.
Probab=97.52 E-value=0.00016 Score=48.11 Aligned_cols=34 Identities=35% Similarity=0.637 Sum_probs=30.7
Q ss_pred CcceEEEEeCC--CCeEEEEeCCHHHHHHHHHHHHH
Q psy17773 21 DSFELLIVSLD--NKQWQFEAANSEERDDWIAAIQQ 54 (165)
Q Consensus 21 ~~~~F~ivt~~--~rt~~fqa~se~E~~~Wi~ai~~ 54 (165)
..++|.|++.+ .+.+.|+|++++|++.|+.+|+.
T Consensus 63 ~~~~F~i~~~~~~~~~~~~~~~~~~~~~~W~~al~~ 98 (99)
T cd00900 63 DPNCFAIVTKDRGRRVFVFQADSEEEAQEWVEALQQ 98 (99)
T ss_pred CCceEEEECCCCCcEEEEEEcCCHHHHHHHHHHHhc
Confidence 57999999843 89999999999999999999975
No 50
>cd01222 PH_clg Clg (common-site lymphoma/leukemia guanine nucleotide exchange factor) pleckstrin homology (PH) domain. Clg (common-site lymphoma/leukemia guanine nucleotide exchange factor) pleckstrin homology (PH) domain. Clg contains a RhoGEF (DH) domain and a PH domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPases, adaptors, a well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=97.30 E-value=0.00042 Score=49.48 Aligned_cols=39 Identities=21% Similarity=0.469 Sum_probs=32.1
Q ss_pred CCCcceEEEEeCC--CCeEEEEeCCHHHHHHHHHHHHHHHH
Q psy17773 19 DSDSFELLIVSLD--NKQWQFEAANSEERDDWIAAIQQQIL 57 (165)
Q Consensus 19 ~~~~~~F~ivt~~--~rt~~fqa~se~E~~~Wi~ai~~~i~ 57 (165)
.+++.+|.|++.+ .++|.|||.|++++..||++|+.+|.
T Consensus 56 ~~d~~~F~v~~~~~p~~~~~l~A~s~e~K~~W~~~i~~~i~ 96 (97)
T cd01222 56 PGEPLCFRVIPFDDPKGALQLTARNREEKRIWTQQLKRAML 96 (97)
T ss_pred CCCCcEEEEEecCCCceEEEEEecCHHHHHHHHHHHHHHhh
Confidence 3458999997632 26999999999999999999998764
No 51
>cd01263 PH_anillin Anillin Pleckstrin homology (PH) domain. Anillin Pleckstrin homology (PH) domain. Anillin is an actin binding protein involved in cytokinesis. It has a C-terminal PH domain, which has been shown to be necessary, but not sufficient for targetting of anillin to ectopic septin containing foci . PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPAses, adaptors, a well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=97.12 E-value=0.00057 Score=50.73 Aligned_cols=20 Identities=25% Similarity=0.579 Sum_probs=18.1
Q ss_pred EEEEeCCHHHHHHHHHHHHH
Q psy17773 35 WQFEAANSEERDDWIAAIQQ 54 (165)
Q Consensus 35 ~~fqa~se~E~~~Wi~ai~~ 54 (165)
+.|.|+|++||++||.||++
T Consensus 102 ~~lsaDt~eer~~W~~ain~ 121 (122)
T cd01263 102 VMLSADTKEERQTWLSLLNS 121 (122)
T ss_pred EEEecCCHHHHHHHHHHHhc
Confidence 46889999999999999975
No 52
>KOG4424|consensus
Probab=97.05 E-value=0.00075 Score=61.25 Aligned_cols=59 Identities=22% Similarity=0.366 Sum_probs=44.2
Q ss_pred CCCCCCccccccccccc----CCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHHHHhHH
Q psy17773 2 SHYRNAAEIPIILVGTQ----DSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQILSSLQ 61 (165)
Q Consensus 2 s~y~~~~~i~~~~~~~~----~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i~~~l~ 61 (165)
+-|.+.+.+.+....+. .+....|.+ |++.|...|||.+++|..+|+++|+.+|..+-+
T Consensus 312 ~k~~~r~~~s~~~~~v~~~~~~~~~~tF~~-~G~~r~vel~a~t~~ek~eWv~~I~~~Id~~kq 374 (623)
T KOG4424|consen 312 SKYEVRARCSISHMQVQEDDNEELPHTFIL-TGKKRGVELQARTEQEKKEWVQAIQDAIDKHKQ 374 (623)
T ss_pred ceeccceeeccCcchhcccccccCCceEEE-ecccceEEeecCchhhHHHHHHHHHHHHHHHHH
Confidence 34556665544444443 334578865 558999999999999999999999999988765
No 53
>PTZ00283 serine/threonine protein kinase; Provisional
Probab=96.74 E-value=0.0022 Score=57.27 Aligned_cols=40 Identities=20% Similarity=0.373 Sum_probs=35.8
Q ss_pred cCCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHHH
Q psy17773 18 QDSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQIL 57 (165)
Q Consensus 18 ~~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i~ 57 (165)
.++..|-|-+.+.++|.+.|||.+++||+.||.+||+++.
T Consensus 451 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 490 (496)
T PTZ00283 451 GSNAAHVFAVAFKTGRRLLFQARSDPERDAWMQKIQSVLG 490 (496)
T ss_pred CCCCCcEEEEEecCCcEEEEecCCchhHHHHHHHHHHhcC
Confidence 3667899999987899999999999999999999998753
No 54
>cd01223 PH_Vav Vav pleckstrin homology (PH) domain. Vav pleckstrin homology (PH) domain. Vav acts as a guanosine nucleotide exchange factor(GEF) for Rho/Rac proteins. Mammalian Vav proteins consist of a calponin homology (CH) domain, an acidic region, a rho-GEF (DH)domain, a PH domain, a Zinc finger region and an SH2 domain, flanked by two SH3 domains. In invertebrates such as Drosophila and C.elegans, Vav is missing the N-terminal SH3 domain . PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=96.70 E-value=0.0046 Score=45.55 Aligned_cols=37 Identities=11% Similarity=0.363 Sum_probs=31.5
Q ss_pred cceEEEEeCCC-CeEEEEeCCHHHHHHHHHHHHHHHHH
Q psy17773 22 SFELLIVSLDN-KQWQFEAANSEERDDWIAAIQQQILS 58 (165)
Q Consensus 22 ~~~F~ivt~~~-rt~~fqa~se~E~~~Wi~ai~~~i~~ 58 (165)
++.|.|+...+ ..|+|.|.|++++..||++|+.|++.
T Consensus 76 ~~~f~L~~~~~~~~~~f~~Ktee~K~kWm~al~~a~sn 113 (116)
T cd01223 76 KYGFYLAHKQGKTGFTFYFKTEHLRKKWLKALEMAMSN 113 (116)
T ss_pred EEEEEEEecCCCccEEEEeCCHHHHHHHHHHHHHHHhc
Confidence 57899997443 68999999999999999999988764
No 55
>KOG0930|consensus
Probab=96.33 E-value=0.0098 Score=50.25 Aligned_cols=50 Identities=22% Similarity=0.377 Sum_probs=39.8
Q ss_pred cccccccccc----CCCcceEEEEeCCC---------------------CeEEEEeCCHHHHHHHHHHHHHHHHH
Q psy17773 9 EIPIILVGTQ----DSDSFELLIVSLDN---------------------KQWQFEAANSEERDDWIAAIQQQILS 58 (165)
Q Consensus 9 ~i~~~~~~~~----~~~~~~F~ivt~~~---------------------rt~~fqa~se~E~~~Wi~ai~~~i~~ 58 (165)
-||+...+++ ..++|||+|.+|.. -.|.+.|.+.+|+++||.+|+.+|..
T Consensus 303 IIpLeNlsir~VedP~kP~cfEly~ps~~gq~IKACKTe~DGRvVEG~H~vYrIsA~~~Ee~~~Wi~sI~a~is~ 377 (395)
T KOG0930|consen 303 IIPLENLSIREVEDPKKPNCFELYIPSNKGQVIKACKTEADGRVVEGNHSVYRISAPTPEEKDEWIKSIKAAISR 377 (395)
T ss_pred ceeccccceeeccCCCCCCeEEEecCCCCcCeeeeecccCCceeEeccceEEEeeCCCHHHHHHHHHHHHHHhcc
Confidence 4577666664 56679999988444 26999999999999999999988763
No 56
>PF14593 PH_3: PH domain; PDB: 1W1H_D 1W1D_A 1W1G_A 2VKI_A.
Probab=96.28 E-value=0.0082 Score=43.39 Aligned_cols=35 Identities=14% Similarity=0.325 Sum_probs=27.9
Q ss_pred cceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHHHH
Q psy17773 22 SFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQILS 58 (165)
Q Consensus 22 ~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i~~ 58 (165)
.-.|.|.| |+|+|+|.. .+.+...|+++|++....
T Consensus 67 ~~~F~I~t-p~RtY~l~d-~~~~A~~W~~~I~~~~~~ 101 (104)
T PF14593_consen 67 FKTFFIHT-PKRTYYLED-PEGNAQQWVEAIEEVKKQ 101 (104)
T ss_dssp SSEEEEEE-TTEEEEEE--TTS-HHHHHHHHHHHHHH
T ss_pred CCEEEEEC-CCcEEEEEC-CCCCHHHHHHHHHHHHHH
Confidence 45899999 899999998 667789999999987654
No 57
>PTZ00267 NIMA-related protein kinase; Provisional
Probab=96.17 E-value=0.0089 Score=52.91 Aligned_cols=37 Identities=22% Similarity=0.358 Sum_probs=33.0
Q ss_pred CCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHH
Q psy17773 20 SDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQI 56 (165)
Q Consensus 20 ~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i 56 (165)
.+.++|.|-+..++.+.|+|+|++||++||.+|+.++
T Consensus 440 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~W~~~~~~~~ 476 (478)
T PTZ00267 440 KHPNQLVLWFNNGQKIIAYAKTAEDRDQWISKFQRAC 476 (478)
T ss_pred CCCceEEEEecCCcEEEEecCChHHHHHHHHHHHHHh
Confidence 4689999987678999999999999999999999875
No 58
>KOG0932|consensus
Probab=95.94 E-value=0.01 Score=54.24 Aligned_cols=36 Identities=22% Similarity=0.417 Sum_probs=33.1
Q ss_pred CCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHH
Q psy17773 19 DSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQ 54 (165)
Q Consensus 19 ~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~ 54 (165)
.++.+.|.+-|-+-|.|.|||.+.+||+.||..|.-
T Consensus 580 ~KKp~Vf~lrtAdwrv~LFQaps~eEmqsWi~rIN~ 615 (774)
T KOG0932|consen 580 SKKPHVFKLRTADWRVFLFQAPSQEEMQSWIERINL 615 (774)
T ss_pred ccCCceEEEEeccceeEEEeCCCHHHHHHHHHHHHH
Confidence 677899999997899999999999999999999873
No 59
>cd01228 PH_BCR-related BCR (breakpoint cluster region)-related pleckstrin homology (PH) domain. BCR (breakpoint cluster region)-related pleckstrin homology (PH) domain. The BCR-related protein has a RhoGEF(DH) domain followed by a PH domain, a C2 domain and a RhoGAP domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinases, tyrosine kinases, regulators of G-proteins, endocytotic GTPAses, adaptors, a well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=95.83 E-value=0.0086 Score=42.59 Aligned_cols=30 Identities=27% Similarity=0.513 Sum_probs=25.8
Q ss_pred EEEEeCCCCeEEEEeCCHHHHHHHHHHHHH
Q psy17773 25 LLIVSLDNKQWQFEAANSEERDDWIAAIQQ 54 (165)
Q Consensus 25 F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~ 54 (165)
|.+-..++|+|.|-|.|+.|+.+||++|++
T Consensus 63 ~~~~~~~~KSf~~~asS~~Er~eW~~hI~~ 92 (96)
T cd01228 63 FRIHNKNGKSYTFLLSSDYERSEWRESIQK 92 (96)
T ss_pred hhccccCCceEEEEecCHHHHHHHHHHHHH
Confidence 555444799999999999999999999975
No 60
>KOG0521|consensus
Probab=95.72 E-value=0.0026 Score=60.29 Aligned_cols=71 Identities=17% Similarity=0.234 Sum_probs=58.8
Q ss_pred CCCCCCCCCCCCC-CCCeeeecccceeeeccccccccCCCccceeeeccCCCCCCchHHHHHHHhhHHHHHHHhh
Q psy17773 72 VPGNLTCADCAEA-GPTWASLNLGLLLCIQCCGVHRCLGAHVSRVRSLELDEWPESNPRIIDEARARRLASDLKR 145 (165)
Q Consensus 72 ~~~N~~CaDCg~~-~p~w~s~n~Gv~lC~~Cs~iHR~lg~~is~VkSl~ld~w~~~~v~~~~~~~GN~~~n~~~e 145 (165)
...+..|++|++. ...|+++|+.+.+|++|+++|+.++.+.+...++.|++-.+ +... ...|+..++..+.
T Consensus 627 ~~~~~~~~~~~~~~~~~~~~~n~~~~~~~~~s~lh~a~~~~~~~~~e~ll~~ga~--vn~~-d~~g~~plh~~~~ 698 (785)
T KOG0521|consen 627 ASSDGECLPRIATALAHGCCENWPVVLCIGCSLLHVAVGTGDSGAVELLLQNGAD--VNAL-DSKGRTPLHHATA 698 (785)
T ss_pred hccCccchhhhhhhhcchhhhccchhhhcccchhhhhhccchHHHHHHHHhcCCc--chhh-hccCCCcchhhhh
Confidence 4567889999985 78999999999999999999999999999999999998776 6655 5556655555443
No 61
>cd01232 PH_TRIO Trio pleckstrin homology (PH) domain. Trio pleckstrin homology (PH) domain. Trio is a multidomain signaling protein that contains two RhoGEF(DH)-PH domains in tandem. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=95.64 E-value=0.03 Score=41.05 Aligned_cols=38 Identities=18% Similarity=0.438 Sum_probs=29.3
Q ss_pred CCCcceEEEEeCC-C---CeEEEEeCCHHHHHHHHHHHHHHH
Q psy17773 19 DSDSFELLIVSLD-N---KQWQFEAANSEERDDWIAAIQQQI 56 (165)
Q Consensus 19 ~~~~~~F~ivt~~-~---rt~~fqa~se~E~~~Wi~ai~~~i 56 (165)
.++...|+|-+.. . .+|.+||.|.++++.|+..|++.+
T Consensus 71 ~gd~~kF~i~~~~~~~~~~~~ilqA~s~e~K~~W~~~I~~il 112 (114)
T cd01232 71 EGDPCRFALWSGDPPISDNRIILKANSQETKQEWVKKIREIL 112 (114)
T ss_pred CCCCceEEEEeCCCCCCceEEEEECCCHHHHHHHHHHHHHHh
Confidence 4556777775422 2 699999999999999999998643
No 62
>PF15406 PH_6: Pleckstrin homology domain
Probab=95.63 E-value=0.024 Score=41.33 Aligned_cols=31 Identities=32% Similarity=0.608 Sum_probs=26.1
Q ss_pred cceEEEEeCCCCeEEEEeCCHHHHHHHHHHHH
Q psy17773 22 SFELLIVSLDNKQWQFEAANSEERDDWIAAIQ 53 (165)
Q Consensus 22 ~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~ 53 (165)
...|.+.. .+....|||.|..||+.||.+|.
T Consensus 80 ~~kF~f~~-~G~khtF~A~s~aERD~Wv~~lk 110 (112)
T PF15406_consen 80 SNKFHFKI-KGHKHTFEAASAAERDNWVAQLK 110 (112)
T ss_pred CceEEEEe-CCceeeeecCCHHHhccHHHHhh
Confidence 35566555 78999999999999999999985
No 63
>cd01262 PH_PDK1 3-Phosphoinositide dependent protein kinase 1 (PDK1) pleckstrin homology (PH) domain. 3-Phosphoinositide dependent protein kinase 1 (PDK1) pleckstrin homology (PH) domain. PDK1 contains an N-terminal serine/threonine kinase domain followed by a PH domain. Following binding of the PH domain to PtdIns(3,4,5)P3 and PtdIns(3,4)P2, PDK1 activates kinases such as Akt (PKB). PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=95.51 E-value=0.019 Score=40.40 Aligned_cols=45 Identities=27% Similarity=0.405 Sum_probs=32.3
Q ss_pred ccccccccc--cCCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHH
Q psy17773 9 EIPIILVGT--QDSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQ 55 (165)
Q Consensus 9 ~i~~~~~~~--~~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~ 55 (165)
+||+...+. .......|.|.| |+|+|+|. +.+...+.|+++|++.
T Consensus 41 eIp~s~~~l~v~~~~~~~F~I~T-p~rty~le-D~~~~a~~W~~~I~~~ 87 (89)
T cd01262 41 EIPWSDVELRVEVKNSSHFFVHT-PNKVYSFE-DPKGRASQWKKAIEDL 87 (89)
T ss_pred EecccccceEEEEecCccEEEEC-CCceEEEE-CCCCCHHHHHHHHHHH
Confidence 556654222 122235799999 99999995 5678999999999864
No 64
>cd01221 PH_ephexin Ephexin Pleckstrin homology (PH) domain. Ephexin Pleckstrin homology (PH) domain. Ephexin contains a RhoGEF (DH) followed by a PH domain and an SH3 domain. The ephexin PH domain is believed to act with the DH domain in mediating protein-protein interactions with the Eph receptor. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=95.39 E-value=0.022 Score=42.50 Aligned_cols=33 Identities=15% Similarity=0.387 Sum_probs=27.2
Q ss_pred CcceEEEE-----eCCCCeEEEEeCCHHHHHHHHHHHH
Q psy17773 21 DSFELLIV-----SLDNKQWQFEAANSEERDDWIAAIQ 53 (165)
Q Consensus 21 ~~~~F~iv-----t~~~rt~~fqa~se~E~~~Wi~ai~ 53 (165)
.++.|.|. .+..+.+.|+|+|+.|++.||+|+.
T Consensus 82 ~~~~F~ltLl~N~~gk~~el~L~a~S~sdr~rWi~Al~ 119 (125)
T cd01221 82 RPNLFLLTLLRNADDKQAELLLSADSQSDRERWLSALA 119 (125)
T ss_pred CCceEEEEeeccCCCCEEEEEEECCCHHHHHHHHHhcC
Confidence 46788875 2356789999999999999999984
No 65
>cd01258 PH_syntrophin Syntrophin pleckstrin homology (PH) domain. Syntrophin pleckstrin homology (PH) domain. Syntrophins are peripheral membrane proteins, which associate with the Duchenne muscular dystrophy protein dystrophin and other proteins to form the dystrophin glycoprotein complex (DGC). There are five syntrophin isoforms, alpha1, beta1, beta2, gamma1, and gamma2. They all contain two PH domains, with the N-teminal PH domain interupted by a PDZ domain. The N-terminal PH domain of alpha1syntrophin binds phosphatidylinositol 4,5-bisphosphate. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=94.64 E-value=0.071 Score=38.80 Aligned_cols=35 Identities=11% Similarity=0.188 Sum_probs=31.9
Q ss_pred CCcceEEEEeCCC-CeEEEEeCCHHHHHHHHHHHHH
Q psy17773 20 SDSFELLIVSLDN-KQWQFEAANSEERDDWIAAIQQ 54 (165)
Q Consensus 20 ~~~~~F~ivt~~~-rt~~fqa~se~E~~~Wi~ai~~ 54 (165)
++.+||.|-++.. .+++|..|+..|+..|..||+.
T Consensus 72 ~~~~~F~irtg~~vesh~fsVEt~~dL~~W~raiv~ 107 (108)
T cd01258 72 QRDNCFLIRTGTQVENHYLRVETHRDLASWERALVR 107 (108)
T ss_pred CCceEEEEEcCCceeeEEEEecCHHHHHHHHHHHhc
Confidence 6789999999667 8999999999999999999974
No 66
>cd01231 PH_Lnk LNK-family Pleckstrin homology (PH) domain. LNK-family Pleckstrin homology (PH) domain. The Lnk family of proteins consists of Lnk, APS and SH2B. They are adaptor proteins consisting of a PH domain and an SH2 domain, which mediates signaling through growth factor receptors. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. The lnk family PH domain is likely involved in targeting of the adaptor proteins to the plasma membrane.
Probab=94.61 E-value=0.091 Score=37.87 Aligned_cols=36 Identities=17% Similarity=0.465 Sum_probs=30.9
Q ss_pred CCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHH
Q psy17773 19 DSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQ 54 (165)
Q Consensus 19 ~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~ 54 (165)
.++.++|.+.-.++-.|.|+|.+++++..|+..|+.
T Consensus 71 PD~~nTFvLK~~~~~eyI~Ea~d~~q~~SWla~Ir~ 106 (107)
T cd01231 71 PDNLYTFVLKVDDNTDIIFEVGDEQQLNSWLAELRY 106 (107)
T ss_pred cCcccEEEEEecCCceEEEEcCCHHHHHHHHHHHhc
Confidence 556788998864677999999999999999999874
No 67
>cd01224 PH_Collybistin Collybistin pleckstrin homology (PH) domain. Collybistin pleckstrin homology (PH) domain. Collybistin is GEF which induces submembrane clustering of the receptor-associated peripheral membrane protein gephyrin. It consists of an SH3 domain, followed by a RhoGEF(dbH) and PH domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=94.52 E-value=0.097 Score=38.18 Aligned_cols=33 Identities=21% Similarity=0.386 Sum_probs=28.5
Q ss_pred cceEEEEeCC-CCeEEEEeCCHHHHHHHHHHHHH
Q psy17773 22 SFELLIVSLD-NKQWQFEAANSEERDDWIAAIQQ 54 (165)
Q Consensus 22 ~~~F~ivt~~-~rt~~fqa~se~E~~~Wi~ai~~ 54 (165)
++.|.|+... ++.|.|.|.|++++..||+|+..
T Consensus 72 knafkl~~~~~~~~~~f~~Kt~e~K~~Wm~a~~~ 105 (109)
T cd01224 72 KNSLKIYSESTDEWYLFSFKSAERKHRWLSAFAL 105 (109)
T ss_pred EEEEEEEEcCCCeEEEEEECCHHHHHHHHHHHHH
Confidence 5789999733 57899999999999999999964
No 68
>cd01242 PH_ROK Rok (Rho- associated kinase) pleckstrin homology (PH) domain. Rok (Rho- associated kinase) pleckstrin homology (PH) domain. Rok is a serine/threonine kinase that binds GTP-rho. It consists of a kinase domain, a coiled coil region and a PH domain. The Rok PH domain is interrupted by a C1 domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=94.46 E-value=0.087 Score=38.53 Aligned_cols=39 Identities=13% Similarity=0.309 Sum_probs=32.3
Q ss_pred CCCcceEEEEeCC-CCeEEEEeCCHHHHHHHHHHHHHHHH
Q psy17773 19 DSDSFELLIVSLD-NKQWQFEAANSEERDDWIAAIQQQIL 57 (165)
Q Consensus 19 ~~~~~~F~ivt~~-~rt~~fqa~se~E~~~Wi~ai~~~i~ 57 (165)
.+-++=|.|.+.+ .++.++-|++++|++.|+.+|.+-|.
T Consensus 72 kDiP~IF~I~~~~~~~~lllLA~s~~ek~kWV~~L~~~~~ 111 (112)
T cd01242 72 KEIPKIFQILYANEARDLLLLAPQTDEQNKWVSRLVKKIP 111 (112)
T ss_pred ccCCeEEEEEeCCccceEEEEeCCchHHHHHHHHHHHhcc
Confidence 4446778888855 68999999999999999999987653
No 69
>PF12814 Mcp5_PH: Meiotic cell cortex C-terminal pleckstrin homology; InterPro: IPR024774 This pleckstrin homology domain is found in eukaryotic proteins, including Mcp5, a fungal protein that anchors dynein at the cell cortex during the horsetail phase (prophase I) of meiosis. During prophase I of fission yeast all the telomeres become bundled at the spindle pole body and subsequently the nucleus undergoes a dynamic oscillation, resulting in elongated nuclear morphology known as "horsetail" nucleus. The pleckstrin homology domain is necessary for the cortical localisation of the Mcp5 protein during meiosis [].; GO: 0005515 protein binding, 0032065 cortical protein anchoring, 0005938 cell cortex
Probab=94.32 E-value=0.1 Score=38.44 Aligned_cols=33 Identities=18% Similarity=0.466 Sum_probs=30.2
Q ss_pred CcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHH
Q psy17773 21 DSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQ 54 (165)
Q Consensus 21 ~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~ 54 (165)
-.++|.|+| ++|+..|.|++.++.+-|+.+|+.
T Consensus 87 ~~~si~i~t-~~R~L~l~a~s~~~~~~W~~aL~~ 119 (123)
T PF12814_consen 87 HNKSIIIVT-PDRSLDLTAPSRERHEIWFNALRY 119 (123)
T ss_pred cceEEEEEc-CCeEEEEEeCCHHHHHHHHHHHHH
Confidence 468999998 899999999999999999999975
No 70
>cd01256 PH_dynamin Dynamin pleckstrin homology (PH) domain. Dynamin pleckstrin homology (PH) domain. Dynamin is a GTPase that regulates endocytic vesicle formation. It has an N-terminal GTPase domain, followed by a PH domain, a GTPase effector domain and a C-terminal proline arginine rich domain. Dynamin-like proteins, which are found in metazoa, plants and yeast have the same domain architecture as dynamin, but lack the PH domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=94.19 E-value=0.096 Score=37.76 Aligned_cols=53 Identities=25% Similarity=0.404 Sum_probs=37.2
Q ss_pred CCCCCCCcc------ccccccccc------CCCcceEEEEeCCC-------CeEEEEeCCHHHHHHHHHHHH
Q psy17773 1 MSHYRNAAE------IPIILVGTQ------DSDSFELLIVSLDN-------KQWQFEAANSEERDDWIAAIQ 53 (165)
Q Consensus 1 ~s~y~~~~~------i~~~~~~~~------~~~~~~F~ivt~~~-------rt~~fqa~se~E~~~Wi~ai~ 53 (165)
|+||+...+ ||+.-..++ ..++|+|++..|.+ |+..+.|+|.+|.+.|...+=
T Consensus 31 L~wykd~eeKE~kyilpLdnLk~Rdve~gf~sk~~~FeLfnpd~rnvykd~k~lel~~~~~e~vdswkasfl 102 (110)
T cd01256 31 LSWYKDDEEKEKKYMLPLDGLKLRDIEGGFMSRNHKFALFYPDGRNVYKDYKQLELGCETLEEVDSWKASFL 102 (110)
T ss_pred eeeecccccccccceeeccccEEEeecccccCCCcEEEEEcCcccccccchheeeecCCCHHHHHHHHHHHH
Confidence 456665542 355444443 56779999997443 477899999999999998763
No 71
>cd01248 PH_PLC Phospholipase C (PLC) pleckstrin homology (PH) domain. Phospholipase C (PLC) pleckstrin homology (PH) domain. There are several isozymes of PLC (beta, gamma, delta, epsilon. zeta). While, PLC beta, gamma and delta all have N-terminal PH domains, lipid binding specificity is not conserved between them. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=94.02 E-value=0.14 Score=36.93 Aligned_cols=34 Identities=21% Similarity=0.358 Sum_probs=29.5
Q ss_pred CCcceEEEEeCCC---CeEEEEeCCHHHHHHHHHHHH
Q psy17773 20 SDSFELLIVSLDN---KQWQFEAANSEERDDWIAAIQ 53 (165)
Q Consensus 20 ~~~~~F~ivt~~~---rt~~fqa~se~E~~~Wi~ai~ 53 (165)
....||.|+.+++ ++.+|-|+|+++.+.|++.|.
T Consensus 77 ~e~~~fTIiy~~~~~~k~L~lVA~s~~~a~~W~~gL~ 113 (115)
T cd01248 77 LEERCFTIVYGTDLNLKSLDLVAPSEEEAKTWVSGLR 113 (115)
T ss_pred ccccEEEEEECCCCCeeEEEEEECCHHHHHHHHHHHh
Confidence 4468999998665 689999999999999999986
No 72
>cd01227 PH_Dbs Dbs (DBL's big sister) pleckstrin homology (PH) domain. Dbs (DBL's big sister) pleckstrin homology (PH) domain. Dbs is a guanine nucleotide exchange factor (GEF), which contains spectrin repeats, a rhoGEF (DH) domain and a PH domain. The Dbs PH domain participates in binding to both the Cdc42 and RhoA GTPases. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=93.48 E-value=0.3 Score=36.80 Aligned_cols=40 Identities=18% Similarity=0.332 Sum_probs=31.0
Q ss_pred CCCcceEEEEeCC-CCeEEEEeCCHHHHHHHHHHHHHHHHH
Q psy17773 19 DSDSFELLIVSLD-NKQWQFEAANSEERDDWIAAIQQQILS 58 (165)
Q Consensus 19 ~~~~~~F~ivt~~-~rt~~fqa~se~E~~~Wi~ai~~~i~~ 58 (165)
.++...|+|-+.. ..+|.+||.|.+.++.|+..|..-+..
T Consensus 77 ~gd~~kFeiw~~~~~~~yilqA~t~e~K~~Wv~~I~~iL~~ 117 (133)
T cd01227 77 KGDTKKFEIWYNAREEVYILQAPTPEIKAAWVNEIRKVLTS 117 (133)
T ss_pred CCCccEEEEEeCCCCcEEEEEcCCHHHHHHHHHHHHHHHHH
Confidence 3446678776633 559999999999999999999875544
No 73
>KOG0690|consensus
Probab=93.21 E-value=0.28 Score=42.86 Aligned_cols=66 Identities=21% Similarity=0.302 Sum_probs=38.4
Q ss_pred CCCcceEEEEeCCC---CeEEEEeCCHHHHHHHHHHHHHHHHHhHHHHHHHHHHhhCCCCCCCCCCCCCCC
Q psy17773 19 DSDSFELLIVSLDN---KQWQFEAANSEERDDWIAAIQQQILSSLQTASLQSIRSRVPGNLTCADCAEAGP 86 (165)
Q Consensus 19 ~~~~~~F~ivt~~~---rt~~fqa~se~E~~~Wi~ai~~~i~~~l~~~~l~~l~~~~~~N~~CaDCg~~~p 86 (165)
..+++.|.|-...= =...|.++|++||++|+.|||..- ..+.++.+-..-. .|....=++||++..
T Consensus 76 rPrPntFiiRcLQWTTVIERTF~ves~~eRq~W~~AIq~vs-n~l~q~e~~~tn~-~p~~~~d~~~~s~s~ 144 (516)
T KOG0690|consen 76 RPRPNTFIIRCLQWTTVIERTFYVESAEERQEWIEAIQAVS-NRLKQEELMDTNG-NPEGEMDVNMGSPSD 144 (516)
T ss_pred CCCCceEEEEeeeeeeeeeeeeecCCHHHHHHHHHHHHHHh-hhhhhhhhcccCC-CccccccccCCCCCc
Confidence 45567787653210 123577999999999999998643 3343332222222 344444556666654
No 74
>cd01225 PH_Cool_Pix Cool (cloned out of library)/Pix (PAK-interactive exchange factor) pleckstrin homology (PH) domain. Cool (cloned out of library)/Pix (PAK-interactive exchange factor) pleckstrin homology (PH) domain. Cool/Pix contains an N-terminal SH3 domain followed by a RhoGEF (DH) and PH domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=93.15 E-value=0.23 Score=36.33 Aligned_cols=55 Identities=9% Similarity=0.168 Sum_probs=38.7
Q ss_pred CCCCCCccccccccccc-----CCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHH
Q psy17773 2 SHYRNAAEIPIILVGTQ-----DSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQI 56 (165)
Q Consensus 2 s~y~~~~~i~~~~~~~~-----~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i 56 (165)
|.|+=+-.+|+.--.+. .+.++.|+|..+---+..+-|.+.+|.++|+..|+..+
T Consensus 50 sGf~yqGkLPL~~i~v~~lEd~e~~~~aFeI~G~li~~i~v~C~~~~e~~~Wl~hL~~~~ 109 (111)
T cd01225 50 SGFIYQGKLPLTGIIVTRLEDTEALKNAFEISGPLIERIVVVCNNPQDAQEWVELLNANN 109 (111)
T ss_pred cceEEeeeecccccEEechHhccCccceEEEeccCcCcEEEEeCCHHHHHHHHHHHHhhc
Confidence 34444445666544442 44469999986333567999999999999999998754
No 75
>PF08458 PH_2: Plant pleckstrin homology-like region; InterPro: IPR013666 This domain describes a pleckstrin homology (PH)-like region found in several plant proteins of unknown function.
Probab=92.19 E-value=0.45 Score=34.76 Aligned_cols=37 Identities=16% Similarity=0.302 Sum_probs=31.9
Q ss_pred CCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHHH
Q psy17773 20 SDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQIL 57 (165)
Q Consensus 20 ~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i~ 57 (165)
++++.|.|.| ......|.|+|..+.+.|++.|+.-+.
T Consensus 68 ~~~~yfgL~T-~~G~vEfec~~~~~~k~W~~gI~~mL~ 104 (110)
T PF08458_consen 68 EERRYFGLKT-AQGVVEFECDSQREYKRWVQGIQHMLS 104 (110)
T ss_pred ceEEEEEEEe-cCcEEEEEeCChhhHHHHHHHHHHHHH
Confidence 3568899998 688999999999999999999986443
No 76
>cd01243 PH_MRCK MRCK (myotonic dystrophy-related Cdc42-binding kinase) pleckstrin homology (PH) domain. MRCK (myotonic dystrophy-related Cdc42-binding kinase) pleckstrin homology (PH) domain. MRCK consists of a serine/threonine kinase domain, a cysteine rich (C1) region, a PH domain and a p21 binding motif. It has been shown to promote cytoskeletal reorganization, which affects many biological processes. The MRCK PH domain is responsible for its targeting to cell to cell junctions. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=92.05 E-value=0.34 Score=35.98 Aligned_cols=36 Identities=14% Similarity=0.255 Sum_probs=28.0
Q ss_pred CCCcceEEEEeC------CCCeEEEEeCCHHHHHHHHHHHHH
Q psy17773 19 DSDSFELLIVSL------DNKQWQFEAANSEERDDWIAAIQQ 54 (165)
Q Consensus 19 ~~~~~~F~ivt~------~~rt~~fqa~se~E~~~Wi~ai~~ 54 (165)
.+-++=|.|.+. +.++.+|-|+|+.|++.|+.||++
T Consensus 76 kDiP~If~I~~~~~~~~~~~~~~~~lA~s~~eK~kWV~aL~~ 117 (122)
T cd01243 76 KDIPCIFRVTTSQISASSSKCSTLMLADTEEEKSKWVGALSE 117 (122)
T ss_pred ccCCeEEEEEEecccCCCCccEEEEEeCCchHHHHHHHHHHH
Confidence 344566777652 247889999999999999999975
No 77
>PF15405 PH_5: Pleckstrin homology domain; PDB: 2Z0Q_A.
Probab=91.93 E-value=0.3 Score=36.69 Aligned_cols=35 Identities=17% Similarity=0.463 Sum_probs=24.9
Q ss_pred CcceEEEEeCC--CCeEEEEeCCHHHHHHHHHHHHHH
Q psy17773 21 DSFELLIVSLD--NKQWQFEAANSEERDDWIAAIQQQ 55 (165)
Q Consensus 21 ~~~~F~ivt~~--~rt~~fqa~se~E~~~Wi~ai~~~ 55 (165)
..|.|.+.-.. +.+|.|.|+|+.+|+.|++.|+++
T Consensus 98 ~~yp~~~~hlG~~~~~~TLyA~s~~~R~~W~e~I~~q 134 (135)
T PF15405_consen 98 SLYPFTFRHLGRKGYSYTLYASSAQARQKWLEKIEEQ 134 (135)
T ss_dssp SEEEEEE---GGG-EEEEEE-SSHHHHHHHHHHHHHH
T ss_pred CccCEEEEEcCCCceEEEEEeCCHHHHHHHHHHHHhc
Confidence 34778875422 346799999999999999999864
No 78
>KOG2059|consensus
Probab=91.47 E-value=0.29 Score=45.89 Aligned_cols=34 Identities=21% Similarity=0.397 Sum_probs=30.7
Q ss_pred CcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHH
Q psy17773 21 DSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQ 55 (165)
Q Consensus 21 ~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~ 55 (165)
.+++|+||. ++|+.++||.+-.|..+|+++|++.
T Consensus 630 ~knv~qVV~-~drtly~Q~~n~vEandWldaL~kv 663 (800)
T KOG2059|consen 630 MKNVFQVVH-TDRTLYVQAKNCVEANDWLDALRKV 663 (800)
T ss_pred CCceEEEEe-cCcceeEecCCchHHHHHHHHHHHH
Confidence 357999999 7799999999999999999999864
No 79
>cd01239 PH_PKD Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain. Protein kinase D (PKD/PKCmu) pleckstrin homology (PH) domain. PKD consists of 2 C1 domains, followed by a PH domain and a kinase domain. While the PKD PH domain has not been shown to bind phosphorylated inositol lipids and is not required for membrane translocation, it is required for nuclear export. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=90.14 E-value=0.5 Score=34.80 Aligned_cols=35 Identities=17% Similarity=0.302 Sum_probs=27.2
Q ss_pred CCcceEEEEeCCCCeEEEEeCC--------------------HHHHHHHHHHHHHH
Q psy17773 20 SDSFELLIVSLDNKQWQFEAAN--------------------SEERDDWIAAIQQQ 55 (165)
Q Consensus 20 ~~~~~F~ivt~~~rt~~fqa~s--------------------e~E~~~Wi~ai~~~ 55 (165)
...+||+|+| .+.+|+.+.+. .+..+.|-.||++|
T Consensus 63 ~~~hcFEi~T-~~~vY~VG~~~~~~~~~~~~~~~~~~~sg~g~~~a~~We~aI~qA 117 (117)
T cd01239 63 HPPHCFEIRT-TTNVYFVGGEDYHAFSGGPPKKIPPSDSGRGSDNAQSWETAIRQA 117 (117)
T ss_pred CCCcEEEEEe-cCEEEEecccccccCCCcccCCCCcccccchhHHHHHHHHHHhcC
Confidence 4579999999 89999997752 34568899988753
No 80
>KOG3551|consensus
Probab=89.88 E-value=0.98 Score=39.94 Aligned_cols=55 Identities=27% Similarity=0.421 Sum_probs=44.4
Q ss_pred Cccccccccccc------CCCcceEEEEeCCCC-eEEEEeCCHHHHHHHHHHHHHHHHHhHH
Q psy17773 7 AAEIPIILVGTQ------DSDSFELLIVSLDNK-QWQFEAANSEERDDWIAAIQQQILSSLQ 61 (165)
Q Consensus 7 ~~~i~~~~~~~~------~~~~~~F~ivt~~~r-t~~fqa~se~E~~~Wi~ai~~~i~~~l~ 61 (165)
.-.||+.++-+. +...-+|+|-||++| |..+.|.+.++.+.|-.||+.++...+.
T Consensus 215 ~k~IpLKm~yvaR~~~~~DpEnR~lEihSpdg~~tliLR~kdsa~A~~Wf~AiHa~v~~ll~ 276 (506)
T KOG3551|consen 215 RKTIPLKMAYVARNLIDADPENRQLEIHSPDGRHTLILRAKDSAEADSWFEAIHANVNTLLT 276 (506)
T ss_pred ccccchhhHHHHhhCCCCCcccceeeeeCCCCcceEEEEccCcHHHHHHHHHHHHHHhhHHH
Confidence 346777776663 556678999996655 8899999999999999999998877664
No 81
>PF15404 PH_4: Pleckstrin homology domain
Probab=86.72 E-value=0.73 Score=36.61 Aligned_cols=34 Identities=32% Similarity=0.530 Sum_probs=26.5
Q ss_pred cceEEEEe---CCCCeEEEEeCCHHHHHHHHHHHHHH
Q psy17773 22 SFELLIVS---LDNKQWQFEAANSEERDDWIAAIQQQ 55 (165)
Q Consensus 22 ~~~F~ivt---~~~rt~~fqa~se~E~~~Wi~ai~~~ 55 (165)
+-.+..|+ .++|++.|.|.|-.||+.|+-+|...
T Consensus 148 ~~~~~~v~~Lg~~gks~VF~ARSRqERD~WV~~I~~E 184 (185)
T PF15404_consen 148 PNKIKMVSRLGVSGKSMVFMARSRQERDLWVLAINTE 184 (185)
T ss_pred cCcceeccccCCCCcEEEEEeccHHHHHHHHHHHHhc
Confidence 34455443 14889999999999999999999754
No 82
>PRK12495 hypothetical protein; Provisional
Probab=83.37 E-value=3.5 Score=33.68 Aligned_cols=30 Identities=20% Similarity=0.355 Sum_probs=25.0
Q ss_pred CCCCCCCCCCCCCCCCeeeecccceeeecccccc
Q psy17773 72 VPGNLTCADCAEAGPTWASLNLGLLLCIQCCGVH 105 (165)
Q Consensus 72 ~~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iH 105 (165)
...+..|.+||.|=|.. -|+..|..|..+-
T Consensus 39 tmsa~hC~~CG~PIpa~----pG~~~Cp~CQ~~~ 68 (226)
T PRK12495 39 TMTNAHCDECGDPIFRH----DGQEFCPTCQQPV 68 (226)
T ss_pred ccchhhcccccCcccCC----CCeeECCCCCCcc
Confidence 67889999999998832 5999999998653
No 83
>cd01234 PH_CADPS CADPS (Ca2+-dependent activator protein) Pleckstrin homology (PH) domain. CADPS (Ca2+-dependent activator protein) Pleckstrin homology (PH) domain. CADPS is a calcium-dependent activator involved in secretion. It contains a central PH domain that binds to phosphoinositide 4,5 bisphosphate containing liposomes. However, membrane association may also be mediated by binding to phosphatidlyserine via general electrostatic interactions. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=81.62 E-value=2.2 Score=31.09 Aligned_cols=36 Identities=17% Similarity=0.375 Sum_probs=29.9
Q ss_pred CCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHH
Q psy17773 20 SDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQI 56 (165)
Q Consensus 20 ~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i 56 (165)
..+|=|..|- -+-+..|..++|.||..||+|+-.+-
T Consensus 75 gg~~ff~avk-egd~~~fa~~de~~r~lwvqa~yrat 110 (117)
T cd01234 75 GGRHFFNAVK-EGDELKFATDDENERHLWVQAMYRAT 110 (117)
T ss_pred cchhhhheec-cCcEEEEeccchHHHHHHHHHHHHHc
Confidence 3467788886 67789999999999999999996553
No 84
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=81.41 E-value=1.1 Score=26.14 Aligned_cols=33 Identities=18% Similarity=0.330 Sum_probs=28.3
Q ss_pred CCCCCCCCCCCCCeeeecccceeeeccccc-ccc
Q psy17773 75 NLTCADCAEAGPTWASLNLGLLLCIQCCGV-HRC 107 (165)
Q Consensus 75 N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~i-HR~ 107 (165)
+..|..|+.....+...+-++++|..|... |+.
T Consensus 3 ~~~C~~H~~~~~~~~C~~C~~~~C~~C~~~~H~~ 36 (42)
T PF00643_consen 3 EPKCPEHPEEPLSLFCEDCNEPLCSECTVSGHKG 36 (42)
T ss_dssp SSB-SSTTTSBEEEEETTTTEEEEHHHHHTSTTT
T ss_pred CccCccCCccceEEEecCCCCccCccCCCCCCCC
Confidence 568999998888899999999999999977 886
No 85
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=81.25 E-value=1 Score=26.87 Aligned_cols=27 Identities=26% Similarity=0.546 Sum_probs=20.0
Q ss_pred CCCCCCCCCCCeeeecccceeeeccccc
Q psy17773 77 TCADCAEAGPTWASLNLGLLLCIQCCGV 104 (165)
Q Consensus 77 ~CaDCg~~~p~w~s~n~Gv~lC~~Cs~i 104 (165)
.|..||+.. .-..-.-|-++|..|..|
T Consensus 2 ~Cp~Cg~~~-~~~D~~~g~~vC~~CG~V 28 (43)
T PF08271_consen 2 KCPNCGSKE-IVFDPERGELVCPNCGLV 28 (43)
T ss_dssp SBTTTSSSE-EEEETTTTEEEETTT-BB
T ss_pred CCcCCcCCc-eEEcCCCCeEECCCCCCE
Confidence 589999976 344556799999999654
No 86
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=80.80 E-value=0.5 Score=27.36 Aligned_cols=27 Identities=22% Similarity=0.595 Sum_probs=16.9
Q ss_pred CCCCCCCCC-CCCeeeecccceeeeccc
Q psy17773 76 LTCADCAEA-GPTWASLNLGLLLCIQCC 102 (165)
Q Consensus 76 ~~CaDCg~~-~p~w~s~n~Gv~lC~~Cs 102 (165)
..|.+||++ .-+|..-+|+.-+|..|.
T Consensus 4 ~~C~eC~~~f~dSyL~~~F~~~VCD~CR 31 (34)
T PF01286_consen 4 PKCDECGKPFMDSYLLNNFDLPVCDKCR 31 (34)
T ss_dssp EE-TTT--EES-SSCCCCTS-S--TTT-
T ss_pred chHhHhCCHHHHHHHHHhCCcccccccc
Confidence 479999997 568999999999999995
No 87
>KOG3549|consensus
Probab=80.42 E-value=3.1 Score=36.48 Aligned_cols=40 Identities=20% Similarity=0.276 Sum_probs=35.8
Q ss_pred CCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHHHH
Q psy17773 19 DSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQILS 58 (165)
Q Consensus 19 ~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i~~ 58 (165)
+.|++||.|.+..++..+|..+.+.|.-.|-.++|.++..
T Consensus 349 D~R~~CF~~qs~~ge~~yfsVEl~seLa~wE~sfq~Atf~ 388 (505)
T KOG3549|consen 349 DSRQHCFLLQSSGGEPRYFSVELRSELARWENSFQAATFT 388 (505)
T ss_pred ccccceEEEEcCCCCceEEEEehhhHHHHHHHHHhhHHhH
Confidence 6778999999978999999999999999999999877643
No 88
>PRK00085 recO DNA repair protein RecO; Reviewed
Probab=79.87 E-value=0.85 Score=36.81 Aligned_cols=34 Identities=24% Similarity=0.351 Sum_probs=27.6
Q ss_pred CCCCCCCCCCCCCCC-Ceeeecccceeeecccccc
Q psy17773 72 VPGNLTCADCAEAGP-TWASLNLGLLLCIQCCGVH 105 (165)
Q Consensus 72 ~~~N~~CaDCg~~~p-~w~s~n~Gv~lC~~Cs~iH 105 (165)
.|.-..|+-||.+.. .|.+..-|.++|..|...|
T Consensus 146 ~p~l~~C~~Cg~~~~~~~f~~~~gg~~c~~c~~~~ 180 (247)
T PRK00085 146 GLDLDHCAVCGAPGDHRYFSPKEGGAVCSECGDPY 180 (247)
T ss_pred ccchhhHhcCCCCCCceEEecccCCcccccccCcc
Confidence 555668999998754 7889999999999997433
No 89
>KOG1117|consensus
Probab=79.74 E-value=3.6 Score=39.93 Aligned_cols=56 Identities=18% Similarity=0.297 Sum_probs=41.5
Q ss_pred CCCCCCCcc-ccccccccc---------C------CCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHH
Q psy17773 1 MSHYRNAAE-IPIILVGTQ---------D------SDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQI 56 (165)
Q Consensus 1 ~s~y~~~~~-i~~~~~~~~---------~------~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i 56 (165)
||||++... .|.++-.+. . .-.|.|+|..+.+|.|+|-+++.++...|..++-+..
T Consensus 530 ls~fen~~S~tP~~lI~~~Eivclav~~pd~~pn~~~~f~fE~~l~~er~~~fgle~ad~l~~wt~aiaKhf 601 (1186)
T KOG1117|consen 530 LSYFENEKSTTPNGLININEIVCLAVHPPDTYPNTGFIFIFEIYLPGERVFLFGLETADALRKWTEAIAKHF 601 (1186)
T ss_pred hhhhhhcCCCCCCceeeccceEEEeecCCCCCCCcCceeEEEEeecccceEEeecccHHHHHHHHHHHHHhc
Confidence 578887763 344443331 1 1137899999779999999999999999999997643
No 90
>COG1734 DksA DnaK suppressor protein [Signal transduction mechanisms]
Probab=79.57 E-value=1.6 Score=32.33 Aligned_cols=34 Identities=24% Similarity=0.408 Sum_probs=23.0
Q ss_pred CCCCCCCCCCCCCC-Ceeeecccceeeeccccccc
Q psy17773 73 PGNLTCADCAEAGP-TWASLNLGLLLCIQCCGVHR 106 (165)
Q Consensus 73 ~~N~~CaDCg~~~p-~w~s~n~Gv~lC~~Cs~iHR 106 (165)
..-..|.+||.+=| .=.-..-+..+|+.|...|-
T Consensus 78 gtYG~Ce~cG~~Ip~~RL~A~P~A~~Ci~cQ~~~E 112 (120)
T COG1734 78 GTYGICEECGEPIPEARLEARPTARLCIECQERAE 112 (120)
T ss_pred CCccchhccCCcCCHHHHhhCcchHHHHHHHHHHH
Confidence 55568999998732 22233347788999987653
No 91
>KOG0689|consensus
Probab=77.90 E-value=7.3 Score=35.03 Aligned_cols=65 Identities=20% Similarity=0.254 Sum_probs=43.2
Q ss_pred CCCcceEEEEeCCCC----eEEEEeCCHHHHHHHHHHHHHHHHHh--HHH--HHHHHHHhhCCCCCCCCCCCCC
Q psy17773 19 DSDSFELLIVSLDNK----QWQFEAANSEERDDWIAAIQQQILSS--LQT--ASLQSIRSRVPGNLTCADCAEA 84 (165)
Q Consensus 19 ~~~~~~F~ivt~~~r----t~~fqa~se~E~~~Wi~ai~~~i~~~--l~~--~~l~~l~~~~~~N~~CaDCg~~ 84 (165)
.+..-.|+|.. ..+ +|.+||-|.++.+.|+.+|..-...- +.+ .......+...+|+.|-||...
T Consensus 320 ~~s~~rF~i~~-r~~~~~~~~vlqa~s~~~k~~W~~~i~~~l~~Q~a~~n~~~~p~~~~s~~~~~~~~~~~~~~ 392 (448)
T KOG0689|consen 320 DNSASRFEIWF-RGRKKREAYVLQAGSKEIKYAWTRAISSLLWQQKALLNKLVRPARYESMESGNKSLSDIAPL 392 (448)
T ss_pred CCCCcchhhhh-hcccccceeEEeeCCHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHhhhcccccccccCCCC
Confidence 34455677765 444 59999999999999999987543322 111 1223344446689999888866
No 92
>TIGR02419 C4_traR_proteo phage/conjugal plasmid C-4 type zinc finger protein, TraR family. Members of this family are putative C4-type zinc finger proteins found almost exclusively in prophage regions, actual phage, or conjugal transfer regions of the Proteobactia. This small protein (about 70 amino acids) appears homologous to but is smaller than DksA (DnaK suppressor protein), found to be critical for regulating transcription of ribosomal RNA.
Probab=77.88 E-value=1.5 Score=28.71 Aligned_cols=34 Identities=26% Similarity=0.549 Sum_probs=23.6
Q ss_pred CCCCCCCCCCCCCCC-Ceeeecccceeeecccccc
Q psy17773 72 VPGNLTCADCAEAGP-TWASLNLGLLLCIQCCGVH 105 (165)
Q Consensus 72 ~~~N~~CaDCg~~~p-~w~s~n~Gv~lC~~Cs~iH 105 (165)
.++...|.|||.+=| .=.-..-|+..|+.|...+
T Consensus 28 ~~s~g~C~~Cg~~Ip~~Rl~a~p~~~~Cv~Cq~~~ 62 (63)
T TIGR02419 28 GPSLRECEDCGEPIPEARREALPGVTRCVSCQEIL 62 (63)
T ss_pred CCCCCeeccCCCcChHHHHhhcCCcCCcHHHHhhc
Confidence 577889999998743 1212234888899997654
No 93
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=75.97 E-value=5.2 Score=24.17 Aligned_cols=30 Identities=20% Similarity=0.498 Sum_probs=23.5
Q ss_pred CCCCCCCCCCCCCCCCeeeecccceeeeccc
Q psy17773 72 VPGNLTCADCAEAGPTWASLNLGLLLCIQCC 102 (165)
Q Consensus 72 ~~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs 102 (165)
.|+.-+|.-||+..+.++. +.+.+-|..|.
T Consensus 15 W~~g~~CP~Cg~~~~~~~~-~~~~~~C~~C~ 44 (46)
T PF12760_consen 15 WPDGFVCPHCGSTKHYRLK-TRGRYRCKACR 44 (46)
T ss_pred CCCCCCCCCCCCeeeEEeC-CCCeEECCCCC
Confidence 6777889999999665554 36889998885
No 94
>PRK11019 hypothetical protein; Provisional
Probab=73.92 E-value=1.1 Score=31.44 Aligned_cols=39 Identities=23% Similarity=0.410 Sum_probs=26.3
Q ss_pred CCCCCCCCCCCCCCC--CeeeecccceeeeccccccccCCCc
Q psy17773 72 VPGNLTCADCAEAGP--TWASLNLGLLLCIQCCGVHRCLGAH 111 (165)
Q Consensus 72 ~~~N~~CaDCg~~~p--~w~s~n~Gv~lC~~Cs~iHR~lg~~ 111 (165)
.++...|.|||.+=| .+.- --++..|++|...+-..+.+
T Consensus 33 g~syg~C~~CG~~Ip~~Rl~A-~P~a~~Cv~Cq~~~E~~~k~ 73 (88)
T PRK11019 33 GESLTECEECGEPIPEARRKA-IPGVRLCVACQQEKDLQQAA 73 (88)
T ss_pred CCcCCeeCcCCCcCcHHHHhh-cCCccccHHHHHHHHHHHhH
Confidence 445679999999744 2322 23888999999876544333
No 95
>smart00401 ZnF_GATA zinc finger binding to DNA consensus sequence [AT]GATA[AG].
Probab=72.89 E-value=3.4 Score=25.84 Aligned_cols=37 Identities=24% Similarity=0.544 Sum_probs=29.8
Q ss_pred CCCCCCCCCCC-CCCeeeecccc-eeeeccccccccCCC
Q psy17773 74 GNLTCADCAEA-GPTWASLNLGL-LLCIQCCGVHRCLGA 110 (165)
Q Consensus 74 ~N~~CaDCg~~-~p~w~s~n~Gv-~lC~~Cs~iHR~lg~ 110 (165)
....|..|+.. .|.|=.-..|- +||-.|.-..+..|.
T Consensus 2 ~~~~C~~C~~~~T~~WR~g~~g~~~LCnaCgl~~~k~~~ 40 (52)
T smart00401 2 SGRSCSNCGTTETPLWRRGPSGNKTLCNACGLYYKKHGG 40 (52)
T ss_pred CCCCcCCCCCCCCCccccCCCCCCcEeecccHHHHHcCC
Confidence 45789999986 68898878886 999999887776554
No 96
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=72.73 E-value=2.8 Score=24.41 Aligned_cols=27 Identities=26% Similarity=0.642 Sum_probs=22.0
Q ss_pred CCCCCCCCCCCCCCeeeecccceeeecccc
Q psy17773 74 GNLTCADCAEAGPTWASLNLGLLLCIQCCG 103 (165)
Q Consensus 74 ~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~ 103 (165)
-+..|..|++. |...+=|-+.|..|-.
T Consensus 7 ~~~~C~~C~~~---~~~~~dG~~yC~~cG~ 33 (36)
T PF11781_consen 7 PNEPCPVCGSR---WFYSDDGFYYCDRCGH 33 (36)
T ss_pred CCCcCCCCCCe---EeEccCCEEEhhhCce
Confidence 45569999998 7777889999999853
No 97
>TIGR02890 spore_yteA sporulation protein, yteA family. Members of this predicted regulatory protein are found only in endospore-forming members of the Firmicutes group of bacteria, and in nearly every such species; Clostridium perfringens seems to be an exception. The member from Bacillus subtilis, the model system for the study of the sporulation program, has been designated both yteA and yzwB. Some (but not all) members of this family show a strong sequence match to PFAM family pfam01258 the C4-type zinc finger protein, DksA/TraR family, but only one of the four key Cys residues is conserved. All members of this protein family share an additional C-terminal domain. The function of proteins in this family is unknown. YteA was detected in mature spores of Bacillus subtilis by Kuwana, et al., and appears to be expressed under control of sigma-K.
Probab=71.21 E-value=3.9 Score=31.63 Aligned_cols=44 Identities=16% Similarity=0.240 Sum_probs=27.9
Q ss_pred HHHHHHHHhhCCCCCCCCCCCCC-CCCeeeecccceeeecccccccc
Q psy17773 62 TASLQSIRSRVPGNLTCADCAEA-GPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 62 ~~~l~~l~~~~~~N~~CaDCg~~-~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
..+|..|.. ..-..|.+||.+ .+.=.-+.-.+..|+.|+..+-.
T Consensus 75 e~AL~Ri~~--G~YG~Ce~CGe~I~~~RL~a~P~a~~Ci~Cq~~~E~ 119 (159)
T TIGR02890 75 EHALQKIEN--GTYGICEVCGKPIPYERLEAIPTATTCVECQNRKEV 119 (159)
T ss_pred HHHHHHHhC--CCCCeecccCCcccHHHHhhCCCcchhHHHHHHhhh
Confidence 456666644 566689999987 22222222366789999986643
No 98
>PRK13715 conjugal transfer protein TraR; Provisional
Probab=70.90 E-value=2.6 Score=28.42 Aligned_cols=34 Identities=21% Similarity=0.522 Sum_probs=22.6
Q ss_pred CCCCCCCCCCCCCC-Ceeeecccceeeeccccccc
Q psy17773 73 PGNLTCADCAEAGP-TWASLNLGLLLCIQCCGVHR 106 (165)
Q Consensus 73 ~~N~~CaDCg~~~p-~w~s~n~Gv~lC~~Cs~iHR 106 (165)
.+...|.|||.+=| .=.-.--|+..|+.|...+-
T Consensus 32 ~~~~~C~~Cg~~Ip~~Rl~a~p~~~~Cv~Cq~~~E 66 (73)
T PRK13715 32 IPVYLCEACGNPIPEARRKIFPGVTLCVECQAYQE 66 (73)
T ss_pred CCcccHhhcCCcCCHHHHhcCCCcCCCHHHHHHHH
Confidence 34468999998743 22222348889999987553
No 99
>PF00320 GATA: GATA zinc finger; InterPro: IPR000679 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents GATA-type zinc fingers (Znf). A number of transcription factors (including erythroid-specific transcription factor and nitrogen regulatory proteins), specifically bind the DNA sequence (A/T)GATA(A/G) [] in the regulatory regions of genes. They are consequently termed GATA-binding transcription factors. The interactions occur via highly-conserved Znf domains in which the zinc ion is coordinated by 4 cysteine residues [, ]. NMR studies have shown the core of the Znf to comprise 2 irregular anti-parallel beta-sheets and an alpha-helix, followed by a long loop to the C-terminal end of the finger. The N-terminal part, which includes the helix, is similar in structure, but not sequence, to the N-terminal zinc module of the glucocorticoid receptor DNA-binding domain. The helix and the loop connecting the 2 beta-sheets interact with the major groove of the DNA, while the C-terminal tail wraps around into the minor groove. It is this tail that is the essential determinant of specific binding. Interactions between the Znf and DNA are mainly hydrophobic, explaining the preponderance of thymines in the binding site; a large number of interactions with the phosphate backbone have also been observed []. Two GATA zinc fingers are found in the GATA transcription factors. However there are several proteins which only contains a single copy of the domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0008270 zinc ion binding, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 3GAT_A 2GAT_A 1GAU_A 1GAT_A 1Y0J_A 1GNF_A 2L6Z_A 2L6Y_A 3DFV_D 3DFX_B ....
Probab=70.53 E-value=1.9 Score=24.90 Aligned_cols=32 Identities=28% Similarity=0.637 Sum_probs=22.8
Q ss_pred CCCCCCC-CCCeeeecccce-eeeccccccccCC
Q psy17773 78 CADCAEA-GPTWASLNLGLL-LCIQCCGVHRCLG 109 (165)
Q Consensus 78 CaDCg~~-~p~w~s~n~Gv~-lC~~Cs~iHR~lg 109 (165)
|..|+.. .|.|=....|-. ||-.|.-.+|..|
T Consensus 1 C~~C~tt~t~~WR~~~~g~~~LCn~Cg~~~kk~~ 34 (36)
T PF00320_consen 1 CSNCGTTETPQWRRGPNGNRTLCNACGLYYKKYG 34 (36)
T ss_dssp -TTT--ST-SSEEEETTSEE-EEHHHHHHHHHHS
T ss_pred CcCCcCCCCchhhcCCCCCCHHHHHHHHHHHHhC
Confidence 7899986 789998888887 9999987766543
No 100
>TIGR00613 reco DNA repair protein RecO. All proteins in this family for which functions are known are DNA binding proteins that are involved in the initiation of recombination or recombinational repair.
Probab=70.13 E-value=3.7 Score=32.91 Aligned_cols=33 Identities=27% Similarity=0.433 Sum_probs=27.2
Q ss_pred CCCCCCCCCCCCCCC-Ceeeecccceeeeccccc
Q psy17773 72 VPGNLTCADCAEAGP-TWASLNLGLLLCIQCCGV 104 (165)
Q Consensus 72 ~~~N~~CaDCg~~~p-~w~s~n~Gv~lC~~Cs~i 104 (165)
.|.-..|+.||..++ .+.+...|.++|..|...
T Consensus 144 ~p~l~~C~~cg~~~~~~~fs~~~gg~~C~~c~~~ 177 (241)
T TIGR00613 144 ALDLDKCAVCGSKEDLIYFSMTYGGALCRQCGEK 177 (241)
T ss_pred CcccCccCCCCCcCCCceEchhcCeEEChhhCcc
Confidence 566678999998544 688999999999999864
No 101
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=69.95 E-value=1.9 Score=24.85 Aligned_cols=29 Identities=21% Similarity=0.373 Sum_probs=15.5
Q ss_pred CCCCCCCCCCCCeee---ecccceeeecccccc
Q psy17773 76 LTCADCAEAGPTWAS---LNLGLLLCIQCCGVH 105 (165)
Q Consensus 76 ~~CaDCg~~~p~w~s---~n~Gv~lC~~Cs~iH 105 (165)
+.|..||.+- ++.. -+.--++|..|.-||
T Consensus 1 kfC~~CG~~l-~~~ip~gd~r~R~vC~~Cg~Ih 32 (34)
T PF14803_consen 1 KFCPQCGGPL-ERRIPEGDDRERLVCPACGFIH 32 (34)
T ss_dssp -B-TTT--B--EEE--TT-SS-EEEETTTTEEE
T ss_pred CccccccChh-hhhcCCCCCccceECCCCCCEE
Confidence 4789999872 2221 245567899999888
No 102
>KOG1739|consensus
Probab=69.90 E-value=4.2 Score=37.00 Aligned_cols=53 Identities=23% Similarity=0.473 Sum_probs=38.7
Q ss_pred CCCCCCCcccccccccc----------cCCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHH
Q psy17773 1 MSHYRNAAEIPIILVGT----------QDSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQ 54 (165)
Q Consensus 1 ~s~y~~~~~i~~~~~~~----------~~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~ 54 (165)
||||.+..+---++.+. ...+-..|.|.+ ..-.+++-|.+.+.++.|+++|+-
T Consensus 52 Lsyykse~E~~hGcRgsi~l~ka~i~ahEfDe~rfdIsv-n~nv~~lra~~~~hr~~w~d~L~w 114 (611)
T KOG1739|consen 52 LSYYKSEDETEHGCRGSICLSKAVITAHEFDECRFDISV-NDNVWYLRAQDPDHRQQWIDALEW 114 (611)
T ss_pred hhhhhhhhhhhcccceeeEeccCCcccccchhheeeeEe-ccceeeehhcCcHHHHHHHHHHHH
Confidence 56777766543333222 144456788888 788999999999999999999984
No 103
>PF15408 PH_7: Pleckstrin homology domain
Probab=66.95 E-value=3.4 Score=29.14 Aligned_cols=32 Identities=22% Similarity=0.398 Sum_probs=25.7
Q ss_pred ceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHH
Q psy17773 23 FELLIVSLDNKQWQFEAANSEERDDWIAAIQQ 54 (165)
Q Consensus 23 ~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~ 54 (165)
|.|...++..+....-|+|.+-|+.||+++.+
T Consensus 64 ~G~L~~~~~~~~~~~FA~S~~~~~~Wi~~mN~ 95 (104)
T PF15408_consen 64 FGFLMYSPSRRHVQCFASSKKVCQSWIQVMNS 95 (104)
T ss_pred EEEEEecCCcchhhhhhhHHHHHHHHHHHhcC
Confidence 67776664466667889999999999999864
No 104
>PF15277 Sec3-PIP2_bind: Exocyst complex component SEC3 N-terminal PIP2 binding PH; PDB: 3HIE_D 3A58_E.
Probab=66.45 E-value=16 Score=25.46 Aligned_cols=31 Identities=19% Similarity=0.420 Sum_probs=26.3
Q ss_pred cceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHH
Q psy17773 22 SFELLIVSLDNKQWQFEAANSEERDDWIAAIQQ 54 (165)
Q Consensus 22 ~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~ 54 (165)
...|.|.- +++|+++|.|.+|+...|..|-+
T Consensus 56 ~~~F~l~~--~k~y~W~a~s~~Ek~~Fi~~L~k 86 (91)
T PF15277_consen 56 TPEFDLTF--DKPYYWEASSAKEKNTFIRSLWK 86 (91)
T ss_dssp TTEEEEES--SSEEEEEESSHHHHHHHHHHHHH
T ss_pred CcCEEEEE--CCCcEEEeCCHHHHHHHHHHHHH
Confidence 46788764 68999999999999999998854
No 105
>cd01240 PH_beta-ARK Beta adrenergic receptor kinase 1(beta ARK1)(GRK2) pleckstrin homology (PH) domain. Beta adrenergic receptor kinase 1(beta ARK1)(GRK2) pleckstrin homology (PH) domain. Beta ARK1 is a G protein-coupled receptor kinase (GRK). It phosphorylates activated G-protein coupled receptors leading to the release of the previously bound heterotrimeric G protein agonist and thus signal termination. It consists of a domain found in regulators of G-protein signaling (RGS)(RH), a serine/threonine kinase domain and a C-terminal PH domain. The Beta-Ark 1 PH domain has an extended C-terminal helix, which mediates interactions with G beta gamma subunits. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or
Probab=65.39 E-value=28 Score=25.53 Aligned_cols=40 Identities=15% Similarity=0.219 Sum_probs=33.1
Q ss_pred CcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHHHHhH
Q psy17773 21 DSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQILSSL 60 (165)
Q Consensus 21 ~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i~~~l 60 (165)
...|..|....++.|.++++++-+..+|...|.++...+.
T Consensus 63 ~~~CI~ik~k~~~k~vlt~~d~i~l~qW~~elr~a~r~Sq 102 (116)
T cd01240 63 EENCILLKIRDEKKIVLTNSDEIELKQWKKELRDAHRESQ 102 (116)
T ss_pred cCceEEEEEcCCceEEEecCCcHHHHHHHHHHHHHHHHHH
Confidence 3567777775688999999999999999999998876543
No 106
>cd07171 NR_DBD_ER DNA-binding domain of estrogen receptors (ER) is composed of two C4-type zinc fingers. DNA-binding domain of estrogen receptors (ER) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which coordinates a single zinc atom. ER interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. Estrogen receptor is a transcription regulator that mediates the biological effects of hormone estrogen. The binding of estrogen to the receptor triggers the dimerization and the binding of the receptor dimer to estrogen response element, which is a palindromic inverted repeat: 5'GGTCAnnnTGACC-3', of target genes. Through ER, estrogen regulates development, reproduction and homeostasis. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, ER has a central well-conserved DNA binding domain (DBD), a variable N-terminal domain, a non-conserv
Probab=64.25 E-value=3.9 Score=28.06 Aligned_cols=31 Identities=19% Similarity=0.498 Sum_probs=25.5
Q ss_pred CCCCCCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 74 GNLTCADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 74 ~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
.|..|.-||.+.. ...||+..|..|+++.|-
T Consensus 2 ~~~~C~VCg~~~~---g~hyGv~sC~aC~~FFRR 32 (82)
T cd07171 2 DTHFCAVCSDYAS---GYHYGVWSCEGCKAFFKR 32 (82)
T ss_pred CCCCCeecCCcCc---ceEECceeehhhHHhHHH
Confidence 4678999998664 468999999999998874
No 107
>cd07160 NR_DBD_LXR DNA-binding domain of Liver X receptors (LXRs) family is composed of two C4-type zinc fingers. DNA-binding domain of Liver X receptors (LXRs) family is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. LXR interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. LXR operates as cholesterol sensor which protects cells from cholesterol overload by stimulating reverse cholesterol transport from peripheral tissues to the liver and its excretion in the bile. Oxidized cholesterol derivatives or oxysterols were identified as specific ligands for LXRs. LXR functions as a heterodimer with the retinoid X receptor (RXR) which may be activated by either LXR agonist or 9-cis retinoic acid, a specific RXR ligand. The LXR/RXR complex binds to a liver X receptor response element (LXRE) in the promoter region of target genes. The ideal LXRE seq
Probab=64.25 E-value=4.4 Score=28.96 Aligned_cols=31 Identities=29% Similarity=0.708 Sum_probs=25.9
Q ss_pred CCCCCCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 74 GNLTCADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 74 ~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
++..|.-||.+.. ...||+..|..|.++.|-
T Consensus 17 ~~~~C~VCg~~a~---g~hyGv~sC~aCk~FFRR 47 (101)
T cd07160 17 GNEVCSVCGDKAS---GFHYNVLSCEGCKGFFRR 47 (101)
T ss_pred CCCCCeecCCcCc---ceEECcceehhhhhhhhh
Confidence 5678999998665 458999999999998874
No 108
>cd06966 NR_DBD_CAR DNA-binding domain of constitutive androstane receptor (CAR) is composed of two C4-type zinc fingers. DNA-binding domain (DBD) of constitutive androstane receptor (CAR) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. CAR DBD interacts with CAR response element, a perfect repeat of two AGTTCA motifs with a 4 bp spacer upstream of the target gene, and modulates the rate of transcriptional initiation. The constitutive androstane receptor (CAR) is a ligand-regulated transcription factor that responds to a diverse array of chemically distinct ligands, including many endogenous compounds and clinical drugs. It functions as a heterodimer with RXR. The CAR/RXR heterodimer binds many common response elements in the promoter regions of a diverse set of target genes involved in the metabolism, transport, and ultimately, elimination of these molecules from the body. CAR is a closest mammalian
Probab=64.15 E-value=4.3 Score=28.57 Aligned_cols=29 Identities=21% Similarity=0.518 Sum_probs=23.3
Q ss_pred CCCCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 76 LTCADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 76 ~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
+.|.-||.+... ..||+..|..|+++.|-
T Consensus 1 ~~C~VCg~~a~g---~hyGv~sC~aC~~FFRR 29 (94)
T cd06966 1 KICGVCGDKALG---YNFNAITCESCKAFFRR 29 (94)
T ss_pred CCCeeCCCcCcc---eEECcceeeeehheehh
Confidence 358889876553 48999999999998875
No 109
>PF01258 zf-dskA_traR: Prokaryotic dksA/traR C4-type zinc finger; InterPro: IPR000962 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents domains identified in zinc finger-containing members of the DksA/TraR family. DksA is a critical component of the rRNA transcription initiation machinery that potentiates the regulation of rRNA promoters by ppGpp and the initiating NTP. In delta-dksA mutants, rRNA promoters are unresponsive to changes in amino acid availability, growth rate, or growth phase. In vitro, DksA binds to RNAP, reduces open complex lifetime, inhibits rRNA promoter activity, and amplifies effects of ppGpp and the initiating NTP on rRNA transcription [, ]. The dksA gene product suppresses the temperature-sensitive growth and filamentation of a dnaK deletion mutant of Escherichia coli. Gene knockout [] and deletion [] experiments have shown the gene to be non-essential, mutations causing a mild sensitivity to UV light, but not affecting DNA recombination []. In Pseudomonas aeruginosa, dksA is a novel regulator involved in the post-transcriptional control of extracellular virulence factor production []. The proteins contain a C-terminal region thought to fold into a 4-cysteine zinc finger. Other proteins found to contain a similar zinc finger domain include: the traR gene products encoded on the E. coli F and R100 plasmids [, ] the traR gene products encoded on Salmonella spp. plasmids pED208 and pSLT the dnaK suppressor hypothetical proteins from bacteria and bacteriophage FHL4, LIM proteins from Homo sapiens (Human) and Mus musculus (Mouse) [] More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2GVI_A 2KQ9_A 2KGO_A 1TJL_I.
Probab=63.18 E-value=0.54 Score=27.09 Aligned_cols=30 Identities=30% Similarity=0.577 Sum_probs=16.7
Q ss_pred CCCCCCCCCCC-Ceeeecccceeeecccccc
Q psy17773 76 LTCADCAEAGP-TWASLNLGLLLCIQCCGVH 105 (165)
Q Consensus 76 ~~CaDCg~~~p-~w~s~n~Gv~lC~~Cs~iH 105 (165)
..|.+||.+=| .-.-+.-+..+|..|+..|
T Consensus 4 g~C~~CGe~I~~~Rl~~~p~~~~C~~C~~~~ 34 (36)
T PF01258_consen 4 GICEDCGEPIPEERLVAVPGATLCVECQERR 34 (36)
T ss_dssp SB-TTTSSBEEHHHHHHCTTECS-HHHHHHH
T ss_pred CCccccCChHHHHHHHhCCCcEECHHHhCcc
Confidence 35999997621 2222233778899998654
No 110
>PRK10778 dksA RNA polymerase-binding transcription factor; Provisional
Probab=62.93 E-value=7.1 Score=29.90 Aligned_cols=43 Identities=16% Similarity=0.223 Sum_probs=26.8
Q ss_pred HHHHHHHhhCCCCCCCCCCCCCC-CCeeeecccceeeecccccccc
Q psy17773 63 ASLQSIRSRVPGNLTCADCAEAG-PTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 63 ~~l~~l~~~~~~N~~CaDCg~~~-p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
.+|..+. .+.-..|-+||.+= ..=.-+--++..|+.|...+-.
T Consensus 101 ~AL~Ri~--~gtYG~Ce~CGe~I~~~RL~A~P~A~~CI~CQe~~E~ 144 (151)
T PRK10778 101 KTLKKVE--DEDFGYCESCGVEIGIRRLEARPTADLCIDCKTLAEI 144 (151)
T ss_pred HHHHHHh--CCCCceeccCCCcccHHHHhcCCCccccHHHHHHHHH
Confidence 3444443 57888999999872 1222222256789999886653
No 111
>cd07163 NR_DBD_TLX DNA-binding domain of Tailless (TLX) is composed of two C4-type zinc fingers. DNA-binding domain of Tailless (TLX) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. TLX interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. TLX is an orphan receptor that is expressed by neural stem/progenitor cells in the adult brain of the subventricular zone (SVZ) and the dentate gyrus (DG). It plays a key role in neural development by promoting cell cycle progression and preventing apoptosis in the developing brain. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, TLX has a central well conserved DNA-binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=62.72 E-value=5.4 Score=27.89 Aligned_cols=31 Identities=19% Similarity=0.596 Sum_probs=25.6
Q ss_pred CCCCCCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 74 GNLTCADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 74 ~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
-+..|.-||.+... ..||+..|..|+++.|-
T Consensus 5 ~~~~C~VCg~~a~g---~hyGv~sC~aCk~FFRR 35 (92)
T cd07163 5 LDIPCKVCGDRSSG---KHYGIYACDGCSGFFKR 35 (92)
T ss_pred cCCCCcccCCcCcc---cEECceeeeeeeeEEee
Confidence 36789999986654 58999999999998874
No 112
>COG1381 RecO Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]
Probab=61.03 E-value=4.4 Score=33.30 Aligned_cols=31 Identities=32% Similarity=0.686 Sum_probs=26.2
Q ss_pred CCCCCCCCCCCCCC-CCeeeecccceeeeccc
Q psy17773 72 VPGNLTCADCAEAG-PTWASLNLGLLLCIQCC 102 (165)
Q Consensus 72 ~~~N~~CaDCg~~~-p~w~s~n~Gv~lC~~Cs 102 (165)
.|.=..|+.||++. |...|.-.|-++|.+|+
T Consensus 151 ~~~l~~Ca~cg~~~~~~~~s~~~~~~~C~~~~ 182 (251)
T COG1381 151 GPNLTSCARCGTPVDPVYFSPKSGGFLCSKCA 182 (251)
T ss_pred ccchHHHhCcCCcCCCcceeeccCcccchhcc
Confidence 44455799999985 57999999999999998
No 113
>cd07170 NR_DBD_ERR DNA-binding domain of estrogen related receptors (ERR) is composed of two C4-type zinc fingers. DNA-binding domain of estrogen related receptors (ERRs) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which coordinates a single zinc atom. ERR interacts with the palindromic inverted repeat, 5'GGTCAnnnTGACC-3', upstream of the target gene and modulates the rate of transcriptional initiation. The estrogen receptor-related receptors (ERRs) are transcriptional regulators, which are closely related to the estrogen receptor (ER) family. Although ERRs lack the ability to bind to estrogen and are so-called orphan receptors, they share target genes, co-regulators and promoters with the estrogen receptor (ER) family. By targeting the same set of genes, ERRs seem to interfere with the classic ER-mediated estrogen response in various ways. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription
Probab=60.22 E-value=4.4 Score=28.74 Aligned_cols=29 Identities=17% Similarity=0.503 Sum_probs=24.1
Q ss_pred CCCCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 76 LTCADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 76 ~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
..|.-||.+.. ...||+..|..|.++.|-
T Consensus 5 ~~C~VCg~~a~---g~hyGv~sC~aCk~FFRR 33 (97)
T cd07170 5 RLCLVCGDIAS---GYHYGVASCEACKAFFKR 33 (97)
T ss_pred CCCeecCCcCc---ceEECceeehhhhHHHHH
Confidence 56999998764 458999999999998874
No 114
>TIGR02420 dksA RNA polymerase-binding protein DksA. The model that is the basis for this family describes a small, pleiotropic protein, DksA (DnaK suppressor A), originally named as a multicopy suppressor of temperature sensitivity of dnaKJ mutants. DksA mutants are defective in quorum sensing, virulence, etc. DksA is now understood to bind RNA polymerase directly and modulate its response to small molecules to control the level of transcription of rRNA. Nearly all members of this family are in the Proteobacteria. Whether the closest homologs outside the Proteobacteria function equivalently is unknown. The low value set for the noise cutoff allows identification of possible DksA proteins from outside the proteobacteria. TIGR02419 describes a closely related family of short sequences usually found in prophage regions of proteobacterial genomes or in known phage.
Probab=59.98 E-value=10 Score=27.19 Aligned_cols=31 Identities=23% Similarity=0.326 Sum_probs=18.9
Q ss_pred CCCCCCCCCCCCCCC-Ceeeecccceeeeccc
Q psy17773 72 VPGNLTCADCAEAGP-TWASLNLGLLLCIQCC 102 (165)
Q Consensus 72 ~~~N~~CaDCg~~~p-~w~s~n~Gv~lC~~Cs 102 (165)
.+.-..|.+||.+=| .=.-..-++..|+.|.
T Consensus 77 ~g~yG~C~~Cge~I~~~RL~a~P~a~~Cv~Cq 108 (110)
T TIGR02420 77 DGEYGYCEECGEEIGLRRLEARPTATLCIDCK 108 (110)
T ss_pred CCCCCchhccCCcccHHHHhhCCCccccHHhH
Confidence 356689999998721 1111222556788885
No 115
>KOG3723|consensus
Probab=59.88 E-value=10 Score=35.38 Aligned_cols=35 Identities=11% Similarity=0.417 Sum_probs=31.0
Q ss_pred ceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHHHH
Q psy17773 23 FELLIVSLDNKQWQFEAANSEERDDWIAAIQQQILS 58 (165)
Q Consensus 23 ~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i~~ 58 (165)
-.|+|-| -++||.+.|.++...++|++.|+-++.-
T Consensus 804 KAFEIFT-AD~T~ILKaKDeKNAEEWlqCL~IavAH 838 (851)
T KOG3723|consen 804 KAFEIFT-ADKTYILKAKDEKNAEEWLQCLNIAVAH 838 (851)
T ss_pred hhhheee-cCceEEeecccccCHHHHHHHHHHHHHH
Confidence 5799999 8899999999999999999999866543
No 116
>cd07173 NR_DBD_AR DNA-binding domain of androgen receptor (AR) is composed of two C4-type zinc fingers. DNA-binding domain of androgen receptor (AR) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. To regulate gene expression, AR interacts with a palindrome of the core sequence 5'-TGTTCT-3' with a 3-bp spacer. It also binds to the direct repeat 5'-TGTTCT-3' hexamer in some androgen controlled genes. AR is activated by the androgenic hormones, testosterone or dihydrotestosterone, which are responsible for primary and for secondary male characteristics, respectively. The primary mechanism of action of ARs is by direct regulation of gene transcription. The binding of androgen results in a conformational change in the androgen receptor which causes its transport from the cytosol into the cell nucleus, and dimerization. The receptor dimer binds to a hormone response element of AR regulated genes and modul
Probab=59.77 E-value=3.9 Score=28.05 Aligned_cols=31 Identities=23% Similarity=0.462 Sum_probs=25.2
Q ss_pred CCCCCCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 74 GNLTCADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 74 ~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
..+.|.-||.+.. ...||+..|..|.++.|-
T Consensus 2 ~~~~C~VCg~~a~---g~hyGv~sC~aCk~FFRR 32 (82)
T cd07173 2 PQKTCLICGDEAS---GCHYGALTCGSCKVFFKR 32 (82)
T ss_pred CCCCCeecCCcCc---ceEECcchhhhHHHHHHH
Confidence 4567999998665 458999999999998874
No 117
>KOG1090|consensus
Probab=58.85 E-value=4 Score=40.38 Aligned_cols=36 Identities=25% Similarity=0.518 Sum_probs=31.0
Q ss_pred CCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHH
Q psy17773 19 DSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQI 56 (165)
Q Consensus 19 ~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i 56 (165)
+++.| |++.| ..|+|.|-|.+-.+.++|++.||..+
T Consensus 1696 dekgf-fdlkt-t~rvynf~a~nin~AqqWve~iqscl 1731 (1732)
T KOG1090|consen 1696 DEKGF-FDLKT-TNRVYNFCAQNINLAQQWVECIQSCL 1731 (1732)
T ss_pred Cccce-eeeeh-hhHHHHHHhccchHHHHHHHHHHHhh
Confidence 34445 99998 88999999999999999999998754
No 118
>cd06955 NR_DBD_VDR DNA-binding domain of vitamin D receptors (VDR) is composed of two C4-type zinc fingers. DNA-binding domain of vitamin D receptors (VDR) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which coordinates a single zinc atom. VDR interacts with a VDR response element, a direct repeat of GGTTCA DNA site with 3 bp spacer upstream of the target gene, and modulates the rate of transcriptional initiation. VDR is a member of the nuclear receptor (NR) superfamily that functions as classical endocrine receptors. VDR controls a wide range of biological activities including calcium metabolism, cell proliferation and differentiation, and immunomodulation. VDR is a high-affinity receptor for the biologically most active Vitamin D metabolite, 1alpha,25-dihydroxyvitamin D3 (1alpha,25(OH)2D3). The binding of the ligand to the receptor induces a conformational change of the ligand binding domain (LBD) with consequent dissociation of core
Probab=57.77 E-value=8.3 Score=27.86 Aligned_cols=31 Identities=19% Similarity=0.524 Sum_probs=25.2
Q ss_pred CCCCCCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 74 GNLTCADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 74 ~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
....|.-||.+.. ...||+..|..|+++.|-
T Consensus 5 ~~~~C~VCg~~a~---g~hyGv~sC~aCk~FFRR 35 (107)
T cd06955 5 VPRICGVCGDRAT---GFHFNAMTCEGCKGFFRR 35 (107)
T ss_pred CCCCCeecCCcCc---ccEECcceeeeecceecc
Confidence 3467999998765 358999999999998874
No 119
>cd07157 2DBD_NR_DBD1 The first DNA-binding domain (DBD) of the 2DBD nuclear receptors is composed of two C4-type zinc fingers. The first DNA-binding domain (DBD) of the 2DBD nuclear receptors(NRs) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. NRs interact with specific DNA sites upstream of the target gene and modulate the rate of transcriptional initiation. Theses proteins contain two DBDs in tandem, probably resulted from an ancient recombination event. The 2DBD-NRs are found only in flatworm species, mollusks and arthropods. Their biological function is unknown.
Probab=57.73 E-value=7.3 Score=26.88 Aligned_cols=28 Identities=25% Similarity=0.581 Sum_probs=23.0
Q ss_pred CCCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 77 TCADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 77 ~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
.|.-||.+.. ...||+..|..|++..|-
T Consensus 2 ~C~VCg~~a~---g~hyGv~sC~aCk~FFRR 29 (86)
T cd07157 2 TCQVCGEPAA---GFHHGAYVCEACKKFFMR 29 (86)
T ss_pred CCcccCCcCc---ccEECcceeeEeeeEEec
Confidence 4888987654 459999999999998875
No 120
>PHA00080 DksA-like zinc finger domain containing protein
Probab=56.43 E-value=2.1 Score=28.79 Aligned_cols=33 Identities=21% Similarity=0.598 Sum_probs=23.0
Q ss_pred CCCCCCCCCCCCCCC--Ceeeecccceeeecccccc
Q psy17773 72 VPGNLTCADCAEAGP--TWASLNLGLLLCIQCCGVH 105 (165)
Q Consensus 72 ~~~N~~CaDCg~~~p--~w~s~n~Gv~lC~~Cs~iH 105 (165)
.++...|.+||.+=| .+.- .-|+..|+.|...+
T Consensus 28 ~~~~~~C~~Cg~~Ip~~Rl~a-~P~~~~Cv~Cq~~~ 62 (72)
T PHA00080 28 APSATHCEECGDPIPEARREA-VPGCRTCVSCQEIL 62 (72)
T ss_pred CCCCCEecCCCCcCcHHHHHh-CCCccCcHHHHHHH
Confidence 456778999998733 2222 33788899998764
No 121
>cd06968 NR_DBD_ROR DNA-binding domain of Retinoid-related orphan receptors (RORs) is composed of two C4-type zinc fingers. DNA-binding domain of Retinoid-related orphan receptors (RORs) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which coordinates a single zinc atom. ROR interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. RORS are key regulators of many physiological processes during embryonic development. RORs bind as monomers to specific ROR response elements (ROREs) consisting of the consensus core motif AGGTCA preceded by a 5-bp A/T-rich sequence. There are three subtypes of retinoid-related orphan receptors (RORs), alpha, beta, and gamma, which differ only in N-terminal sequence and are distributed in distinct tissues. RORalpha plays a key role in the development of the cerebellum particularly in the regulation of the maturation and survival of Purkinje cells. RORbe
Probab=55.94 E-value=6.6 Score=27.67 Aligned_cols=31 Identities=23% Similarity=0.669 Sum_probs=25.4
Q ss_pred CCCCCCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 74 GNLTCADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 74 ~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
.+..|.=||.+.. ...||+..|..|.++.|-
T Consensus 4 ~~~~C~VCg~~~~---g~hyGv~sC~aC~~FFRR 34 (95)
T cd06968 4 EVIPCKICGDKSS---GIHYGVITCEGCKGFFRR 34 (95)
T ss_pred cccCCcccCCcCc---ceEECceeehhhHHhhHH
Confidence 4668999998764 458999999999998874
No 122
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=55.66 E-value=68 Score=23.11 Aligned_cols=66 Identities=18% Similarity=0.313 Sum_probs=36.6
Q ss_pred CCHHHHHHHHHHHHHHHHHh---------HHHHH-HHHHHhh--CC----CCCCCCCCCCC-----CCCeeeecccceee
Q psy17773 40 ANSEERDDWIAAIQQQILSS---------LQTAS-LQSIRSR--VP----GNLTCADCAEA-----GPTWASLNLGLLLC 98 (165)
Q Consensus 40 ~se~E~~~Wi~ai~~~i~~~---------l~~~~-l~~l~~~--~~----~N~~CaDCg~~-----~p~w~s~n~Gv~lC 98 (165)
-+++|++.=+++|+.+..-. |.++. .+..+.. .. +...|+-|+.+ ++.-.+..-+--+|
T Consensus 3 Lt~eE~~~I~~Vl~R~~~l~~~E~~Ri~kLk~~L~~e~~r~~~~~~~~~~~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC 82 (118)
T PF02318_consen 3 LTEEEREIILQVLQRDEELRKKEEERIRKLKQELQKEKMRREALGNSQKYGERHCARCGKPFGFLFNRGRVCVDCKHRVC 82 (118)
T ss_dssp S-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSCSTTHCCSB-TTTS-BCSCTSTTCEEETTTTEEEE
T ss_pred CCHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccCCcchhhhCCcccccCCCCCcCCcCCcccc
Confidence 46788888888887653221 11221 0111110 22 67899999975 44555666777788
Q ss_pred ecccccc
Q psy17773 99 IQCCGVH 105 (165)
Q Consensus 99 ~~Cs~iH 105 (165)
..|...+
T Consensus 83 ~~C~~~~ 89 (118)
T PF02318_consen 83 KKCGVYS 89 (118)
T ss_dssp TTSEEET
T ss_pred CccCCcC
Confidence 8887764
No 123
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=55.06 E-value=19 Score=25.28 Aligned_cols=32 Identities=19% Similarity=0.451 Sum_probs=24.9
Q ss_pred CCCCCCCCCCCCCCCCeeeecccceeeecccccc
Q psy17773 72 VPGNLTCADCAEAGPTWASLNLGLLLCIQCCGVH 105 (165)
Q Consensus 72 ~~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iH 105 (165)
...--.|..|+.+ .--.+..||..|..|...-
T Consensus 32 ~~~~~~Cp~C~~~--~VkR~a~GIW~C~kCg~~f 63 (89)
T COG1997 32 QRAKHVCPFCGRT--TVKRIATGIWKCRKCGAKF 63 (89)
T ss_pred HhcCCcCCCCCCc--ceeeeccCeEEcCCCCCee
Confidence 4556789999998 4456678999999997543
No 124
>PLN02866 phospholipase D
Probab=54.04 E-value=36 Score=33.88 Aligned_cols=35 Identities=23% Similarity=0.427 Sum_probs=31.8
Q ss_pred CcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHH
Q psy17773 21 DSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQI 56 (165)
Q Consensus 21 ~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i 56 (165)
-++.|.|.+ .+|+..|.+.|..+...|+.+|+.+.
T Consensus 273 ~~~~~~i~~-~~r~l~l~~~s~~~~~~w~~ai~~~~ 307 (1068)
T PLN02866 273 LRFGFKVTC-GNRSIRLRTKSSAKVKDWVAAINDAG 307 (1068)
T ss_pred CcceEEEec-CceEEEEEECCHHHHHHHHHHHHHHH
Confidence 378999887 79999999999999999999999765
No 125
>cd07172 NR_DBD_GR_PR DNA-binding domain of glucocorticoid receptor (GR) is composed of two C4-type zinc fingers. DNA-binding domains of glucocorticoid receptor (GR) and progesterone receptor (PR) are composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinate a single zinc atom. The DBD from both receptors interact with the same hormone response element (HRE), which is an imperfect palindrome GGTACAnnnTGTTCT, upstream of target genes and modulates the rate of transcriptional initiation. GR is a transcriptional regulator that mediates the biological effects of glucocorticoids and PR regulates genes controlled by progesterone. GR is expressed in almost every cell in the body and regulates genes controlling a wide variety of processes including the development, metabolism, and immune response of the organism. PR functions in a variety of biological processes including development of the mammary gland, regulating cell cycle progression, p
Probab=53.79 E-value=6.5 Score=26.62 Aligned_cols=29 Identities=21% Similarity=0.520 Sum_probs=23.5
Q ss_pred CCCCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 76 LTCADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 76 ~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
..|.-||.+.. ...||+..|..|.+..|-
T Consensus 3 ~~C~VCg~~a~---g~hyGv~sC~aC~~FFRR 31 (78)
T cd07172 3 KICLVCSDEAS---GCHYGVLTCGSCKVFFKR 31 (78)
T ss_pred CCCeecCCcCc---ceEECceeehhhHHhHHH
Confidence 46888997655 458999999999998864
No 126
>KOG1170|consensus
Probab=53.66 E-value=6.1 Score=38.14 Aligned_cols=127 Identities=17% Similarity=0.249 Sum_probs=63.8
Q ss_pred cceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHHHHhHH---HHH---HHHHHhhCCCCCCCCCCCCCCCCeee-eccc
Q psy17773 22 SFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQILSSLQ---TAS---LQSIRSRVPGNLTCADCAEAGPTWAS-LNLG 94 (165)
Q Consensus 22 ~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i~~~l~---~~~---l~~l~~~~~~N~~CaDCg~~~p~w~s-~n~G 94 (165)
+..|.|++ |-|+..+-|++-.||..||.++..--..... ... .-.=-+ .|-...|.-|..+.-+... -.|.
T Consensus 61 ~~sf~vi~-~~rk~r~~adn~ke~e~wi~~~kt~q~~e~~s~~~a~mphqw~Egn-lpvsskc~vc~k~cgs~~rlqd~r 138 (1099)
T KOG1170|consen 61 RPSFCVIT-PVRKHRLCADNRKEMEKWINQSKTPQHLEFISPENAIMPHQWMEGN-LPVSSKCSVCEKPCGSVLRLQDYR 138 (1099)
T ss_pred CCCeeEec-ccHHhhhhccchhHHHHhhccccchhhccccCCCcccCchhhhhcC-CCccccccccccccccccccCCcc
Confidence 46788888 7899999999999999999987531111100 110 011122 5556678777655322211 1223
Q ss_pred ceeeeccccccccCCCccceeeeccCCCCCCchHHHHHHHhhHHHHHHHhhhcCCCCCC
Q psy17773 95 LLLCIQCCGVHRCLGAHVSRVRSLELDEWPESNPRIIDEARARRLASDLKRCSYYETCA 153 (165)
Q Consensus 95 v~lC~~Cs~iHR~lg~~is~VkSl~ld~w~~~~v~~~~~~~GN~~~n~~~e~~~~~~~~ 153 (165)
++.|-.| +|-.--.+..+-.|+..+.-+.--.-+|...-++..+- +|+..++....
T Consensus 139 clwc~~~--vh~~c~~~~~~~cs~~~~~~svi~ptal~~~~~dg~~v-~~~~a~~~~~~ 194 (1099)
T KOG1170|consen 139 CLWCGCC--VHDTCIGNLARACSLGHSALSVIPPTALKEVTPDGTAV-FWEEAYGGPCG 194 (1099)
T ss_pred eEeeccE--eehhhhhhHHhhcccccccccccChhhhcccCCCccee-ehhhhcCCCCC
Confidence 3333322 33322222334444444433332223331223333222 88888776443
No 127
>KOG1729|consensus
Probab=53.65 E-value=8.7 Score=32.57 Aligned_cols=38 Identities=24% Similarity=0.328 Sum_probs=31.7
Q ss_pred ceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHHHHhHH
Q psy17773 23 FELLIVSLDNKQWQFEAANSEERDDWIAAIQQQILSSLQ 61 (165)
Q Consensus 23 ~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i~~~l~ 61 (165)
.+..|-| ..+.+.+-+.+..|+.+|+..|.+.....++
T Consensus 108 ~~~~~~S-~~ks~~~~~as~~ek~e~~~~i~~~~~~~l~ 145 (288)
T KOG1729|consen 108 NGWQILS-ALKSFTVLAASQTEKNEWQNHITECVEDLLS 145 (288)
T ss_pred cchhhhc-ccchhhhhcchhhhhHHHHHHHHHHHHHHHH
Confidence 3577888 7899999999999999999888877766554
No 128
>cd07161 NR_DBD_EcR DNA-binding domain of Ecdysone receptor (ECR) family is composed of two C4-type zinc fingers. DNA-binding domain of Ecdysone receptor (EcR) family is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. EcR interacts with highly degenerate pseudo-palindromic response elements, resembling inverted repeats of 5'-AGGTCA-3' separated by 1 bp, upstream of the target gene and modulates the rate of transcriptional initiation. EcR is present only in invertebrates and regulates the expression of a large number of genes during development and reproduction. EcR functions as a heterodimer by partnering with ultraspiracle protein (USP), the ortholog of the vertebrate retinoid X receptor (RXR). The natural ligands of EcR are ecdysteroids, the endogenous steroidal hormones found in invertebrates. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, EcRs h
Probab=53.50 E-value=6.7 Score=27.42 Aligned_cols=29 Identities=24% Similarity=0.545 Sum_probs=23.4
Q ss_pred CCCCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 76 LTCADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 76 ~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
..|.-||.+.. ...||+..|..|+++.|-
T Consensus 2 ~~C~VCg~~a~---g~hyGv~sC~aCk~FFRR 30 (91)
T cd07161 2 ELCLVCGDRAS---GYHYNALTCEGCKGFFRR 30 (91)
T ss_pred CCCeeCCCcCc---ceEECceeehhhHHHHHH
Confidence 35888998665 458999999999998873
No 129
>cd06962 NR_DBD_FXR DNA-binding domain of Farnesoid X receptor (FXR) family is composed of two C4-type zinc fingers. DNA-binding domain of Farnesoid X receptor (FXR) family is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. FXR interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. FXR is a member of the nuclear receptor family of ligand activated transcription factors. Bile acids are endogenous ligands for FXRs. Upon binding of a ligand, FXR binds to FXR response element (FXRE), which is an inverted repeat of TGACCT spaced by one nucleotide, either as a monomer or as a heterodimer with retinoid X receptor (RXR), to regulate the expression of various genes involved in bile acid, lipid, and glucose metabolism. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, FXR has a central well conserved
Probab=53.27 E-value=8.6 Score=26.43 Aligned_cols=29 Identities=24% Similarity=0.545 Sum_probs=23.4
Q ss_pred CCCCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 76 LTCADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 76 ~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
..|.-||.+... ..||+..|..|+++.|-
T Consensus 2 ~~C~VCg~~a~g---~hyGv~sC~aCk~FFRR 30 (84)
T cd06962 2 ELCVVCGDKASG---YHYNALTCEGCKGFFRR 30 (84)
T ss_pred CCCeecCCcCcc---eEECcceeecceeeeee
Confidence 358889876653 58999999999998874
No 130
>cd01259 PH_Apbb1ip Apbb1ip (Amyloid beta (A4) Precursor protein-Binding, family B, member 1 Interacting Protein) pleckstrin homology (PH) domain. Apbb1ip (Amyloid beta (A4) Precursor protein-Binding, family B, member 1 Interacting Protein) pleckstrin homology (PH) domain. Apbb1ip consists of a Ras-associated domain and a PH domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=52.96 E-value=26 Score=25.73 Aligned_cols=37 Identities=14% Similarity=0.241 Sum_probs=25.9
Q ss_pred CCCcceEEEEeCCC-----C-eEEEEeCCHHHHHHHHHHHHHH
Q psy17773 19 DSDSFELLIVSLDN-----K-QWQFEAANSEERDDWIAAIQQQ 55 (165)
Q Consensus 19 ~~~~~~F~ivt~~~-----r-t~~fqa~se~E~~~Wi~ai~~~ 55 (165)
.+-.|+|-|--+.- | .-.|=|++|+-++.||.||+-+
T Consensus 65 APTd~~F~~K~~~~q~~~s~~ik~lCaeDe~t~~~W~ta~Ri~ 107 (114)
T cd01259 65 SPTDYCFGFKAVGDQSKGSQSIKYLCAEDLPTLDRWLTAIRIA 107 (114)
T ss_pred CCCCceEEEeccccCcccchhheeeccCCHHHHHHHHHHHHHH
Confidence 34468887743221 1 3478899999999999999743
No 131
>cd06970 NR_DBD_PNR DNA-binding domain of the photoreceptor cell-specific nuclear receptor (PNR) is composed of two C4-type zinc fingers. DNA-binding domain of the photoreceptor cell-specific nuclear receptor (PNR) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. PNR interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. PNR is a member of the nuclear receptor superfamily of the ligand-activated transcription factors. PNR is expressed only in the outer layer of retinal photoreceptor cells. It may be involved in the signaling pathway regulating photoreceptor differentiation and/or maintenance. It most likely binds to DNA as a homodimer. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, PNR has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hing
Probab=52.77 E-value=11 Score=26.41 Aligned_cols=32 Identities=22% Similarity=0.597 Sum_probs=25.7
Q ss_pred CCCCCCCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 73 PGNLTCADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 73 ~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
+-...|.-||.+... ..||+..|..|.+..|-
T Consensus 4 ~p~~~C~VCg~~a~g---~hyGv~sC~aCk~FFRR 35 (92)
T cd06970 4 NPGLLCRVCGDTSSG---KHYGIYACNGCSGFFKR 35 (92)
T ss_pred CCCCCCeecCCcCcc---cEECccEEeeeeeEeee
Confidence 445579999987654 48999999999998874
No 132
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=51.60 E-value=9.6 Score=24.58 Aligned_cols=28 Identities=18% Similarity=0.399 Sum_probs=23.2
Q ss_pred CCCCCCCCCCCCCCeeeecccceeeecccc
Q psy17773 74 GNLTCADCAEAGPTWASLNLGLLLCIQCCG 103 (165)
Q Consensus 74 ~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~ 103 (165)
..+.|..||..... ..+-.+|.|..|.-
T Consensus 27 TSq~C~~CG~~~~~--~~~~r~~~C~~Cg~ 54 (69)
T PF07282_consen 27 TSQTCPRCGHRNKK--RRSGRVFTCPNCGF 54 (69)
T ss_pred CccCccCccccccc--ccccceEEcCCCCC
Confidence 56789999998777 67788999999864
No 133
>cd06967 NR_DBD_TR2_like DNA-binding domain of the TR2 and TR4 (human testicular receptor 2 and 4) is composed of two C4-type zinc fingers. DNA-binding domain of the TR2 and TR4 (human testicular receptor 2 and 4) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which coordinates a single zinc atom. TR2 and TR4 interact with specific DNA sites upstream of the target gene and modulate the rate of transcriptional initiation. TR4 and TR2 are orphan nuclear receptors; the physiological ligand is as yet unidentified. TR2 is abundantly expressed in the androgen-sensitive prostate. TR4 transcripts are expressed in many tissues, including central nervous system, adrenal gland, spleen, thyroid gland, and prostate. It has been shown that human TR2 binds to a wide spectrum of natural hormone response elements (HREs) with distinct affinities suggesting that TR2 may cross-talk with other gene expression regulation systems. The genes responding to TR2 or
Probab=51.45 E-value=11 Score=26.15 Aligned_cols=30 Identities=20% Similarity=0.492 Sum_probs=24.0
Q ss_pred CCCCCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 75 NLTCADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 75 N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
...|.-||.+... ..||+..|..|++..|-
T Consensus 3 ~~~C~VCg~~~~g---~hyGv~sC~aC~~FFRR 32 (87)
T cd06967 3 VELCVVCGDKASG---RHYGAVSCEGCKGFFKR 32 (87)
T ss_pred CCCCeecCCcCCc---CEeCcceEeeeeeEeee
Confidence 3468899986654 48999999999998864
No 134
>cd07162 NR_DBD_PXR DNA-binding domain of pregnane X receptor (PXRs) is composed of two C4-type zinc fingers. DNA-binding domain (DBD)of pregnane X receptor (PXR) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. PXR DBD interacts with the PXR response element, a perfect repeat of two AGTTCA motifs with a 4 bp spacer upstream of the target gene, and modulates the rate of transcriptional initiation. The pregnane X receptor (PXR) is a ligand-regulated transcription factor that responds to a diverse array of chemically distinct ligands, including many endogenous compounds and clinical drugs. PXR functions as a heterodimer with retinoic X receptor-alpha (RXRa) and binds to a variety of promoter regions of a diverse set of target genes involved in the metabolism, transport, and ultimately, elimination of these molecules from the body. Like other nuclear receptors, PXR has a central well conserved DNA-binding
Probab=50.98 E-value=7.5 Score=26.85 Aligned_cols=28 Identities=21% Similarity=0.602 Sum_probs=22.3
Q ss_pred CCCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 77 TCADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 77 ~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
.|.-||.+... ..||+..|..|+++.|-
T Consensus 1 ~C~VCg~~~~g---~hygv~sC~aC~~FFRR 28 (87)
T cd07162 1 ICRVCGDRATG---YHFNAMTCEGCKGFFRR 28 (87)
T ss_pred CCcccCCcCcc---eEECcceehhhHHHHHh
Confidence 37778876654 48999999999998764
No 135
>cd07156 NR_DBD_VDR_like The DNA-binding domain of vitamin D receptors (VDR) like nuclear receptor family is composed of two C4-type zinc fingers. The DNA-binding domain of vitamin D receptors (VDR) like nuclear receptor family is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. This domain interacts with specific DNA site upstream of the target gene and modulates the rate of transcriptional initiation. This family includes three types of nuclear receptors: vitamin D receptors (VDR), constitutive androstane receptor (CAR) and pregnane X receptor (PXR). VDR regulates calcium metabolism, cellular proliferation and differentiation. PXR and CAR function as sensors of toxic byproducts of cell metabolism and of exogenous chemicals, to facilitate their elimination. The DNA binding activity is regulated by their corresponding ligands. VDR is activated by Vitamin D; CAR and PXR respond to a diverse array of chemi
Probab=50.74 E-value=8.7 Score=25.46 Aligned_cols=27 Identities=22% Similarity=0.645 Sum_probs=21.1
Q ss_pred CCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 78 CADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 78 CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
|.-||.+... ..||+..|..|.+..|-
T Consensus 1 C~VC~~~~~g---~hygv~sC~aC~~FFRR 27 (72)
T cd07156 1 CGVCGDRATG---YHFNAMTCEGCKGFFRR 27 (72)
T ss_pred CCccCccCcc---cEECcceehhhhhhhch
Confidence 5567766554 48999999999998874
No 136
>KOG3507|consensus
Probab=50.72 E-value=7.8 Score=25.21 Aligned_cols=23 Identities=22% Similarity=0.641 Sum_probs=15.0
Q ss_pred CCCCCCCCCCCeeeecccceeeeccc
Q psy17773 77 TCADCAEAGPTWASLNLGLLLCIQCC 102 (165)
Q Consensus 77 ~CaDCg~~~p~w~s~n~Gv~lC~~Cs 102 (165)
.|+|||+.+.-= .--++-|.+|.
T Consensus 22 iCgdC~~en~lk---~~D~irCReCG 44 (62)
T KOG3507|consen 22 ICGDCGQENTLK---RGDVIRCRECG 44 (62)
T ss_pred Eecccccccccc---CCCcEehhhcc
Confidence 589999876411 23467788884
No 137
>KOG0517|consensus
Probab=50.63 E-value=4.1 Score=42.45 Aligned_cols=43 Identities=16% Similarity=0.327 Sum_probs=36.4
Q ss_pred CCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHHHHhHH
Q psy17773 19 DSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQILSSLQ 61 (165)
Q Consensus 19 ~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i~~~l~ 61 (165)
.+++..|.+-.+|+..|.|||..+++|..|+.++...+..++.
T Consensus 2372 ~kkk~v~~l~~~~gae~llq~k~ee~m~sWL~~~a~~~~~~lk 2414 (2473)
T KOG0517|consen 2372 HKKKHVFLLQLPPGAEHLLQAKDEEEMESWLRALAVKRAEALK 2414 (2473)
T ss_pred HHHhHhhhhcCCchHHHHHhhccHHHHHHHHHHHHHHHHHHhh
Confidence 4556778887778999999999999999999999888876654
No 138
>cd06964 NR_DBD_RAR DNA-binding domain of retinoic acid receptor (RAR) is composed of two C4-type zinc fingers. DNA-binding domain of retinoic acid receptor (RAR) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. RAR interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. RARs mediate the biological effect of retinoids, including both natural dietary vitamin A (retinol) metabolites and active synthetic analogs. Retinoids play key roles in a wide variety of essential biological processes, such as vertebrate embryonic morphogenesis and organogenesis, differentiation and apoptosis, and homeostasis. RAR function as a heterodimer with retinoic X receptor by binding to specific RAR response elements (RAREs), which are composed of two direct repeats of the consensus sequence 5'-AGGTCA-3' separated by one to five base pair and found in the promoter reg
Probab=50.41 E-value=13 Score=25.53 Aligned_cols=30 Identities=23% Similarity=0.552 Sum_probs=24.4
Q ss_pred CCCCCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 75 NLTCADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 75 N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
...|.-||.+.. ...||+..|..|.++.|-
T Consensus 4 ~~~C~VCg~~~~---g~hyGv~sC~aC~~FFRR 33 (85)
T cd06964 4 YKPCFVCQDKSS---GYHYGVSACEGCKGFFRR 33 (85)
T ss_pred CCCCcccCCcCc---ccEECcceeeeeeeEEee
Confidence 356899998665 458999999999998874
No 139
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=50.41 E-value=13 Score=31.39 Aligned_cols=34 Identities=21% Similarity=0.457 Sum_probs=23.6
Q ss_pred CCCCCCCCCCCCCCCCeeeecccceeeeccccccc
Q psy17773 72 VPGNLTCADCAEAGPTWASLNLGLLLCIQCCGVHR 106 (165)
Q Consensus 72 ~~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR 106 (165)
......|.+||+... =....-|-.+|.+|.-|-.
T Consensus 8 ~~~~~~Cp~Cg~~~i-v~d~~~Ge~vC~~CG~Vl~ 41 (310)
T PRK00423 8 EEEKLVCPECGSDKL-IYDYERGEIVCADCGLVIE 41 (310)
T ss_pred cccCCcCcCCCCCCe-eEECCCCeEeecccCCccc
Confidence 345567999997432 1234669999999987553
No 140
>cd06965 NR_DBD_Ppar DNA-binding domain of peroxisome proliferator-activated receptors (PPAR) is composed of two C4-type zinc fingers. DNA-binding domain of peroxisome proliferator-activated receptors (PPAR) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. PPAR interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. Peroxisome proliferator-activated receptors (PPARs) are members of the nuclear receptor superfamily of ligand-activated transcription factors. PPARs play important roles in regulating cellular differentiation, development and lipid metabolism. Activated PPAR forms a heterodimer with the retinoid X receptor (RXR) that binds to the hormone response elements, which are composed of two direct repeats of the consensus sequence 5'-AGGTCA-3' separated by one to five base pair located upstream of the peroxisome proliferator responsive gene
Probab=50.40 E-value=6.7 Score=26.93 Aligned_cols=27 Identities=26% Similarity=0.712 Sum_probs=21.9
Q ss_pred CCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 78 CADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 78 CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
|.-||.+.. ...||++.|..|++..|-
T Consensus 2 C~VCg~~~~---g~hyGv~sC~aCk~FFRR 28 (84)
T cd06965 2 CRVCGDKAS---GFHYGVHACEGCKGFFRR 28 (84)
T ss_pred CcccCccCc---ceEEChhhhhhhhhheee
Confidence 777887654 347999999999998875
No 141
>cd07166 NR_DBD_REV_ERB DNA-binding domain of REV-ERB receptor-like is composed of two C4-type zinc fingers. DNA-binding domain of REV-ERB receptor- like is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which coordinates a single zinc atom. This domain interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. REV-ERB receptors are transcriptional regulators belonging to the nuclear receptor superfamily. They regulate a number of physiological functions including the circadian rhythm, lipid metabolism, and cellular differentiation. REV-ERB receptors bind as a monomer to a (A/G)GGTCA half-site with a 5' AT-rich extension or as a homodimer to a direct repeat 2 element (AGGTCA sequence with a 2-bp spacer), indicating functional diversity. When bound to the DNA, they recruit corepressors (NcoR/histone deacetylase 3) to the promoter, resulting in repression of the target genes. The porphyr
Probab=50.34 E-value=7.6 Score=26.98 Aligned_cols=30 Identities=23% Similarity=0.608 Sum_probs=24.4
Q ss_pred CCCCCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 75 NLTCADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 75 N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
+..|.-||.+... ..||+..|..|+++.|-
T Consensus 3 ~~~C~VCg~~a~g---~hyGv~sC~aCk~FFRR 32 (89)
T cd07166 3 VVLCKVCGDKASG---FHYGVHACEGCKGFFRR 32 (89)
T ss_pred CCCCcccCccCcc---eEEChhhhhhHhhEecc
Confidence 4569999987653 47999999999998875
No 142
>cd06957 NR_DBD_PNR_like_2 DNA-binding domain of the photoreceptor cell-specific nuclear receptor (PNR) like is composed of two C4-type zinc fingers. The DNA-binding domain of the photoreceptor cell-specific nuclear receptor (PNR) nuclear receptor-like family is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which coordinates a single zinc atom. PNR interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. This family includes nuclear receptor Tailless (TLX), photoreceptor cell-specific nuclear receptor (PNR) and related receptors. TLX is an orphan receptor that plays a key role in neural development by regulating cell cycle progression and exit of neural stem cells in the developing brain. PNR is expressed only in the outer layer of retinal photoreceptor cells. It may be involved in the signaling pathway regulating photoreceptor differentiation and/or maintenance. Like other members
Probab=49.92 E-value=11 Score=25.69 Aligned_cols=27 Identities=19% Similarity=0.531 Sum_probs=20.7
Q ss_pred CCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 78 CADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 78 CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
|.-||.+.. ...||+..|..|.++.|-
T Consensus 1 C~VCg~~~~---g~hyGv~sC~aCk~FFRR 27 (82)
T cd06957 1 CKVCGDKSY---GKHYGVYCCDGCSCFFKR 27 (82)
T ss_pred CCccCccCc---ceEECcceEeeeeeEEEE
Confidence 556776554 458999999999998764
No 143
>cd07168 NR_DBD_DHR4_like DNA-binding domain of ecdysone-induced DHR4 orphan nuclear receptor is composed of two C4-type zinc fingers. DNA-binding domain of ecdysone-induced DHR4 orphan nuclear receptor is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which coordinates a single zinc atom. This domain interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. Ecdysone-induced orphan receptor DHR4 is a member of the nuclear receptor family. DHR4 is expressed during the early Drosophila larval development and is induced by ecdysone. DHR4 coordinates growth and maturation in Drosophila by mediating endocrine response to the attainment of proper body size during larval development. Mutations in DHR4 result in shorter larval development which translates into smaller and lighter flies. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, DHR4
Probab=49.52 E-value=10 Score=26.40 Aligned_cols=32 Identities=22% Similarity=0.614 Sum_probs=25.6
Q ss_pred CCCCCCCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 73 PGNLTCADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 73 ~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
.....|.-||.+.. ...||+..|..|.++.|-
T Consensus 4 ~~~~~C~VCg~~~~---g~hyGv~sC~aCk~FFRR 35 (90)
T cd07168 4 ESPKLCSICEDKAT---GLHYGIITCEGCKGFFKR 35 (90)
T ss_pred ccCCCCcccCCcCc---ceEECceehhhhhHhhhh
Confidence 34567999998664 458999999999998864
No 144
>PF10764 Gin: Inhibitor of sigma-G Gin; InterPro: IPR019700 Gin allows sigma-F to delay late forespore transcription by preventing sigma-G to take over before the cell has reached a critical stage of development. Gin is also known as CsfB [].
Probab=49.51 E-value=7.9 Score=23.76 Aligned_cols=26 Identities=19% Similarity=0.511 Sum_probs=18.8
Q ss_pred CCCCCCCCCCCeeeecccceeeecccc
Q psy17773 77 TCADCAEAGPTWASLNLGLLLCIQCCG 103 (165)
Q Consensus 77 ~CaDCg~~~p~w~s~n~Gv~lC~~Cs~ 103 (165)
.|.=|+.+.+. --.=+|.|+|.+|-.
T Consensus 1 ~CiiC~~~~~~-GI~I~~~fIC~~CE~ 26 (46)
T PF10764_consen 1 KCIICGKEKEE-GIHIYGKFICSDCEK 26 (46)
T ss_pred CeEeCCCcCCC-CEEEECeEehHHHHH
Confidence 47778888776 333469999999954
No 145
>KOG0119|consensus
Probab=49.24 E-value=49 Score=30.34 Aligned_cols=105 Identities=15% Similarity=0.251 Sum_probs=58.3
Q ss_pred EEEEeCCHHHHHHHHHHHHHHHHHhHH---------HHHHHHHHhh-----CCCCCCCCCCCCCC-CCeeee---cccce
Q psy17773 35 WQFEAANSEERDDWIAAIQQQILSSLQ---------TASLQSIRSR-----VPGNLTCADCAEAG-PTWASL---NLGLL 96 (165)
Q Consensus 35 ~~fqa~se~E~~~Wi~ai~~~i~~~l~---------~~~l~~l~~~-----~~~N~~CaDCg~~~-p~w~s~---n~Gv~ 96 (165)
+++.|+++|-.+.=++.|++-|.++.. ..-|++|... ...|..|--||..+ -+|.+- +.-.-
T Consensus 207 ~~Isadt~eki~~Ai~vienli~~av~~~e~~n~l~~~Qlrela~lNgt~r~~d~~~c~~cg~~~H~q~~cp~r~~~~~n 286 (554)
T KOG0119|consen 207 CLISADTQEKIKKAIAVIENLIQSAVSVPEGQNDLKRLQLRELARLNGTLRDDDNRACRNCGSTGHKQYDCPGRIPNTTN 286 (554)
T ss_pred EEEecchHHHHHHHHHHHHHHHHhhccCccccccccHHHHHHHHHhCCCCCccccccccccCCCccccccCCcccccccc
Confidence 567789999999999999988876432 2334444331 44567899999886 233321 11122
Q ss_pred eeecccc-ccccCCCccceeeeccCCC--CCCchHHHHHHHhhHHHHH
Q psy17773 97 LCIQCCG-VHRCLGAHVSRVRSLELDE--WPESNPRIIDEARARRLAS 141 (165)
Q Consensus 97 lC~~Cs~-iHR~lg~~is~VkSl~ld~--w~~~~v~~~~~~~GN~~~n 141 (165)
+|..|-. -|-..+..+. -+.+-++. +..+-..+| ..+|-+.++
T Consensus 287 ~c~~cg~~gH~~~dc~~~-~q~~~~~~~~~d~ey~~lm-~e~~~a~~~ 332 (554)
T KOG0119|consen 287 VCKICGPLGHISIDCKVN-DQQMPMSSANFDREYASLM-LELGHATSL 332 (554)
T ss_pred cccccCCcccccccCCCc-ccccchhhhccCHHHHhhh-ccccchhcC
Confidence 7877764 2333222111 12222332 555556666 556633333
No 146
>cd06960 NR_DBD_HNF4A DNA-binding domain of heptocyte nuclear factor 4 (HNF4) is composed of two C4-type zinc fingers. DNA-binding domain of hepatocyte nuclear factor 4 (HNF4) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. HNF4 interacts with a DNA site, composed of two direct repeats of AGTTCA with 1 bp spacer, which is upstream of target genes and modulates the rate of transcriptional initiation. HNF4 is a member of the nuclear receptor superfamily. HNF4 plays a key role in establishing and maintenance of hepatocyte differentiation in the liver. It is also expressed in gut, kidney, and pancreatic beta cells. HNF4 was originally classified as an orphan receptor, but later it is found that HNF4 binds with very high affinity to a variety of fatty acids. However, unlike other nuclear receptors, the ligands do not act as a molecular switch for HNF4. They seem to constantly bind to the receptor, which is
Probab=49.02 E-value=11 Score=25.10 Aligned_cols=27 Identities=33% Similarity=0.753 Sum_probs=21.0
Q ss_pred CCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 78 CADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 78 CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
|.-||.+.. ...||+..|..|.+..|-
T Consensus 1 C~vCg~~~~---~~hygv~~C~aC~~FFrR 27 (76)
T cd06960 1 CAVCGDRAT---GKHYGVLSCNGCKGFFRR 27 (76)
T ss_pred CCccCccCc---ccEECcceeeeehheeCc
Confidence 556776654 458999999999998874
No 147
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=48.47 E-value=15 Score=20.38 Aligned_cols=26 Identities=27% Similarity=0.646 Sum_probs=13.5
Q ss_pred CCCCCCCCCCC----CCCeeeecccceeeecccccc
Q psy17773 74 GNLTCADCAEA----GPTWASLNLGLLLCIQCCGVH 105 (165)
Q Consensus 74 ~N~~CaDCg~~----~p~w~s~n~Gv~lC~~Cs~iH 105 (165)
.++.|.-||++ .-.|+ .+|..|...|
T Consensus 2 ~~rfC~~CG~~t~~~~~g~~------r~C~~Cg~~~ 31 (32)
T PF09297_consen 2 NHRFCGRCGAPTKPAPGGWA------RRCPSCGHEH 31 (32)
T ss_dssp TTSB-TTT--BEEE-SSSS-------EEESSSS-EE
T ss_pred CCcccCcCCccccCCCCcCE------eECCCCcCEe
Confidence 47899999986 22344 4677775543
No 148
>PF00105 zf-C4: Zinc finger, C4 type (two domains); InterPro: IPR001628 Steroid or nuclear hormone receptors constitute an important superfamily of transcription regulators that are involved in widely diverse physiological functions, including control of embryonic development, cell differentiation and homeostasis. The receptors function as dimeric molecules in nuclei to regulate the transcription of target genes in a ligand-responsive manner. Nuclear hormone receptors consist of a highly conserved DNA-binding domain that recognises specific sequences, connected via a linker region to a C-terminal ligand-binding domain (IPR000536 from INTERPRO). In addition, certain nuclear hormone receptors have an N-terminal modulatory domain (IPR001292 from INTERPRO). The DNA-binding domain can elicit either an activating or repressing effect by binding to specific regions of the DNA known as hormone-response elements [, ]. These response elements position the receptors, and the complexes recruited by them, close to the genes of which transcription is affected. The DNA-binding domains of nuclear receptors consist of two zinc-nucleated modules and a C-terminal extension, where residues in the first zinc module determine the specificity of the DNA recognition and residues in the second zinc module are involved in dimerisation. The DNA-binding domain is furthermore involved in several other functions including nuclear localisation, and interaction with transcription factors and co-activators []. Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the two C4-type zinc finger modules involved in DNA-binding. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0008270 zinc ion binding, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1DSZ_A 1LO1_A 3M9E_F 2EBL_A 1GA5_B 1A6Y_B 1HLZ_B 1HRA_A 1KB6_B 1KB4_B ....
Probab=47.90 E-value=7.2 Score=25.43 Aligned_cols=28 Identities=25% Similarity=0.624 Sum_probs=21.4
Q ss_pred CCCCCCCCCCCCeeeecccceeeeccccccc
Q psy17773 76 LTCADCAEAGPTWASLNLGLLLCIQCCGVHR 106 (165)
Q Consensus 76 ~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR 106 (165)
+.|.-||.+.+ ..+||+..|..|...-|
T Consensus 1 ~~C~VCg~~~~---~~~ygv~sC~~C~~FFr 28 (70)
T PF00105_consen 1 KKCKVCGDPAS---GYHYGVLSCNACKMFFR 28 (70)
T ss_dssp -BSTTTSSBES---EEETTEEEEHHHHHHHH
T ss_pred CCCeECCCccC---cccccccccccceeeee
Confidence 36888997543 56999999999998544
No 149
>cd07158 NR_DBD_Ppar_like The DNA-binding domain of peroxisome proliferator-activated receptors (PPAR) like nuclear receptor family. The DNA-binding domain of peroxisome proliferator-activated receptors (PPAR) like nuclear receptor family is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. These domains interact with specific DNA sites upstream of the target gene and modulate the rate of transcriptional initiation. This family includes three known types of nuclear receptors: peroxisome proliferator-activated receptors (PPAR), REV-ERB receptors and Drosophila ecdysone-induced protein 78 (E78). Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, PPAR-like receptors have a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a non-conserved hinge and a C-terminal ligand binding domain (LBD).
Probab=47.17 E-value=7.9 Score=25.69 Aligned_cols=27 Identities=26% Similarity=0.685 Sum_probs=21.1
Q ss_pred CCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 78 CADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 78 CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
|.-||.+... ..||++.|..|.+..|-
T Consensus 1 C~VCg~~~~g---~hyGv~~C~aC~~FFRR 27 (73)
T cd07158 1 CKVCGDKASG---FHYGVHSCEGCKGFFRR 27 (73)
T ss_pred CcccCccCcc---eEECcchhhHHHHHHhh
Confidence 5567766553 58999999999998874
No 150
>cd06956 NR_DBD_RXR DNA-binding domain of retinoid X receptor (RXR) is composed of two C4-type zinc fingers. DNA-binding domain of retinoid X receptor (RXR) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. RXR functions as a DNA binding partner by forming heterodimers with other nuclear receptors including CAR, FXR, LXR, PPAR, PXR, RAR, TR, and VDR. All RXR heterodimers preferentially bind response elements composed of direct repeats of two AGGTCA sites with a 1-5 bp spacer. RXRs can play different roles in these heterodimers. RXR acts either as a structural component of the heterodimer complex, required for DNA binding but not acting as a receptor, or as both a structural and a functional component of the heterodimer, allowing 9-cis RA to signal through the corresponding heterodimer. In addition, RXR can also form homodimers, functioning as a receptor for 9-cis RA, independently of other nuclear rec
Probab=47.02 E-value=9.5 Score=25.67 Aligned_cols=28 Identities=25% Similarity=0.642 Sum_probs=22.7
Q ss_pred CCCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 77 TCADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 77 ~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
.|.-||.+.. ...||+..|..|++..|-
T Consensus 2 ~C~VC~~~~~---g~hygv~sC~aC~~FFRR 29 (77)
T cd06956 2 ICAICGDRAS---GKHYGVYSCEGCKGFFKR 29 (77)
T ss_pred CCcccCCcCc---ceEECceeehhHHHHHHH
Confidence 4778887665 458999999999998864
No 151
>KOG3523|consensus
Probab=46.98 E-value=14 Score=34.64 Aligned_cols=20 Identities=25% Similarity=0.655 Sum_probs=19.0
Q ss_pred eEEEEeCCHHHHHHHHHHHH
Q psy17773 34 QWQFEAANSEERDDWIAAIQ 53 (165)
Q Consensus 34 t~~fqa~se~E~~~Wi~ai~ 53 (165)
.|.|+|+|+.||+.||.|+.
T Consensus 572 e~lL~a~s~Sd~~RWi~Al~ 591 (695)
T KOG3523|consen 572 ELLLSAESQSDRQRWISALR 591 (695)
T ss_pred eeeecCCchHHHHHHHHhcC
Confidence 79999999999999999995
No 152
>cd07169 NR_DBD_GCNF_like DNA-binding domain of Germ cell nuclear factor (GCNF) F1 is composed of two C4-type zinc fingers. DNA-binding domain of Germ cell nuclear factor (GCNF) F1 is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which coordinates a single zinc atom. This domain interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. GCNF is a transcription factor expressed in post-meiotic stages of developing male germ cells. In vitro, GCNF has the ability to bind to direct repeat elements of 5'-AGGTCA.AGGTCA-3', as well as to an extended half-site sequence 5'-TCA.AGGTCA-3'. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, GCNF has a central well conserved DNA-binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=46.88 E-value=9.6 Score=26.54 Aligned_cols=32 Identities=25% Similarity=0.636 Sum_probs=25.7
Q ss_pred CCCCCCCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 73 PGNLTCADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 73 ~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
.....|.-||.+.. ...||+..|..|.++.|-
T Consensus 4 ~~~~~C~VCg~~a~---g~hyGv~sC~aCk~FFRR 35 (90)
T cd07169 4 AEQRTCLICGDRAT---GLHYGIISCEGCKGFFKR 35 (90)
T ss_pred ccCCCCeecCCcCc---ceEECcceehhhHHHHHH
Confidence 35667999998664 458999999999998864
No 153
>KOG0248|consensus
Probab=46.86 E-value=25 Score=33.62 Aligned_cols=93 Identities=15% Similarity=0.309 Sum_probs=57.9
Q ss_pred CCCCcccccccccccCCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHHHHhHHH-HH--HHHHHhhCCCCCCCCC
Q psy17773 4 YRNAAEIPIILVGTQDSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQILSSLQT-AS--LQSIRSRVPGNLTCAD 80 (165)
Q Consensus 4 y~~~~~i~~~~~~~~~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i~~~l~~-~~--l~~l~~~~~~N~~CaD 80 (165)
|..+.++|-...-..-.-.+.|.+++ ...+++|.++++--..+|+..|+..|...... .+ ...+.-...|--.-.-
T Consensus 290 p~s~~d~~s~~~~~~~~~s~~fqli~-~t~~~~~~~~s~~lt~dw~~iL~~~iKv~~~~~~a~~~~p~~~~~~GwlT~vk 368 (936)
T KOG0248|consen 290 PASKIDIRSVTKLEQQGAAYAFQLIT-STDKMNFMTESERTTHDWVTILSAAIKATTLREMASRVTPIDASISGWLTRVK 368 (936)
T ss_pred ccCcccccccceeeccchhHHhhhhh-hceeEEEeccChhhhhhhHHHHHHHHHHHhccchhhhcCCCCCCcCcceeeec
Confidence 33444444333333344468899998 78899999999999999999999877532221 11 1111112456666777
Q ss_pred CCCCCCCeeeeccccee
Q psy17773 81 CAEAGPTWASLNLGLLL 97 (165)
Q Consensus 81 Cg~~~p~w~s~n~Gv~l 97 (165)
||-....|+++---+|+
T Consensus 369 ~g~skkv~~alv~~~~~ 385 (936)
T KOG0248|consen 369 CGLSKKVFAALVNQKLM 385 (936)
T ss_pred cccceeeeeeeeeeeeE
Confidence 88777777765444443
No 154
>cd06963 NR_DBD_GR_like The DNA binding domain of GR_like nuclear receptors is composed of two C4-type zinc fingers. The DNA binding domain of GR_like nuclear receptors is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. It interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. This family of NRs includes four types of nuclear hormone receptors: glucocorticoid receptor (GR), mineralocorticoid receptor (MR), progesterone receptor (PR), and androgen receptor (AR). The receptors bind to common DNA elements containing a partial palindrome of the core sequence 5'-TGTTCT-3' with a 3bp spacer. These four receptors regulate some of the most fundamental physiological functions such as the stress response, metabolism, electrolyte homeostasis, immune function, growth, development, and reproduction. The NRs in this family have high sequence homology and sha
Probab=46.83 E-value=10 Score=25.30 Aligned_cols=27 Identities=22% Similarity=0.573 Sum_probs=20.8
Q ss_pred CCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 78 CADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 78 CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
|.-||.+.. ...||++.|..|.+..|-
T Consensus 1 C~VCg~~a~---~~hygv~sC~aCk~FFRR 27 (73)
T cd06963 1 CLICGDEAS---GCHYGVLTCGSCKVFFKR 27 (73)
T ss_pred CcccCccCc---ceEECceeehhhhHhHHH
Confidence 555776544 458999999999998874
No 155
>cd07154 NR_DBD_PNR_like The DNA-binding domain of the photoreceptor cell-specific nuclear receptor (PNR) nuclear receptor-like family. The DNA-binding domain of the photoreceptor cell-specific nuclear receptor (PNR) nuclear receptor-like family is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which coordinates a single zinc atom. PNR interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. This family includes nuclear receptor Tailless (TLX), photoreceptor cell-specific nuclear receptor (PNR) and related receptors. TLX is an orphan receptor that plays a key role in neural development by regulating cell cycle progression and exit of neural stem cells in the developing brain. PNR is expressed only in the outer layer of retinal photoreceptor cells. It may be involved in the signaling pathway regulating photoreceptor differentiation and/or maintenance. Like other members of the nuclear
Probab=46.69 E-value=13 Score=24.66 Aligned_cols=27 Identities=22% Similarity=0.682 Sum_probs=21.0
Q ss_pred CCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 78 CADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 78 CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
|.-||.+.. ...||+..|..|.+..|-
T Consensus 1 C~vCg~~~~---~~hyGv~sC~aC~~FFRR 27 (73)
T cd07154 1 CKVCGDRSS---GKHYGVYACDGCSGFFKR 27 (73)
T ss_pred CcccCccCc---ceEECcceeeeeeeEeee
Confidence 556776654 358999999999998874
No 156
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=46.55 E-value=22 Score=29.71 Aligned_cols=35 Identities=20% Similarity=0.357 Sum_probs=25.8
Q ss_pred HHHHHhhCCCCCCCCCCCCCCCCeeeecccceeeeccccccc
Q psy17773 65 LQSIRSRVPGNLTCADCAEAGPTWASLNLGLLLCIQCCGVHR 106 (165)
Q Consensus 65 l~~l~~~~~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR 106 (165)
++......|.|- |.-||.....|. ++|..|.+.|-
T Consensus 345 ~~~~~~~~p~~~-c~~cg~~~~~~~------~~c~~c~~~~~ 379 (389)
T PRK11788 345 VGEQLKRKPRYR-CRNCGFTARTLY------WHCPSCKAWET 379 (389)
T ss_pred HHHHHhCCCCEE-CCCCCCCCccce------eECcCCCCccC
Confidence 333334256654 999999999997 47999999884
No 157
>cd06916 NR_DBD_like DNA-binding domain of nuclear receptors is composed of two C4-type zinc fingers. DNA-binding domain of nuclear receptors is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. It interacts with a specific DNA site upstream of the target gene and modulates the rate of transcriptional initiation. Nuclear receptors form a superfamily of ligand-activated transcription regulators, which regulate various physiological functions, from development, reproduction, to homeostasis and metabolism in animals (metazoans). The family contains not only receptors for known ligands but also orphan receptors for which ligands do not exist or have not been identified. NRs share a common structural organization with a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD). Most nuclear receptors bind as homodimers or hetero
Probab=45.82 E-value=13 Score=24.51 Aligned_cols=27 Identities=33% Similarity=0.796 Sum_probs=20.7
Q ss_pred CCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 78 CADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 78 CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
|.-||.+.. ...||+..|..|.+..|-
T Consensus 1 C~vC~~~~~---~~hygv~sC~aC~~FFRR 27 (72)
T cd06916 1 CAVCGDKAS---GYHYGVLTCEGCKGFFRR 27 (72)
T ss_pred CCccCccCc---ccEECcceeeeeeeeEeE
Confidence 555776554 458999999999998874
No 158
>COG2158 Uncharacterized protein containing a Zn-finger-like domain [General function prediction only]
Probab=45.75 E-value=16 Score=26.51 Aligned_cols=32 Identities=31% Similarity=0.603 Sum_probs=25.5
Q ss_pred CCCCCCCCCCeeeeccc--ceeeeccccccccCCCc
Q psy17773 78 CADCAEAGPTWASLNLG--LLLCIQCCGVHRCLGAH 111 (165)
Q Consensus 78 CaDCg~~~p~w~s~n~G--v~lC~~Cs~iHR~lg~~ 111 (165)
|.+|+.- .|++-.-| |.-|.+|-=|||.-++.
T Consensus 45 c~~~~~g--ewi~~~~G~~VwSC~dC~~iH~ke~~~ 78 (112)
T COG2158 45 CENEELG--EWISDSNGRKVWSCSDCHWIHRKEGAE 78 (112)
T ss_pred ccccccC--ceeEcCCCCEEeeccccceecccchHH
Confidence 4555554 89998889 99999999999985553
No 159
>KOG3520|consensus
Probab=45.55 E-value=42 Score=33.71 Aligned_cols=40 Identities=25% Similarity=0.419 Sum_probs=30.4
Q ss_pred CCCcceEEEEeC--CCCeEEEEeCCHHHHHHHHHHHHHHHHH
Q psy17773 19 DSDSFELLIVSL--DNKQWQFEAANSEERDDWIAAIQQQILS 58 (165)
Q Consensus 19 ~~~~~~F~ivt~--~~rt~~fqa~se~E~~~Wi~ai~~~i~~ 58 (165)
.+++-=|.|-+. +...|.+-|.|.+|+..||+.|+.++..
T Consensus 682 td~ka~FlIs~s~~~pqmYEL~a~T~serntW~~li~~~v~s 723 (1167)
T KOG3520|consen 682 TDEKAFFLISMSDQGPEMYELVAQSKSERNTWIQLIQDAVAS 723 (1167)
T ss_pred ccccceEEEecCCCCCeeEEEecCCHHHHHHHHHHHHHHHHh
Confidence 333333655543 2578999999999999999999998865
No 160
>cd07179 2DBD_NR_DBD2 The second DNA-binding domain (DBD) of the 2DBD nuclear receptor is composed of two C4-type zinc fingers. The second DNA-binding domain (DBD) of the 2DBD nuclear receptor (NR) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. NRs interact with specific DNA sites upstream of the target gene and modulate the rate of transcriptional initiation. The proteins contain two DBDs in tandem, probably resulting from an ancient recombination event. The 2DBD-NRs are found only in flatworm species, mollusks and arthropods. Their biological function is unknown.
Probab=44.80 E-value=9.8 Score=25.40 Aligned_cols=27 Identities=30% Similarity=0.727 Sum_probs=20.9
Q ss_pred CCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 78 CADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 78 CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
|.-||.+.. ...||+..|..|++..|-
T Consensus 1 C~VCg~~~~---g~hygv~sC~aC~~FFRR 27 (74)
T cd07179 1 CRVCGGKSS---GFHFGALTCEGCKGFFRR 27 (74)
T ss_pred CcccCccCc---ceEECceeehhHHHHHHH
Confidence 556776654 358999999999998773
No 161
>cd07155 NR_DBD_ER_like DNA-binding domain of estrogen receptor (ER) and estrogen related receptors (ERR) is composed of two C4-type zinc fingers. DNA-binding domains of estrogen receptor (ER) and estrogen related receptors (ERR) are composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. ER and ERR interact with the palindromic inverted repeat, 5'GGTCAnnnTGACC-3', upstream of the target gene and modulate the rate of transcriptional initiation. ERR and ER are closely related and share sequence similarity, target genes, co-regulators and promoters. While ER is activated by endogenous estrogen, ERR lacks the ability to bind to estrogen. Estrogen receptor mediates the biological effects of hormone estrogen by the binding of the receptor dimer to estrogen response element of target genes. However, ERRs seem to interfere with the classic ER-mediated estrogen responsive signaling by targeting the same set of genes. E
Probab=44.72 E-value=7.8 Score=25.93 Aligned_cols=27 Identities=19% Similarity=0.583 Sum_probs=21.1
Q ss_pred CCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 78 CADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 78 CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
|.-||.+.. ...||+..|..|++..|-
T Consensus 1 C~VC~~~~~---g~hygv~sC~aCk~FFRR 27 (75)
T cd07155 1 CLVCGDIAS---GYHYGVASCEACKAFFKR 27 (75)
T ss_pred CcccCccCc---ceEEChhhhhhhHHHHHH
Confidence 566776654 458999999999998764
No 162
>cd06958 NR_DBD_COUP_TF DNA-binding domain of chicken ovalbumin upstream promoter transcription factors (COUP-TFs) is composed of two C4-type zinc fingers. DNA-binding domain of chicken ovalbumin upstream promoter transcription factors (COUP-TFs) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. COUP-TFs are orphan members of the steroid/thyroid hormone receptor superfamily. They are expressed in many tissues and are involved in the regulation of several important biological processes, such as neurogenesis, organogenesis, cell fate determination, and metabolic homeostasis. COUP-TFs homodimerize or heterodimerize with retinoid X receptor (RXR) and a few other nuclear receptors and bind to a variety of response elements that are composed of imperfect AGGTCA direct or inverted repeats with various spacings. COUP-TFs are generally considered to be repressors of transcription for other nuclear hormone recept
Probab=44.12 E-value=10 Score=25.22 Aligned_cols=27 Identities=19% Similarity=0.573 Sum_probs=20.9
Q ss_pred CCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 78 CADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 78 CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
|.-||.+.. ...||+..|..|.+..|-
T Consensus 1 C~VCg~~~~---g~hygv~sC~aC~~FFRR 27 (73)
T cd06958 1 CVVCGDKSS---GKHYGQFTCEGCKSFFKR 27 (73)
T ss_pred CCccCccCc---ceEEChhhhhhhhhhhhh
Confidence 556776555 348999999999998864
No 163
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=43.86 E-value=16 Score=20.77 Aligned_cols=29 Identities=21% Similarity=0.404 Sum_probs=21.7
Q ss_pred CCCCCCCCCCCCCeeeecccceeeecccccc
Q psy17773 75 NLTCADCAEAGPTWASLNLGLLLCIQCCGVH 105 (165)
Q Consensus 75 N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iH 105 (165)
...|-.|++...-| -+-+..+|..|..++
T Consensus 3 ~~~C~~C~~~~i~~--~~~~~~~C~~Cg~~~ 31 (33)
T PF08792_consen 3 LKKCSKCGGNGIVN--KEDDYEVCIFCGSSF 31 (33)
T ss_pred ceEcCCCCCCeEEE--ecCCeEEcccCCcEe
Confidence 45788899887543 467888999997654
No 164
>smart00399 ZnF_C4 c4 zinc finger in nuclear hormone receptors.
Probab=43.74 E-value=11 Score=24.60 Aligned_cols=27 Identities=22% Similarity=0.659 Sum_probs=21.3
Q ss_pred CCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 78 CADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 78 CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
|.-||.+... ..||+..|..|.+..|-
T Consensus 2 C~vC~~~~~~---~hygv~~C~aC~~FFRR 28 (70)
T smart00399 2 CCVCGDHASG---FHFGVCSCRACKAFFRR 28 (70)
T ss_pred CeEeCCcCcc---cEeCCcEechhhhhhhh
Confidence 6677776553 38999999999998874
No 165
>cd07165 NR_DBD_DmE78_like DNA-binding domain of Drosophila ecdysone-induced protein 78 (E78) like is composed of two C4-type zinc fingers. DNA-binding domain of proteins similar to Drosophila ecdysone-induced protein 78 (E78) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which coordinates a single zinc atom. E78 interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. Drosophila ecdysone-induced protein 78 (E78) is a transcription factor belonging to the nuclear receptor superfamily. E78 is a product of the ecdysone-inducible gene found in an early late puff locus at position 78C during the onset of Drosophila metamorphosis. An E78 orthologue from the Platyhelminth Schistosoma mansoni (SmE78) has also been identified. It is the first E78 orthologue known outside of the molting animals--the Ecdysozoa. The SmE78 may be involved in transduction of an ecdysone signal in S. mansoni,
Probab=43.66 E-value=8.3 Score=26.21 Aligned_cols=27 Identities=26% Similarity=0.687 Sum_probs=21.2
Q ss_pred CCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 78 CADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 78 CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
|.-||.+.. ...||+..|..|.++.|-
T Consensus 1 C~VCg~~~~---g~hyG~~sC~aC~~FFRR 27 (81)
T cd07165 1 CKVCGDKAS---GYHYGVTSCEGCKGFFRR 27 (81)
T ss_pred CCccCccCc---ceEECchhhhhHHHHHHh
Confidence 556777654 348999999999998874
No 166
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=42.30 E-value=13 Score=22.54 Aligned_cols=23 Identities=17% Similarity=0.622 Sum_probs=16.7
Q ss_pred CCCCCCCCCCCeeeecccceeeeccc
Q psy17773 77 TCADCAEAGPTWASLNLGLLLCIQCC 102 (165)
Q Consensus 77 ~CaDCg~~~p~w~s~n~Gv~lC~~Cs 102 (165)
.|.+||...... ..+..-|.+|.
T Consensus 4 ~C~~Cg~~~~~~---~~~~irC~~CG 26 (44)
T smart00659 4 ICGECGRENEIK---SKDVVRCRECG 26 (44)
T ss_pred ECCCCCCEeecC---CCCceECCCCC
Confidence 599999864322 45778899985
No 167
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=41.90 E-value=20 Score=21.48 Aligned_cols=23 Identities=26% Similarity=0.625 Sum_probs=16.3
Q ss_pred CCCCCCCCCCCeeeecccceeee
Q psy17773 77 TCADCAEAGPTWASLNLGLLLCI 99 (165)
Q Consensus 77 ~CaDCg~~~p~w~s~n~Gv~lC~ 99 (165)
.|.+|+..+.-|+++.-|-.-|.
T Consensus 1 ~C~~C~~~~~l~~CL~C~~~~c~ 23 (50)
T smart00290 1 RCSVCGTIENLWLCLTCGQVGCG 23 (50)
T ss_pred CcccCCCcCCeEEecCCCCcccC
Confidence 58999988877776665555553
No 168
>cd00202 ZnF_GATA Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C
Probab=41.84 E-value=9.9 Score=23.98 Aligned_cols=34 Identities=26% Similarity=0.593 Sum_probs=26.7
Q ss_pred CCCCCCCC-CCCeeeec-ccceeeeccccccccCCC
Q psy17773 77 TCADCAEA-GPTWASLN-LGLLLCIQCCGVHRCLGA 110 (165)
Q Consensus 77 ~CaDCg~~-~p~w~s~n-~Gv~lC~~Cs~iHR~lg~ 110 (165)
.|..|+.. .|.|=.-. -+..||-.|.-..+..|.
T Consensus 1 ~C~~C~~~~Tp~WR~g~~~~~~LCNaCgl~~~k~~~ 36 (54)
T cd00202 1 ACSNCGTTTTPLWRRGPSGGSTLCNACGLYWKKHGV 36 (54)
T ss_pred CCCCCCCCCCcccccCCCCcchHHHHHHHHHHhcCC
Confidence 59999986 57887655 788999999877776653
No 169
>cd06959 NR_DBD_EcR_like The DNA-binding domain of Ecdysone receptor (EcR) like nuclear receptor family is composed of two C4-type zinc fingers. The DNA-binding domain of Ecdysone receptor (EcR) like nuclear receptor family is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. EcR interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. This family includes three types of nuclear receptors: Ecdysone receptor (EcR), Liver X receptor (LXR) and Farnesoid X receptor (FXR). The DNA binding activity is regulated by their corresponding ligands. The ligands for EcR are ecdysteroids; LXR is regulated by oxidized cholesterol derivatives or oxysterols; and bile acids control FXR's activities. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, EcR-like receptors have a central well conserved DNA binding domai
Probab=41.58 E-value=12 Score=24.83 Aligned_cols=27 Identities=30% Similarity=0.783 Sum_probs=21.4
Q ss_pred CCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 78 CADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 78 CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
|.-||.+.. ...||+..|..|.+..|-
T Consensus 2 C~vCg~~~~---~~hygv~sC~aC~~FFRR 28 (73)
T cd06959 2 CVVCGDKAS---GFHYGVLSCEGCKGFFRR 28 (73)
T ss_pred CceeCCcCc---ceEECceeehhhHHHHHH
Confidence 666776554 458999999999998874
No 170
>cd06969 NR_DBD_NGFI-B DNA-binding domain of the orphan nuclear receptor, nerve growth factor-induced-B. DNA-binding domain (DBD) of the orphan nuclear receptor, nerve growth factor-induced-B (NGFI-B) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. NGFI-B interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. NGFI-B is a member of the nuclear-steroid receptor superfamily. NGFI-B is classified as an orphan receptor because no ligand has yet been identified. NGFI-B is an early immediate gene product of embryo development that is rapidly produced in response to a variety of cellular signals including nerve growth factor. It is involved in T-cell-mediated apoptosis, as well as neuronal differentiation and function. NGFI-B regulates transcription by binding to a specific DNA target upstream of its target genes and regulating the rate of transcrip
Probab=41.34 E-value=17 Score=24.30 Aligned_cols=28 Identities=25% Similarity=0.632 Sum_probs=22.2
Q ss_pred CCCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 77 TCADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 77 ~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
.|.-||.+.. ...||+..|..|.+..|-
T Consensus 2 ~C~VCg~~~~---g~hyGv~sC~aC~~FFRR 29 (75)
T cd06969 2 LCAVCGDNAA---CQHYGVRTCEGCKGFFKR 29 (75)
T ss_pred CCeecCCcCc---ceEECcceeeeeeeeeee
Confidence 4777887654 348999999999998874
No 171
>PLN00188 enhanced disease resistance protein (EDR2); Provisional
Probab=40.47 E-value=55 Score=31.26 Aligned_cols=37 Identities=19% Similarity=0.200 Sum_probs=30.3
Q ss_pred ceEEEEeCC--CCeEEEEeCCHHHHHHHHHHHHHHHHHh
Q psy17773 23 FELLIVSLD--NKQWQFEAANSEERDDWIAAIQQQILSS 59 (165)
Q Consensus 23 ~~F~ivt~~--~rt~~fqa~se~E~~~Wi~ai~~~i~~~ 59 (165)
|.|.|.... ++...|.|-+.+|...|++||+.++...
T Consensus 74 yvl~~Yn~~~~~~~~~~~a~~~eea~~W~~a~~~a~~q~ 112 (719)
T PLN00188 74 YVLSVYNKKEKYHRITMAAFNIQEALIWKEKIESVIDQH 112 (719)
T ss_pred EEEEEecCCCccccEEEecCCHHHHHHHHHHHHHHHhhh
Confidence 667776422 5678999999999999999999988754
No 172
>cd07164 NR_DBD_PNR_like_1 DNA-binding domain of the photoreceptor cell-specific nuclear receptor (PNR) like proteins is composed of two C4-type zinc fingers. DNA-binding domain of the photoreceptor cell-specific nuclear receptor (PNR) like proteins is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. PNR interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. PNR is a member of nuclear receptor superfamily of the ligand-activated transcription factors. PNR is expressed only in the outer layer of retinal photoreceptor cells. It may be involved in the signaling pathway regulating photoreceptor differentiation and/or maintenance. It most likely binds to DNA as a homodimer. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, PNR has a central well conserved DNA binding domain (DBD), a variable N-t
Probab=40.04 E-value=13 Score=25.05 Aligned_cols=27 Identities=22% Similarity=0.594 Sum_probs=20.8
Q ss_pred CCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 78 CADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 78 CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
|.=||.+... ..||+..|..|.+..|-
T Consensus 1 C~VCg~~~~g---~hyG~~~C~~C~~FFRR 27 (78)
T cd07164 1 CRVCGDRASG---KHYGVPSCDGCRGFFKR 27 (78)
T ss_pred CcccCccCcc---eEECcchhhhhhhhhhh
Confidence 5567765543 48999999999998864
No 173
>KOG3362|consensus
Probab=39.08 E-value=12 Score=28.63 Aligned_cols=35 Identities=26% Similarity=0.524 Sum_probs=25.9
Q ss_pred CCCCCCCCCCCCCCCCeeeecccceeee-cccccccc
Q psy17773 72 VPGNLTCADCAEAGPTWASLNLGLLLCI-QCCGVHRC 107 (165)
Q Consensus 72 ~~~N~~CaDCg~~~p~w~s~n~Gv~lC~-~Cs~iHR~ 107 (165)
.|--+.|+-|| -..-+.++|.|.-.|. .|-++|..
T Consensus 115 KP~r~fCaVCG-~~S~ysC~~CG~kyCsv~C~~~Hne 150 (156)
T KOG3362|consen 115 KPLRKFCAVCG-YDSKYSCVNCGTKYCSVRCLKTHNE 150 (156)
T ss_pred CCcchhhhhcC-CCchhHHHhcCCceeechhhhhccc
Confidence 45566899999 5556888888888775 57677753
No 174
>cd06961 NR_DBD_TR DNA-binding domain of thyroid hormone receptors (TRs) is composed of two C4-type zinc fingers. DNA-binding domain of thyroid hormone receptors (TRs) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. TR interacts with the thyroid response element, which is a DNA site with direct repeats of the consensus sequence 5'-AGGTCA-3' separated by one to five base pairs, upstream of target genes and modulates the rate of transcriptional initiation. Thyroid hormone receptor (TR) mediates the actions of thyroid hormones, which play critical roles in growth, development, and homeostasis in mammals. They regulate overall metabolic rate, cholesterol and triglyceride levels, and heart rate, and affect mood. TRs are expressed from two separate genes (alpha and beta) in human and each gene generates two isoforms of the receptor through differential promoter usage or splicing. TRalpha functions in the he
Probab=38.19 E-value=11 Score=25.83 Aligned_cols=27 Identities=22% Similarity=0.597 Sum_probs=21.5
Q ss_pred CCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 78 CADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 78 CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
|.-||.+... ..||+..|..|+++.|-
T Consensus 2 C~VCg~~~~g---~hygv~sC~aC~~FFRR 28 (85)
T cd06961 2 CVVCGDKATG---YHYRCITCEGCKGFFRR 28 (85)
T ss_pred CceeCCcCcc---eEEChhhhhhhhHhhHh
Confidence 6778876553 48999999999998874
No 175
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=37.55 E-value=24 Score=21.21 Aligned_cols=30 Identities=13% Similarity=0.246 Sum_probs=19.2
Q ss_pred CCCCCCCCCC--CCeeeecccceeeecccccccc
Q psy17773 76 LTCADCAEAG--PTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 76 ~~CaDCg~~~--p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
+.|.+||..- +.+.. -..++|..|.-.|+.
T Consensus 1 ~FCp~Cg~~l~~~~~~~--~~~~vC~~Cg~~~~~ 32 (52)
T smart00661 1 KFCPKCGNMLIPKEGKE--KRRFVCRKCGYEEPI 32 (52)
T ss_pred CCCCCCCCccccccCCC--CCEEECCcCCCeEEC
Confidence 4799999852 21211 127889999877664
No 176
>PF14471 DUF4428: Domain of unknown function (DUF4428)
Probab=36.87 E-value=9 Score=23.94 Aligned_cols=44 Identities=20% Similarity=0.390 Sum_probs=24.4
Q ss_pred CCCCCCCCCCCe--eeecccceeeeccccccccCCCccceeeeccCC
Q psy17773 77 TCADCAEAGPTW--ASLNLGLLLCIQCCGVHRCLGAHVSRVRSLELD 121 (165)
Q Consensus 77 ~CaDCg~~~p~w--~s~n~Gv~lC~~Cs~iHR~lg~~is~VkSl~ld 121 (165)
.|+=||..-.-. .-+.=| +||..|..--..+......++++|++
T Consensus 1 ~C~iCg~kigl~~~~k~~DG-~iC~~C~~Kl~~~~~~~~~~~~~t~~ 46 (51)
T PF14471_consen 1 KCAICGKKIGLFKRFKIKDG-YICKDCLKKLSGFFSDVKIKKNLTLE 46 (51)
T ss_pred CCCccccccccccceeccCc-cchHHHHHHhcCcccchhhhhhccHH
Confidence 478888764333 234447 79999985333332333344455543
No 177
>PF02831 gpW: gpW; InterPro: IPR004174 GpW is a 68 residue protein known to be present in phage particles. Extracts of phage-infected cells lacking GpW contain DNA-filled heads, and active tails, but no infectious virions. GpW is required for the addition of GpFII to the head, which is, in turn, required for the attachment of tails. Since GpFII and tails are known to be attached at the connector, GpW is also likely to assemble at this site. The addition of GpW to filled heads increases the DNase resistance of the packaged DNA, suggesting that GpW either forms a plug at the connector to prevent ejection of the DNA, or binds directly to the DNA. The large number of positively charged residues in GpW (its calculated pI is 10.8) is consistent with a role in DNA interaction [].; GO: 0019067 viral assembly, maturation, egress, and release; PDB: 2L6Q_A 2L6R_A 1HYW_A.
Probab=36.84 E-value=55 Score=21.73 Aligned_cols=30 Identities=20% Similarity=0.290 Sum_probs=25.9
Q ss_pred EeCCCCeEEEEeCCHHHHHHHHHHHHHHHH
Q psy17773 28 VSLDNKQWQFEAANSEERDDWIAAIQQQIL 57 (165)
Q Consensus 28 vt~~~rt~~fqa~se~E~~~Wi~ai~~~i~ 57 (165)
++.++|+-.|++.|-.+...||..|+.++.
T Consensus 26 v~~dgrsV~Yt~a~i~~L~~yI~~L~~~Lg 55 (68)
T PF02831_consen 26 VQGDGRSVTYTQANIGDLRAYIQQLEAQLG 55 (68)
T ss_dssp EEETTEEEEEEGGGHHHHHHHHHHHHHHTT
T ss_pred eecCCeEEEEecCCHHHHHHHHHHHHHHhC
Confidence 444789999999999999999999987764
No 178
>KOG4215|consensus
Probab=36.74 E-value=15 Score=32.44 Aligned_cols=31 Identities=26% Similarity=0.507 Sum_probs=25.2
Q ss_pred CCCCCCCCCCCCCCCeeeecccceeeeccccccc
Q psy17773 73 PGNLTCADCAEAGPTWASLNLGLLLCIQCCGVHR 106 (165)
Q Consensus 73 ~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR 106 (165)
..+..||=||.+.. .--||..-|..|.|+-|
T Consensus 17 ~~~~~CaICGDkaT---GKHYGA~SCdGCKGFFR 47 (432)
T KOG4215|consen 17 GVAEFCAICGDKAT---GKHYGAISCDGCKGFFR 47 (432)
T ss_pred cccchhheeCCccc---ccccceeecCcchHHHH
Confidence 46889999998765 23579999999999776
No 179
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=36.72 E-value=13 Score=20.99 Aligned_cols=23 Identities=17% Similarity=0.499 Sum_probs=14.2
Q ss_pred CCCCCCCCCCCeeeecccceeeeccc
Q psy17773 77 TCADCAEAGPTWASLNLGLLLCIQCC 102 (165)
Q Consensus 77 ~CaDCg~~~p~w~s~n~Gv~lC~~Cs 102 (165)
.|++||+... .. .....-|..|.
T Consensus 2 ~C~~Cg~~~~--~~-~~~~irC~~CG 24 (32)
T PF03604_consen 2 ICGECGAEVE--LK-PGDPIRCPECG 24 (32)
T ss_dssp BESSSSSSE---BS-TSSTSSBSSSS
T ss_pred CCCcCCCeeE--cC-CCCcEECCcCC
Confidence 5899998754 11 23445788885
No 180
>PF06827 zf-FPG_IleRS: Zinc finger found in FPG and IleRS; InterPro: IPR010663 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger domain found at the C-terminal in both DNA glycosylase/AP lyase enzymes and in isoleucyl tRNA synthetase. In these two types of enzymes, the C-terminal domain forms a zinc finger. Some related proteins may not bind zinc. DNA glycosylase/AP lyase enzymes are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. These enzymes have both DNA glycosylase activity (3.2.2 from EC) and AP lyase activity (4.2.99.18 from EC) []. Examples include formamidopyrimidine-DNA glycosylases (Fpg; MutM) and endonuclease VIII (Nei). Formamidopyrimidine-DNA glycosylases (Fpg, MutM) is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidation-damaged bases (N-glycosylase activity; 3.2.2.23 from EC) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; 4.2.99.18 from EC). Fpg has a preference for oxidised purines, excising oxidized purine bases such as 7,8-dihydro-8-oxoguanine (8-oxoG). ITs AP (apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of 2 domains connected by a flexible hinge []. The two DNA-binding motifs (a zinc finger and the helix-two-turns-helix motifs) suggest that the oxidized base is flipped out from double-stranded DNA in the binding mode and excised by a catalytic mechanism similar to that of bifunctional base excision repair enzymes []. Fpg binds one ion of zinc at the C terminus, which contains four conserved and essential cysteines []. Endonuclease VIII (Nei) has the same enzyme activities as Fpg above, but with a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine [, ]. An Fpg-type zinc finger is also found at the C terminus of isoleucyl tRNA synthetase (6.1.1.5 from EC) [, ]. This enzyme catalyses the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pre-transfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'post-transfer' editing and involves deacylation of mischarged Val-tRNA(Ile) []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003824 catalytic activity; PDB: 1K82_C 1Q39_A 2OQ4_B 2OPF_A 1K3X_A 1K3W_A 1Q3B_A 2EA0_A 1Q3C_A 2XZF_A ....
Probab=36.52 E-value=15 Score=19.96 Aligned_cols=28 Identities=18% Similarity=0.287 Sum_probs=16.4
Q ss_pred CCCCCCCCCCCCeeeecccceeeecccc
Q psy17773 76 LTCADCAEAGPTWASLNLGLLLCIQCCG 103 (165)
Q Consensus 76 ~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~ 103 (165)
+.|.-|+..-+.-..-....++|..|..
T Consensus 2 ~~C~rC~~~~~~~~~~~r~~~~C~rCq~ 29 (30)
T PF06827_consen 2 EKCPRCWNYIEDIGINGRSTYLCPRCQK 29 (30)
T ss_dssp SB-TTT--BBEEEEETTEEEEE-TTTCC
T ss_pred CcCccCCCcceEeEecCCCCeECcCCcC
Confidence 3577788776555555667888988864
No 181
>PF13119 DUF3973: Domain of unknown function (DUF3973)
Probab=35.82 E-value=15 Score=21.91 Aligned_cols=14 Identities=36% Similarity=0.909 Sum_probs=11.2
Q ss_pred eeeeccccccccCC
Q psy17773 96 LLCIQCCGVHRCLG 109 (165)
Q Consensus 96 ~lC~~Cs~iHR~lg 109 (165)
+-|+.||.+|-.-+
T Consensus 2 yYCi~Cs~~h~e~~ 15 (41)
T PF13119_consen 2 YYCINCSEIHHEKG 15 (41)
T ss_pred EEEEEhHHhHHhhc
Confidence 56999999997643
No 182
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=35.66 E-value=56 Score=22.97 Aligned_cols=30 Identities=17% Similarity=0.430 Sum_probs=23.8
Q ss_pred CCCCCCCCCCCCCCCCeeeecccceeeecccc
Q psy17773 72 VPGNLTCADCAEAGPTWASLNLGLLLCIQCCG 103 (165)
Q Consensus 72 ~~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~ 103 (165)
...--.|.-||........ .||.-|..|..
T Consensus 33 q~a~y~CpfCgk~~vkR~a--~GIW~C~~C~~ 62 (90)
T PTZ00255 33 QHAKYFCPFCGKHAVKRQA--VGIWRCKGCKK 62 (90)
T ss_pred HhCCccCCCCCCCceeeee--eEEEEcCCCCC
Confidence 5677789999987766654 49999999964
No 183
>PLN02958 diacylglycerol kinase/D-erythro-sphingosine kinase
Probab=35.21 E-value=48 Score=29.93 Aligned_cols=25 Identities=24% Similarity=0.485 Sum_probs=22.3
Q ss_pred CeEEEEeCCHHHHHHHHHHHHHHHH
Q psy17773 33 KQWQFEAANSEERDDWIAAIQQQIL 57 (165)
Q Consensus 33 rt~~fqa~se~E~~~Wi~ai~~~i~ 57 (165)
|.|.|.+.+++.++.|+++|++.+.
T Consensus 82 ~~~~~~~~~~~~~~~w~~~~~~~~~ 106 (481)
T PLN02958 82 KDFVFEPLSDESRRLWCQKLRDYLD 106 (481)
T ss_pred eeEEEeCCCHHHHHHHHHHHHHHHh
Confidence 5899999999999999999987553
No 184
>cd03031 GRX_GRX_like Glutaredoxin (GRX) family, GRX-like domain containing protein subfamily; composed of uncharacterized eukaryotic proteins containing a GRX-like domain having only one conserved cysteine, aligning to the C-terminal cysteine of the CXXC motif of GRXs. This subfamily is predominantly composed of plant proteins. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins via a redox active CXXC motif using a similar dithiol mechanism employed by TRXs. GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. Proteins containing only the C-terminal cysteine are generally redox inactive.
Probab=35.08 E-value=32 Score=26.09 Aligned_cols=36 Identities=25% Similarity=0.614 Sum_probs=24.0
Q ss_pred HHHHHHHhhCCCCCCCCCCCCCCCCeeeecccceeeeccccccccC
Q psy17773 63 ASLQSIRSRVPGNLTCADCAEAGPTWASLNLGLLLCIQCCGVHRCL 108 (165)
Q Consensus 63 ~~l~~l~~~~~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~l 108 (165)
++|+.+.. ..+...|.-||. .+-.+|..|.|-|+.+
T Consensus 88 ~lL~~~~~-~~~~~~C~~Cgg---------~rfv~C~~C~Gs~k~~ 123 (147)
T cd03031 88 KLLKGIRA-RAGGGVCEGCGG---------ARFVPCSECNGSCKVF 123 (147)
T ss_pred HHHhhccc-ccCCCCCCCCCC---------cCeEECCCCCCcceEE
Confidence 33444433 445667999986 3455799999998864
No 185
>cd01269 PLX Pollux (PLX) Phosphotyrosine-binding (PTB) domain. Pollux (PLX) Phosphotyrosine-binding (PTB) domain. PLX is calmodulin-binding protein containing a TBC domain, which is conserved from yeast to man, but it only has an N-terminal PTB domain in mammals. PTB domains have a PH-like fold and are found in various eukaryotic signaling molecules. They were initially identified based upon their ability to recognize phosphorylated tyrosine residues. In contrast to SH2 domains, which recognize phosphotyrosine and adjacent carboxy-terminal residues, PTB-domain binding specificity is conferred by residues amino-terminal to the phosphotyrosine. More recent studies have found that some types of PTB domains can bind to peptides which are not tyrosine phosphorylated or lack tyrosine residues altogether.
Probab=34.96 E-value=1.4e+02 Score=22.36 Aligned_cols=24 Identities=17% Similarity=0.307 Sum_probs=20.6
Q ss_pred eEEEEeCCHHHHHHHHHHHHHHHH
Q psy17773 34 QWQFEAANSEERDDWIAAIQQQIL 57 (165)
Q Consensus 34 t~~fqa~se~E~~~Wi~ai~~~i~ 57 (165)
=|.||+.|++..++=|.+|.+++.
T Consensus 103 CyVFqc~Se~la~eI~lti~QAF~ 126 (129)
T cd01269 103 CYVFQCADESLVDEVMLTLKQAFS 126 (129)
T ss_pred EEEEEcCCHHHHHHHHHHHHHHHh
Confidence 379999999999998888877764
No 186
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=33.33 E-value=24 Score=19.72 Aligned_cols=24 Identities=25% Similarity=0.598 Sum_probs=12.5
Q ss_pred CCCCCCCCCCCeeeecccceeeecccc
Q psy17773 77 TCADCAEAGPTWASLNLGLLLCIQCCG 103 (165)
Q Consensus 77 ~CaDCg~~~p~w~s~n~Gv~lC~~Cs~ 103 (165)
.|--|++... | ..-.+++|..|..
T Consensus 4 ~Cp~C~se~~-y--~D~~~~vCp~C~~ 27 (30)
T PF08274_consen 4 KCPLCGSEYT-Y--EDGELLVCPECGH 27 (30)
T ss_dssp --TTT------E--E-SSSEEETTTTE
T ss_pred CCCCCCCcce-e--ccCCEEeCCcccc
Confidence 5777887654 2 5678999999964
No 187
>cd07167 NR_DBD_Lrh-1_like The DNA-binding domain of Lrh-1 like nuclear receptor family like is composed of two C4-type zinc fingers. The DNA-binding domain of Lrh-1 like nuclear receptor family like is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. This domain interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. This nuclear receptor family includes at least three subgroups of receptors that function in embryo development and differentiation, and other processes. FTZ-F1 interacts with the cis-acting DNA motif of ftz gene, which is required at several stages of development. Particularly, FTZ-F1 regulated genes are strongly linked to steroid biosynthesis and sex-determination; LRH-1 is a regulator of bile-acid homeostasis, steroidogenesis, reverse cholesterol transport and the initial stages of embryonic development; SF-1 is an essential regu
Probab=32.84 E-value=15 Score=25.73 Aligned_cols=27 Identities=30% Similarity=0.741 Sum_probs=20.8
Q ss_pred CCCCCCCCCCeeeecccceeeecccccccc
Q psy17773 78 CADCAEAGPTWASLNLGLLLCIQCCGVHRC 107 (165)
Q Consensus 78 CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR~ 107 (165)
|.-||.+.. ...||+..|..|+++.|-
T Consensus 1 C~VCg~~a~---g~hyGv~sC~aCk~FFRR 27 (93)
T cd07167 1 CPVCGDKVS---GYHYGLLTCESCKGFFKR 27 (93)
T ss_pred CcccCccCc---ceEECchhhhhHHHHHHH
Confidence 556776654 358999999999998764
No 188
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=31.68 E-value=19 Score=20.56 Aligned_cols=27 Identities=26% Similarity=0.603 Sum_probs=18.0
Q ss_pred CCCCCCCCCCCeeeec-ccceeeecccc
Q psy17773 77 TCADCAEAGPTWASLN-LGLLLCIQCCG 103 (165)
Q Consensus 77 ~CaDCg~~~p~w~s~n-~Gv~lC~~Cs~ 103 (165)
.|.+||..-..+.+.. -....|..|.+
T Consensus 7 ~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (41)
T smart00834 7 RCEDCGHTFEVLQKISDDPLATCPECGG 34 (41)
T ss_pred EcCCCCCEEEEEEecCCCCCCCCCCCCC
Confidence 5888888655555543 45667888876
No 189
>PF15411 PH_10: Pleckstrin homology domain
Probab=31.26 E-value=45 Score=24.31 Aligned_cols=32 Identities=22% Similarity=0.427 Sum_probs=24.5
Q ss_pred CcceEEEEe---CCCCeEEEEeCCHHHHHHHHHHH
Q psy17773 21 DSFELLIVS---LDNKQWQFEAANSEERDDWIAAI 52 (165)
Q Consensus 21 ~~~~F~ivt---~~~rt~~fqa~se~E~~~Wi~ai 52 (165)
..|.++|-= +..-.|++...+++.++.|-.+|
T Consensus 82 g~~~L~i~w~~d~e~~~F~lrf~nee~l~~W~~~L 116 (116)
T PF15411_consen 82 GSYSLQISWKGDPELENFTLRFRNEEQLEQWRSAL 116 (116)
T ss_pred CceEEEEEEcCCCCCceEEEEeCCHHHHHHHHhhC
Confidence 357777763 12458999999999999998765
No 190
>KOG4217|consensus
Probab=31.23 E-value=17 Score=33.14 Aligned_cols=31 Identities=26% Similarity=0.580 Sum_probs=26.3
Q ss_pred CCCCCCCCCCCCCCCCeeeecccceeeecccccc
Q psy17773 72 VPGNLTCADCAEAGPTWASLNLGLLLCIQCCGVH 105 (165)
Q Consensus 72 ~~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iH 105 (165)
.++.+.||-||... ++.-|||--|..|.|+-
T Consensus 266 ~~~e~~CAVCgDnA---aCqHYGvRTCEGCKGFF 296 (605)
T KOG4217|consen 266 LSAEGLCAVCGDNA---ACQHYGVRTCEGCKGFF 296 (605)
T ss_pred CCccceeeecCChH---HhhhcCccccccchHHH
Confidence 66788999999876 37789999999999954
No 191
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=31.11 E-value=41 Score=23.46 Aligned_cols=30 Identities=17% Similarity=0.461 Sum_probs=22.6
Q ss_pred CCCCCCCCCCCCCCeeeecc--------cceeeecccc
Q psy17773 74 GNLTCADCAEAGPTWASLNL--------GLLLCIQCCG 103 (165)
Q Consensus 74 ~N~~CaDCg~~~p~w~s~n~--------Gv~lC~~Cs~ 103 (165)
.+..|..||.....|..+-. -.|.|.+|..
T Consensus 61 ~~~~Cp~Cg~~~a~f~~~Q~RsadE~~T~fy~C~~C~~ 98 (104)
T TIGR01384 61 TRVECPKCGHKEAYYWLLQTRRADEPETRFYKCTKCGY 98 (104)
T ss_pred ccCCCCCCCCCeeEEEEeccCCCCCCcEEEEEeCCCCC
Confidence 36899999999988875533 3678888863
No 192
>TIGR00598 rad14 DNA repair protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=30.99 E-value=7.5 Score=30.57 Aligned_cols=28 Identities=14% Similarity=0.424 Sum_probs=20.8
Q ss_pred CCCCCCCCC-Ceeeecccceeeecccccc
Q psy17773 78 CADCAEAGP-TWASLNLGLLLCIQCCGVH 105 (165)
Q Consensus 78 CaDCg~~~p-~w~s~n~Gv~lC~~Cs~iH 105 (165)
|.+||+..- .+.--+|++-+|..|..-+
T Consensus 1 C~eCg~~~~D~~l~~~F~~~vC~~C~~~~ 29 (172)
T TIGR00598 1 CEECGKIFMDSYLFDHFDCAVCDNCRDKD 29 (172)
T ss_pred CccccchhhhHHHHHHCCChhhhhhhccc
Confidence 889998632 2334589999999998754
No 193
>smart00653 eIF2B_5 domain present in translation initiation factor eIF2B and eIF5.
Probab=30.84 E-value=40 Score=24.40 Aligned_cols=29 Identities=21% Similarity=0.480 Sum_probs=19.7
Q ss_pred CCCCCCCCCCCCCeeeeccc-ceeeecccc
Q psy17773 75 NLTCADCAEAGPTWASLNLG-LLLCIQCCG 103 (165)
Q Consensus 75 N~~CaDCg~~~p~w~s~n~G-v~lC~~Cs~ 103 (165)
--.|..|++|+..-.--+-- .+.|..|.+
T Consensus 80 yVlC~~C~spdT~l~k~~r~~~l~C~aCGa 109 (110)
T smart00653 80 YVLCPECGSPDTELIKENRLFFLKCEACGA 109 (110)
T ss_pred cEECCCCCCCCcEEEEeCCeEEEEccccCC
Confidence 34699999999877754333 334777753
No 194
>KOG2996|consensus
Probab=30.48 E-value=97 Score=29.30 Aligned_cols=38 Identities=8% Similarity=0.309 Sum_probs=30.5
Q ss_pred CcceEEEEeCCCC-eEEEEeCCHHHHHHHHHHHHHHHHH
Q psy17773 21 DSFELLIVSLDNK-QWQFEAANSEERDDWIAAIQQQILS 58 (165)
Q Consensus 21 ~~~~F~ivt~~~r-t~~fqa~se~E~~~Wi~ai~~~i~~ 58 (165)
.++-|.||-..+| .|.|.+.+++-+..||++++-++..
T Consensus 475 ws~~f~lI~tqg~ngl~fy~Kte~~kkkWmeqfema~SN 513 (865)
T KOG2996|consen 475 WSYGFYLIHTQGRNGLEFYCKTEDLKKKWMEQFEMAKSN 513 (865)
T ss_pred eeeeEEEEEEcCCcceEEEEecHHHHHHHHHHHHHHHhc
Confidence 3578888853544 7899999999999999999877654
No 195
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=30.45 E-value=36 Score=21.10 Aligned_cols=26 Identities=23% Similarity=0.543 Sum_probs=18.3
Q ss_pred CCCCCCCCCCCCCCeeeecccceeeeccc
Q psy17773 74 GNLTCADCAEAGPTWASLNLGLLLCIQCC 102 (165)
Q Consensus 74 ~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs 102 (165)
.++.|..||+. ......+.+.|..|.
T Consensus 19 ~~~fCP~Cg~~---~m~~~~~r~~C~~Cg 44 (50)
T PRK00432 19 KNKFCPRCGSG---FMAEHLDRWHCGKCG 44 (50)
T ss_pred ccCcCcCCCcc---hheccCCcEECCCcC
Confidence 45689999984 333344788898884
No 196
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=30.44 E-value=28 Score=20.82 Aligned_cols=25 Identities=24% Similarity=0.571 Sum_probs=16.9
Q ss_pred CCCCCCCCCCCCCCeeeecccceeeecc
Q psy17773 74 GNLTCADCAEAGPTWASLNLGLLLCIQC 101 (165)
Q Consensus 74 ~N~~CaDCg~~~p~w~s~n~Gv~lC~~C 101 (165)
-+..|.+||.|--+ ..-|..+|..|
T Consensus 16 L~~~Cp~C~~PL~~---~k~g~~~Cv~C 40 (41)
T PF06677_consen 16 LDEHCPDCGTPLMR---DKDGKIYCVSC 40 (41)
T ss_pred hcCccCCCCCeeEE---ecCCCEECCCC
Confidence 35689999876432 24477788877
No 197
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=29.94 E-value=40 Score=19.63 Aligned_cols=28 Identities=18% Similarity=0.490 Sum_probs=17.2
Q ss_pred CCCCCCCCCCCeeeecccceeeeccccc
Q psy17773 77 TCADCAEAGPTWASLNLGLLLCIQCCGV 104 (165)
Q Consensus 77 ~CaDCg~~~p~w~s~n~Gv~lC~~Cs~i 104 (165)
.|..|+..-..-..-.+-+-.|..|.|+
T Consensus 1 ~CP~C~~~l~~~~~~~~~id~C~~C~G~ 28 (41)
T PF13453_consen 1 KCPRCGTELEPVRLGDVEIDVCPSCGGI 28 (41)
T ss_pred CcCCCCcccceEEECCEEEEECCCCCeE
Confidence 3777777533222345667778888775
No 198
>KOG4846|consensus
Probab=29.43 E-value=22 Score=31.94 Aligned_cols=30 Identities=23% Similarity=0.613 Sum_probs=23.8
Q ss_pred CCCCCCCCCCCCCCeeeecccceeeeccccccc
Q psy17773 74 GNLTCADCAEAGPTWASLNLGLLLCIQCCGVHR 106 (165)
Q Consensus 74 ~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iHR 106 (165)
+--.|--||....-+ -|||+-|..|.|+-|
T Consensus 131 ~~~lCkVCgDkASGf---HYGV~aCEGCKGFFR 160 (538)
T KOG4846|consen 131 AISLCKVCGDKASGF---HYGVTACEGCKGFFR 160 (538)
T ss_pred eeEeehhhccccccc---eeceeecccchHHHH
Confidence 344689999887755 689999999999654
No 199
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is
Probab=29.41 E-value=1e+02 Score=21.40 Aligned_cols=22 Identities=18% Similarity=0.273 Sum_probs=17.6
Q ss_pred ceEEEEeCCCCeEEEEeCCHHH
Q psy17773 23 FELLIVSLDNKQWQFEAANSEE 44 (165)
Q Consensus 23 ~~F~ivt~~~rt~~fqa~se~E 44 (165)
|.|.+.+|.+|+.+|++...+-
T Consensus 1 f~FK~~~~~GrvhRf~~~~s~~ 22 (86)
T cd06409 1 FAFKFKDPKGRVHRFRLRPSES 22 (86)
T ss_pred CcEEeeCCCCCEEEEEecCCCC
Confidence 6788888779999999985444
No 200
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=29.36 E-value=29 Score=28.32 Aligned_cols=25 Identities=32% Similarity=0.529 Sum_probs=20.0
Q ss_pred CCCCCCCCCCCCCCCeeeecccceeeeccccc
Q psy17773 73 PGNLTCADCAEAGPTWASLNLGLLLCIQCCGV 104 (165)
Q Consensus 73 ~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~i 104 (165)
+.-+.|.-||. +.-+.+.|..|...
T Consensus 307 ~tS~~C~~cg~-------~~~r~~~C~~cg~~ 331 (364)
T COG0675 307 YTSKTCPCCGH-------LSGRLFKCPRCGFV 331 (364)
T ss_pred CCcccccccCC-------ccceeEECCCCCCe
Confidence 34478999999 56788999999863
No 201
>TIGR03847 conserved hypothetical protein. The conserved hypothetical protein described here occurs as part of the trio of uncharacterized proteins common in the Actinobacteria.
Probab=27.06 E-value=45 Score=26.31 Aligned_cols=42 Identities=12% Similarity=0.092 Sum_probs=23.0
Q ss_pred CCeEEEEeCCHHH-HHHHHHHHHHHHHHhHHHHHHHHHHhhCCC
Q psy17773 32 NKQWQFEAANSEE-RDDWIAAIQQQILSSLQTASLQSIRSRVPG 74 (165)
Q Consensus 32 ~rt~~fqa~se~E-~~~Wi~ai~~~i~~~l~~~~l~~l~~~~~~ 74 (165)
.|||+|||.+... -..|++.-|-+.....-.+.|+.+.. ..|
T Consensus 21 ~RtFyLQa~~g~rlvSv~lEK~Qv~aLAe~i~~LLdel~~-~~g 63 (177)
T TIGR03847 21 ARTFYLQAREGSRVVSVALEKQQVAALAERIDELLDEVGR-RFG 63 (177)
T ss_pred ceEEEEEeccCCcEEEEEehHHHHHHHHHHHHHHHHHHHh-hcC
Confidence 8999999986543 23344444433222222456677755 444
No 202
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=26.85 E-value=1.1e+02 Score=23.27 Aligned_cols=28 Identities=14% Similarity=0.313 Sum_probs=18.0
Q ss_pred CCCCCCCCCCCeeeecccceeeecccccc
Q psy17773 77 TCADCAEAGPTWASLNLGLLLCIQCCGVH 105 (165)
Q Consensus 77 ~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iH 105 (165)
.|..|+..-+.==.+++ -|.|..|.+.-
T Consensus 111 ~Cp~c~~r~tf~eA~~~-~F~Cp~Cg~~L 138 (158)
T TIGR00373 111 ICPNMCVRFTFNEAMEL-NFTCPRCGAML 138 (158)
T ss_pred ECCCCCcEeeHHHHHHc-CCcCCCCCCEe
Confidence 59999965322222334 49999998863
No 203
>PF04170 NlpE: NlpE N-terminal domain; InterPro: IPR007298 This family represents a bacterial outer membrane lipoprotein that is necessary for signalling by the Cpx pathway []. This pathway responds to cell envelope disturbances and increases the expression of periplasmic protein folding and degradation factors. While the molecular function of the NlpE protein is unknown, it may be involved in detecting bacterial adhesion to abiotic surfaces. NlpE from Escherichia coli and Salmonella typhi is also known to confer copper tolerance in copper-sensitive strains of E. coli, and may be involved in copper efflux and delivery of copper to copper-dependent enzymes [].; PDB: 3LHN_A 2Z4I_B 2Z4H_A.
Probab=26.83 E-value=26 Score=23.96 Aligned_cols=16 Identities=38% Similarity=0.787 Sum_probs=13.4
Q ss_pred ccceeeeccccccccC
Q psy17773 93 LGLLLCIQCCGVHRCL 108 (165)
Q Consensus 93 ~Gv~lC~~Cs~iHR~l 108 (165)
.|++.|-+|.||.-.|
T Consensus 2 ~G~LPCADC~GI~t~L 17 (87)
T PF04170_consen 2 EGTLPCADCPGIKTTL 17 (87)
T ss_dssp EEEEEETTSSEEEEEE
T ss_pred ccEeECCCCCCeEEEE
Confidence 3899999999987654
No 204
>KOG3640|consensus
Probab=26.77 E-value=60 Score=32.11 Aligned_cols=22 Identities=27% Similarity=0.533 Sum_probs=19.3
Q ss_pred eEEEEeCCHHHHHHHHHHHHHH
Q psy17773 34 QWQFEAANSEERDDWIAAIQQQ 55 (165)
Q Consensus 34 t~~fqa~se~E~~~Wi~ai~~~ 55 (165)
.-.+.|++.+|++.|+.+|.+.
T Consensus 1084 Rv~LaADTkeel~~Wls~iN~t 1105 (1116)
T KOG3640|consen 1084 RVMLAADTKEELQSWLSAINDT 1105 (1116)
T ss_pred eeeeecccHHHHHHHHHHHHHH
Confidence 4589999999999999999763
No 205
>PRK08665 ribonucleotide-diphosphate reductase subunit alpha; Validated
Probab=26.76 E-value=1.8e+02 Score=28.05 Aligned_cols=23 Identities=22% Similarity=0.652 Sum_probs=16.1
Q ss_pred CCCCCCCCCCCCeeeecccceeeeccc
Q psy17773 76 LTCADCAEAGPTWASLNLGLLLCIQCC 102 (165)
Q Consensus 76 ~~CaDCg~~~p~w~s~n~Gv~lC~~Cs 102 (165)
..|.+||.+ ....=|+..|..|.
T Consensus 725 ~~Cp~Cg~~----l~~~~GC~~C~~CG 747 (752)
T PRK08665 725 GACPECGSI----LEHEEGCVVCHSCG 747 (752)
T ss_pred CCCCCCCcc----cEECCCCCcCCCCC
Confidence 469999843 23344889999884
No 206
>PHA02942 putative transposase; Provisional
Probab=26.74 E-value=40 Score=29.53 Aligned_cols=27 Identities=15% Similarity=0.471 Sum_probs=19.7
Q ss_pred CCCCCCCCCCCCCCeeeecccceeeecccc
Q psy17773 74 GNLTCADCAEAGPTWASLNLGLLLCIQCCG 103 (165)
Q Consensus 74 ~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~ 103 (165)
.-+.|..||...+ .++-.+|.|..|.-
T Consensus 324 TSq~Cs~CG~~~~---~l~~r~f~C~~CG~ 350 (383)
T PHA02942 324 SSVSCPKCGHKMV---EIAHRYFHCPSCGY 350 (383)
T ss_pred CCccCCCCCCccC---cCCCCEEECCCCCC
Confidence 3457999998765 34556899999865
No 207
>KOG1597|consensus
Probab=26.37 E-value=51 Score=28.21 Aligned_cols=28 Identities=29% Similarity=0.536 Sum_probs=22.1
Q ss_pred CCCCCCCCCC-Ceeeecccceeeeccccc
Q psy17773 77 TCADCAEAGP-TWASLNLGLLLCIQCCGV 104 (165)
Q Consensus 77 ~CaDCg~~~p-~w~s~n~Gv~lC~~Cs~i 104 (165)
.|.||....+ .-....-|..+|.+|.-|
T Consensus 2 ~c~~C~~~~~~~V~d~~~gdtvC~~CGlV 30 (308)
T KOG1597|consen 2 TCPDCKRHPENLVEDHSAGDTVCSECGLV 30 (308)
T ss_pred CCCCCCCCCCCeeeeccCCceecccCCee
Confidence 6999999877 444556699999999864
No 208
>KOG1264|consensus
Probab=25.92 E-value=80 Score=31.09 Aligned_cols=38 Identities=21% Similarity=0.389 Sum_probs=28.1
Q ss_pred CCCcceEEEE--eCCCCeEEEEeCCHHHHHHHHHHHHHHH
Q psy17773 19 DSDSFELLIV--SLDNKQWQFEAANSEERDDWIAAIQQQI 56 (165)
Q Consensus 19 ~~~~~~F~iv--t~~~rt~~fqa~se~E~~~Wi~ai~~~i 56 (165)
.++.|-|.|- +.....|.|.|++.||..+|+.+|++.-
T Consensus 871 n~~~~vf~l~~~~~~~~~~~~aadsqEe~~eW~k~i~E~t 910 (1267)
T KOG1264|consen 871 NQKSFVFILEPKWQGKPPVEFAADSQEELFEWFKSIREIT 910 (1267)
T ss_pred CCcceEEEechhhhcCCceEEecCchHHHHHHHHHHHHHH
Confidence 4455777654 2124478999999999999999999643
No 209
>KOG3521|consensus
Probab=25.71 E-value=67 Score=30.69 Aligned_cols=26 Identities=8% Similarity=0.254 Sum_probs=22.6
Q ss_pred CeEEEEeCCHHHHHHHHHHHHHHHHH
Q psy17773 33 KQWQFEAANSEERDDWIAAIQQQILS 58 (165)
Q Consensus 33 rt~~fqa~se~E~~~Wi~ai~~~i~~ 58 (165)
--|.|||...+++..|.+++..+...
T Consensus 503 ~ayt~hcs~p~d~~~W~D~l~~Aq~~ 528 (846)
T KOG3521|consen 503 AAYTMHCSGPEDTLRWTDMLKMAQDE 528 (846)
T ss_pred hhheeecCChhhHHHHHHHHHHHHHH
Confidence 46999999999999999999876543
No 210
>PF06689 zf-C4_ClpX: ClpX C4-type zinc finger; InterPro: IPR010603 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The ClpX heat shock protein of Escherichia coli is a member of the universally conserved Hsp100 family of proteins, and possesses a putative zinc finger motif of the C4 type []. This presumed zinc binding domain (ZBD) is found at the N terminus of the ClpX protein. ClpX is an ATPase which functions both as a substrate specificity component of the ClpXP protease and as a molecular chaperone. ZBD is a member of the treble clef zinc finger family, a motif known to facilitate protein-ligand, protein-DNA, and protein-protein interactions and forms a constitutive dimer that is essential for the degradation of some, but not all, ClpX substrates []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0016887 ATPase activity, 0046983 protein dimerization activity, 0006200 ATP catabolic process, 0019538 protein metabolic process; PDB: 2DS8_B 2DS6_B 2DS5_A 1OVX_A 2DS7_A.
Probab=25.49 E-value=52 Score=19.38 Aligned_cols=28 Identities=21% Similarity=0.460 Sum_probs=16.0
Q ss_pred CCCCCCCCCCC---Ceeeecccceeeecccc
Q psy17773 76 LTCADCAEAGP---TWASLNLGLLLCIQCCG 103 (165)
Q Consensus 76 ~~CaDCg~~~p---~w~s~n~Gv~lC~~Cs~ 103 (165)
+.|.=||.+.. .-++-+-|++||..|..
T Consensus 2 ~~CSFCgr~~~~v~~li~g~~~~~IC~~Cv~ 32 (41)
T PF06689_consen 2 KRCSFCGRPESEVGRLISGPNGAYICDECVE 32 (41)
T ss_dssp -B-TTT--BTTTSSSEEEES-SEEEEHHHHH
T ss_pred CCccCCCCCHHHHhceecCCCCcEECHHHHH
Confidence 46888887643 33444448999999974
No 211
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=24.88 E-value=41 Score=24.31 Aligned_cols=30 Identities=33% Similarity=0.726 Sum_probs=20.4
Q ss_pred CCCCCCCCCCCCCCCCeeeecccceeeecccccc
Q psy17773 72 VPGNLTCADCAEAGPTWASLNLGLLLCIQCCGVH 105 (165)
Q Consensus 72 ~~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iH 105 (165)
.|.--.|.+||... .+.--.+.|..|.+..
T Consensus 67 ~p~~~~C~~Cg~~~----~~~~~~~~CP~Cgs~~ 96 (115)
T TIGR00100 67 EPVECECEDCSEEV----SPEIDLYRCPKCHGIM 96 (115)
T ss_pred eCcEEEcccCCCEE----ecCCcCccCcCCcCCC
Confidence 67777899999532 2222247799998754
No 212
>PF04161 Arv1: Arv1-like family ; InterPro: IPR007290 Arv1 is a transmembrane protein, with potential zinc-binding motifs, that mediates sterol homeostasis. Its action is important in lipid homeostasis, which prevents free sterol toxicity []. Arv1 contains a homology domain (AHD), which consists of an N-terminal cysteine-rich subdomain with a putative zinc-binding motif, followed by a C-terminal subdomain of 33 amino acids. The C-terminal subdomain of the AHD is critical for the protein's function []. In yeast, Arv1p is important for the delivery of an early glycosylphosphatidylinositol GPI intermediate, GlcN-acylPI, to the first mannosyltransferase of GPI synthesis in the ER lumen []. It is important for the traffic of sterol in yeast and in humans. In eukaryotic cells, it may fuction in the sphingolipid metabolic pathway as a transporter of ceramides between the ER and Golgi [].
Probab=24.83 E-value=32 Score=27.39 Aligned_cols=27 Identities=22% Similarity=0.581 Sum_probs=20.7
Q ss_pred CCCCCCCCCC----Ceeeecccceeeecccc
Q psy17773 77 TCADCAEAGP----TWASLNLGLLLCIQCCG 103 (165)
Q Consensus 77 ~CaDCg~~~p----~w~s~n~Gv~lC~~Cs~ 103 (165)
+|.+||.+-+ ++-+-|.....|.+|..
T Consensus 2 iCIeCg~~v~~Ly~~Ys~~~irLt~C~~C~~ 32 (208)
T PF04161_consen 2 ICIECGHPVKSLYRQYSPGNIRLTKCPNCGK 32 (208)
T ss_pred EeccCCCcchhhhhccCCCcEEEeeccccCC
Confidence 5999999853 55566777889999975
No 213
>KOG3531|consensus
Probab=24.10 E-value=26 Score=34.13 Aligned_cols=47 Identities=13% Similarity=0.294 Sum_probs=0.0
Q ss_pred ccccccccccc-------CCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHH
Q psy17773 8 AEIPIILVGTQ-------DSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQ 55 (165)
Q Consensus 8 ~~i~~~~~~~~-------~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~ 55 (165)
+.+|+.-.++. ..+.|.|.+.- .+-.|.|.|++.---..||+.|+.+
T Consensus 965 aslPlLgysvs~P~~~d~i~K~~vfkl~f-k~hvyffraes~yt~~rw~evi~~a 1018 (1036)
T KOG3531|consen 965 ASLPLLGYSVSIPAEPDPIQKDYVFKLKF-KSHVYFFRAESYYTFERWMEVITDA 1018 (1036)
T ss_pred ccccccccccCCCCCCCCcchhheeeeeh-hhhHHHHhhhhhhhhhhHHHHhhcC
No 214
>PF05965 FYRC: F/Y rich C-terminus; InterPro: IPR003889 The "FY-rich" domain C-terminal region is sometimes closely juxtaposed with the N-terminal region (IPR003888 from INTERPRO), but sometimes is far distant. It is of unknown function, but occurs frequently in chromatin-associated proteins like trithorax and its homologues.; GO: 0005634 nucleus; PDB: 2WZO_A.
Probab=23.41 E-value=2.4e+02 Score=18.85 Aligned_cols=57 Identities=19% Similarity=0.315 Sum_probs=32.4
Q ss_pred cceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHHH---HhH---------H--------HHHHHHHHhhCCCCCCCCC
Q psy17773 22 SFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQIL---SSL---------Q--------TASLQSIRSRVPGNLTCAD 80 (165)
Q Consensus 22 ~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i~---~~l---------~--------~~~l~~l~~~~~~N~~CaD 80 (165)
..-|+|.....-.+.|.+.|..+ .|-..++..-. ... + ...+..+.++.||-+.|..
T Consensus 3 ~P~F~Vt~~d~p~~~~~g~s~~~--~W~~i~~~v~~~r~~~~~~~~~~~~isG~~~FGls~p~V~~lie~Lp~a~~c~~ 79 (86)
T PF05965_consen 3 GPLFEVTSEDDPGEVFEGSSPTE--AWSEILERVNEARKQSGLLKLPPNSISGPEMFGLSNPAVQRLIESLPGADKCSN 79 (86)
T ss_dssp SEEEEEEETT-GGG-EEESSHHH--HHHHHHHHHHHHHT-------TT----HHHHHSTTSHHHHHHHTTSTTGGG-TT
T ss_pred CCEEEEEECCCCCCEEEeCCHHH--HHHHHHHHHHHHHhhccccccCCCCCCHhHhcCCCCHHHHHHHHhCCCcchhhc
Confidence 56788876333478999999987 57665553211 111 0 3445555555999998864
No 215
>KOG3549|consensus
Probab=23.27 E-value=1.3e+02 Score=26.60 Aligned_cols=39 Identities=18% Similarity=0.317 Sum_probs=30.8
Q ss_pred CCcceEEEEeCC-CCeEEEEeCCHHHHHHHHHHHHHHHHH
Q psy17773 20 SDSFELLIVSLD-NKQWQFEAANSEERDDWIAAIQQQILS 58 (165)
Q Consensus 20 ~~~~~F~ivt~~-~rt~~fqa~se~E~~~Wi~ai~~~i~~ 58 (165)
-|.+.|++.-.+ --|-.+++.+.++..+|+.+|...|..
T Consensus 223 lRqNAFeV~aldGvstGii~c~~a~d~~dWL~ait~Ni~~ 262 (505)
T KOG3549|consen 223 LRQNAFEVRALDGVSTGIIHCDEAADLSDWLKAITDNIVG 262 (505)
T ss_pred hhhccceEEeecccccceeEEhhhhHHHHHHHHHHHHHHH
Confidence 345779987544 346799999999999999999887754
No 216
>PRK00420 hypothetical protein; Validated
Probab=23.24 E-value=57 Score=23.83 Aligned_cols=29 Identities=21% Similarity=0.193 Sum_probs=21.9
Q ss_pred CCCCCCCCCCCCCCeeeecccceeeecccccc
Q psy17773 74 GNLTCADCAEAGPTWASLNLGLLLCIQCCGVH 105 (165)
Q Consensus 74 ~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iH 105 (165)
-+..|..||.+-.. ++-|-..|..|..+.
T Consensus 22 l~~~CP~Cg~pLf~---lk~g~~~Cp~Cg~~~ 50 (112)
T PRK00420 22 LSKHCPVCGLPLFE---LKDGEVVCPVHGKVY 50 (112)
T ss_pred ccCCCCCCCCccee---cCCCceECCCCCCee
Confidence 34899999987543 367999999997644
No 217
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=22.84 E-value=50 Score=17.75 Aligned_cols=15 Identities=20% Similarity=0.609 Sum_probs=8.6
Q ss_pred CCCCCCCCCCCCCCC
Q psy17773 72 VPGNLTCADCAEAGP 86 (165)
Q Consensus 72 ~~~N~~CaDCg~~~p 86 (165)
.+.+..|.-|+++.|
T Consensus 15 ~~~~~~C~~C~~~rp 29 (30)
T PF00641_consen 15 PASRSKCVACGAPRP 29 (30)
T ss_dssp ESSSSB-TTT--BTT
T ss_pred hHHhhhhhCcCCCCc
Confidence 456677888888776
No 218
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=22.50 E-value=37 Score=24.54 Aligned_cols=31 Identities=23% Similarity=0.377 Sum_probs=21.9
Q ss_pred CCCCCCCCCCCCCCCCeeeecccceeeecccccc
Q psy17773 72 VPGNLTCADCAEAGPTWASLNLGLLLCIQCCGVH 105 (165)
Q Consensus 72 ~~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~iH 105 (165)
.|..-.|.+||..-| ...+..+.|..|.+..
T Consensus 67 ~p~~~~C~~Cg~~~~---~~~~~~~~CP~Cgs~~ 97 (114)
T PRK03681 67 QEAECWCETCQQYVT---LLTQRVRRCPQCHGDM 97 (114)
T ss_pred eCcEEEcccCCCeee---cCCccCCcCcCcCCCC
Confidence 677788999996332 2234557799998764
No 219
>PTZ00218 40S ribosomal protein S29; Provisional
Probab=22.41 E-value=32 Score=21.92 Aligned_cols=29 Identities=28% Similarity=0.511 Sum_probs=21.7
Q ss_pred CCCCCCCCCCCCCCCCeeeecccceeeeccc
Q psy17773 72 VPGNLTCADCAEAGPTWASLNLGLLLCIQCC 102 (165)
Q Consensus 72 ~~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs 102 (165)
.+|...|.-||.+. =+--.||..+|..|-
T Consensus 13 GkGsr~C~vCg~~~--gliRkygL~~CRqCF 41 (54)
T PTZ00218 13 GKGSRQCRVCSNRH--GLIRKYGLNVCRQCF 41 (54)
T ss_pred CCCCCeeecCCCcc--hhhhhcCcchhhHHH
Confidence 56788999999864 234478888998885
No 220
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=22.16 E-value=63 Score=22.73 Aligned_cols=30 Identities=20% Similarity=0.522 Sum_probs=23.2
Q ss_pred CCCCCCCCCCCCCCCCeeeecccceeeecccc
Q psy17773 72 VPGNLTCADCAEAGPTWASLNLGLLLCIQCCG 103 (165)
Q Consensus 72 ~~~N~~CaDCg~~~p~w~s~n~Gv~lC~~Cs~ 103 (165)
....-.|.-||..... ....||.-|..|.-
T Consensus 32 q~~ky~Cp~Cgk~~vk--R~a~GIW~C~~C~~ 61 (90)
T PF01780_consen 32 QHAKYTCPFCGKTSVK--RVATGIWKCKKCGK 61 (90)
T ss_dssp HHS-BEESSSSSSEEE--EEETTEEEETTTTE
T ss_pred HhCCCcCCCCCCceeE--EeeeEEeecCCCCC
Confidence 5567789999998754 44679999999964
No 221
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=21.87 E-value=37 Score=20.53 Aligned_cols=27 Identities=22% Similarity=0.534 Sum_probs=18.2
Q ss_pred CCCCCCCCCCCeeeecc-cceeeecccc
Q psy17773 77 TCADCAEAGPTWASLNL-GLLLCIQCCG 103 (165)
Q Consensus 77 ~CaDCg~~~p~w~s~n~-Gv~lC~~Cs~ 103 (165)
.|.+||..--.|.+..- ....|..|.+
T Consensus 7 ~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (52)
T TIGR02605 7 RCTACGHRFEVLQKMSDDPLATCPECGG 34 (52)
T ss_pred EeCCCCCEeEEEEecCCCCCCCCCCCCC
Confidence 58888886556665443 4456888876
No 222
>PF14376 Haem_bd: Haem-binding domain
Probab=21.75 E-value=47 Score=24.77 Aligned_cols=14 Identities=21% Similarity=0.662 Sum_probs=11.8
Q ss_pred CCCCCCCCCCCCee
Q psy17773 76 LTCADCAEAGPTWA 89 (165)
Q Consensus 76 ~~CaDCg~~~p~w~ 89 (165)
+-|.||.+.++.|-
T Consensus 42 ~~CydCHSn~T~~P 55 (137)
T PF14376_consen 42 NSCYDCHSNNTRYP 55 (137)
T ss_pred ccccccCCCCCCCc
Confidence 67999999987765
No 223
>smart00542 FYRC "FY-rich" domain, C-terminal region. is sometimes closely juxtaposed with the N-terminal region (FYRN), but sometimes is far distant. Unknown function, but occurs frequently in chromatin-associated proteins.
Probab=21.55 E-value=2.7e+02 Score=18.86 Aligned_cols=45 Identities=13% Similarity=0.399 Sum_probs=27.5
Q ss_pred eEEEEeCCHHHHHHHHHHHH---HHHHHhH-----------------HHHHHHHHHhhCCCCCCCCC
Q psy17773 34 QWQFEAANSEERDDWIAAIQ---QQILSSL-----------------QTASLQSIRSRVPGNLTCAD 80 (165)
Q Consensus 34 t~~fqa~se~E~~~Wi~ai~---~~i~~~l-----------------~~~~l~~l~~~~~~N~~CaD 80 (165)
.+.|.++|.+. -|-..++ +...... ..+++..|.++.||.+.|.+
T Consensus 11 ~~~~~~~S~~~--~W~~vl~~v~~~r~~~~~~~~~~~~isG~~mFGls~p~V~~lie~Lpga~~C~~ 75 (86)
T smart00542 11 DEVFKGESPEK--CWEMVLERVQEARIVARLLQLLPEGVSGEDMFGLSSPAVVKLIEQLPGVHQCTN 75 (86)
T ss_pred CCeEEeCCHHH--HHHHHHHHHHHHHHHcccCCCCCCCCCcHHHhCCCcHHHHHHHHhCCCchhhhh
Confidence 67888988887 4665554 3332211 04455555555999998864
No 224
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=21.49 E-value=97 Score=26.24 Aligned_cols=34 Identities=21% Similarity=0.514 Sum_probs=22.6
Q ss_pred HHHHHHHhhCCCCCCCCCCCCC----CCCeeeecccceeeecccc
Q psy17773 63 ASLQSIRSRVPGNLTCADCAEA----GPTWASLNLGLLLCIQCCG 103 (165)
Q Consensus 63 ~~l~~l~~~~~~N~~CaDCg~~----~p~w~s~n~Gv~lC~~Cs~ 103 (165)
.+.+-+.- ...++.|.-||.+ .-.|+ .+|..|..
T Consensus 100 ~a~~l~~w-~~~~RFCg~CG~~~~~~~~g~~------~~C~~cg~ 137 (279)
T COG2816 100 RAVQLLEW-YRSHRFCGRCGTKTYPREGGWA------RVCPKCGH 137 (279)
T ss_pred HHHHHHHH-HhhCcCCCCCCCcCccccCcee------eeCCCCCC
Confidence 34444455 7789999999986 33454 35777764
No 225
>KOG4424|consensus
Probab=21.45 E-value=90 Score=29.19 Aligned_cols=50 Identities=16% Similarity=0.343 Sum_probs=33.6
Q ss_pred Cccccccccccc-------CCCcceEEEEeCCCCeEEEEeCCHHHHHHHHHHHHHHHH
Q psy17773 7 AAEIPIILVGTQ-------DSDSFELLIVSLDNKQWQFEAANSEERDDWIAAIQQQIL 57 (165)
Q Consensus 7 ~~~i~~~~~~~~-------~~~~~~F~ivt~~~rt~~fqa~se~E~~~Wi~ai~~~i~ 57 (165)
++-||+..+.+. .+....|.++ +....|+|.|++++-.+.|++.+..+..
T Consensus 540 ~~~iPl~~~~v~~pe~~~~~D~~~~~k~~-~s~~~~~~~a~~~q~qq~wl~~l~~A~~ 596 (623)
T KOG4424|consen 540 QATIPLPGVEVTIPEFVRREDLFHVFKLV-QSHLSWHLAADDEQLQQRWLEVLLLAVS 596 (623)
T ss_pred ccccccCccccCCCcccccchhcchhhhh-hhcceeeeccCCHHHHHHHHHHHHhhhc
Confidence 345666655553 1222345544 3567999999999999999999865543
No 226
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=21.22 E-value=46 Score=17.50 Aligned_cols=10 Identities=20% Similarity=0.717 Sum_probs=4.7
Q ss_pred CCCCCCCCCC
Q psy17773 74 GNLTCADCAE 83 (165)
Q Consensus 74 ~N~~CaDCg~ 83 (165)
+.+.|..||+
T Consensus 15 ~~~fC~~CG~ 24 (26)
T PF13248_consen 15 DAKFCPNCGA 24 (26)
T ss_pred ccccChhhCC
Confidence 4444555544
No 227
>PF08671 SinI: Anti-repressor SinI; InterPro: IPR010981 The SinR repressor is part of a group of Sin (sporulation inhibition) proteins in Bacillus subtilis that regulate the commitment to sporulation in response to extreme adversity []. SinR is a tetrameric repressor protein that binds to the promoters of genes essential for entry into sporulation and prevents their transcription. This repression is overcome through the activity of SinI, which disrupts the SinR tetramer through the formation of a SinI-SinR heterodimer, thereby allowing sporulation to proceed. The SinR structure consists of two domains: a dimerisation domain stabilised by a hydrophobic core, and a DNA-binding domain that is identical to domains of the bacteriophage 434 CI and Cro proteins that regulate prophage induction. The dimerisation domain is a four-helical bundle formed from two helices from the C-terminal residues of SinR and two helices from the central residues of SinI. These regions in SinR and SinI are similar in both structure and sequence. The interaction of SinR monomers to form tetramers is weaker than between SinR and SinI, since SinI can effectively disrupt SinR tetramers. This entry represents the dimerisation domain in both SinI and SinR proteins.; GO: 0005488 binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1B0N_A 2YAL_A.
Probab=21.11 E-value=1.7e+02 Score=16.28 Aligned_cols=21 Identities=19% Similarity=0.556 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHhHHHHHHH
Q psy17773 46 DDWIAAIQQQILSSLQTASLQ 66 (165)
Q Consensus 46 ~~Wi~ai~~~i~~~l~~~~l~ 66 (165)
.+|++-|..|+...+..+-++
T Consensus 3 ~EW~~Li~eA~~~Gls~eeir 23 (30)
T PF08671_consen 3 EEWVELIKEAKESGLSKEEIR 23 (30)
T ss_dssp HHHHHHHHHHHHTT--HHHHH
T ss_pred HHHHHHHHHHHHcCCCHHHHH
Confidence 579999999988877644333
No 228
>smart00782 PhnA_Zn_Ribbon PhnA Zinc-Ribbon. This protein family includes an uncharacterised member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterised phosphonoacetate hydrolase designated PhnA.
Probab=20.17 E-value=52 Score=20.21 Aligned_cols=31 Identities=19% Similarity=0.586 Sum_probs=21.3
Q ss_pred CCCCCCCCCCCCCC--Ce-------eeecccceeeecccc
Q psy17773 73 PGNLTCADCAEAGP--TW-------ASLNLGLLLCIQCCG 103 (165)
Q Consensus 73 ~~N~~CaDCg~~~p--~w-------~s~n~Gv~lC~~Cs~ 103 (165)
..+..|.=||+..+ .| .+..-.|++|..|..
T Consensus 5 Rs~~kCELC~a~~~L~vy~Vpp~~~~~~d~~iliC~tC~~ 44 (47)
T smart00782 5 RCESKCELCGSDSPLVVYAVPPSSDVTADNSVMLCDTCHS 44 (47)
T ss_pred HcCCcccCcCCCCCceEEecCCCCCCCccceeeechHHHH
Confidence 45566999998653 11 244668999999964
No 229
>cd01255 PH_TIAM TIAM Pleckstrin homology (PH) domain. TIAM Pleckstrin homology (PH) domain. TIAM (T-cell invasion and metastasis) is a guanine nucleotide exchange factor specific for RAC1. It consists of an N-terminal PH domain followed by Raf-like ras binding domain(RDB), a PDZ domain, a RhoGEF (DH) domain and a PH domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. This subfamily contains the alignment of the PH domain that follows the DH domain.
Probab=20.15 E-value=2e+02 Score=22.25 Aligned_cols=40 Identities=13% Similarity=0.252 Sum_probs=31.7
Q ss_pred CCCcceEEEEe---C----CCCeEEEEeCCHHHHHHHHHHHHHHHHH
Q psy17773 19 DSDSFELLIVS---L----DNKQWQFEAANSEERDDWIAAIQQQILS 58 (165)
Q Consensus 19 ~~~~~~F~ivt---~----~~rt~~fqa~se~E~~~Wi~ai~~~i~~ 58 (165)
.+-.+-++||- - |+++|.|-+.+.|-+..-|.+|++-+.+
T Consensus 110 ~e~~~vwEliH~kSe~egRpE~vfqLCcS~~E~k~~flK~Irsilre 156 (160)
T cd01255 110 MESNFLWELIHLKSELEGRPEKVFVLCCSTAESRNAFLKTIRSILRE 156 (160)
T ss_pred cccceEEEEEeecccccCCCcceEEEecCCHHHHHHHHHHHHHHHHH
Confidence 44567888882 2 5679999999999999999999875544
Done!