Query 005882
Match_columns 672
No_of_seqs 209 out of 747
Neff 4.9
Searched_HMMs 46136
Date Thu Mar 28 15:08:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005882.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005882hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1087 Cytosolic sorting prot 100.0 1E-67 2.2E-72 578.1 37.1 427 1-469 1-443 (470)
2 KOG1086 Cytosolic sorting prot 100.0 4.4E-51 9.6E-56 432.9 19.3 282 2-289 9-322 (594)
3 cd03568 VHS_STAM VHS domain fa 100.0 3.6E-41 7.8E-46 320.1 17.8 137 2-139 1-137 (144)
4 cd03569 VHS_Hrs_Vps27p VHS dom 100.0 3.6E-41 7.8E-46 319.3 17.1 137 2-139 5-141 (142)
5 cd03565 VHS_Tom1 VHS domain fa 100.0 9E-41 2E-45 316.2 16.5 136 2-138 2-141 (141)
6 cd03567 VHS_GGA VHS domain fam 100.0 2.9E-40 6.3E-45 312.3 16.0 131 2-136 2-137 (139)
7 smart00288 VHS Domain present 100.0 6.7E-38 1.4E-42 293.5 16.1 132 2-134 1-133 (133)
8 PF00790 VHS: VHS domain; Int 100.0 1E-36 2.2E-41 287.1 16.2 132 2-134 6-140 (140)
9 cd03561 VHS VHS domain family; 100.0 1.5E-36 3.2E-41 284.0 15.7 131 2-132 1-133 (133)
10 KOG2199 Signal transducing ada 100.0 1.2E-35 2.6E-40 313.7 21.7 263 2-267 9-369 (462)
11 cd00197 VHS_ENTH_ANTH VHS, ENT 99.9 3.2E-25 6.9E-30 201.6 12.9 109 2-110 1-114 (115)
12 KOG1818 Membrane trafficking a 99.9 7.5E-23 1.6E-27 229.4 10.1 145 3-149 10-155 (634)
13 PF03127 GAT: GAT domain; Int 99.8 3.3E-19 7.2E-24 159.7 8.7 90 179-268 3-96 (100)
14 PF01417 ENTH: ENTH domain; I 98.1 1.8E-05 3.9E-10 73.6 10.4 105 2-109 4-119 (125)
15 cd03572 ENTH_epsin_related ENT 98.1 2.5E-05 5.4E-10 73.4 10.8 106 1-108 1-116 (122)
16 cd03562 CID CID (CTD-Interacti 98.0 2E-05 4.4E-10 71.8 7.1 94 18-113 17-110 (114)
17 cd03571 ENTH_epsin ENTH domain 97.7 0.00028 6E-09 66.4 11.1 106 2-110 2-117 (123)
18 smart00273 ENTH Epsin N-termin 97.6 0.00064 1.4E-08 63.3 11.9 76 2-77 3-79 (127)
19 cd03564 ANTH_AP180_CALM ANTH d 97.3 0.001 2.3E-08 61.3 9.0 78 2-79 1-78 (117)
20 KOG2056 Equilibrative nucleosi 97.0 0.0038 8.2E-08 67.6 10.2 109 3-112 23-139 (336)
21 KOG0251 Clathrin assembly prot 96.8 0.057 1.2E-06 61.6 17.9 80 2-81 24-104 (491)
22 KOG2374 Uncharacterized conser 96.2 0.036 7.8E-07 62.4 11.5 135 2-140 8-152 (661)
23 smart00582 RPR domain present 96.2 0.013 2.7E-07 53.8 6.7 93 19-112 13-108 (121)
24 PF07651 ANTH: ANTH domain; I 94.6 5.2 0.00011 41.8 20.4 76 2-78 4-80 (280)
25 PF13646 HEAT_2: HEAT repeats; 93.0 1.3 2.7E-05 37.4 10.2 87 2-106 1-87 (88)
26 KOG2057 Predicted equilibrativ 90.7 0.97 2.1E-05 49.2 8.3 101 5-107 27-139 (499)
27 PF12348 CLASP_N: CLASP N term 90.5 2.5 5.5E-05 42.3 10.8 79 36-115 129-210 (228)
28 KOG2160 Armadillo/beta-catenin 89.8 0.95 2.1E-05 49.7 7.5 93 20-114 105-199 (342)
29 cd00020 ARM Armadillo/beta-cat 87.1 4.5 9.8E-05 35.2 8.8 69 38-108 49-117 (120)
30 PF12717 Cnd1: non-SMC mitotic 86.4 6.4 0.00014 38.8 10.3 88 20-113 7-94 (178)
31 smart00229 RasGEFN Guanine nuc 84.5 15 0.00032 33.7 11.2 104 2-107 10-124 (127)
32 KOG1924 RhoA GTPase effector D 83.9 3.3 7.2E-05 49.6 8.0 33 202-235 311-343 (1102)
33 PF12348 CLASP_N: CLASP N term 83.1 6.1 0.00013 39.6 8.7 97 14-113 16-125 (228)
34 PF04818 CTD_bind: RNA polymer 80.1 4.4 9.6E-05 33.4 5.4 54 57-111 3-59 (64)
35 PF11841 DUF3361: Domain of un 80.1 7.2 0.00016 38.8 7.7 86 24-111 40-131 (160)
36 PF13646 HEAT_2: HEAT repeats; 79.2 9.5 0.00021 32.0 7.3 57 40-109 1-58 (88)
37 cd06224 REM Guanine nucleotide 77.5 30 0.00066 31.1 10.6 85 2-91 2-100 (122)
38 PF06160 EzrA: Septation ring 75.0 67 0.0015 37.7 15.0 78 57-139 161-247 (560)
39 PF08167 RIX1: rRNA processing 73.3 21 0.00045 35.0 8.9 76 36-112 19-98 (165)
40 KOG1924 RhoA GTPase effector D 72.0 23 0.00051 42.9 10.2 8 473-480 538-545 (1102)
41 KOG2669 Regulator of nuclear m 71.9 93 0.002 34.4 14.1 77 34-112 35-114 (325)
42 PRK04778 septation ring format 70.3 1.4E+02 0.003 35.1 16.2 99 36-140 145-252 (569)
43 cd00020 ARM Armadillo/beta-cat 69.8 14 0.00031 32.0 6.3 72 39-112 8-79 (120)
44 PTZ00429 beta-adaptin; Provisi 68.7 65 0.0014 39.3 13.3 92 17-112 232-327 (746)
45 KOG2071 mRNA cleavage and poly 68.4 7.8 0.00017 45.3 5.3 79 31-111 33-111 (579)
46 COG1059 Thermostable 8-oxoguan 66.6 21 0.00045 36.7 7.3 101 16-135 36-143 (210)
47 PF01602 Adaptin_N: Adaptin N 64.7 19 0.0004 40.5 7.4 101 6-110 119-220 (526)
48 PRK09687 putative lyase; Provi 62.7 92 0.002 33.2 11.8 73 35-107 189-278 (280)
49 PF06812 ImpA-rel_N: ImpA-rela 61.0 33 0.00072 28.3 6.4 58 18-75 1-59 (62)
50 smart00509 TFS2N Domain in the 59.8 43 0.00093 29.0 7.1 70 38-113 3-73 (75)
51 PF01602 Adaptin_N: Adaptin N 59.5 57 0.0012 36.6 10.1 38 28-65 69-106 (526)
52 PF11707 Npa1: Ribosome 60S bi 58.9 69 0.0015 34.8 10.2 52 40-91 58-111 (330)
53 PF05004 IFRD: Interferon-rela 57.8 66 0.0014 34.9 9.8 85 20-106 62-155 (309)
54 PF03670 UPF0184: Uncharacteri 57.4 32 0.0007 30.8 6.0 53 185-237 24-78 (83)
55 cd00183 TFIIS_I N-terminal dom 55.6 40 0.00086 29.1 6.2 24 90-113 52-75 (76)
56 KOG1105 Transcription elongati 54.6 46 0.00099 36.3 7.8 27 89-115 54-80 (296)
57 PTZ00332 paraflagellar rod pro 54.3 3.2E+02 0.007 32.1 14.5 93 17-113 321-425 (589)
58 PF06798 PrkA: PrkA serine pro 52.3 12 0.00025 39.7 2.9 77 35-113 38-117 (254)
59 PF12783 Sec7_N: Guanine nucle 52.2 56 0.0012 31.6 7.5 63 51-114 35-105 (168)
60 PF14523 Syntaxin_2: Syntaxin- 52.2 87 0.0019 27.7 8.1 77 188-264 4-92 (102)
61 KOG2075 Topoisomerase TOP1-int 52.1 47 0.001 38.4 7.6 96 17-113 185-296 (521)
62 smart00543 MIF4G Middle domain 51.4 43 0.00092 32.3 6.5 68 22-90 100-170 (200)
63 PF09712 PHA_synth_III_E: Poly 51.1 24 0.00051 38.1 5.1 91 36-130 189-281 (293)
64 PF00618 RasGEF_N: RasGEF N-te 50.5 39 0.00085 29.9 5.6 73 2-76 7-94 (104)
65 KOG1077 Vesicle coat complex A 50.5 57 0.0012 39.5 8.2 73 22-102 95-168 (938)
66 KOG1062 Vesicle coat complex A 49.9 65 0.0014 39.4 8.7 103 21-132 162-277 (866)
67 KOG1293 Proteins containing ar 49.5 52 0.0011 39.3 7.7 73 39-112 462-534 (678)
68 KOG1820 Microtubule-associated 49.1 1.6E+02 0.0034 36.6 11.9 92 19-115 353-447 (815)
69 PF00618 RasGEF_N: RasGEF N-te 47.5 59 0.0013 28.8 6.3 57 72-131 32-102 (104)
70 PF10508 Proteasom_PSMB: Prote 47.0 1E+02 0.0022 35.7 9.5 92 18-111 51-148 (503)
71 PTZ00429 beta-adaptin; Provisi 45.7 1E+02 0.0022 37.6 9.7 68 6-73 145-214 (746)
72 PRK01005 V-type ATP synthase s 45.4 48 0.001 34.2 6.0 61 52-112 63-125 (207)
73 PF12333 Ipi1_N: Rix1 complex 44.6 1.6E+02 0.0034 26.8 8.6 51 40-91 13-63 (102)
74 PF02854 MIF4G: MIF4G domain; 43.6 1E+02 0.0022 29.5 7.8 86 22-107 107-204 (209)
75 cd08306 Death_FADD Fas-associa 42.8 60 0.0013 28.7 5.5 70 61-134 4-73 (86)
76 PF07106 TBPIP: Tat binding pr 42.6 2.6E+02 0.0057 27.3 10.5 76 187-262 86-167 (169)
77 PRK14148 heat shock protein Gr 42.2 87 0.0019 32.2 7.2 66 188-258 41-109 (195)
78 cd08779 Death_PIDD Death Domai 41.6 30 0.00065 30.7 3.4 42 90-134 33-74 (86)
79 PF11698 V-ATPase_H_C: V-ATPas 40.8 94 0.002 29.6 6.7 74 35-110 40-114 (119)
80 PF10508 Proteasom_PSMB: Prote 40.7 1.4E+02 0.0031 34.5 9.5 91 19-111 118-231 (503)
81 PRK14154 heat shock protein Gr 40.6 80 0.0017 32.8 6.7 46 213-258 73-121 (208)
82 PF04961 FTCD_C: Formiminotran 40.4 73 0.0016 32.1 6.3 37 198-234 32-73 (184)
83 PRK14140 heat shock protein Gr 40.0 1E+02 0.0022 31.6 7.3 46 213-258 58-106 (191)
84 PRK14162 heat shock protein Gr 40.0 95 0.0021 31.9 7.1 66 187-257 39-107 (194)
85 cd08319 Death_RAIDD Death doma 39.9 62 0.0014 28.7 5.1 70 62-135 5-74 (83)
86 COG5369 Uncharacterized conser 39.0 74 0.0016 37.6 6.7 104 3-111 433-545 (743)
87 PRK14145 heat shock protein Gr 38.3 1.1E+02 0.0024 31.5 7.3 46 213-258 66-114 (196)
88 TIGR00153 conserved hypothetic 38.2 1.8E+02 0.004 29.5 9.0 73 189-264 20-102 (216)
89 PRK14143 heat shock protein Gr 38.0 1.1E+02 0.0023 32.5 7.3 46 213-258 88-136 (238)
90 PRK14161 heat shock protein Gr 38.0 70 0.0015 32.3 5.7 46 213-258 40-88 (178)
91 KOG1242 Protein containing ada 37.6 2.1E+02 0.0045 34.1 10.1 97 27-131 227-339 (569)
92 PRK14158 heat shock protein Gr 37.1 1.3E+02 0.0029 30.8 7.7 45 213-257 61-108 (194)
93 PRK14139 heat shock protein Gr 37.0 1.1E+02 0.0024 31.1 7.0 45 213-257 53-100 (185)
94 PRK14144 heat shock protein Gr 36.8 1.4E+02 0.0031 30.7 7.8 46 213-258 66-114 (199)
95 PLN03200 cellulose synthase-in 36.2 1.3E+02 0.0028 40.8 9.1 70 39-109 190-259 (2102)
96 PF12530 DUF3730: Protein of u 35.3 2.5E+02 0.0055 29.0 9.6 58 12-69 91-153 (234)
97 PF08389 Xpo1: Exportin 1-like 34.7 1.2E+02 0.0026 27.7 6.4 89 23-113 10-117 (148)
98 KOG1511 Mevalonate kinase MVK/ 33.9 1.5E+02 0.0032 33.5 7.7 44 213-256 259-308 (397)
99 PRK14163 heat shock protein Gr 33.8 1.2E+02 0.0027 31.6 6.8 46 213-258 61-109 (214)
100 PF02985 HEAT: HEAT repeat; I 33.6 1E+02 0.0022 21.8 4.4 30 40-69 2-31 (31)
101 PRK14155 heat shock protein Gr 33.4 96 0.0021 32.2 6.0 46 213-258 34-82 (208)
102 PF06209 COBRA1: Cofactor of B 33.0 6E+02 0.013 29.7 12.7 81 25-108 308-407 (474)
103 PF07531 TAFH: NHR1 homology t 32.7 55 0.0012 30.1 3.7 33 80-112 7-39 (96)
104 KOG0593 Predicted protein kina 32.6 1E+02 0.0022 34.4 6.2 68 36-109 45-114 (396)
105 KOG2236 Uncharacterized conser 32.4 2.1E+02 0.0046 33.1 8.9 25 452-477 359-384 (483)
106 KOG0151 Predicted splicing reg 32.4 2.3E+02 0.0051 34.5 9.4 81 34-114 462-556 (877)
107 KOG2021 Nuclear mRNA export fa 32.3 3.1E+02 0.0066 33.9 10.4 92 21-114 24-131 (980)
108 PF08631 SPO22: Meiosis protei 31.9 6.1E+02 0.013 26.7 11.9 107 3-112 141-255 (278)
109 PF12755 Vac14_Fab1_bd: Vacuol 31.8 2.4E+02 0.0052 25.6 7.6 64 36-102 25-88 (97)
110 PF12210 Hrs_helical: Hepatocy 31.8 1.3E+02 0.0028 27.8 5.8 51 189-239 4-58 (96)
111 cd08777 Death_RIP1 Death Domai 31.6 62 0.0013 28.8 3.8 69 62-133 5-74 (86)
112 PF14500 MMS19_N: Dos2-interac 31.6 2.3E+02 0.0049 30.2 8.6 63 50-114 94-156 (262)
113 PF12830 Nipped-B_C: Sister ch 31.2 1.9E+02 0.0041 28.9 7.6 65 43-114 13-77 (187)
114 PF11864 DUF3384: Domain of un 31.1 2.8E+02 0.006 31.7 9.8 93 19-111 8-117 (464)
115 PRK14147 heat shock protein Gr 31.1 1.3E+02 0.0027 30.3 6.2 45 213-257 39-86 (172)
116 KOG1077 Vesicle coat complex A 31.0 1.5E+02 0.0032 36.3 7.6 72 36-111 327-398 (938)
117 smart00549 TAFH TAF homology. 31.0 71 0.0015 29.2 4.0 33 80-112 6-38 (92)
118 COG4342 Uncharacterized protei 30.8 2.9E+02 0.0064 29.9 9.0 78 29-112 53-140 (291)
119 PF12783 Sec7_N: Guanine nucle 30.7 2.3E+02 0.0051 27.3 8.0 71 39-111 74-146 (168)
120 PLN03060 inositol phosphatase- 30.5 5.1E+02 0.011 27.0 10.6 117 5-131 57-185 (206)
121 smart00229 RasGEFN Guanine nuc 30.0 2.1E+02 0.0046 26.1 7.2 44 73-116 36-89 (127)
122 smart00005 DEATH DEATH domain, 30.0 1.2E+02 0.0026 25.9 5.3 69 62-134 8-77 (88)
123 PF11099 M11L: Apoptosis regul 30.0 1.6E+02 0.0035 29.7 6.7 65 24-88 48-115 (167)
124 PF00531 Death: Death domain; 29.5 1.3E+02 0.0027 25.2 5.2 66 63-133 5-70 (83)
125 KOG1062 Vesicle coat complex A 28.9 3.9E+02 0.0084 33.1 10.6 95 29-134 341-435 (866)
126 COG4477 EzrA Negative regulato 28.2 1.1E+03 0.024 28.2 16.2 144 97-266 211-370 (570)
127 PF13513 HEAT_EZ: HEAT-like re 28.0 76 0.0016 24.7 3.4 51 53-106 2-52 (55)
128 PF08045 CDC14: Cell division 28.0 1.9E+02 0.0041 31.0 7.2 74 37-111 132-207 (257)
129 cd08317 Death_ank Death domain 27.9 1.2E+02 0.0026 26.4 4.9 68 63-134 8-75 (84)
130 TIGR01385 TFSII transcription 27.7 1.3E+02 0.0028 32.9 6.0 26 90-115 52-77 (299)
131 cd06224 REM Guanine nucleotide 27.7 2.5E+02 0.0055 25.1 7.2 45 72-116 27-84 (122)
132 PF11083 Streptin-Immun: Lanti 26.6 2.6E+02 0.0056 26.0 6.8 32 234-265 50-81 (99)
133 PF03395 Pox_P4A: Poxvirus P4A 26.5 3.4E+02 0.0073 33.8 9.6 70 41-112 729-808 (888)
134 COG3002 Uncharacterized protei 26.5 5.6E+02 0.012 31.3 11.1 131 3-137 60-205 (880)
135 PF14555 UBA_4: UBA-like domai 26.4 1E+02 0.0022 23.7 3.6 34 228-261 3-38 (43)
136 PF14663 RasGEF_N_2: Rapamycin 26.3 1.4E+02 0.0031 27.7 5.4 90 37-133 7-107 (115)
137 PF05400 FliT: Flagellar prote 26.2 1.6E+02 0.0035 24.6 5.3 59 202-261 1-65 (84)
138 cd08805 Death_ank1 Death domai 26.2 1.5E+02 0.0033 26.4 5.3 69 62-134 7-75 (84)
139 PHA02855 anti-apoptotic membra 26.1 4.6E+02 0.01 26.6 9.0 67 24-91 59-129 (180)
140 PF14726 RTTN_N: Rotatin, an a 26.1 1.7E+02 0.0037 26.9 5.7 69 35-107 27-96 (98)
141 PF12719 Cnd3: Nuclear condens 25.7 4.3E+02 0.0093 28.1 9.6 82 23-107 51-139 (298)
142 PF08328 ASL_C: Adenylosuccina 25.7 1.4E+02 0.0031 28.4 5.1 63 28-105 47-109 (115)
143 PF05769 DUF837: Protein of un 25.6 2.6E+02 0.0057 28.3 7.5 76 188-263 8-93 (181)
144 PF07415 Herpes_LMP2: Gammaher 25.6 24 0.00051 39.3 0.1 18 469-486 86-103 (489)
145 PRK07360 FO synthase subunit 2 25.5 85 0.0018 34.7 4.4 129 3-136 8-175 (371)
146 PF07899 Frigida: Frigida-like 25.4 7.4E+02 0.016 26.9 11.3 47 90-136 96-143 (290)
147 KOG4403 Cell surface glycoprot 25.4 5.5E+02 0.012 29.8 10.4 40 96-139 130-169 (575)
148 KOG4535 HEAT and armadillo rep 25.4 58 0.0012 38.0 3.0 48 22-69 128-181 (728)
149 KOG2160 Armadillo/beta-catenin 25.4 9.7E+02 0.021 26.9 12.2 110 2-114 168-285 (342)
150 PHA02713 hypothetical protein; 25.0 2.7E+02 0.0059 32.6 8.5 110 2-112 79-200 (557)
151 PF01865 PhoU_div: Protein of 24.9 4.1E+02 0.0089 26.6 8.8 69 188-256 16-94 (214)
152 KOG3523 Putative guanine nucle 24.8 8.7E+02 0.019 29.4 12.2 56 78-139 311-373 (695)
153 PF08711 Med26: TFIIS helical 24.8 1.7E+02 0.0038 23.1 4.9 20 94-113 33-52 (53)
154 KOG0132 RNA polymerase II C-te 24.5 58 0.0012 39.7 2.9 99 36-139 40-145 (894)
155 PF09758 FPL: Uncharacterised 24.5 1.7E+02 0.0036 29.0 5.7 50 68-117 13-62 (149)
156 PRK10992 iron-sulfur cluster r 24.4 8.1E+02 0.018 25.4 11.4 48 187-234 158-206 (220)
157 PRK07003 DNA polymerase III su 23.6 4.2E+02 0.0091 33.0 9.8 13 475-487 623-635 (830)
158 cd01670 Death Death Domain: a 23.4 1.4E+02 0.0031 24.8 4.5 34 98-135 37-70 (79)
159 KOG3192 Mitochondrial J-type c 23.3 1.8E+02 0.0039 29.3 5.6 19 237-255 93-111 (168)
160 PF14500 MMS19_N: Dos2-interac 23.2 6.3E+02 0.014 26.9 10.1 15 52-66 54-68 (262)
161 PF03224 V-ATPase_H_N: V-ATPas 23.2 8.9E+02 0.019 25.9 11.5 67 25-93 81-158 (312)
162 PRK14151 heat shock protein Gr 23.1 2.3E+02 0.0049 28.7 6.4 45 213-257 41-88 (176)
163 PF10363 DUF2435: Protein of u 23.0 4.4E+02 0.0095 23.7 7.6 87 37-129 2-88 (92)
164 KOG3091 Nuclear pore complex, 22.9 3.4E+02 0.0075 31.7 8.4 55 192-246 353-420 (508)
165 PF05004 IFRD: Interferon-rela 22.8 2.9E+02 0.0062 30.0 7.7 70 18-91 209-283 (309)
166 PLN03076 ARF guanine nucleotid 22.8 3.4E+02 0.0075 36.6 9.5 89 17-107 1111-1208(1780)
167 cd08318 Death_NMPP84 Death dom 22.8 1.7E+02 0.0037 25.8 5.0 68 62-134 10-77 (86)
168 PF04826 Arm_2: Armadillo-like 22.8 7E+02 0.015 26.5 10.4 75 39-115 135-209 (254)
169 COG3515 Predicted component of 22.6 2.7E+02 0.0058 30.8 7.5 76 4-79 38-115 (346)
170 PRK14153 heat shock protein Gr 22.5 1.9E+02 0.004 29.8 5.7 45 213-257 54-101 (194)
171 TIGR02147 Fsuc_second hypothet 22.3 1E+03 0.022 25.7 16.8 49 192-240 199-257 (271)
172 PRK14160 heat shock protein Gr 22.1 3E+02 0.0065 28.7 7.2 46 213-258 82-130 (211)
173 KOG1820 Microtubule-associated 22.0 2.7E+02 0.0058 34.6 7.9 97 14-113 262-367 (815)
174 cd00446 GrpE GrpE is the adeni 21.9 1.3E+02 0.0028 28.5 4.3 43 216-258 9-54 (137)
175 TIGR01802 CM_pl-yst monofuncti 21.8 5.2E+02 0.011 27.7 8.9 23 94-116 183-205 (246)
176 PF03962 Mnd1: Mnd1 family; I 21.7 5.8E+02 0.012 25.9 9.1 73 187-261 76-156 (188)
177 PF07539 DRIM: Down-regulated 21.5 3.9E+02 0.0085 25.9 7.5 55 37-92 16-75 (141)
178 PF06012 DUF908: Domain of Unk 21.5 6.7E+02 0.014 27.4 10.2 90 22-111 195-297 (329)
179 KOG4246 Predicted DNA-binding 21.4 87 0.0019 38.5 3.5 32 468-504 4-39 (1194)
180 PLN00047 photosystem II biogen 21.4 8.5E+02 0.019 26.6 10.6 116 5-131 110-238 (283)
181 KOG2035 Replication factor C, 21.2 2.6E+02 0.0055 31.0 6.7 69 9-79 241-313 (351)
182 PRK14141 heat shock protein Gr 21.2 2.3E+02 0.005 29.5 6.2 45 213-257 52-99 (209)
183 PF08767 CRM1_C: CRM1 C termin 21.1 1.4E+02 0.0031 32.4 5.0 57 32-88 159-218 (319)
184 PHA03098 kelch-like protein; P 20.9 2.8E+02 0.006 31.7 7.4 107 4-112 61-181 (534)
185 COG4229 Predicted enolase-phos 20.9 1.2E+02 0.0026 31.4 4.0 53 83-135 63-120 (229)
186 PF13618 Gluconate_2-dh3: Gluc 20.7 6.7E+02 0.014 23.1 9.1 74 17-91 3-85 (131)
187 PF09324 DUF1981: Domain of un 20.6 2.3E+02 0.0049 25.0 5.2 34 80-113 16-49 (86)
188 PF04740 LXG: LXG domain of WX 20.5 6.4E+02 0.014 25.0 9.1 75 190-264 71-166 (204)
189 PF05633 DUF793: Protein of un 20.4 1.7E+02 0.0038 33.1 5.5 62 171-232 297-367 (389)
190 PF09388 SpoOE-like: Spo0E lik 20.4 3.5E+02 0.0077 21.0 5.7 42 217-262 1-44 (45)
191 PF07197 DUF1409: Protein of u 20.4 79 0.0017 26.0 2.1 28 62-91 7-37 (51)
192 PF14911 MMS22L_C: S-phase gen 20.3 2.5E+02 0.0054 31.7 6.6 42 47-88 78-119 (373)
193 PF13251 DUF4042: Domain of un 20.0 1.1E+02 0.0025 30.9 3.7 35 34-68 141-175 (182)
No 1
>KOG1087 consensus Cytosolic sorting protein GGA2/TOM1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1e-67 Score=578.14 Aligned_cols=427 Identities=40% Similarity=0.633 Sum_probs=318.6
Q ss_pred ChHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcch
Q 005882 1 MVNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEK 80 (672)
Q Consensus 1 ~v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask 80 (672)
||..+|||||++.|.++||++||+|||+||.+..+++||+|+|||||++++++||++||+|||+||||||+.||.+|++|
T Consensus 1 ~v~~~IdkAT~~~l~~pDWa~NleIcD~IN~~~~~~~eAvralkKRi~~k~s~vq~lALtlLE~cvkNCG~~fh~~Va~k 80 (470)
T KOG1087|consen 1 SVGKLIDKATSESLAEPDWALNLEICDLINSTEGGPKEAVRALKKRLNSKNSKVQLLALTLLETCVKNCGYSFHLQVASK 80 (470)
T ss_pred ChHHHHHHhhcccccCccHHHHHHHHHHHhcCccCcHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhccC-CChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHHhccCCCCCCCCCCCCCCCCCCC-CC--
Q 005882 81 NVLHEMVKIARKK-PDTHVKEKILILIDTWQEAFGGPRARYPQYYAAYQELLRAGAVFPQRSERSAPVFTPPQTH-PL-- 156 (672)
Q Consensus 81 ~FLneLvKLvk~k-~d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~LkrkGi~FP~~~e~s~piftPp~t~-p~-- 156 (672)
+||+||+++++++ .+.+||+|||.||++|+++|++...+++.|+.+|++|+++||+||.+++++.++++|+... +.
T Consensus 81 ~fL~emVk~~k~~~~~~~Vr~kiL~LI~~W~~af~~~~~~~~~~~~~y~~l~~~G~~FP~r~~~sl~~~~pp~~~~~~~~ 160 (470)
T KOG1087|consen 81 EFLNEMVKRPKNKPRDLKVREKILELIDTWQQAFCGPDGYLPDYYQIYDELRRKGVEFPQRDEESLAVLTPPAVLRPAPE 160 (470)
T ss_pred HHHHHHHhccccCCcchhHHHHHHHHHHHHHHHccCCCCcchhHHHHHHHHHHcCCcCCCCccccccccCCCCCCCCCCC
Confidence 9999999999998 8999999999999999999999777899999999999999999999998887777765421 11
Q ss_pred ---CCCCCCCCCchhhh-HhhhhhccCCCCCCCHHHHHHHHHHHHHHHHHHHhcCCCChH----HHHHHHHHHHHHHHHH
Q 005882 157 ---TSYPQNFRNPEHQQ-EAAEASAESEFPTLSLTEIQNARGIMDVLAEMLNALDPNNKE----EVIVDLVDQCRTYKQR 228 (672)
Q Consensus 157 ---S~~P~dlr~an~~q-~~~e~s~~~e~~s~~lsELe~ak~nvkLL~EML~~l~P~~~e----Eli~EL~~qCR~mr~R 228 (672)
..+|.+...+.-.. .........++.+++++||++++++++||+|||.++++++++ |++++|+++||.+|+|
T Consensus 161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~seLe~~~~~~~ll~emL~~v~p~~~e~~~~el~~~L~~qcr~~q~r 240 (470)
T KOG1087|consen 161 PQEQSGPPNEANASMKSMAGYPTEATPEVSTLSLSELESVKGKADLLSEMLNAVDPSDEEAAKDELLVDLVEQCRSKQRR 240 (470)
T ss_pred chhhcCCccccccccccccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhccCCCCcchhHHHHHHHHHHHHHHHHHH
Confidence 01111101110001 111222234667778899999999999999999999998765 9999999999999999
Q ss_pred HHHHhhcCCCHHHHHHHhhhhHHHHHHHHHHHhhhcCCcccccccCCCCCcCCCccccccCCCC----CCCCCCCCCCCC
Q 005882 229 VVHLVNSTADESLLCQGLQLNDDLQRLLAKHESFASGKSAQTAQTDKPKTESKSSEALVDVDGP----LVDTGDATKQPD 304 (672)
Q Consensus 229 V~rLIq~t~DEElL~eLL~lNDeLn~VLekYE~l~~g~~~~~~~~~k~~~~~~~~~~LiDl~~~----~~~~~~~~~~~~ 304 (672)
|++||+++.||++|+++|++||+|++||++||++.+|..+ .. +.+ +.....++|.++. .....+...++.
T Consensus 241 v~~Li~~~~DE~ll~~lL~lND~L~~vL~~ye~~~~g~s~-~~-~~~----~e~~~~p~~~~~~~~~~~~s~~~~~~~~~ 314 (470)
T KOG1087|consen 241 VMHLIEETSDEELLCELLKLNDELQRVLERYERIASGSSV-AT-TSK----SETASDPVDQSSSLLDKDDSSIDLNDSLA 314 (470)
T ss_pred HHHHHHHhccHHHHHHHHHHhHHHHHHHHHHHHHhccccc-cc-ccc----cccCCCccccCccccccCcCccccccccc
Confidence 9999999999999999999999999999999999999322 11 111 1222344555443 223345556666
Q ss_pred CCCCCCCCCCCCCCccccCCCCCCCCCCCCCCCCCCccccccCCCCCCCCCCCCccccccCCCCCCCCCCccccchhhhh
Q 005882 305 GRTTSNGGAGAQPLNQLLLPAPAAANGSSPPAAVNPKIDLLSGDDYSSPKEDTSLALVPVGVPQPNTPVSSQQNALVLFD 384 (672)
Q Consensus 305 ~~~~~~~~~~~~~~~~l~lp~pp~~~~~~~~~~~~~~~dlls~d~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~d 384 (672)
+|+|.+. . .+.+.+..+.. .....+|.| ..++++++.++++.+|+++.++++.++|
T Consensus 315 ~~ss~~~--------~---~~~~~~~~~~~--~l~~d~~~l-----------~~~~~~~l~~~~p~~~~~~~~~~~~~~~ 370 (470)
T KOG1087|consen 315 SRSSSTG--------I---SATPSSEQPSG--QLLGDLDKL-----------SDQTLLGLAPPPPNSPTASESSSISLLS 370 (470)
T ss_pred cccccCC--------C---cCCCccccccc--chhhhhccc-----------cchhccccCCCCCCCCCCCccccccccc
Confidence 6665322 0 01111222211 112223333 1789999999999999989999999999
Q ss_pred hhccCCCCCCCCCCCCCCCCCCCCCCCcccccccCCCCCCccccCCCCCCCCCCCcccccccccCCCCCCCCCcCCCCCC
Q 005882 385 MFSDATNAPNSINTQPANMAGQPNSLAPQFHQQQNFQTPEAGLYQNGTAPNMGSPRYEQSIYAQGSGPAWNGQLALPQPT 464 (672)
Q Consensus 385 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 464 (672)
+++.+....++..+.++..+ .+..+.|......+....++.+.+..++..+..+....|-... ..+..
T Consensus 371 ~~~~~~s~~s~~~~~~~~~~-----------~~~~~~P~~~~~~s~~~~p~~~~~~~~~p~~p~~~~~~~~~~~-~~~~s 438 (470)
T KOG1087|consen 371 LSSDNQSELSNSATNSPGSS-----------PQESFPPLPQIQKSSTSPPQSDSLMIEQPLTPASKSSPRSSSS-ASTGS 438 (470)
T ss_pred ccccccccCCcccccCCCcc-----------ccccCCCCcccccccccCCCcccccccCCCCcccCCccccccc-ccCCC
Confidence 99988766665544443221 1122222111134556667777666777766666555666655 32455
Q ss_pred CCCcc
Q 005882 465 SPAYG 469 (672)
Q Consensus 465 ~~~~~ 469 (672)
.|.|.
T Consensus 439 ~p~~~ 443 (470)
T KOG1087|consen 439 SPQYD 443 (470)
T ss_pred Cccch
Confidence 55563
No 2
>KOG1086 consensus Cytosolic sorting protein/ADP-ribosylation factor effector GGA [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=4.4e-51 Score=432.93 Aligned_cols=282 Identities=25% Similarity=0.397 Sum_probs=248.9
Q ss_pred hHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchH
Q 005882 2 VNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKN 81 (672)
Q Consensus 2 v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~ 81 (672)
++.||.|||++.+.++||..|.-|||.||++++++..|+|.|.+||++...+++++||++||+||||||++||.+|++++
T Consensus 9 le~wlnrATdp~~~eedw~ai~~fceqinkdp~gp~lAv~LlaHKiqSPqe~EAl~altvLe~cmkncGekfH~evgkfr 88 (594)
T KOG1086|consen 9 LEYWLNRATDPSNDEEDWKAIDGFCEQINKDPEGPLLAVRLLAHKIQSPQEWEALQALTVLEYCMKNCGEKFHEEVGKFR 88 (594)
T ss_pred HHHHHHhccCccchHHHHHHHHHHHHHHhcCCCCchhHHHHHHhhcCChhHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhccC-----CChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHHhccCC--CCCCCCCCCCCCCCC-C
Q 005882 82 VLHEMVKIARKK-----PDTHVKEKILILIDTWQEAFGGPRARYPQYYAAYQELLRAGAVF--PQRSERSAPVFTPPQ-T 153 (672)
Q Consensus 82 FLneLvKLvk~k-----~d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~LkrkGi~F--P~~~e~s~piftPp~-t 153 (672)
|||||+|++++| +...||.||++|++.|+.+|++ .++|+++|++||++||+. |..++...+++.||. .
T Consensus 89 FLNELIkvvsPKYlG~~tSekvKtkiIelLfsWtv~lpe----~~KikdaYqmLKkqgIik~DP~lp~d~~~~p~ppP~p 164 (594)
T KOG1086|consen 89 FLNELIKVVSPKYLGSRTSEKVKTKIIELLFSWTVSLPE----EPKIKDAYQMLKKQGIIKSDPKLPVDETPVPAPPPRP 164 (594)
T ss_pred HHHHHHHHhCchhcchhhhHHHHHHHHHHHhhheecCcc----cchHHHHHHHHHhcCcccCCCCCCCCCccCCCCCCCC
Confidence 999999999876 5679999999999999999985 589999999999999985 333333355555443 2
Q ss_pred CC----------------CCCCCCCCCCchhh--hHhhhhhccCCCCCCCHHHHHHHHHHHHHHHHHHHhcCCC-Ch--H
Q 005882 154 HP----------------LTSYPQNFRNPEHQ--QEAAEASAESEFPTLSLTEIQNARGIMDVLAEMLNALDPN-NK--E 212 (672)
Q Consensus 154 ~p----------------~S~~P~dlr~an~~--q~~~e~s~~~e~~s~~lsELe~ak~nvkLL~EML~~l~P~-~~--e 212 (672)
+. +|++|+|++.+|++ ..+++++.+.++.++|++.|++|++++++|.|||..+..+ +. |
T Consensus 165 kssvFddEEksklL~rLLkSn~PeDLqaANkLIK~lVkeee~k~eKiskR~~aleev~n~vk~l~em~l~~s~eg~a~pd 244 (594)
T KOG1086|consen 165 KSSVFDDEEKSKLLARLLKSNHPEDLQAANKLIKTLVKEEEHKLEKISKRVKALEEVNNNVKLLEEMLLDYSQEGNASPD 244 (594)
T ss_pred CccccCcHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCc
Confidence 11 27899999999987 4677888888999999999999999999999999887544 22 2
Q ss_pred -H-HHHHHHHHHHHHHHHHHHHhhcC-CCHHHHHHHhhhhHHHHHHHHHHHhhhcCCcccccccCCCCCcCCCccccccC
Q 005882 213 -E-VIVDLVDQCRTYKQRVVHLVNST-ADESLLCQGLQLNDDLQRLLAKHESFASGKSAQTAQTDKPKTESKSSEALVDV 289 (672)
Q Consensus 213 -E-li~EL~~qCR~mr~RV~rLIq~t-~DEElL~eLL~lNDeLn~VLekYE~l~~g~~~~~~~~~k~~~~~~~~~~LiDl 289 (672)
| +++++|++|.++|+.++||++++ +|++.|+++|++||.|++||..|+..++|+.+.+.+++...+ +..+.|||.
T Consensus 245 ~E~~lq~v~~~ce~lr~tlfrlaset~dnD~aL~eILqanD~ltrvi~~ykt~~~G~~~~g~a~t~slp--d~q~~l~~n 322 (594)
T KOG1086|consen 245 NELLLQEVYNRCEQLRPTLFRLASETEDNDPALAEILQANDNLTRVINLYKTPKEGNVANGSARTQSLP--DSQSLLVDN 322 (594)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcccccCcHHHHHHHhhhhhHHhhhhhcccccccccccccceeccCC--cchhheeec
Confidence 5 99999999999999999999988 678899999999999999999999999999987765666665 557788888
No 3
>cd03568 VHS_STAM VHS domain family, STAM subfamily; members include STAM (Signal Transducing Adaptor Molecule), EAST (EGFR-associated protein with SH3 and TAM domains) and Hbp (Hrs-binding protein). Collectively, they are referred to as STAM. All STAMs have at their N-termini a VHS domain, which is involved in cytokine-mediated intracellular signal transduction and has a superhelical structure similar to the structure of ARM (Armadillo) repeats, followed by a SH3 (Src homology 3) domain, a well-established protein-protein interaction domain. At the C-termini of most vertebrate STAMS, an ITAM (Immunoreceptor Tyrosine-based Activation) motif is present, which mediates the binding of HRS (hepatocyte growth factor-regulated tyrosine kinase substrate) in endocytic and exocytic machineries.
Probab=100.00 E-value=3.6e-41 Score=320.08 Aligned_cols=137 Identities=29% Similarity=0.564 Sum_probs=132.3
Q ss_pred hHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchH
Q 005882 2 VNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKN 81 (672)
Q Consensus 2 v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~ 81 (672)
++.+|+||||+.++++||++|++|||+||++..++|+|+|+|+|||+|+|++||++||+|||+||||||.+||.||++++
T Consensus 1 ~e~~iekATse~l~~~dw~~il~icD~I~~~~~~~k~a~ral~KRl~~~n~~v~l~AL~LLe~~vkNCG~~fh~evask~ 80 (144)
T cd03568 1 FDDLVEKATDEKLTSENWGLILDVCDKVKSDENGAKDCLKAIMKRLNHKDPNVQLRALTLLDACAENCGKRFHQEVASRD 80 (144)
T ss_pred ChHHHHHHcCccCCCcCHHHHHHHHHHHhcCCccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHCCHHHHHHHhhHH
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhccCCChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHHhccCCCC
Q 005882 82 VLHEMVKIARKKPDTHVKEKILILIDTWQEAFGGPRARYPQYYAAYQELLRAGAVFPQ 139 (672)
Q Consensus 82 FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~LkrkGi~FP~ 139 (672)
|+++|+++++++++..||+|||++|+.|+++|++++ .+..|.++|++|+++|+.||.
T Consensus 81 Fl~eL~kl~~~~~~~~Vk~kil~li~~W~~~f~~~~-~l~~i~~~y~~L~~~G~~f~~ 137 (144)
T cd03568 81 FTQELKKLINDRVHPTVKEKLREVVKQWADEFKNDP-SLSLMSDLYKKLKNEGPDLVT 137 (144)
T ss_pred HHHHHHHHhcccCCHHHHHHHHHHHHHHHHHhCCCc-ccHHHHHHHHHHHHcCCCCCC
Confidence 999999999988999999999999999999999764 588999999999999999983
No 4
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=100.00 E-value=3.6e-41 Score=319.30 Aligned_cols=137 Identities=36% Similarity=0.608 Sum_probs=132.9
Q ss_pred hHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchH
Q 005882 2 VNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKN 81 (672)
Q Consensus 2 v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~ 81 (672)
++++|+|||++.+.++||+.|++|||+||++..+++||+|+|||||+|+|+++|++||+|||+||||||.+||.+|++++
T Consensus 5 ~~~~I~kATs~~l~~~dw~~ileicD~In~~~~~~k~a~ral~krl~~~n~~vql~AL~LLe~~vkNCG~~fh~evas~~ 84 (142)
T cd03569 5 FDELIEKATSELLGEPDLASILEICDMIRSKDVQPKYAMRALKKRLLSKNPNVQLYALLLLESCVKNCGTHFHDEVASRE 84 (142)
T ss_pred HHHHHHHHcCcccCccCHHHHHHHHHHHhCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHCCHHHHHHHhhHH
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhccCCChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHHhccCCCC
Q 005882 82 VLHEMVKIARKKPDTHVKEKILILIDTWQEAFGGPRARYPQYYAAYQELLRAGAVFPQ 139 (672)
Q Consensus 82 FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~LkrkGi~FP~ 139 (672)
|+++|+++++++++..||+|||++|+.|+++|+++ .+++.|.++|++|+++||.||+
T Consensus 85 fl~~l~~l~~~~~~~~Vk~kil~li~~W~~~f~~~-~~l~~i~~~y~~L~~~G~~FP~ 141 (142)
T cd03569 85 FMDELKDLIKTTKNEEVRQKILELIQAWALAFRNK-PQLKYVVDTYQILKAEGHKFPE 141 (142)
T ss_pred HHHHHHHHHcccCCHHHHHHHHHHHHHHHHHhCCC-cccHHHHHHHHHHHHcCCCCCC
Confidence 99999999998899999999999999999999976 4789999999999999999994
No 5
>cd03565 VHS_Tom1 VHS domain family, Tom1 subfamily; The VHS domain is an essential part of Tom1 (Target of myb1 - retroviral oncogene) protein. The VHS domain has a superhelical structure similar to the structure of the ARM repeats and is present at the very N-termini of proteins. It is a right-handed superhelix of eight alpha helices. The VHS domain has been found in a number of proteins, some of which have been implicated in intracellular trafficking and sorting. The VHS domain of the Tom1 protein is essential for the negative regulation of Interleukin-1 and Tumor Necrosis Factor-induced signaling pathways.
Probab=100.00 E-value=9e-41 Score=316.23 Aligned_cols=136 Identities=40% Similarity=0.756 Sum_probs=129.5
Q ss_pred hHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHhccccchhhhhcch
Q 005882 2 VNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGS-RNSKVQLLALTLLETIIKNCGDIVHMHVAEK 80 (672)
Q Consensus 2 v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLks-knp~vqLlALtLLEtcVKNCG~~Fh~eVask 80 (672)
|+.+|+||||+.++++||++|++|||+||++..++|||+|+|+|||++ +|++||++||+|||+||||||.+||.||+++
T Consensus 2 ~~~~IekATse~l~~~dw~~ileicD~In~~~~~~k~a~ralkkRl~~~~n~~v~l~aL~LLe~~vkNCG~~fh~eiask 81 (141)
T cd03565 2 VGQLIEKATDGSLQSEDWGLNMEICDIINETEDGPKDAVRALKKRLNGNKNHKEVMLTLTVLETCVKNCGHRFHVLVAKK 81 (141)
T ss_pred HhHHHHHHcCcCCCCcCHHHHHHHHHHHhCCCCcHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHHccHHHHHHHHHH
Confidence 689999999999999999999999999999999999999999999984 7999999999999999999999999999999
Q ss_pred HHHHH-HHHHhccC--CChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHHhccCCC
Q 005882 81 NVLHE-MVKIARKK--PDTHVKEKILILIDTWQEAFGGPRARYPQYYAAYQELLRAGAVFP 138 (672)
Q Consensus 81 ~FLne-LvKLvk~k--~d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~LkrkGi~FP 138 (672)
+|+++ |++++.++ ++..||+|||++|+.|+++|++++ +++.|.++|++|+++||.||
T Consensus 82 ~Fl~e~L~~~i~~~~~~~~~Vk~kil~li~~W~~~f~~~~-~l~~i~~~y~~L~~~G~~FP 141 (141)
T cd03565 82 DFIKDVLVKLINPKNNPPTIVQEKVLALIQAWADAFRGSP-DLTGVVEVYEELKKKGIEFP 141 (141)
T ss_pred HhhhHHHHHHHcccCCCcHHHHHHHHHHHHHHHHHhCCCc-cchHHHHHHHHHHHcCCCCC
Confidence 99999 99999754 457999999999999999999864 69999999999999999998
No 6
>cd03567 VHS_GGA VHS domain family, GGA subfamily; GGA (Golgi-localized, Gamma-ear-containing, Arf-binding) comprise a subfamily of ubiquitously expressed, monomeric, motif-binding cargo/clathrin adaptor proteins. The VHS domain has a superhelical structure similar to the structure of the ARM (Armadillo) repeats and is present at the N-termini of proteins. GGA proteins have a multidomain structure consisting of an N-terminal VHS domain linked by a short proline-rich linker to a GAT (GGA and TOM) domain, which is followed by a long flexible linker to the C-terminal appendage, GAE (gamma-adaptin ear) domain. The VHS domain of GGA proteins binds to the acidic-cluster dileucine (DxxLL) motif found on the cytoplasmic tails of cargo proteins trafficked between the trans-Golgi network and the endosomal system.
Probab=100.00 E-value=2.9e-40 Score=312.27 Aligned_cols=131 Identities=28% Similarity=0.501 Sum_probs=125.6
Q ss_pred hHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchH
Q 005882 2 VNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKN 81 (672)
Q Consensus 2 v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~ 81 (672)
++.+|+|||++.+.++||++|++|||+||.++.++++|+|+|+|||+|+|++||++||+|||+||||||.+||.+|++++
T Consensus 2 ~~~~iekAT~~~l~~~dw~~ileicD~In~~~~~~k~a~rai~krl~~~n~~v~l~AL~LLe~~vkNCG~~fh~evas~~ 81 (139)
T cd03567 2 LEAWLNKATNPSNREEDWEAIQAFCEQINKEPEGPQLAVRLLAHKIQSPQEKEALQALTVLEACMKNCGERFHSEVGKFR 81 (139)
T ss_pred HHHHHHHHcCccCCCCCHHHHHHHHHHHHcCCccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCHHHHHHHHhHH
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhcc-----CCChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHHhccC
Q 005882 82 VLHEMVKIARK-----KPDTHVKEKILILIDTWQEAFGGPRARYPQYYAAYQELLRAGAV 136 (672)
Q Consensus 82 FLneLvKLvk~-----k~d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~LkrkGi~ 136 (672)
|++||+|++++ .++..||+|||+||+.|+++|+. .|+|.++|++||++|++
T Consensus 82 Fl~el~kl~~~k~~~~~~~~~Vk~kil~li~~W~~~f~~----~p~~~~~Y~~Lk~~G~i 137 (139)
T cd03567 82 FLNELIKLVSPKYLGSRTSEKVKTKIIELLYSWTLELPH----EPKIKEAYDMLKKQGII 137 (139)
T ss_pred HHHHHHHHhccccCCCCCCHHHHHHHHHHHHHHHHHhcc----cchHHHHHHHHHHCCCc
Confidence 99999999975 36889999999999999999984 57899999999999976
No 7
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=100.00 E-value=6.7e-38 Score=293.51 Aligned_cols=132 Identities=42% Similarity=0.726 Sum_probs=126.1
Q ss_pred hHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchH
Q 005882 2 VNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKN 81 (672)
Q Consensus 2 v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~ 81 (672)
++.+|+||||+.+.++||+.|++|||+||++.++++||+|+|||||+++|++||++||+|||+||||||.+||.+|++++
T Consensus 1 ~~~~i~kATs~~l~~~dw~~~l~icD~i~~~~~~~k~a~r~l~krl~~~n~~v~l~AL~lLe~~vkNcg~~f~~ev~s~~ 80 (133)
T smart00288 1 VERLIDKATSPSLLEEDWELILEICDLINSTPDGPKDAVRLLKKRLNNKNPHVALLALTLLDACVKNCGSKFHLEVASKE 80 (133)
T ss_pred ChhHHHHHcCcCCCCcCHHHHHHHHHHHhCCCccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHhHH
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhccCCChh-HHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHHhc
Q 005882 82 VLHEMVKIARKKPDTH-VKEKILILIDTWQEAFGGPRARYPQYYAAYQELLRAG 134 (672)
Q Consensus 82 FLneLvKLvk~k~d~~-VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~LkrkG 134 (672)
|+++|+++++++++.. ||+||+++|+.|+++|+++ ..++.|.++|++|+++|
T Consensus 81 fl~~L~~l~~~~~~~~~Vk~kil~li~~W~~~f~~~-~~~~~i~~~y~~L~~~g 133 (133)
T smart00288 81 FLNELVKLIKPKYPLPLVKKRILELIQEWADAFKND-PDLSQIVDVYDLLKKKG 133 (133)
T ss_pred HHHHHHHHHcCCCCcHHHHHHHHHHHHHHHHHHcCC-CCchHHHHHHHHHHHCc
Confidence 9999999999876655 9999999999999999875 46999999999999987
No 8
>PF00790 VHS: VHS domain; InterPro: IPR002014 The VHS domain is a ~140 residues long domain, whose name is derived from its occurrence in VPS-27, Hrs and STAM. Based on regions surrounding the domain, VHS-proteins can be divided into 4 groups []: STAM/EAST/Hbp which all share the domain composition VHS-SH3-ITAM and carry one or two ubiquitin-interacting motifs Proteins with a FYVE domain (IPR000306 from INTERPRO) C-terminal to VHS which also carry one or two ubiquitin-interacting motifs GGA proteins with a domain composition VHS-GAT (GGA and Tom1) homology domain VHS domain alone or in combination with domains other than those listed above The VHS domain is always found at the N- terminus of proteins suggesting that such topology is important for function. The domain is considered to have a general membrane targeting/cargo recognition role in vesicular trafficking []. Resolution of the crystal structure of the VHS domain of Drosophila Hrs and human Tom1 revealed that it consists of eight helices arranged in a double-layer superhelix []. The existence of conserved patches of residues on the domain surface suggests that VHS domains may be involved in protein-protein recognition and docking. Overall, sequence similarity is low (approx 25%) amongst domain family members.; GO: 0006886 intracellular protein transport; PDB: 1X5B_A 2L0T_B 1DVP_A 3LDZ_C 3ZYQ_A 4AVX_A 3G2U_A 3G2W_A 1UJJ_A 3G2V_A ....
Probab=100.00 E-value=1e-36 Score=287.09 Aligned_cols=132 Identities=42% Similarity=0.756 Sum_probs=122.5
Q ss_pred hHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchH
Q 005882 2 VNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKN 81 (672)
Q Consensus 2 v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~ 81 (672)
++.+|+|||++.+.++||+.|++|||+||++.++++||+|+|+|||+|+|+++|++||+|||+||||||.+||.+|++++
T Consensus 6 ~~~li~kATs~~~~~~Dw~~~l~icD~i~~~~~~~kea~~~l~krl~~~~~~vq~~aL~lld~lvkNcg~~f~~ev~~~~ 85 (140)
T PF00790_consen 6 ITELIEKATSESLPSPDWSLILEICDLINSSPDGAKEAARALRKRLKHGNPNVQLLALTLLDALVKNCGPRFHREVASKE 85 (140)
T ss_dssp HHHHHHHHT-TTSSS--HHHHHHHHHHHHTSTTHHHHHHHHHHHHHTTSSHHHHHHHHHHHHHHHHHSHHHHHHHHTSHH
T ss_pred HHHHHHHHhCcCCCCCCHHHHHHHHHHHHcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHcCCHHHHHHHhHHH
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhccCCChh---HHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHHhc
Q 005882 82 VLHEMVKIARKKPDTH---VKEKILILIDTWQEAFGGPRARYPQYYAAYQELLRAG 134 (672)
Q Consensus 82 FLneLvKLvk~k~d~~---VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~LkrkG 134 (672)
|+++|++|++.+.... ||+||+++|+.|+++|+++ ..|+.|.++|++||++|
T Consensus 86 fl~~l~~l~~~~~~~~~~~Vk~k~l~ll~~W~~~f~~~-~~~~~i~~~y~~Lk~~G 140 (140)
T PF00790_consen 86 FLDELVKLIKSKKTDPETPVKEKILELLQEWAEAFKSD-PELSLIQDTYKRLKRKG 140 (140)
T ss_dssp HHHHHHHHHHHTTTHHHSHHHHHHHHHHHHHHHHTTTS-TTGHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHccCCCCchhHHHHHHHHHHHHHHHHHCCC-CCchHHHHHHHHHHHCc
Confidence 9999999998765443 9999999999999999765 47999999999999998
No 9
>cd03561 VHS VHS domain family; The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It has a superhelical structure similar to that of the ARM (Armadillo) repeats and is present at the N-termini of proteins involved in intracellular membrane trafficking. There are four general groups of VHS domain containing proteins based on their association with other domains. The first group consists of proteins of the STAM/EAST/Hbp family which has the domain composition VHS-SH3-ITAM. The second consists of proteins with a FYVE domain C-terminal to VHS. The third consists of GGA proteins with a domain composition VHS-GAT (GGA and TOM)-GAE (gamma-adaptin ear) domain. The fourth consists of proteins with a VHS domain alone or with domains other than those mentioned above. In GGA proteins, VHS domains are involved in cargo recognition in trans-Golgi, thereby having a general me
Probab=100.00 E-value=1.5e-36 Score=283.98 Aligned_cols=131 Identities=49% Similarity=0.807 Sum_probs=125.5
Q ss_pred hHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchH
Q 005882 2 VNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKN 81 (672)
Q Consensus 2 v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~ 81 (672)
|+.+|+|||++.+.++||+.|++|||+||.+..+++||+|+|||||+|+|+++|++||+|||+||||||.+||.+|++++
T Consensus 1 v~~~I~kATs~~~~~~D~~~il~icd~I~~~~~~~k~a~raL~krl~~~n~~vql~AL~lLd~~vkNcg~~f~~~i~s~~ 80 (133)
T cd03561 1 VTSLIERATSPSLEEPDWALNLELCDLINLKPNGPKEAARAIRKKIKYGNPHVQLLALTLLELLVKNCGKPFHLQVADKE 80 (133)
T ss_pred ChHHHHHHcCcccCCccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCChHHHHHHhhHH
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhcc--CCChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHH
Q 005882 82 VLHEMVKIARK--KPDTHVKEKILILIDTWQEAFGGPRARYPQYYAAYQELLR 132 (672)
Q Consensus 82 FLneLvKLvk~--k~d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~Lkr 132 (672)
||++|++++.+ +++..||+||+++|+.|+++|+++..+++.|.++|++||+
T Consensus 81 fl~~l~~l~~~~~~~~~~Vk~kil~ll~~W~~~f~~~~~~~~~~~~~y~~lk~ 133 (133)
T cd03561 81 FLLELVKIAKNSPKYDPKVREKALELILAWSESFGGHSEDLPGIEDAYKLLKR 133 (133)
T ss_pred HHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHhcCCCccchHHHHHHHHHhC
Confidence 99999999986 6889999999999999999999864569999999999974
No 10
>KOG2199 consensus Signal transducing adaptor protein STAM/STAM2 [Signal transduction mechanisms]
Probab=100.00 E-value=1.2e-35 Score=313.68 Aligned_cols=263 Identities=25% Similarity=0.395 Sum_probs=199.2
Q ss_pred hHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchH
Q 005882 2 VNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKN 81 (672)
Q Consensus 2 v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~ 81 (672)
.+.+|+|||+|.++.+||++||+|||+|+++++++|+++|+|+|||.|+++||+|+||+||++|++|||++||+||++++
T Consensus 9 ~e~~v~KAT~e~nT~enW~~IlDvCD~v~~~~~~~kd~lk~i~KRln~~dphV~L~AlTLlda~~~NCg~~~r~EVsSr~ 88 (462)
T KOG2199|consen 9 FEQDVEKATDEKNTSENWSLILDVCDKVGSDPDGGKDCLKAIMKRLNHKDPHVVLQALTLLDACVANCGKRFRLEVSSRD 88 (462)
T ss_pred HHHHHHHhcCcccccccHHHHHHHHHhhcCCCcccHHHHHHHHHHhcCCCcchHHHHHHHHHHHHHhcchHHHHHHhhhh
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhccCCChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHHhccCCCCCCCCC--CCCCC----C-----
Q 005882 82 VLHEMVKIARKKPDTHVKEKILILIDTWQEAFGGPRARYPQYYAAYQELLRAGAVFPQRSERS--APVFT----P----- 150 (672)
Q Consensus 82 FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~LkrkGi~FP~~~e~s--~pift----P----- 150 (672)
|.++|.+|+.++.++.|++||..++..|++.|+.++ .+..|.++|+.||+.||.|+..+.-. ..+-+ .
T Consensus 89 F~~el~al~~~~~h~kV~~k~~~lv~eWsee~K~Dp-~lsLi~~l~~klk~~g~~f~~~~~k~~k~a~~~~~v~~k~EeE 167 (462)
T KOG2199|consen 89 FTTELRALIESKAHPKVCEKMRDLVKEWSEEFKKDP-SLSLISALYKKLKEEGITFLVAGSKPEKHAMSTNTVSSKQEEE 167 (462)
T ss_pred HHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhccCc-chhHHHHHHHHHHHcCCCcccCCCchhHHHhhcccccccccHH
Confidence 999999999988999999999999999999999886 58899999999999999998543210 00000 0
Q ss_pred --------------CC-----CCCCCCCCC----C------CCC--------chhhhHhhhhhccC--------------
Q 005882 151 --------------PQ-----THPLTSYPQ----N------FRN--------PEHQQEAAEASAES-------------- 179 (672)
Q Consensus 151 --------------p~-----t~p~S~~P~----d------lr~--------an~~q~~~e~s~~~-------------- 179 (672)
.+ +...+-||. + +.+ +-+.-++.|.....
T Consensus 168 diaKAi~lSL~E~~~Q~k~a~~~tst~yPs~qk~nqapa~~l~s~~~~rkVRALYDFeAaE~nELsFkaGdIItVLd~s~ 247 (462)
T KOG2199|consen 168 DIAKAIELSLKEQEKQKKLAETETSTLYPSHQKQNQAPASQLNSQTVVRKVRALYDFEAAEDNELSFKAGDIITVLDDSD 247 (462)
T ss_pred HHHHHHHhhHHHHhhchhhccCCccccCccccccccCchhhccCCccchhhhhhhcccccCCCccceecCcEEEEcccCC
Confidence 00 000111222 0 000 00000111111100
Q ss_pred -----------------CCCCCCH-----HHHH-----------HHHHHHHHHHHHHHhcCCCCh--H-HHHHHHHHHHH
Q 005882 180 -----------------EFPTLSL-----TEIQ-----------NARGIMDVLAEMLNALDPNNK--E-EVIVDLVDQCR 223 (672)
Q Consensus 180 -----------------e~~s~~l-----sELe-----------~ak~nvkLL~EML~~l~P~~~--e-Eli~EL~~qCR 223 (672)
.+.+..+ .+++ .....+.-|-.+|.+.+|.+. + +-|.+|+..|.
T Consensus 248 ~~WWKG~~~~~~GlFPsnfVT~~le~~~~ee~~~~~~~~E~~vfi~e~~iDrlL~~L~~~dPtd~~~D~~~l~~le~~~~ 327 (462)
T KOG2199|consen 248 PNWWKGENHRGIGLFPSNFVTADLEEPKIEEQEQKQKNKEAIVFIDEDKIDRLLQVLHEADPTDEVQDDDDLLDLEAAVH 327 (462)
T ss_pred cchhccccCCcccccchhhhhhhhcccchhhhhhhhcCcceeeeccHHHHHHHHHHHhhcCCCCccCCCHHHHHHHHHHH
Confidence 0000001 1111 123556667788888899654 3 89999999999
Q ss_pred HHHHHHHHHhhcCCCHHHHHHHhhhhHHHHHHHHHHHhhhcCCc
Q 005882 224 TYKQRVVHLVNSTADESLLCQGLQLNDDLQRLLAKHESFASGKS 267 (672)
Q Consensus 224 ~mr~RV~rLIq~t~DEElL~eLL~lNDeLn~VLekYE~l~~g~~ 267 (672)
.|++.|-+.++.++-+. ++|++||..|..||+.|+++.....
T Consensus 328 ~mgPlid~~Le~idrk~--~eL~~Ln~~l~~Al~lY~kLm~~~p 369 (462)
T KOG2199|consen 328 QMGPLIDRKLEKIDRKH--EELSQLNVKLLDALRLYNKLMNEAP 369 (462)
T ss_pred HhhhHHHHHHHHHHhhH--HHHHHHHHHHHHHHHHHHHHHhhCh
Confidence 99999999999886442 4678999999999999999876553
No 11
>cd00197 VHS_ENTH_ANTH VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It is located at the N-termini of proteins involved in intracellular membrane trafficking. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. VHS, ENTH and ANTH domains are structurally similar and are composed of a superhelix of eight alpha helices. ENTH adnd ANTH (E/ANTH) domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membra
Probab=99.92 E-value=3.2e-25 Score=201.57 Aligned_cols=109 Identities=40% Similarity=0.708 Sum_probs=102.3
Q ss_pred hHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchH
Q 005882 2 VNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKN 81 (672)
Q Consensus 2 v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~ 81 (672)
++.+|++||++.+.+|||..|++|||+++...+.+++++++|+|||+++|+++++.||+|||+||||||++||.+|+++.
T Consensus 1 ~~~~v~~AT~~~~~~p~~~~i~~i~d~~~~~~~~~~~~~~~l~kRl~~~~~~~~lkaL~lLe~lvkN~g~~f~~~i~~~~ 80 (115)
T cd00197 1 FEKTVEKATSNENMGPDWPLIMEICDLINETNVGPKEAVDAIKKRINNKNPHVVLKALTLLEYCVKNCGERFHQEVASND 80 (115)
T ss_pred ChHHHHHHcCCCCCCCCHHHHHHHHHHHHCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHccHHHHHHHHHhH
Confidence 36899999999999999999999999999998999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhc-----cCCChhHHHHHHHHHHHHH
Q 005882 82 VLHEMVKIAR-----KKPDTHVKEKILILIDTWQ 110 (672)
Q Consensus 82 FLneLvKLvk-----~k~d~~VKeKILeLIq~Wa 110 (672)
|+++|++... ...+..||+|+++|++.|+
T Consensus 81 ~~~~l~~~~~~~~~~~~~~~~Vr~k~~~l~~~w~ 114 (115)
T cd00197 81 FAVELLKFDKSKLLGDDVSTNVREKAIELVQLWA 114 (115)
T ss_pred HHHHHHHhhccccccCCCChHHHHHHHHHHHHHh
Confidence 9999987522 2367899999999999997
No 12
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=99.88 E-value=7.5e-23 Score=229.44 Aligned_cols=145 Identities=35% Similarity=0.612 Sum_probs=137.2
Q ss_pred HHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHH
Q 005882 3 NSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNV 82 (672)
Q Consensus 3 ~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~F 82 (672)
..+|++||++.+-+.||..|++|||+|++....+|+++|.|+|||.|.|+++++.+|.|+|.||||||..||.+|++++|
T Consensus 10 ~~l~~~at~~~~~~~~~e~~~e~~d~ir~~~~~~k~slr~~~~~i~h~np~~~~~~~~~~d~cvkn~G~gv~~ei~tre~ 89 (634)
T KOG1818|consen 10 KRLIEKATSETLGSGDWEAILEISDMIRSGGVPPKPSLRGIKKRIDHENPNVQLFTLKLTDHCVKNCGHGVHCEIATREF 89 (634)
T ss_pred HhhhhhhhhhhhcCcchhhhhhHHHHHHhcCCCCchhHHHHHHHHhccCCCcccchhhhHHHHHhcCCcchhHHHHHHHH
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhccC-CChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHHhccCCCCCCCCCCCCCC
Q 005882 83 LHEMVKIARKK-PDTHVKEKILILIDTWQEAFGGPRARYPQYYAAYQELLRAGAVFPQRSERSAPVFT 149 (672)
Q Consensus 83 LneLvKLvk~k-~d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~LkrkGi~FP~~~e~s~pift 149 (672)
|+.|+.++... ++..|+.|+|++|+.|+.+|.+. ..|..+.++|+.|+..|+.||+.++.+. +|.
T Consensus 90 m~~~~~~l~~~~~~e~v~~~~l~~~q~wa~af~~~-~~~~~v~~t~~~lk~~g~~Fpe~~e~d~-mf~ 155 (634)
T KOG1818|consen 90 MDLLKSLLESQRIHEEVKNKILELIQNWAAAFRNS-SKYSYVLDTYQKLKGGGHVFPELDENDA-MFD 155 (634)
T ss_pred HHHHHhhhccccccchHHHHHHHHHHHHHHHccCc-hHHHHHHHHHHHHhcCCccccccccchh-hhc
Confidence 99999998864 89999999999999999999987 6788999999999999999999887664 663
No 13
>PF03127 GAT: GAT domain; InterPro: IPR004152 The GAT domain is responsible for binding of GGA proteins to several members of the ARF family including ARF1 [] and ARF3. The GAT domain stabilises membrane bound ARF1 in its GTP bound state, by interfering with GAP proteins [].; GO: 0006886 intracellular protein transport, 0005622 intracellular; PDB: 1YD8_H 1WR6_C 1WRD_A 1O3X_A 1J2J_B 1NWM_X 1X79_A 1OXZ_A 1NAF_A.
Probab=99.78 E-value=3.3e-19 Score=159.69 Aligned_cols=90 Identities=28% Similarity=0.525 Sum_probs=81.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHhcCCCChH----HHHHHHHHHHHHHHHHHHHHhhcCCCHHHHHHHhhhhHHHHH
Q 005882 179 SEFPTLSLTEIQNARGIMDVLAEMLNALDPNNKE----EVIVDLVDQCRTYKQRVVHLVNSTADESLLCQGLQLNDDLQR 254 (672)
Q Consensus 179 ~e~~s~~lsELe~ak~nvkLL~EML~~l~P~~~e----Eli~EL~~qCR~mr~RV~rLIq~t~DEElL~eLL~lNDeLn~ 254 (672)
+++.+++.+||++|+++++||+|||+.++|+... |+++|||++||.+|+||++||+.+.||++|++||++||+|++
T Consensus 3 ~e~~~k~~~~l~~v~~~~~lL~emL~~~~~~~~~~~~~el~~eL~~~ck~~r~~i~~li~~~~dee~l~~lL~~ND~L~~ 82 (100)
T PF03127_consen 3 PEQVSKRRSELEKVKNNAKLLNEMLDNYDPGEESSSDNELIQELYESCKSMRPRIQRLIEEVEDEELLGELLQANDELNQ 82 (100)
T ss_dssp HCTHHHHHHHHHHHHHHHHHHHHHHHHTTTTTSTHHHHHHHHHHHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCccchHHHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHHHHHH
Confidence 3445566789999999999999999999998643 799999999999999999999999888899999999999999
Q ss_pred HHHHHHhhhcCCcc
Q 005882 255 LLAKHESFASGKSA 268 (672)
Q Consensus 255 VLekYE~l~~g~~~ 268 (672)
||.+|+++++|+..
T Consensus 83 ~l~~Y~~l~~~~~~ 96 (100)
T PF03127_consen 83 ALERYDRLVKGQQR 96 (100)
T ss_dssp HHHHHHHHHCCC--
T ss_pred HHHHHHHHHcCccc
Confidence 99999999999875
No 14
>PF01417 ENTH: ENTH domain; InterPro: IPR001026 The ENTH (Epsin N-terminal homology) domain is approximately 150 amino acids in length and is always found located at the N-termini of proteins. The domain forms a compact globular structure, composed of 9 alpha-helices connected by loops of varying length. The general topology is determined by three helical hairpins that are stacked consecutively with a right hand twist []. An N-terminal helix folds back, forming a deep basic groove that forms the binding pocket for the Ins(1,4,5)P3 ligand []. The ligand is coordinated by residues from surrounding alpha-helices and all three phosphates are multiply coordinated. The coordination of Ins(1,4,5)P3 suggests that ENTH is specific for particular head groups. Proteins containing this domain have been found to bind PtdIns(4,5)P2 and PtdIns(1,4,5)P3 suggesting that the domain may be a membrane interacting module. The main function of proteins containing this domain appears to be to act as accessory clathrin adaptors in endocytosis, Epsin is able to recruit and promote clathrin polymerisation on a lipid monolayer, but may have additional roles in signalling and actin regulation []. Epsin causes a strong degree of membrane curvature and tubulation, even fragmentation of membranes with a high PtdIns(4,5)P2 content. Epsin binding to membranes facilitates their deformation by insertion of the N-terminal helix into the outer leaflet of the bilayer, pushing the head groups apart. This would reduce the energy needed to curve the membrane into a vesicle, making it easier for the clathrin cage to fix and stabilise the curved membrane. This points to a pioneering role for epsin in vesicle budding as it provides both a driving force and a link between membrane invagination and clathrin polymerisation. ; PDB: 1H0A_A 1EYH_A 1EDU_A 2QY7_B 1XGW_A 2V8S_E 1VDY_A 2DCP_A 1INZ_A 3ONL_B ....
Probab=98.13 E-value=1.8e-05 Score=73.58 Aligned_cols=105 Identities=23% Similarity=0.310 Sum_probs=79.9
Q ss_pred hHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHHhccccchhhhhc
Q 005882 2 VNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRI---GSRNSKVQLLALTLLETIIKNCGDIVHMHVA 78 (672)
Q Consensus 2 v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRL---ksknp~vqLlALtLLEtcVKNCG~~Fh~eVa 78 (672)
++.+|.+||++.--.+.-....+||..-... ....+.++.|.||| ..++.++.+-||.||+.|++||...|-.++
T Consensus 4 ~e~~v~eAT~~d~~gp~~~~l~eIa~~t~~~-~~~~~I~~~l~kRL~~~~~k~wr~~~KaL~ll~yLl~nG~~~~~~~~- 81 (125)
T PF01417_consen 4 LELKVREATSNDPWGPPGKLLAEIAQLTYNS-KDCQEIMDVLWKRLSKSDGKNWRHVYKALTLLEYLLKNGSERFVDEL- 81 (125)
T ss_dssp HHHHHHHHTSSSSSS--HHHHHHHHHHTTSC-HHHHHHHHHHHHHHHSSTSSGHHHHHHHHHHHHHHHHHS-HHHHHHH-
T ss_pred HHHHHHHHcCCCCCCcCHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHHHHCCHHHHHHH-
Confidence 4678999999988888878888888887666 78999999999999 788999999999999999999999888877
Q ss_pred chHHHHHHHHHhc-----cC-CC--hhHHHHHHHHHHHH
Q 005882 79 EKNVLHEMVKIAR-----KK-PD--THVKEKILILIDTW 109 (672)
Q Consensus 79 sk~FLneLvKLvk-----~k-~d--~~VKeKILeLIq~W 109 (672)
++-++.|+.+.. ++ .+ ..||+|+-+++.-.
T Consensus 82 -~~~~~~I~~l~~f~~~d~~g~d~~~~VR~~A~~i~~lL 119 (125)
T PF01417_consen 82 -RDHIDIIRELQDFQYVDPKGKDQGQNVREKAKEILELL 119 (125)
T ss_dssp -HHTHHHHHGGGG---BBTTSTBHHHHHHHHHHHHHHHH
T ss_pred -HHHHHHHhhcceeeccCCCCccHHHHHHHHHHHHHHHh
Confidence 333444444422 11 12 25888888777643
No 15
>cd03572 ENTH_epsin_related ENTH domain, Epsin Related family; composed of hypothetical proteins containing an ENTH-like domain. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. ENTH and ANTH (E/ANTH) domains are structurally similar to the VHS domain and are composed of a superhelix of eight alpha helices. E/ANTH domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membranes. ENTH domains also function in the development of membrane curvature through lipid remodeling during the formation of clathrin-coated vesicles. E/ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the t
Probab=98.11 E-value=2.5e-05 Score=73.38 Aligned_cols=106 Identities=21% Similarity=0.282 Sum_probs=84.8
Q ss_pred ChHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcch
Q 005882 1 MVNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEK 80 (672)
Q Consensus 1 ~v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask 80 (672)
|-..+|.+||++.-..+--....|||++...+.....|++..|-|||+++.++|-+-||.||+.|+.+....|.+++.+.
T Consensus 1 ~~~~ll~~ATsdd~~p~pgy~~~Eia~~t~~s~~~~~ei~d~L~kRL~~~~~hVK~K~Lrilk~l~~~G~~~f~~~~~~~ 80 (122)
T cd03572 1 MRRSLLSKATSDDDEPTPGYLYEEIAKLTRKSVGSCQELLEYLLKRLKRSSPHVKLKVLKIIKHLCEKGNSDFKRELQRN 80 (122)
T ss_pred CcHHHHHHHhcCCCCCCchHHHHHHHHHHHcCHHHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHHhhCCHHHHHHHHHh
Confidence 44679999999988888777888999999998889999999999999999999999999999999999988888776653
Q ss_pred HHHHHHHHHhc-cC-CC--------hhHHHHHHHHHHH
Q 005882 81 NVLHEMVKIAR-KK-PD--------THVKEKILILIDT 108 (672)
Q Consensus 81 ~FLneLvKLvk-~k-~d--------~~VKeKILeLIq~ 108 (672)
+..++.+.. .. +| ..||+++.+++..
T Consensus 81 --~~~Ik~~~~f~g~~Dp~~Gd~~~~~VR~~A~El~~~ 116 (122)
T cd03572 81 --SAQIRECANYKGPPDPLKGDSLNEKVREEAQELIKA 116 (122)
T ss_pred --HHHHHHHHHcCCCCCcccCcchhHHHHHHHHHHHHH
Confidence 333333322 11 22 3688877777653
No 16
>cd03562 CID CID (CTD-Interacting Domain) domain family; CID is present in several RNA-processing factors such as Pcf11 and Nrd1. Pcf11 is a conserved and essential subunit of the yeast cleavage factor IA, which is required for polyadenylation-dependent 3'-RNA processing and transcription termination. Nrd1 is implicated in polyadenylation-independent 3'-RNA processing. CID binds tightly to the carboxy-terminal domain (CTD) of RNA polymerase (Pol) II. During transcription, Pol II synthesizes eukaryotic messenger RNA. Transcription is coupled to RNA processing through the CTD, which consists of up to 52 repeats of the sequence Tyr 1-Ser 2-Pro 3-Thr 4-Ser 5-Pro 6-Ser 7. CID contains eight alpha-helices in a right-handed superhelical arrangement, which closely resembles that of the VHS domains and ARM (Armadillo) repeat proteins, except for its two amino-terminal helices.
Probab=97.96 E-value=2e-05 Score=71.78 Aligned_cols=94 Identities=23% Similarity=0.345 Sum_probs=75.7
Q ss_pred CHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccCCChh
Q 005882 18 DWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTH 97 (672)
Q Consensus 18 DW~~ileICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~ 97 (672)
.-..|-.+...+......+++.+.+|.++|+...+..-|.+|-|+|.+++||+.+....+.. .|.+-+...+ .+.++.
T Consensus 17 S~~~I~~lt~~a~~~~~~a~~iv~~i~~~i~~~~~~~KL~~LYL~dsIvkn~~~~~~~~~~~-~~~~~f~~~~-~~~~~~ 94 (114)
T cd03562 17 SQPSIQTLTKLAIENRKHAKEIVEIIEKHIKKCPPEQKLPLLYLLDSIVKNVGRKYKEFFSE-FLVPLFLDAY-EKVDEK 94 (114)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHHHcccchHHHHHH-HHHHHHHHHH-HhCCHH
Confidence 45567777777776667899999999999999999999999999999999999987766554 2333333333 368999
Q ss_pred HHHHHHHHHHHHHHHh
Q 005882 98 VKEKILILIDTWQEAF 113 (672)
Q Consensus 98 VKeKILeLIq~WaeaF 113 (672)
+|+||..|+..|.+.+
T Consensus 95 ~r~kl~rl~~iW~~~~ 110 (114)
T cd03562 95 TRKKLERLLNIWEERF 110 (114)
T ss_pred HHHHHHHHHHHccCCC
Confidence 9999999999999865
No 17
>cd03571 ENTH_epsin ENTH domain, Epsin family; The epsin (Eps15 interactor) N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. ENTH and ANTH (E/ANTH) domains are structurally similar to the VHS domain and are composed of a superhelix of eight alpha helices. E/ANTH domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membranes. ENTH domains also function in the development of membrane curvature through lipid remodeling during the formation of clathrin-coated vesicles. E/ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the trans-Golgi network, which suggests that E/ANTH domains are univ
Probab=97.75 E-value=0.00028 Score=66.41 Aligned_cols=106 Identities=25% Similarity=0.263 Sum_probs=81.0
Q ss_pred hHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHHHhccccchhhhhcc
Q 005882 2 VNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGS--RNSKVQLLALTLLETIIKNCGDIVHMHVAE 79 (672)
Q Consensus 2 v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLks--knp~vqLlALtLLEtcVKNCG~~Fh~eVas 79 (672)
++.+|..|||...-+|.-..+-+||+.-.. .....+.++.|.|||.. ++-+..+-||+|||.|++|+.++|-.++.+
T Consensus 2 ~e~~vreATs~d~wGp~~~~m~eIa~~t~~-~~~~~~Im~~l~kRL~~~~k~WR~vyKaL~lleyLl~nGse~vv~~~r~ 80 (123)
T cd03571 2 AELKVREATSNDPWGPSGTLMAEIARATYN-YVEFQEIMSMLWKRLNDKGKNWRHVYKALTLLEYLLKNGSERVVDDARE 80 (123)
T ss_pred HHHHHHHHcCCCCCCCCHHHHHHHHHHhCC-HHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence 467899999998888888889999998554 46678999999999964 588999999999999999999888877643
Q ss_pred hHHHHHHHHHh-----ccC-CC--hhHHHHHHHHHHHHH
Q 005882 80 KNVLHEMVKIA-----RKK-PD--THVKEKILILIDTWQ 110 (672)
Q Consensus 80 k~FLneLvKLv-----k~k-~d--~~VKeKILeLIq~Wa 110 (672)
-+..|..|- ..+ .| ..||+|+-+++....
T Consensus 81 --~~~~i~~L~~F~~~d~~g~d~G~~VR~ka~~i~~Ll~ 117 (123)
T cd03571 81 --NLYIIRTLKDFQYIDENGKDQGINVREKAKEILELLE 117 (123)
T ss_pred --hHHHHHhhccceeeCCCCCchhHHHHHHHHHHHHHhC
Confidence 333344432 111 12 479998888876543
No 18
>smart00273 ENTH Epsin N-terminal homology (ENTH) domain.
Probab=97.65 E-value=0.00064 Score=63.34 Aligned_cols=76 Identities=21% Similarity=0.248 Sum_probs=68.0
Q ss_pred hHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHhccccchhhhh
Q 005882 2 VNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSR-NSKVQLLALTLLETIIKNCGDIVHMHV 77 (672)
Q Consensus 2 v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLksk-np~vqLlALtLLEtcVKNCG~~Fh~eV 77 (672)
++..|.+||+.....++-..+-+|+......+....+++++|.|||... +-.+++-||.||+.|++|+...|-.++
T Consensus 3 ~e~~V~kAT~~~~~~p~~k~~~~I~~~t~~~~~~~~~i~~~l~~Rl~~~~~w~~v~KsL~llh~ll~~G~~~~~~~~ 79 (127)
T smart00273 3 LEVKVRKATNNDEWGPKGKHLREIIQGTHNEKSSFAEIMAVLWRRLNDTKNWRVVYKALILLHYLLRNGSPRVILEA 79 (127)
T ss_pred HHHHHHHhcCCCCCCcCHHHHHHHHHHHccCHhhHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHhcCCHHHHHHH
Confidence 4678999999999999999999999999888788999999999999865 999999999999999999987665443
No 19
>cd03564 ANTH_AP180_CALM ANTH domain family; composed of adaptor protein 180 (AP180), clathrin assembly lymphoid myeloid leukemia protein (CALM) and similar proteins. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. AP180 and CALM play important roles in clathrin-mediated endocytosis. AP180 is a brain-specific clathrin-binding protein which stimulates clathrin assembly during the recycling of synaptic vesicles. The ANTH domain is structurally similar to the VHS domain and is composed of a superhelix of eight alpha helices. ANTH domains bind both inositol phospholipids and proteins, and contribute to the nucleation and formation of clathrin coats on membranes. ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the trans-Golgi network, which suggests that the ANTH domain is a universal component of the machine
Probab=97.35 E-value=0.001 Score=61.30 Aligned_cols=78 Identities=21% Similarity=0.195 Sum_probs=70.6
Q ss_pred hHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcc
Q 005882 2 VNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAE 79 (672)
Q Consensus 2 v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVas 79 (672)
++..|.|||+.....|+-..+-+|......+.....+++.+|.+|+..+|..+++-||.||..|++++...|-.++..
T Consensus 1 ~~~aV~kAT~~~~~~pk~k~v~~ii~~t~~~~~~~~~~~~~l~~Rl~~~~w~v~~K~LillH~llr~G~~~~~~~~~~ 78 (117)
T cd03564 1 LEKAVKKATSHDEAPPKDKHVRKIIAGTSSSPASIPSFASALSRRLLDRNWVVVLKALILLHRLLREGHPSFLQELLS 78 (117)
T ss_pred CchHHHhhcCCCCCCCChHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence 356899999999999999999999999888788999999999999999999999999999999999998887766554
No 20
>KOG2056 consensus Equilibrative nucleoside transporter protein [Nucleotide transport and metabolism]
Probab=97.00 E-value=0.0038 Score=67.61 Aligned_cols=109 Identities=24% Similarity=0.215 Sum_probs=81.8
Q ss_pred HHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHhccccchhhhhcch
Q 005882 3 NSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIG--SRNSKVQLLALTLLETIIKNCGDIVHMHVAEK 80 (672)
Q Consensus 3 ~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLk--sknp~vqLlALtLLEtcVKNCG~~Fh~eVask 80 (672)
+..|-.||+...-+|.-.++.+|++.--. ...-.|.+..|.||++ .+|=+.++-||+|||.||+|+.++|-.++-.-
T Consensus 23 e~kVrdAT~nd~wGPs~~lm~eIA~~ty~-~~e~~eIm~vi~kRl~d~gknWR~VyKaLtlleyLl~~GSErv~~~~ren 101 (336)
T KOG2056|consen 23 ELKVRDATSNDPWGPSGTLMAEIAQATYN-FVEYQEIMDVLWKRLNDSGKNWRHVYKALTLLEYLLKNGSERVVDETREN 101 (336)
T ss_pred HHHHHhccccccCCCchHHHHHHHHHhcC-HHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHhcCcHHHHHHHHhh
Confidence 45788999999999999999999986433 3457899999999996 57888999999999999999888777665554
Q ss_pred HHHHHHHHHh---c-cCC--ChhHHHHHHHHHHHHHHH
Q 005882 81 NVLHEMVKIA---R-KKP--DTHVKEKILILIDTWQEA 112 (672)
Q Consensus 81 ~FLneLvKLv---k-~k~--d~~VKeKILeLIq~Waea 112 (672)
-++-++.+-+ . ... -..||+|+-+++....+.
T Consensus 102 ~~~I~tL~~Fq~iD~~G~dqG~nVRkkak~l~~LL~D~ 139 (336)
T KOG2056|consen 102 IYTIETLKDFQYIDEDGKDQGLNVRKKAKELLSLLEDD 139 (336)
T ss_pred hHHHHHHhhceeeCCCCccchHHHHHHHHHHHHHhccH
Confidence 4444432221 1 112 247999999988776653
No 21
>KOG0251 consensus Clathrin assembly protein AP180 and related proteins, contain ENTH domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=96.79 E-value=0.057 Score=61.62 Aligned_cols=80 Identities=23% Similarity=0.263 Sum_probs=74.1
Q ss_pred hHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHhccccchhhhhcch
Q 005882 2 VNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSR-NSKVQLLALTLLETIIKNCGDIVHMHVAEK 80 (672)
Q Consensus 2 v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLksk-np~vqLlALtLLEtcVKNCG~~Fh~eVask 80 (672)
++..|-|||++....++-..+-+|--.++..+.....++.+|-+||++. |=-|++-||.|+.-+++....+|+.++..+
T Consensus 24 l~~AV~KATsh~~~ppk~k~l~~Il~~ts~~~~~i~~~v~aLs~Rl~~TrnW~VAlKsLIliH~ll~~G~~~f~~~l~~~ 103 (491)
T KOG0251|consen 24 LEKAVVKATSHDDMPPKDKYLDEILSATSSSPASIPSCVHALSERLNKTRNWTVALKALILIHRLLKEGDPSFEQELLSR 103 (491)
T ss_pred HHHHHHhhccCCCCCccHHHHHHHHHHhcCCcccHHHHHHHHHHHhCCCcceeehHHHHHHHHHHHhcCcHHHHHHHHhc
Confidence 4678999999999999999999999999999999999999999999875 999999999999999999988999888876
Q ss_pred H
Q 005882 81 N 81 (672)
Q Consensus 81 ~ 81 (672)
-
T Consensus 104 ~ 104 (491)
T KOG0251|consen 104 N 104 (491)
T ss_pred c
Confidence 5
No 22
>KOG2374 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.25 E-value=0.036 Score=62.44 Aligned_cols=135 Identities=14% Similarity=0.273 Sum_probs=107.7
Q ss_pred hHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcc--
Q 005882 2 VNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAE-- 79 (672)
Q Consensus 2 v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVas-- 79 (672)
+..||+++|...-.+-|-....+|--+++.+.+...-+.+.|..-+.+.-..+-+++|-+.|.|.-.. +.|+..|.+
T Consensus 8 l~~lIeelT~sg~~~~~p~~~k~lkkiv~~sdee~~~~~~~L~~~~~~~h~~vR~l~lqii~elF~rs-~~FR~lii~n~ 86 (661)
T KOG2374|consen 8 LIGLIEELTKSGAQEVDPRLLKALKKIVRYSDEEVRLSSQTLMELMRHNHSQVRYLTLQIIDELFMRS-KLFRTLIIENL 86 (661)
T ss_pred HHHHHHHHhhcCCcccChHHHHHHHHHHhccHHHHHHHHHHHHHHHhhcCchHHHHHHHHHHHHHHhh-HHHHHHHHhCH
Confidence 46799999999999888888889989999888889999999999999888899999999999998876 678877765
Q ss_pred hHHHHHHHHHhccC--C-----ChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHH-hccCCCCC
Q 005882 80 KNVLHEMVKIARKK--P-----DTHVKEKILILIDTWQEAFGGPRARYPQYYAAYQELLR-AGAVFPQR 140 (672)
Q Consensus 80 k~FLneLvKLvk~k--~-----d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~Lkr-kGi~FP~~ 140 (672)
.+||+-++..=... + -..+|.+.++.|..|.+.|.. .|..+.=.|..||. +.+.||..
T Consensus 87 ~efLeL~~gt~p~~PLP~p~~~a~~Lr~~ai~~~e~Wnekfg~---~yk~l~lg~~~Lk~tkkvdf~d~ 152 (661)
T KOG2374|consen 87 DEFLELSIGTRPNLPLPAPPAVATTLRSKAIEFLEKWNEKFGF---HYKELRLGFDYLKNTKKVDFPDL 152 (661)
T ss_pred HHHHHHhhcCCCCCCCCCChHHHHHHHHHHHHHHHHHHHHHhH---HHHHHHHHHHHHhccccccCcch
Confidence 34444443321111 1 126899999999999999985 37888888999986 66889853
No 23
>smart00582 RPR domain present in proteins, which are involved in regulation of nuclear pre-mRNA.
Probab=96.21 E-value=0.013 Score=53.80 Aligned_cols=93 Identities=19% Similarity=0.219 Sum_probs=63.9
Q ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhc---cCCC
Q 005882 19 WAMNIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIAR---KKPD 95 (672)
Q Consensus 19 W~~ileICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk---~k~d 95 (672)
-..|-.+...+-.....+++.+..|.++++...+..-+..|-|++.+++||....-..+. ..|...+..++. ...+
T Consensus 13 ~~~I~~lt~~~~~~~~~a~~Iv~~i~~~~~~~~~~~kL~~LYlindIl~n~~~~~~~~f~-~~~~~~~~~~~~~~~~~~~ 91 (121)
T smart00582 13 QESIQTLTKWAIEHASHAKEIVELWEKYIKKAPPPRKLPLLYLLDSIVQNSKRKYGSEFG-DELGPVFQDALRDVLGAAN 91 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccceehhHHhHHHHHHHHhhccHHHHH-HHHHHHHHHHHHHHHHhCC
Confidence 334444444444444567899999999998777777788999999999999766422221 234444333322 2345
Q ss_pred hhHHHHHHHHHHHHHHH
Q 005882 96 THVKEKILILIDTWQEA 112 (672)
Q Consensus 96 ~~VKeKILeLIq~Waea 112 (672)
+.+|+||+.++..|.+.
T Consensus 92 ~~~~~ki~kll~iW~~~ 108 (121)
T smart00582 92 DETKKKIRRLLNIWEER 108 (121)
T ss_pred HHHHHHHHHHHHHHhcC
Confidence 78999999999999983
No 24
>PF07651 ANTH: ANTH domain; InterPro: IPR011417 AP180 is an endocytotic accessory protein that has been implicated in the formation of clathrin-coated pits. The domain is involved in phosphatidylinositol 4,5-bisphosphate binding and is a universal adaptor for nucleation of clathrin coats [, ].; GO: 0005543 phospholipid binding; PDB: 1HX8_A 3ZYM_A 1HFA_A 1HG2_A 3ZYL_B 3ZYK_A 1HG5_A 1HF8_A.
Probab=94.62 E-value=5.2 Score=41.81 Aligned_cols=76 Identities=21% Similarity=0.165 Sum_probs=60.0
Q ss_pred hHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHhccccchhhhhc
Q 005882 2 VNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSR-NSKVQLLALTLLETIIKNCGDIVHMHVA 78 (672)
Q Consensus 2 v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLksk-np~vqLlALtLLEtcVKNCG~~Fh~eVa 78 (672)
++..|.|||+....-|+-..+-+|.-.... +....+++.+|.+|+... +..|++-||.|+..|++-+...|-.++.
T Consensus 4 l~~av~KAT~~~~~ppk~Khv~~il~~t~~-~~~~~~~~~~l~~Rl~~~~~w~V~~K~Lil~H~llr~G~~~~~~~~~ 80 (280)
T PF07651_consen 4 LEKAVIKATSHDEAPPKEKHVREILSATSS-PESVAFLFWALSRRLPLTRNWIVALKALILLHRLLRDGHPSFLQELL 80 (280)
T ss_dssp HHHHHHHHT-SSS---HHHHHHHHHHHCST-TS-HHHHHHHHHHHCTSS-SHHHHHHHHHHHHHHHHHS-CHHHHHHH
T ss_pred HHHHHHHHcCCCCCCCCHHHHHHHHHHhcC-CccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHcCchHHHHHHH
Confidence 467899999998888998888888877777 788999999999999875 9999999999999999987665554444
No 25
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A.
Probab=92.98 E-value=1.3 Score=37.42 Aligned_cols=87 Identities=15% Similarity=0.249 Sum_probs=67.2
Q ss_pred hHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchH
Q 005882 2 VNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKN 81 (672)
Q Consensus 2 v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~ 81 (672)
+..|++...++ +||..-.+.|..+..- +-.+++..|.+.+++.++.+...|+..|..+ ++++
T Consensus 1 i~~L~~~l~~~----~~~~vr~~a~~~L~~~--~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~i------------~~~~ 62 (88)
T PF13646_consen 1 IPALLQLLQND----PDPQVRAEAARALGEL--GDPEAIPALIELLKDEDPMVRRAAARALGRI------------GDPE 62 (88)
T ss_dssp HHHHHHHHHTS----SSHHHHHHHHHHHHCC--THHHHHHHHHHHHTSSSHHHHHHHHHHHHCC------------HHHH
T ss_pred CHHHHHHHhcC----CCHHHHHHHHHHHHHc--CCHhHHHHHHHHHcCCCHHHHHHHHHHHHHh------------CCHH
Confidence 34566666443 6888888888888843 4679999999999999999999999888743 4678
Q ss_pred HHHHHHHHhccCCChhHHHHHHHHH
Q 005882 82 VLHEMVKIARKKPDTHVKEKILILI 106 (672)
Q Consensus 82 FLneLvKLvk~k~d~~VKeKILeLI 106 (672)
.+..|++++.+..+..||..++.-|
T Consensus 63 ~~~~L~~~l~~~~~~~vr~~a~~aL 87 (88)
T PF13646_consen 63 AIPALIKLLQDDDDEVVREAAAEAL 87 (88)
T ss_dssp THHHHHHHHTC-SSHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCcHHHHHHHHhhc
Confidence 8889999888766777888776644
No 26
>KOG2057 consensus Predicted equilibrative nucleoside transporter protein [Nucleotide transport and metabolism]
Probab=90.70 E-value=0.97 Score=49.16 Aligned_cols=101 Identities=16% Similarity=0.179 Sum_probs=65.1
Q ss_pred HHHHHcCCCCCCcCHHHHHHHHHHHhCC-CCCHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHHHhccccchhhhhcch
Q 005882 5 MVDRATSDMLIGPDWAMNIEICDMLNHD-PGQAKDVVKGIKKRIG---SRNSKVQLLALTLLETIIKNCGDIVHMHVAEK 80 (672)
Q Consensus 5 lIekATse~l~~pDW~~ileICD~In~~-~~~aKEAvRaLrKRLk---sknp~vqLlALtLLEtcVKNCG~~Fh~eVask 80 (672)
-|..||++.--+|-=.++-+||+.-... -+.--|....|-.|+- ..+=+.++.+|.||+.|+||+.++|-.+. +
T Consensus 27 ~VREATNdDPWGPsG~lMgeIaeaTfmry~EdFpelmnmL~qRMLedNK~~WRRVYKSLiLLaYLikNGSER~VqeA--R 104 (499)
T KOG2057|consen 27 DVREATNDDPWGPSGPLMGEIAEATFMRYMEDFPELMNMLFQRMLEDNKDAWRRVYKSLILLAYLIKNGSERFVQEA--R 104 (499)
T ss_pred HHHhhccCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcccHHHHHHH--H
Confidence 3555666544444445677777765432 2334555666666653 23456788999999999999999998764 4
Q ss_pred HHHHHHHHHhccC--------CChhHHHHHHHHHH
Q 005882 81 NVLHEMVKIARKK--------PDTHVKEKILILID 107 (672)
Q Consensus 81 ~FLneLvKLvk~k--------~d~~VKeKILeLIq 107 (672)
+-.-+|++|-.-+ --..||.||.++|.
T Consensus 105 Eh~YdLR~LEnYhfiDEhGKDQGINIR~kVKeilE 139 (499)
T KOG2057|consen 105 EHAYDLRRLENYHFIDEHGKDQGINIRHKVKEILE 139 (499)
T ss_pred HHHHHHHhhhhccchhhhCccccccHHHHHHHHHH
Confidence 5566777764322 12378999988875
No 27
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=90.46 E-value=2.5 Score=42.30 Aligned_cols=79 Identities=18% Similarity=0.247 Sum_probs=52.9
Q ss_pred HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccc---cchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHHH
Q 005882 36 AKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCG---DIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQEA 112 (672)
Q Consensus 36 aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG---~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~Waea 112 (672)
.+-....|..-++++|+.+-..++..|..++.+++ ..+.....-+.++..|++++.. .+++||+-..+++..+...
T Consensus 129 ~~~~~~~l~~~~~~Kn~~vR~~~~~~l~~~l~~~~~~~~~l~~~~~~~~l~~~l~~~l~D-~~~~VR~~Ar~~~~~l~~~ 207 (228)
T PF12348_consen 129 PKILLEILSQGLKSKNPQVREECAEWLAIILEKWGSDSSVLQKSAFLKQLVKALVKLLSD-ADPEVREAARECLWALYSH 207 (228)
T ss_dssp -HHHHHHHHHHTT-S-HHHHHHHHHHHHHHHTT-----GGG--HHHHHHHHHHHHHHHTS-S-HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHccchHhhhcccchHHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHHHH
Confidence 34448888888999999999999999999999998 3333222223444555555554 6789999999999998888
Q ss_pred hCC
Q 005882 113 FGG 115 (672)
Q Consensus 113 F~~ 115 (672)
|+.
T Consensus 208 ~~~ 210 (228)
T PF12348_consen 208 FPE 210 (228)
T ss_dssp H-H
T ss_pred CCH
Confidence 763
No 28
>KOG2160 consensus Armadillo/beta-catenin-like repeat-containing protein [Posttranslational modification, protein turnover, chaperones]
Probab=89.84 E-value=0.95 Score=49.68 Aligned_cols=93 Identities=16% Similarity=0.193 Sum_probs=72.1
Q ss_pred HHHHHHHHHHhCCCC--CHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccCCChh
Q 005882 20 AMNIEICDMLNHDPG--QAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTH 97 (672)
Q Consensus 20 ~~ileICD~In~~~~--~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~ 97 (672)
+-+.++|+-|..-.+ .-.-...+|. -|++.+..+-.+|..++-+|+.|- .+.+.+|....|+..|.++++...+.+
T Consensus 105 d~Le~lve~iDnAndl~~~ggl~~ll~-~l~~~~~~lR~~Aa~Vigt~~qNN-P~~Qe~v~E~~~L~~Ll~~ls~~~~~~ 182 (342)
T KOG2160|consen 105 DNLEELVEDIDNANDLISLGGLVPLLG-YLENSDAELRELAARVIGTAVQNN-PKSQEQVIELGALSKLLKILSSDDPNT 182 (342)
T ss_pred HHHHHHHHhhhhHHhHhhccCHHHHHH-HhcCCcHHHHHHHHHHHHHHHhcC-HHHHHHHHHcccHHHHHHHHccCCCch
Confidence 345566665544221 1122333344 899999999999999999999996 688889999999999999999777889
Q ss_pred HHHHHHHHHHHHHHHhC
Q 005882 98 VKEKILILIDTWQEAFG 114 (672)
Q Consensus 98 VKeKILeLIq~WaeaF~ 114 (672)
||.|+|.-|...=..|.
T Consensus 183 ~r~kaL~AissLIRn~~ 199 (342)
T KOG2160|consen 183 VRTKALFAISSLIRNNK 199 (342)
T ss_pred HHHHHHHHHHHHHhcCc
Confidence 99999999988877665
No 29
>cd00020 ARM Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.
Probab=87.09 E-value=4.5 Score=35.17 Aligned_cols=69 Identities=13% Similarity=0.156 Sum_probs=55.4
Q ss_pred HHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHH
Q 005882 38 DVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDT 108 (672)
Q Consensus 38 EAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~ 108 (672)
++++.|.+-|.+.+++++..|+.+|-.+..++.. ....+.+..++..|++++... +..|++.++.+|..
T Consensus 49 ~~i~~l~~~l~~~~~~v~~~a~~~L~~l~~~~~~-~~~~~~~~g~l~~l~~~l~~~-~~~~~~~a~~~l~~ 117 (120)
T cd00020 49 GGLPALVQLLKSEDEEVVKAALWALRNLAAGPED-NKLIVLEAGGVPKLVNLLDSS-NEDIQKNATGALSN 117 (120)
T ss_pred CChHHHHHHHhCCCHHHHHHHHHHHHHHccCcHH-HHHHHHHCCChHHHHHHHhcC-CHHHHHHHHHHHHH
Confidence 6677888888999999999999999999998753 333444556889999988764 78899988888764
No 30
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=86.41 E-value=6.4 Score=38.76 Aligned_cols=88 Identities=13% Similarity=0.125 Sum_probs=73.3
Q ss_pred HHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHH
Q 005882 20 AMNIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVK 99 (672)
Q Consensus 20 ~~ileICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VK 99 (672)
..+.-+||++.+-+.-...-+..|.++|.++++.|-..||.+|--|+.+.=.++.. .++.++.+++.. .+++|+
T Consensus 7 n~i~~l~DL~~r~~~~ve~~~~~l~~~L~D~~~~VR~~al~~Ls~Li~~d~ik~k~-----~l~~~~l~~l~D-~~~~Ir 80 (178)
T PF12717_consen 7 NAIIALGDLCIRYPNLVEPYLPNLYKCLRDEDPLVRKTALLVLSHLILEDMIKVKG-----QLFSRILKLLVD-ENPEIR 80 (178)
T ss_pred HHHHHHHHHHHhCcHHHHhHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCceeehh-----hhhHHHHHHHcC-CCHHHH
Confidence 35778999999988888889999999999999999999999999999997555553 344666666644 678999
Q ss_pred HHHHHHHHHHHHHh
Q 005882 100 EKILILIDTWQEAF 113 (672)
Q Consensus 100 eKILeLIq~WaeaF 113 (672)
+.+...+.++....
T Consensus 81 ~~A~~~~~e~~~~~ 94 (178)
T PF12717_consen 81 SLARSFFSELLKKR 94 (178)
T ss_pred HHHHHHHHHHHHhc
Confidence 99999999998863
No 31
>smart00229 RasGEFN Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif. A subset of guanine nucleotide exchange factor for Ras-like small GTPases appear to possess this domain N-terminal to the RasGef (Cdc25-like) domain. The recent crystal structureof Sos shows that this domain is alpha-helical and plays a "purely structural role" (Nature 394, 337-343).
Probab=84.46 E-value=15 Score=33.71 Aligned_cols=104 Identities=10% Similarity=0.045 Sum_probs=67.0
Q ss_pred hHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCH-----------HHHHHHHHHHHHHHhccc
Q 005882 2 VNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSRNS-----------KVQLLALTLLETIIKNCG 70 (672)
Q Consensus 2 v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLksknp-----------~vqLlALtLLEtcVKNCG 70 (672)
++.||++.|+.... .|-..+-.+.- --+.-..+.+.+..|..|.....+ .++.+.+.+|..-|.|+.
T Consensus 10 l~~Li~~L~~~~~~-~d~~f~~~Fll-tyr~F~tp~~ll~~L~~rf~~~~~~~~~~~~~~~~~~~~rv~~~l~~Wv~~~~ 87 (127)
T smart00229 10 LEKLIEHLTEAFDK-ADPFFVETFLL-TYRSFITTQELLQLLLYRYNAIPPESWVERKVNPLRVKNRVLNILRHWVENYW 87 (127)
T ss_pred HHHHHHHHcCCCcC-CCHHHHHHHHH-HhhhhCCHHHHHHHHHHHhCCCCcHHHHHHHhhHHHHHHHHHHHHHHHHHHCC
Confidence 57899999998653 33222222211 112345678888888888875322 377888999999999998
Q ss_pred cchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHH
Q 005882 71 DIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILID 107 (672)
Q Consensus 71 ~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq 107 (672)
..|..+-.-.++|.++...+.........+++.+++.
T Consensus 88 ~dF~~~~~l~~~l~~f~~~~~~~~~~~~~~~l~~~~~ 124 (127)
T smart00229 88 QDFEDDPKLILRLLEFLDLVDQEKGPGLVTSLQELLQ 124 (127)
T ss_pred cccccCHHHHHHHHHHHHHHhhCcCCCHHHHHHHHHH
Confidence 8888775556677776666544334455556665554
No 32
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=83.90 E-value=3.3 Score=49.63 Aligned_cols=33 Identities=12% Similarity=0.151 Sum_probs=21.7
Q ss_pred HHHhcCCCChHHHHHHHHHHHHHHHHHHHHHhhc
Q 005882 202 MLNALDPNNKEEVIVDLVDQCRTYKQRVVHLVNS 235 (672)
Q Consensus 202 ML~~l~P~~~eEli~EL~~qCR~mr~RV~rLIq~ 235 (672)
|++++.. ..+|+=-.++-+|+-||-.|..++..
T Consensus 311 ~INal~t-~p~dldfRlhlR~E~mr~gL~~~l~~ 343 (1102)
T KOG1924|consen 311 FINALVT-SPSDLDFRLHLRSEFMRDGLHKYLPD 343 (1102)
T ss_pred HHHHhcC-CHHHhhHHHHHHHHHHHHhHHHHHHH
Confidence 5555532 23356667778888888888887764
No 33
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=83.12 E-value=6.1 Score=39.60 Aligned_cols=97 Identities=19% Similarity=0.268 Sum_probs=62.7
Q ss_pred CCCcCHHHHHH----HHHHHhCC--CCCHHHH---HH----HHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcch
Q 005882 14 LIGPDWAMNIE----ICDMLNHD--PGQAKDV---VK----GIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEK 80 (672)
Q Consensus 14 l~~pDW~~ile----ICD~In~~--~~~aKEA---vR----aLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask 80 (672)
..+.||..-.+ |-.+++.. .....+. +| .|.+.|.+.+..+...|+.+|..|...+|..|... -.
T Consensus 16 ~~~~~W~~r~~al~~L~~l~~~~~~~~~~~~~~~~l~~~~~~i~~~l~d~Rs~v~~~A~~~l~~l~~~l~~~~~~~--~~ 93 (228)
T PF12348_consen 16 ESESDWEERVEALQKLRSLIKGNAPEDFPPDFVECLRQLLDAIIKQLSDLRSKVSKTACQLLSDLARQLGSHFEPY--AD 93 (228)
T ss_dssp HT-SSHHHHHHHHHHHHHHHHH-B-----HHHHHHHH---HHHHH-S-HH---HHHHHHHHHHHHHHHHGGGGHHH--HH
T ss_pred CCccCHHHHHHHHHHHHHHHHcCCccccHHHHHHHHHHhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhHhHHHH--HH
Confidence 35679987544 44445544 2333333 33 56688888899999999999999999999998765 34
Q ss_pred HHHHHHHHHhccCCChhHHHHHHHHHHHHHHHh
Q 005882 81 NVLHEMVKIARKKPDTHVKEKILILIDTWQEAF 113 (672)
Q Consensus 81 ~FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF 113 (672)
.|+..|.+++..+ ..-|++.+...|..+.+..
T Consensus 94 ~~l~~Ll~~~~~~-~~~i~~~a~~~L~~i~~~~ 125 (228)
T PF12348_consen 94 ILLPPLLKKLGDS-KKFIREAANNALDAIIESC 125 (228)
T ss_dssp HHHHHHHHGGG----HHHHHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHHccc-cHHHHHHHHHHHHHHHHHC
Confidence 6888888877653 4579999999998888754
No 34
>PF04818 CTD_bind: RNA polymerase II-binding domain.; InterPro: IPR006903 This entry represents a conserved region found in a number of uncharacterised eukaryotic proteins.; PDB: 2L0I_A 2KM4_A 3D9I_B 3D9N_B 3D9O_A 3D9P_B 3D9K_A 3D9M_A 3D9J_A 3D9L_A ....
Probab=80.09 E-value=4.4 Score=33.37 Aligned_cols=54 Identities=24% Similarity=0.304 Sum_probs=33.4
Q ss_pred HHHHHHHHHHhccccchhhhhcchHHHHHHHHH---hccCCChhHHHHHHHHHHHHHH
Q 005882 57 LALTLLETIIKNCGDIVHMHVAEKNVLHEMVKI---ARKKPDTHVKEKILILIDTWQE 111 (672)
Q Consensus 57 lALtLLEtcVKNCG~~Fh~eVask~FLneLvKL---vk~k~d~~VKeKILeLIq~Wae 111 (672)
.-|-|++.+++||..+-..++. ..|-.-|..+ +....+.++++|+..+|..|.+
T Consensus 3 ~~lYl~ndI~q~sk~k~~~~f~-~~F~~~l~~~~~~~~~~~~~~~~~kv~rll~iW~~ 59 (64)
T PF04818_consen 3 ALLYLANDILQNSKRKNPDEFA-PAFSPVLPDAFAHAYKNVDPEVRKKVQRLLNIWEE 59 (64)
T ss_dssp HHHHHHHHHHHHHHHHTTHCHH-HHHHCCHHHHHHHHCCCS-HHHHHHHHHHHHHHHH
T ss_pred ceeehHHHHHHHhhhcChHHHH-HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhhC
Confidence 4578899999999533110111 2233333333 3333589999999999999987
No 35
>PF11841 DUF3361: Domain of unknown function (DUF3361)
Probab=80.07 E-value=7.2 Score=38.78 Aligned_cols=86 Identities=15% Similarity=0.272 Sum_probs=61.5
Q ss_pred HHHHHHhCCCCCHHHH----HHHHHHHhCC--CCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccCCChh
Q 005882 24 EICDMLNHDPGQAKDV----VKGIKKRIGS--RNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTH 97 (672)
Q Consensus 24 eICD~In~~~~~aKEA----vRaLrKRLks--knp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~ 97 (672)
.++++....-...... ++-|..-+.. .+..+..+||.+||.+|.|. ...+..|..+==+..|++.+.. ++.+
T Consensus 40 af~eLMeHg~vsWd~l~~~FI~Kia~~Vn~~~~d~~i~q~sLaILEs~Vl~S-~~ly~~V~~evt~~~Li~hLq~-~~~~ 117 (160)
T PF11841_consen 40 AFVELMEHGIVSWDTLSDSFIKKIASYVNSSAMDASILQRSLAILESIVLNS-PKLYQLVEQEVTLESLIRHLQV-SNQE 117 (160)
T ss_pred HHHHHHhcCcCchhhccHHHHHHHHHHHccccccchHHHHHHHHHHHHHhCC-HHHHHHHhccCCHHHHHHHHHc-CCHH
Confidence 3566666655444333 3333333332 37999999999999999986 5666688887777888888877 7889
Q ss_pred HHHHHHHHHHHHHH
Q 005882 98 VKEKILILIDTWQE 111 (672)
Q Consensus 98 VKeKILeLIq~Wae 111 (672)
++.+.+.||-..-.
T Consensus 118 iq~naiaLinAL~~ 131 (160)
T PF11841_consen 118 IQTNAIALINALFL 131 (160)
T ss_pred HHHHHHHHHHHHHh
Confidence 99999999876543
No 36
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A.
Probab=79.15 E-value=9.5 Score=32.02 Aligned_cols=57 Identities=9% Similarity=0.222 Sum_probs=46.1
Q ss_pred HHHHHHHh-CCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHH
Q 005882 40 VKGIKKRI-GSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTW 109 (672)
Q Consensus 40 vRaLrKRL-ksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~W 109 (672)
+..|.+.| +++++.+...|+.+|. ++.+.+.+..|+++++. .+..||..++..|..-
T Consensus 1 i~~L~~~l~~~~~~~vr~~a~~~L~------------~~~~~~~~~~L~~~l~d-~~~~vr~~a~~aL~~i 58 (88)
T PF13646_consen 1 IPALLQLLQNDPDPQVRAEAARALG------------ELGDPEAIPALIELLKD-EDPMVRRAAARALGRI 58 (88)
T ss_dssp HHHHHHHHHTSSSHHHHHHHHHHHH------------CCTHHHHHHHHHHHHTS-SSHHHHHHHHHHHHCC
T ss_pred CHHHHHHHhcCCCHHHHHHHHHHHH------------HcCCHhHHHHHHHHHcC-CCHHHHHHHHHHHHHh
Confidence 35678888 8999999999998887 45566889999999954 6789999888877643
No 37
>cd06224 REM Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal domain (RasGef_N), also called REM domain (Ras exchanger motif). This domain is common in nucleotide exchange factors for Ras-like small GTPases and is typically found immediately N-terminal to the RasGef (Cdc25-like) domain. REM contacts the GTPase and is assumed to participate in the catalytic activity of the exchange factor. Proteins with the REM domain include Sos1 and Sos2, which relay signals from tyrosine-kinase mediated signalling to Ras, RasGRP1-4, RasGRF1,2, CNrasGEF, and RAP-specific nucleotide exchange factors, to name a few.
Probab=77.52 E-value=30 Score=31.12 Aligned_cols=85 Identities=13% Similarity=0.173 Sum_probs=57.1
Q ss_pred hHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCC--------------CHHHHHHHHHHHHHHHh
Q 005882 2 VNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSR--------------NSKVQLLALTLLETIIK 67 (672)
Q Consensus 2 v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLksk--------------np~vqLlALtLLEtcVK 67 (672)
++.||+++|++.. ..|-..+..+.-. -+.-..+.+.+..|..|.... ...++++.+.+|..-|+
T Consensus 2 l~~Li~~L~~~~~-~~d~~f~~~FllT-yrsF~s~~~ll~~L~~rf~~~~~~~~~~~~~~~~~~~~~~~~v~~~l~~Wv~ 79 (122)
T cd06224 2 LEALIEHLTSTFD-MPDPSFVSTFLLT-YRSFTTPTELLEKLIERYEIAPPENLEYNDWDKKKSKPIRLRVLNVLRTWVE 79 (122)
T ss_pred HHHHHHHHcCCCc-cccHHHHHHHHHH-hhhhCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5789999999977 2232222222211 123345788888888888643 24478888999999999
Q ss_pred ccccchhhhhcchHHHHHHHHHhc
Q 005882 68 NCGDIVHMHVAEKNVLHEMVKIAR 91 (672)
Q Consensus 68 NCG~~Fh~eVask~FLneLvKLvk 91 (672)
+|...|+ .+..++..|...+.
T Consensus 80 ~~~~df~---~d~~l~~~l~~F~~ 100 (122)
T cd06224 80 NYPYDFF---DDEELLELLEEFLN 100 (122)
T ss_pred hCCCccc---ccHHHHHHHHHHHH
Confidence 9999886 45566666666554
No 38
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane
Probab=75.01 E-value=67 Score=37.68 Aligned_cols=78 Identities=17% Similarity=0.255 Sum_probs=51.1
Q ss_pred HHHHHHHHHHhccccchhhh---------hcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHH
Q 005882 57 LALTLLETIIKNCGDIVHMH---------VAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQEAFGGPRARYPQYYAAY 127 (672)
Q Consensus 57 lALtLLEtcVKNCG~~Fh~e---------Vask~FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY 127 (672)
.|+.-||..+++-...|..- +..++.|..+..-+.. -....++|=.++..-...|+. .+..+.+.|
T Consensus 161 ~a~~~Le~~L~~ie~~F~~f~~lt~~GD~~~A~eil~~l~~~~~~--l~~~~e~IP~l~~~l~~~~P~---ql~eL~~gy 235 (560)
T PF06160_consen 161 PAIEELEKQLENIEEEFSEFEELTENGDYLEAREILEKLKEETDE--LEEIMEDIPKLYKELQKEFPD---QLEELKEGY 235 (560)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH--HHHHHHHhHHHHHHHHHHhHH---HHHHHHHHH
Confidence 56667777777766655421 1223444444332221 125567777888888888875 577899999
Q ss_pred HHHHHhccCCCC
Q 005882 128 QELLRAGAVFPQ 139 (672)
Q Consensus 128 ~~LkrkGi~FP~ 139 (672)
+.|+.+|+.|+.
T Consensus 236 ~~m~~~gy~l~~ 247 (560)
T PF06160_consen 236 REMEEEGYYLEH 247 (560)
T ss_pred HHHHHCCCCCCC
Confidence 999999999984
No 39
>PF08167 RIX1: rRNA processing/ribosome biogenesis
Probab=73.28 E-value=21 Score=35.00 Aligned_cols=76 Identities=18% Similarity=0.283 Sum_probs=55.8
Q ss_pred HHHHHHHHHHHh----CCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHH
Q 005882 36 AKDVVKGIKKRI----GSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQE 111 (672)
Q Consensus 36 aKEAvRaLrKRL----ksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~Wae 111 (672)
.+.++..++.|| +++++..-+.++.|+...+.+||...-.+-+ ..|+..|.+++++..+..+++-++..+..--+
T Consensus 19 ~~~~l~~l~~ri~~LL~s~~~~~rw~G~~Ll~~~~~~~~~e~l~~~~-~~W~~~Ll~~L~~~~~~~~~~~ai~~L~~l~~ 97 (165)
T PF08167_consen 19 SKSALHKLVTRINSLLQSKSAYSRWAGLCLLKVTVEQCSWEILLSHG-SQWLRALLSILEKPDPPSVLEAAIITLTRLFD 97 (165)
T ss_pred CHHHHHHHHHHHHHHhCCCChhhHHHHHHHHHHHHHHhhHHHHHHHH-HHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHH
Confidence 466666666665 5788999999999999999999654433333 57999999999986667777766666554444
Q ss_pred H
Q 005882 112 A 112 (672)
Q Consensus 112 a 112 (672)
.
T Consensus 98 ~ 98 (165)
T PF08167_consen 98 L 98 (165)
T ss_pred H
Confidence 3
No 40
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=71.97 E-value=23 Score=42.90 Aligned_cols=8 Identities=63% Similarity=1.414 Sum_probs=3.7
Q ss_pred CCCCCCCC
Q 005882 473 GGSLPPPP 480 (672)
Q Consensus 473 ~~~~pp~p 480 (672)
|+.-||||
T Consensus 538 G~g~pppP 545 (1102)
T KOG1924|consen 538 GTGPPPPP 545 (1102)
T ss_pred CCCCCCCC
Confidence 33445554
No 41
>KOG2669 consensus Regulator of nuclear mRNA [RNA processing and modification]
Probab=71.94 E-value=93 Score=34.39 Aligned_cols=77 Identities=23% Similarity=0.310 Sum_probs=46.0
Q ss_pred CCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcc---ccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHH
Q 005882 34 GQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNC---GDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQ 110 (672)
Q Consensus 34 ~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNC---G~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~Wa 110 (672)
..++..|+.=.+-++......=+.=|-|+.-.|.|| |..|..++. .-+++.+..+++. .+...|.+|..+|..|.
T Consensus 35 k~a~~IV~~Wl~~~~~~~~~~Kl~llYLaNDVvQnskrk~~ef~~ef~-~v~~~a~~~i~~~-~~~~~k~~l~Rl~nIw~ 112 (325)
T KOG2669|consen 35 KHARLIVDVWLKELKKSSVNHKLTLLYLANDVVQNSKRKGPEFVDEFW-PVVLKAFAHIVEE-TDVKCKKKLGRLINIWE 112 (325)
T ss_pred hhhhHHHHHHHHHHhccCCCceeeehhhhHHHHHHhhhcCchhHHHHH-HHHHHHHHHHHHh-cchhhhHHHHHHHHHHH
Confidence 345666666666665321111112456667777777 345555544 2455555555554 45556899999999999
Q ss_pred HH
Q 005882 111 EA 112 (672)
Q Consensus 111 ea 112 (672)
+.
T Consensus 113 eR 114 (325)
T KOG2669|consen 113 ER 114 (325)
T ss_pred Hh
Confidence 86
No 42
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=70.32 E-value=1.4e+02 Score=35.07 Aligned_cols=99 Identities=19% Similarity=0.236 Sum_probs=56.9
Q ss_pred HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhh---------hcchHHHHHHHHHhccCCChhHHHHHHHHH
Q 005882 36 AKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMH---------VAEKNVLHEMVKIARKKPDTHVKEKILILI 106 (672)
Q Consensus 36 aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~e---------Vask~FLneLvKLvk~k~d~~VKeKILeLI 106 (672)
.++--+.+||+|...+. .=--|+..||..+.+-...|-.- +..++.+..+..-+.. =....++|=.|+
T Consensus 145 l~~~y~~~rk~ll~~~~-~~G~a~~~le~~l~~~e~~f~~f~~l~~~Gd~~~A~e~l~~l~~~~~~--l~~~~~~iP~l~ 221 (569)
T PRK04778 145 LKDLYRELRKSLLANRF-SFGPALDELEKQLENLEEEFSQFVELTESGDYVEAREILDQLEEELAA--LEQIMEEIPELL 221 (569)
T ss_pred HHHHHHHHHHHHHhcCc-cccchHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHH--HHHHHHHHHHHH
Confidence 34455555555532110 11146677777777766555421 1123333333322211 113445666777
Q ss_pred HHHHHHhCCCCCChhHHHHHHHHHHHhccCCCCC
Q 005882 107 DTWQEAFGGPRARYPQYYAAYQELLRAGAVFPQR 140 (672)
Q Consensus 107 q~WaeaF~~~~~~~p~~~~aY~~LkrkGi~FP~~ 140 (672)
..-...|++ .+..+...|++|+.+||.|+..
T Consensus 222 ~~~~~~~P~---ql~el~~gy~~m~~~gy~~~~~ 252 (569)
T PRK04778 222 KELQTELPD---QLQELKAGYRELVEEGYHLDHL 252 (569)
T ss_pred HHHHHHhhH---HHHHHHHHHHHHHHcCCCCCCC
Confidence 777888864 5788999999999999999844
No 43
>cd00020 ARM Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.
Probab=69.76 E-value=14 Score=32.00 Aligned_cols=72 Identities=17% Similarity=0.124 Sum_probs=57.5
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHHH
Q 005882 39 VVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQEA 112 (672)
Q Consensus 39 AvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~Waea 112 (672)
.+..|.+-|++.+..+...|+..|..+.++.. .....+.+.+++..|.+++.. .+.+|+..++..+..+...
T Consensus 8 ~i~~l~~~l~~~~~~~~~~a~~~l~~l~~~~~-~~~~~~~~~~~i~~l~~~l~~-~~~~v~~~a~~~L~~l~~~ 79 (120)
T cd00020 8 GLPALVSLLSSSDENVQREAAWALSNLSAGNN-DNIQAVVEAGGLPALVQLLKS-EDEEVVKAALWALRNLAAG 79 (120)
T ss_pred ChHHHHHHHHcCCHHHHHHHHHHHHHHhcCCH-HHHHHHHHCCChHHHHHHHhC-CCHHHHHHHHHHHHHHccC
Confidence 67778888888889999999999999998853 333345556899999998886 4789999999998888653
No 44
>PTZ00429 beta-adaptin; Provisional
Probab=68.70 E-value=65 Score=39.30 Aligned_cols=92 Identities=15% Similarity=0.272 Sum_probs=60.4
Q ss_pred cCHHHHHHHHHHHhC----CCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhcc
Q 005882 17 PDWAMNIEICDMLNH----DPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARK 92 (672)
Q Consensus 17 pDW~~ileICD~In~----~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~ 92 (672)
.+|..+ .|.+++.. +...+.+.+..+..||+|.|+-|.+-|+.++=.+..+|...++..+. ++.-.-|+.|.+
T Consensus 232 ~EW~Qi-~IL~lL~~y~P~~~~e~~~il~~l~~~Lq~~N~AVVl~Aik~il~l~~~~~~~~~~~~~-~rl~~pLv~L~s- 308 (746)
T PTZ00429 232 NEWGQL-YILELLAAQRPSDKESAETLLTRVLPRMSHQNPAVVMGAIKVVANLASRCSQELIERCT-VRVNTALLTLSR- 308 (746)
T ss_pred ChHHHH-HHHHHHHhcCCCCcHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcCcCCHHHHHHHH-HHHHHHHHHhhC-
Confidence 477754 24443332 23346678888999999999999999999888888777544444333 334444556643
Q ss_pred CCChhHHHHHHHHHHHHHHH
Q 005882 93 KPDTHVKEKILILIDTWQEA 112 (672)
Q Consensus 93 k~d~~VKeKILeLIq~Waea 112 (672)
.+++||--+|..|..-...
T Consensus 309 -s~~eiqyvaLr~I~~i~~~ 327 (746)
T PTZ00429 309 -RDAETQYIVCKNIHALLVI 327 (746)
T ss_pred -CCccHHHHHHHHHHHHHHH
Confidence 4568887777777655553
No 45
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=68.40 E-value=7.8 Score=45.33 Aligned_cols=79 Identities=23% Similarity=0.344 Sum_probs=61.7
Q ss_pred CCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHH
Q 005882 31 HDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQ 110 (672)
Q Consensus 31 ~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~Wa 110 (672)
...--++..|-+|-++|...-+..-|.++.|||.++||-|...-.. .++......+..+. +.+.+.|.++..++.+|.
T Consensus 33 En~~~a~~iv~~iE~hi~kcpp~~kL~~~y~~dsi~knvg~py~~~-fs~~l~a~f~~~~~-~vd~r~r~~l~~~~~tw~ 110 (579)
T KOG2071|consen 33 ENLPFAKSIVSAIEAHIAKCPPSQKLPVMYLLDSIVKNVGSPYTTA-FSRNLVATFICAFT-KVDERTRTSLFKLRATWD 110 (579)
T ss_pred hcccccHHHHHHHHHHHhhCCcccccchhhhhHHHHhhcCCcchhh-hhhhHHHHHHHHHh-hccccccchhHhhHHhhc
Confidence 3334589999999999999999999999999999999999984433 33344444433332 378899999999999999
Q ss_pred H
Q 005882 111 E 111 (672)
Q Consensus 111 e 111 (672)
.
T Consensus 111 ~ 111 (579)
T KOG2071|consen 111 L 111 (579)
T ss_pred c
Confidence 3
No 46
>COG1059 Thermostable 8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]
Probab=66.63 E-value=21 Score=36.69 Aligned_cols=101 Identities=16% Similarity=0.150 Sum_probs=57.0
Q ss_pred CcCHHHHHHHHHH-HhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhc-----chHHHHHHHHH
Q 005882 16 GPDWAMNIEICDM-LNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVA-----EKNVLHEMVKI 89 (672)
Q Consensus 16 ~pDW~~ileICD~-In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVa-----sk~FLneLvKL 89 (672)
.+||=.-+.+|=+ .|++..++-.|.+.|.+.+-+. ...=|+...++||++|+..=+ .++++.++..+
T Consensus 36 ~e~lf~ELsFCILTANsSA~~~~~~q~~lG~gfly~-------~~eEL~e~Lk~~g~Rf~n~raeyIVeaR~~~~~lk~~ 108 (210)
T COG1059 36 KEDLFKELSFCILTANSSATMGLRAQNELGDGFLYL-------SEEELREKLKEVGYRFYNVRAEYIVEAREKFDDLKII 108 (210)
T ss_pred HHHHHHHHHHHhccccchHHHHHHHHHHhccccccC-------CHHHHHHHHHHhcchhcccchHHHHHHHHHHHHHHHH
Confidence 4566555555554 3344444444544455444443 444566777899999997533 46667777777
Q ss_pred hccCCChhH-HHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHHhcc
Q 005882 90 ARKKPDTHV-KEKILILIDTWQEAFGGPRARYPQYYAAYQELLRAGA 135 (672)
Q Consensus 90 vk~k~d~~V-KeKILeLIq~WaeaF~~~~~~~p~~~~aY~~LkrkGi 135 (672)
++...+..| |+.+++-|. + -.+.++=+.|+.=|+
T Consensus 109 v~~~~~~~vaRE~Lv~nik-------G-----iGyKEASHFLRNVG~ 143 (210)
T COG1059 109 VKADENEKVARELLVENIK-------G-----IGYKEASHFLRNVGF 143 (210)
T ss_pred HhcCcchHHHHHHHHHHcc-------c-----ccHHHHHHHHHhcCh
Confidence 775555654 334443332 1 125556666666655
No 47
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=64.75 E-value=19 Score=40.46 Aligned_cols=101 Identities=21% Similarity=0.331 Sum_probs=65.8
Q ss_pred HHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHH-HHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHH
Q 005882 6 VDRATSDMLIGPDWAMNIEICDMLNHDPGQAKD-VVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLH 84 (672)
Q Consensus 6 IekATse~l~~pDW~~ileICD~In~~~~~aKE-AvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLn 84 (672)
|.+.-++....--...++.++.+.+.+++.... .+..|.+-|.++++.|...|+.+|..| .|.......+. ..+..
T Consensus 119 v~~ll~~~~~~VRk~A~~~l~~i~~~~p~~~~~~~~~~l~~lL~d~~~~V~~~a~~~l~~i--~~~~~~~~~~~-~~~~~ 195 (526)
T PF01602_consen 119 VIKLLSDPSPYVRKKAALALLKIYRKDPDLVEDELIPKLKQLLSDKDPSVVSAALSLLSEI--KCNDDSYKSLI-PKLIR 195 (526)
T ss_dssp HHHHHHSSSHHHHHHHHHHHHHHHHHCHCCHHGGHHHHHHHHTTHSSHHHHHHHHHHHHHH--HCTHHHHTTHH-HHHHH
T ss_pred HHHHhcCCchHHHHHHHHHHHHHhccCHHHHHHHHHHHHhhhccCCcchhHHHHHHHHHHH--ccCcchhhhhH-HHHHH
Confidence 344444444444456788999999999988777 599999999999999999999999999 33222211111 22333
Q ss_pred HHHHHhccCCChhHHHHHHHHHHHHH
Q 005882 85 EMVKIARKKPDTHVKEKILILIDTWQ 110 (672)
Q Consensus 85 eLvKLvk~k~d~~VKeKILeLIq~Wa 110 (672)
.|.+++ ...++-++.+++.++..+.
T Consensus 196 ~L~~~l-~~~~~~~q~~il~~l~~~~ 220 (526)
T PF01602_consen 196 ILCQLL-SDPDPWLQIKILRLLRRYA 220 (526)
T ss_dssp HHHHHH-TCCSHHHHHHHHHHHTTST
T ss_pred Hhhhcc-cccchHHHHHHHHHHHhcc
Confidence 344333 2355666667777666443
No 48
>PRK09687 putative lyase; Provisional
Probab=62.66 E-value=92 Score=33.23 Aligned_cols=73 Identities=14% Similarity=0.160 Sum_probs=43.4
Q ss_pred CHHHHHHHHHHHhCCCCHHHHHHHHHHHH---------HH---Hhccccchh-----hhhcchHHHHHHHHHhccCCChh
Q 005882 35 QAKDVVKGIKKRIGSRNSKVQLLALTLLE---------TI---IKNCGDIVH-----MHVAEKNVLHEMVKIARKKPDTH 97 (672)
Q Consensus 35 ~aKEAvRaLrKRLksknp~vqLlALtLLE---------tc---VKNCG~~Fh-----~eVask~FLneLvKLvk~k~d~~ 97 (672)
...+++.+|.+.|.+.+..|...|+.-|- .| .++...++. -++++++++..|.+++....|..
T Consensus 189 ~~~~~~~~L~~~L~D~~~~VR~~A~~aLg~~~~~~av~~Li~~L~~~~~~~~a~~ALg~ig~~~a~p~L~~l~~~~~d~~ 268 (280)
T PRK09687 189 DNPDIREAFVAMLQDKNEEIRIEAIIGLALRKDKRVLSVLIKELKKGTVGDLIIEAAGELGDKTLLPVLDTLLYKFDDNE 268 (280)
T ss_pred CCHHHHHHHHHHhcCCChHHHHHHHHHHHccCChhHHHHHHHHHcCCchHHHHHHHHHhcCCHhHHHHHHHHHhhCCChh
Confidence 34567777777787777777766654442 22 222111111 24556777777777776556777
Q ss_pred HHHHHHHHHH
Q 005882 98 VKEKILILID 107 (672)
Q Consensus 98 VKeKILeLIq 107 (672)
|+.|+++-|.
T Consensus 269 v~~~a~~a~~ 278 (280)
T PRK09687 269 IITKAIDKLK 278 (280)
T ss_pred HHHHHHHHHh
Confidence 7777766554
No 49
>PF06812 ImpA-rel_N: ImpA-related N-terminal; InterPro: IPR010657 This entry represents a conserved region located towards the N-terminal end of ImpA and related proteins. ImpA is an inner membrane protein, which has been suggested to be involved with proteins that are exported and associated with colony variations in Actinobacillus actinomycetemcomitans []. Note that many members are hypothetical proteins.
Probab=60.97 E-value=33 Score=28.34 Aligned_cols=58 Identities=19% Similarity=0.139 Sum_probs=48.6
Q ss_pred CHHHHHHHHHHHh-CCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhh
Q 005882 18 DWAMNIEICDMLN-HDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHM 75 (672)
Q Consensus 18 DW~~ileICD~In-~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~ 75 (672)
||..+.+.|..+- +....-+-++-.+.-+++..-..--..+|.+|..|+.+....+|-
T Consensus 1 DW~~v~~~~~~lL~~~sKDlrv~~~l~~a~~~~~g~~gl~~gl~ll~~ll~~~W~~l~P 59 (62)
T PF06812_consen 1 DWDKVEELALELLSEQSKDLRVAVWLTEALLRLEGLAGLAEGLELLADLLENYWDSLHP 59 (62)
T ss_pred CHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHccChhHHHHHHHHHHHHHHHCCcccCC
Confidence 8999999999766 555667888888888888777888889999999999998887763
No 50
>smart00509 TFS2N Domain in the N-terminus of transcription elongation factor S-II (and elsewhere).
Probab=59.80 E-value=43 Score=28.96 Aligned_cols=70 Identities=20% Similarity=0.264 Sum_probs=37.5
Q ss_pred HHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcch-HHHHHHHHHhccCCChhHHHHHHHHHHHHHHHh
Q 005882 38 DVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEK-NVLHEMVKIARKKPDTHVKEKILILIDTWQEAF 113 (672)
Q Consensus 38 EAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask-~FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF 113 (672)
++++.+.+-.+.+ .+.-.+|.+|..|-+ ....+. +-.. +.-.. +.-++++.+++|+..+.+||..|...+
T Consensus 3 ~~~k~~~k~~~~~--~~~~~~l~~L~~L~~-~~~t~~--~L~~T~iG~~-v~~Lrkh~~~~I~~~A~~Li~~WK~~v 73 (75)
T smart00509 3 RAAKKLDKVANNG--KEVSRCLDILKKLKK-LPITVD--LLEETRIGKK-VNGLRKHKNEEIRKLAKKLIKSWKKLV 73 (75)
T ss_pred HHHHHHHHHhcCC--CCHHHHHHHHHHHhc-CCCCHH--HHHHCcHHHH-HHHHHcCCcHHHHHHHHHHHHHHHHHh
Confidence 3455555555442 223456666666543 322221 1111 11111 222334568999999999999999866
No 51
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=59.46 E-value=57 Score=36.58 Aligned_cols=38 Identities=29% Similarity=0.413 Sum_probs=25.0
Q ss_pred HHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Q 005882 28 MLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETI 65 (672)
Q Consensus 28 ~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtc 65 (672)
+...+++...-++..|+|-|.|+|+.+..+||..|-.+
T Consensus 69 ~~~~~~~~~~l~~n~l~kdl~~~n~~~~~lAL~~l~~i 106 (526)
T PF01602_consen 69 YLHEDPELLILIINSLQKDLNSPNPYIRGLALRTLSNI 106 (526)
T ss_dssp HTTTSHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHH
T ss_pred HhhcchhHHHHHHHHHHHhhcCCCHHHHHHHHhhhhhh
Confidence 34444445666777777777777777777777665443
No 52
>PF11707 Npa1: Ribosome 60S biogenesis N-terminal; InterPro: IPR021714 Npa1p is required for ribosome biogenesis and operates in the same functional environment as Rsa3p and Dbp6p during early maturation of 60S ribosomal subunits []. The protein partners of Npa1p include eight putative helicases as well as the novel Npa2p factor. Npa1p can also associate with a subset of H/ACA and C/D small nucleolar RNPs (snoRNPs) involved in the chemical modification of residues in the vicinity of the peptidyl transferase centre []. The protein has also been referred to as Urb1, and this domain at the N-terminal is one of several conserved regions along the length.
Probab=58.86 E-value=69 Score=34.84 Aligned_cols=52 Identities=17% Similarity=0.245 Sum_probs=41.9
Q ss_pred HHHHHHHhCCCCHHHHHHHHHHHHHHHh-ccccchhhhhcchHHHHH-HHHHhc
Q 005882 40 VKGIKKRIGSRNSKVQLLALTLLETIIK-NCGDIVHMHVAEKNVLHE-MVKIAR 91 (672)
Q Consensus 40 vRaLrKRLksknp~vqLlALtLLEtcVK-NCG~~Fh~eVask~FLne-LvKLvk 91 (672)
+|.|-+-|.+.....+.-||.||..+|. +.|.....-+..++|-.. |.|++.
T Consensus 58 ~k~lyr~L~~~~~~~~~~~LrLL~~iv~f~~g~~a~~v~~~fd~~~~~l~kll~ 111 (330)
T PF11707_consen 58 LKLLYRSLSSSKPSLTNPALRLLTAIVSFDGGALAREVLRSFDFSLKSLPKLLT 111 (330)
T ss_pred HHHHHHHhCcCcHHHHHHHHHHHHHHHccCCHHHHHHHHHhcCCchhhHHHHhc
Confidence 6677777777888999999999999999 988777777777778654 777764
No 53
>PF05004 IFRD: Interferon-related developmental regulator (IFRD); InterPro: IPR007701 Interferon-related developmental regulator (IFRD1) is the human homologue of the Rattus norvegicus early response protein PC4 and its murine homologue TIS7 []. The exact function of IFRD1 is unknown but it has been shown that PC4 is necessary for muscle differentiation and that it might have a role in signal transduction. This entry also contains IFRD2 and its murine equivalent SKMc15, which are highly expressed soon after gastrulation and in the hepatic primordium, suggesting an involvement in early hematopoiesis [].
Probab=57.84 E-value=66 Score=34.86 Aligned_cols=85 Identities=13% Similarity=0.126 Sum_probs=52.4
Q ss_pred HHHHHHHHHHhCCCC------CHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccc--cchhhhhcchHHHHHHHHHhc
Q 005882 20 AMNIEICDMLNHDPG------QAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCG--DIVHMHVAEKNVLHEMVKIAR 91 (672)
Q Consensus 20 ~~ileICD~In~~~~------~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG--~~Fh~eVask~FLneLvKLvk 91 (672)
.....|++++.+..- ..-..+.+|.|-|+.+..+++.+|+.++..+.-..| ..-+ +|. +++..-|.+++.
T Consensus 62 ~aL~~l~~~l~~~~~~d~v~~~~~tL~~~~~k~lkkg~~~E~~lA~~~l~Ll~ltlg~g~~~~-ei~-~~~~~~L~~~l~ 139 (309)
T PF05004_consen 62 AALEALIRALSSRYLPDFVEDRRETLLDALLKSLKKGKSEEQALAARALALLALTLGAGEDSE-EIF-EELKPVLKRILT 139 (309)
T ss_pred HHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhcCCCccHH-HHH-HHHHHHHHHHHh
Confidence 334445555554331 123346667777888888999999999999988865 4333 222 356666777777
Q ss_pred cCC-ChhHHHHHHHHH
Q 005882 92 KKP-DTHVKEKILILI 106 (672)
Q Consensus 92 ~k~-d~~VKeKILeLI 106 (672)
... ...+|..++..+
T Consensus 140 d~s~~~~~R~~~~~aL 155 (309)
T PF05004_consen 140 DSSASPKARAACLEAL 155 (309)
T ss_pred CCccchHHHHHHHHHH
Confidence 542 345666665433
No 54
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=57.39 E-value=32 Score=30.82 Aligned_cols=53 Identities=15% Similarity=0.280 Sum_probs=43.1
Q ss_pred CHHHHHHHHHHHHHHHHHHHhcCCCChH--HHHHHHHHHHHHHHHHHHHHhhcCC
Q 005882 185 SLTEIQNARGIMDVLAEMLNALDPNNKE--EVIVDLVDQCRTYKQRVVHLVNSTA 237 (672)
Q Consensus 185 ~lsELe~ak~nvkLL~EML~~l~P~~~e--Eli~EL~~qCR~mr~RV~rLIq~t~ 237 (672)
...|+..+...+.-|+-.|+++...+.. ..+++|.+.+|.+|..+........
T Consensus 24 ~~~E~~~ins~LD~Lns~LD~LE~rnD~l~~~L~~LLesnrq~R~e~~~~~~~~~ 78 (83)
T PF03670_consen 24 DEEEYAAINSMLDQLNSCLDHLEQRNDHLHAQLQELLESNRQIRLEFQEQLSKAP 78 (83)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 3578888999999999999988654433 8889999999999999988776553
No 55
>cd00183 TFIIS_I N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme
Probab=55.59 E-value=40 Score=29.06 Aligned_cols=24 Identities=21% Similarity=0.520 Sum_probs=20.0
Q ss_pred hccCCChhHHHHHHHHHHHHHHHh
Q 005882 90 ARKKPDTHVKEKILILIDTWQEAF 113 (672)
Q Consensus 90 vk~k~d~~VKeKILeLIq~WaeaF 113 (672)
++++.+++|+..+.+||..|...+
T Consensus 52 Lrkh~~~~i~~~A~~Lv~~Wk~~v 75 (76)
T cd00183 52 LRKHSNEKIRKLAKALIKSWKKLV 75 (76)
T ss_pred HHcCCcHHHHHHHHHHHHHHHHhc
Confidence 455567999999999999998754
No 56
>KOG1105 consensus Transcription elongation factor TFIIS/Cofactor of enhancer-binding protein Sp1 [Transcription]
Probab=54.64 E-value=46 Score=36.27 Aligned_cols=27 Identities=19% Similarity=0.425 Sum_probs=23.2
Q ss_pred HhccCCChhHHHHHHHHHHHHHHHhCC
Q 005882 89 IARKKPDTHVKEKILILIDTWQEAFGG 115 (672)
Q Consensus 89 Lvk~k~d~~VKeKILeLIq~WaeaF~~ 115 (672)
++++.++.+|+.++..||..|...+..
T Consensus 54 ~~Kk~~n~ev~~~ak~Lik~Wkk~~~~ 80 (296)
T KOG1105|consen 54 VLKKHKNEEVRSLAKKLIKSWKKLVDK 80 (296)
T ss_pred HHHhCCCHHHHHHHHHHHHHHHHHhhc
Confidence 456678999999999999999998753
No 57
>PTZ00332 paraflagellar rod protein; Provisional
Probab=54.33 E-value=3.2e+02 Score=32.07 Aligned_cols=93 Identities=16% Similarity=0.207 Sum_probs=50.4
Q ss_pred cCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCC-------CHHHHHH-----HHHHHHHHHhccccchhhhhcchHHHH
Q 005882 17 PDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSR-------NSKVQLL-----ALTLLETIIKNCGDIVHMHVAEKNVLH 84 (672)
Q Consensus 17 pDW~~ileICD~In~~~~~aKEAvRaLrKRLksk-------np~vqLl-----ALtLLEtcVKNCG~~Fh~eVask~FLn 84 (672)
.-|..|.++-..+..=. .+=.+.+++||.-. ..+.+.+ =-.+|+.||.||....+.-=.-.+|+.
T Consensus 321 ~~wnrI~eLer~Lq~l~---~eR~~eV~rRIe~~~rEekRr~~yeqFl~~asQHkqrL~~tv~Ncd~a~~~~~~lee~V~ 397 (589)
T PTZ00332 321 EAWNKIQDLERQLQRLG---TERFEEVKRRIEENDREEKRRVEYQQFLEVAGQHKKLLELTVYNCDLALRCTGLVEELVS 397 (589)
T ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34666666665554321 44555566676532 2222222 236899999999776665555567777
Q ss_pred HHHHHhccCCChhHHHHHHHHHHHHHHHh
Q 005882 85 EMVKIARKKPDTHVKEKILILIDTWQEAF 113 (672)
Q Consensus 85 eLvKLvk~k~d~~VKeKILeLIq~WaeaF 113 (672)
++-.-++.+.+. +.+.+-+++..-+..|
T Consensus 398 egc~~i~~r~DK-~~q~L~elll~V~ke~ 425 (589)
T PTZ00332 398 EGCAAVKARHDK-TNQDLAALRLQVHKEH 425 (589)
T ss_pred HHHHHHHHHHhh-hHHHHHHHHHHHHHHH
Confidence 765544443322 2244444444445544
No 58
>PF06798 PrkA: PrkA serine protein kinase C-terminal domain; InterPro: IPR010650 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This entry is found at the C terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length. PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.
Probab=52.33 E-value=12 Score=39.73 Aligned_cols=77 Identities=16% Similarity=0.208 Sum_probs=56.6
Q ss_pred CHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcccc--chhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHH-HHHH
Q 005882 35 QAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGD--IVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILID-TWQE 111 (672)
Q Consensus 35 ~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~--~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq-~Wae 111 (672)
.+++++++|-.-+..-.....+.++.||+.|...|.. .|..+. ..+|++.|. .+++..+..|++-|.+-+. .+.+
T Consensus 38 S~R~~~~~ls~a~~~~~~~~~i~p~~vl~~L~~~l~~~~~i~~e~-~~~y~~~l~-~v~~~Y~~~v~~EV~~A~~~~~ee 115 (254)
T PF06798_consen 38 SPRFVIKILSNALSSDSEEDCINPLDVLNELEEGLKDHPSISEEE-RERYLEFLK-SVRKEYDERVEKEVQEAFYYSYEE 115 (254)
T ss_pred CHhHHHHHHHHHHHhCcccceecHHHHHHHHHHHhhcccccCHHH-HHHHHHHHH-HHHHHHHHHHHHHHHHHHHHccHH
Confidence 4899999999999886778889999999999999976 455555 456877555 6666566666666665554 4555
Q ss_pred Hh
Q 005882 112 AF 113 (672)
Q Consensus 112 aF 113 (672)
..
T Consensus 116 ~~ 117 (254)
T PF06798_consen 116 QI 117 (254)
T ss_pred HH
Confidence 43
No 59
>PF12783 Sec7_N: Guanine nucleotide exchange factor in Golgi transport N-terminal
Probab=52.17 E-value=56 Score=31.65 Aligned_cols=63 Identities=22% Similarity=0.364 Sum_probs=41.1
Q ss_pred CHHHHHHHHHHHHHHHhccccchhhh--------hcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHhC
Q 005882 51 NSKVQLLALTLLETIIKNCGDIVHMH--------VAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQEAFG 114 (672)
Q Consensus 51 np~vqLlALtLLEtcVKNCG~~Fh~e--------Vask~FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF~ 114 (672)
+......+|.||+.+++|+|..|... +.+.++...|.+.+... +..|-.+.+.++..--..|+
T Consensus 35 ~~~~k~l~LeLl~~iL~~~~~~f~~~~~~~~l~~~lk~~l~~~Ll~~~~~~-~~~i~~~slri~~~l~~~~~ 105 (168)
T PF12783_consen 35 DERSKLLSLELLESILENHGSVFRSSEEHPSLINLLKDDLCPALLKNLSSS-DFPIFSRSLRIFLTLLSRFR 105 (168)
T ss_pred hHHHHHHHHHHHHHHHHhCHHHHhCCcchHHHHHHHHHHHHHHHHHHHhhh-hhHHHHHHHHHHHHHHHHHH
Confidence 34566799999999999999988731 11233333333443332 36777778887776666665
No 60
>PF14523 Syntaxin_2: Syntaxin-like protein; PDB: 2DNX_A.
Probab=52.16 E-value=87 Score=27.67 Aligned_cols=77 Identities=17% Similarity=0.266 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHHHHHHhcCC-CC-hH--HHHHHHHHHHHHHHHHHHHHhhcC------C--CHHHHHHHhhhhHHHHHH
Q 005882 188 EIQNARGIMDVLAEMLNALDP-NN-KE--EVIVDLVDQCRTYKQRVVHLVNST------A--DESLLCQGLQLNDDLQRL 255 (672)
Q Consensus 188 ELe~ak~nvkLL~EML~~l~P-~~-~e--Eli~EL~~qCR~mr~RV~rLIq~t------~--DEElL~eLL~lNDeLn~V 255 (672)
-|..+.+++..|..++..+-. .+ .+ +.|.++...|+.+-..+-+.|... . +-..-...=.|..++..+
T Consensus 4 ~l~~in~~v~~l~k~~~~lGt~~Ds~~lR~~i~~~~~~~~~l~k~~~~~l~~l~~~~~~~~~~~~~k~~~~KL~~df~~~ 83 (102)
T PF14523_consen 4 NLFKINQNVSQLEKLVNQLGTPRDSQELREKIHQLIQKTNQLIKEISELLKKLNSLSSDRSNDRQQKLQREKLSRDFKEA 83 (102)
T ss_dssp HHHHHHHHHHHHHHHHHHH-SSS--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSH----HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence 467788899999999887642 22 22 666777777776666666555432 1 112223344566777888
Q ss_pred HHHHHhhhc
Q 005882 256 LAKHESFAS 264 (672)
Q Consensus 256 LekYE~l~~ 264 (672)
|..|++..+
T Consensus 84 l~~fq~~q~ 92 (102)
T PF14523_consen 84 LQEFQKAQR 92 (102)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 888877643
No 61
>KOG2075 consensus Topoisomerase TOP1-interacting protein BTBD1 [Function unknown]
Probab=52.08 E-value=47 Score=38.42 Aligned_cols=96 Identities=13% Similarity=0.128 Sum_probs=61.0
Q ss_pred cCHHHHHHHHHHHhCCCCC--HHHHHHHHHHHhCCCCHHHHHHH---H----HHHHHHHhccccchhhhhcchHH-----
Q 005882 17 PDWAMNIEICDMLNHDPGQ--AKDVVKGIKKRIGSRNSKVQLLA---L----TLLETIIKNCGDIVHMHVAEKNV----- 82 (672)
Q Consensus 17 pDW~~ileICD~In~~~~~--aKEAvRaLrKRLksknp~vqLlA---L----tLLEtcVKNCG~~Fh~eVask~F----- 82 (672)
.+-+.+|.+|+..++--+. .++||+.|||+|.-.|.=.-+-+ | .|+..|++.-...|-..+..+.|
T Consensus 185 ~~~dtvi~tl~~AkKY~VpaLer~CVkflr~~l~~~naf~~L~q~A~lf~ep~Li~~c~e~id~~~~~al~~EGf~did~ 264 (521)
T KOG2075|consen 185 LAADTVITTLYAAKKYLVPALERQCVKFLRKNLMADNAFLELFQRAKLFDEPSLISICLEVIDKSFEDALTPEGFCDIDS 264 (521)
T ss_pred hhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhcCHHHHHHHHHHhhhHHHhhhCccceeehhh
Confidence 4556688888888876555 58999999999988765444433 1 45566666655555544443333
Q ss_pred -HHHHHHHhccCCChhHH-HHHHHHHHHHHHHh
Q 005882 83 -LHEMVKIARKKPDTHVK-EKILILIDTWQEAF 113 (672)
Q Consensus 83 -LneLvKLvk~k~d~~VK-eKILeLIq~WaeaF 113 (672)
++.++.+++.++ .+++ -++++.+..|.+.=
T Consensus 265 ~~dt~~evl~r~~-l~~~e~~lfeA~lkw~~~e 296 (521)
T KOG2075|consen 265 TRDTYEEVLRRDT-LEAREFRLFEAALKWAEAE 296 (521)
T ss_pred HHHHHHHHHhhcc-cchhHHHHHHHHHhhccCc
Confidence 444555555432 3344 47888888888753
No 62
>smart00543 MIF4G Middle domain of eukaryotic initiation factor 4G (eIF4G). Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA. Ponting (TiBS) "Novel eIF4G domain homologues (in press)
Probab=51.36 E-value=43 Score=32.31 Aligned_cols=68 Identities=12% Similarity=0.190 Sum_probs=45.4
Q ss_pred HHHHHHHHhCCCCCHHHHHHHHHHHhCCCC---HHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHh
Q 005882 22 NIEICDMLNHDPGQAKDVVKGIKKRIGSRN---SKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIA 90 (672)
Q Consensus 22 ileICD~In~~~~~aKEAvRaLrKRLkskn---p~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLv 90 (672)
+.=||++.+..-...+.....|+.-+...+ .......+.++=.++..||..+... ..+++++++...+
T Consensus 100 i~fl~eL~~~~~i~~~~i~~~l~~ll~~~~~~~~~~~~~~ve~l~~lL~~~G~~l~~~-~~~~~~~~~l~~l 170 (200)
T smart00543 100 VRFLGELYNFQVLTSKIILELLKELLNDLTKLDPPRSDFSVECLLSLLPTCGKDLERE-KSPKLLDEILERL 170 (200)
T ss_pred HHHHHHHHHcccCcHHHHHHHHHHHHhccCCCCCCCcHHHHHHHHHHHHHhhHHHcCc-ccHHHHHHHHHHH
Confidence 444888888888777777776666665432 2234567888888889999888742 3455666654433
No 63
>PF09712 PHA_synth_III_E: Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E)
Probab=51.15 E-value=24 Score=38.15 Aligned_cols=91 Identities=5% Similarity=0.126 Sum_probs=65.6
Q ss_pred HHHHHHHHHHHhCC-CCHHHHHHHH-HHHHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHh
Q 005882 36 AKDVVKGIKKRIGS-RNSKVQLLAL-TLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQEAF 113 (672)
Q Consensus 36 aKEAvRaLrKRLks-knp~vqLlAL-tLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF 113 (672)
..+++..+.+||.. .....+.-++ .+.|.=|+.|.+.|-..+++.+|..-+.+++.. ...+|...=+++..|-..+
T Consensus 189 ~~~a~~~~~~~l~~~~~~g~~~~s~re~~d~Wi~~ae~~~~~~~~S~ef~~~~g~~~~a--~m~~r~~~~~~~e~~L~~l 266 (293)
T PF09712_consen 189 WMKAFERMMEKLQERAEEGEQIKSWREFYDIWIDAAEEAYEELFRSEEFAQAYGQLVNA--LMDLRKQQQEVVEEYLRSL 266 (293)
T ss_pred HHHHHHHHHHHHHHhhccCCCCcCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHC
Confidence 46777778888832 1222222233 677888999999999999999999999999986 4588999999999999987
Q ss_pred CCCCCChhHHHHHHHHH
Q 005882 114 GGPRARYPQYYAAYQEL 130 (672)
Q Consensus 114 ~~~~~~~p~~~~aY~~L 130 (672)
.=. . -..|-++|++|
T Consensus 267 ~lP-T-r~evd~l~k~l 281 (293)
T PF09712_consen 267 NLP-T-RSEVDELYKRL 281 (293)
T ss_pred CCC-C-HHHHHHHHHHH
Confidence 632 1 13455555554
No 64
>PF00618 RasGEF_N: RasGEF N-terminal motif; InterPro: IPR000651 The crystal structure of the guanine nucleotide exchange factor (GEF) region of human Sos1 complexes with Ras has been solved []. The structure consists of two distinct alpha helical structural domains: the N-terminal domain which seems to have a purely structural role and the C-terminal domain which is sufficient for catalytic activity and contains all residues that interact with Ras. A main feature of the catalytic domain is the protrusion of a helical hairpin important for the nucleotide-exchange mechanism. The N-terminal domain is likely to be important for the stability and correct placement of the hairpin structure. This entry represents a domain found in several GEF for Ras-like small GTPases which lies N-terminal to the RasGef (Cdc25-like) domain. ; GO: 0005085 guanyl-nucleotide exchange factor activity, 0051056 regulation of small GTPase mediated signal transduction, 0005622 intracellular; PDB: 3CF6_E 2BYV_E 1NVW_S 1BKD_S 1XDV_A 2II0_A 1NVU_S 1NVX_S 1NVV_S 1XD4_B ....
Probab=50.53 E-value=39 Score=29.87 Aligned_cols=73 Identities=15% Similarity=0.171 Sum_probs=47.1
Q ss_pred hHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCC----C-----------HHHHHHHHHHHHHHH
Q 005882 2 VNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSR----N-----------SKVQLLALTLLETII 66 (672)
Q Consensus 2 v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLksk----n-----------p~vqLlALtLLEtcV 66 (672)
++.||+++|++.... |- ...+..=+-=+.-..+.+.+..|..|.... . ..++++-+.+|-.-+
T Consensus 7 l~~Li~~L~~~~~~~-d~-~f~~~FllTyr~F~tp~~Ll~~L~~ry~~~~~~~~~~~~~~~~~~~~~i~~rv~~~l~~Wi 84 (104)
T PF00618_consen 7 LEKLIERLTSSFNSD-DE-EFVDTFLLTYRSFTTPEELLDKLIQRYNIPPPNGLSQDESWDQDSQEPIRLRVLNVLKYWI 84 (104)
T ss_dssp HHHHHHHHCHC-SS--HH-HHHHHHHHHHHHCS-HHHHHHHHHHHHT---SSS-HHHHT-HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhcccccC-CH-HHHHHHHHHhHhhCCHHHHHHHHHHHhcccCCccccccchhhhhhhHHHHHHHHHHHHHHH
Confidence 578999999884433 22 223322233345567899999999999421 1 126778889999999
Q ss_pred hccccchhhh
Q 005882 67 KNCGDIVHMH 76 (672)
Q Consensus 67 KNCG~~Fh~e 76 (672)
++|...|+..
T Consensus 85 ~~~~~df~~~ 94 (104)
T PF00618_consen 85 ENYPDDFRDD 94 (104)
T ss_dssp HHHCCCCHH-
T ss_pred HHChHhhCCC
Confidence 9998888754
No 65
>KOG1077 consensus Vesicle coat complex AP-2, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=50.52 E-value=57 Score=39.50 Aligned_cols=73 Identities=29% Similarity=0.330 Sum_probs=56.5
Q ss_pred HHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhcc-CCChhHHH
Q 005882 22 NIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARK-KPDTHVKE 100 (672)
Q Consensus 22 ileICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~-k~d~~VKe 100 (672)
-|-|.=++|.+.+--|+++..|||-|.++|+..+.+||. ||-|-|.+ +.+ ..|-+++-||+.. ....-||+
T Consensus 95 Yl~is~L~n~n~dl~klvin~iknDL~srn~~fv~LAL~----~I~niG~r---e~~-ea~~~DI~KlLvS~~~~~~vkq 166 (938)
T KOG1077|consen 95 YLFISLLLNENSDLMKLVINSIKNDLSSRNPTFVCLALH----CIANIGSR---EMA-EAFADDIPKLLVSGSSMDYVKQ 166 (938)
T ss_pred HHHHHHHHhcchHHHHHHHHHHHhhhhcCCcHHHHHHHH----HHHhhccH---hHH-HHhhhhhHHHHhCCcchHHHHH
Confidence 345667788888888999999999999999999999996 78888864 334 3577888887654 34456777
Q ss_pred HH
Q 005882 101 KI 102 (672)
Q Consensus 101 KI 102 (672)
|.
T Consensus 167 ka 168 (938)
T KOG1077|consen 167 KA 168 (938)
T ss_pred HH
Confidence 64
No 66
>KOG1062 consensus Vesicle coat complex AP-1, gamma subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=49.90 E-value=65 Score=39.39 Aligned_cols=103 Identities=12% Similarity=0.184 Sum_probs=66.7
Q ss_pred HHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcc---ccchhhhhcchHHHHHHHHHhccC----
Q 005882 21 MNIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNC---GDIVHMHVAEKNVLHEMVKIARKK---- 93 (672)
Q Consensus 21 ~ileICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNC---G~~Fh~eVask~FLneLvKLvk~k---- 93 (672)
.++-..-+|++.++....-+-+.+++|..+++-|-+-+|.++-.+.+.. =..|.. ....|+..|+.|+..+
T Consensus 162 A~Lca~r~irK~P~l~e~f~~~~~~lL~ek~hGVL~~~l~l~~e~c~~~~~~l~~fr~--l~~~lV~iLk~l~~~~yspe 239 (866)
T KOG1062|consen 162 AALCAVRFIRKVPDLVEHFVIAFRKLLCEKHHGVLIAGLHLITELCKISPDALSYFRD--LVPSLVKILKQLTNSGYSPE 239 (866)
T ss_pred HHHHHHHHHHcCchHHHHhhHHHHHHHhhcCCceeeeHHHHHHHHHhcCHHHHHHHHH--HHHHHHHHHHHHhcCCCCCc
Confidence 4444445666666666666677788888888888888888766555552 224444 3345666666666543
Q ss_pred ------CChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHH
Q 005882 94 ------PDTHVKEKILILIDTWQEAFGGPRARYPQYYAAYQELLR 132 (672)
Q Consensus 94 ------~d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~Lkr 132 (672)
+|+-++-|||.++.-... ++ +...+++.++..
T Consensus 240 ydv~gi~dPFLQi~iLrlLriLGq---~d----~daSd~M~DiLa 277 (866)
T KOG1062|consen 240 YDVHGISDPFLQIRILRLLRILGQ---ND----ADASDLMNDILA 277 (866)
T ss_pred cCccCCCchHHHHHHHHHHHHhcC---CC----ccHHHHHHHHHH
Confidence 567788999998877654 22 345555555544
No 67
>KOG1293 consensus Proteins containing armadillo/beta-catenin-like repeat [General function prediction only]
Probab=49.48 E-value=52 Score=39.27 Aligned_cols=73 Identities=14% Similarity=0.214 Sum_probs=61.9
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHHH
Q 005882 39 VVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQEA 112 (672)
Q Consensus 39 AvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~Waea 112 (672)
-++.|-+-+....+++--.+|-+|.-+|-||.+.|..+.-++=|.+-|..++.+ ++..|++.++.|++...-.
T Consensus 462 gId~l~s~~~~~~~n~r~~~~~~Lr~l~f~~de~~k~~~~~ki~a~~i~~l~nd-~d~~Vqeq~fqllRNl~c~ 534 (678)
T KOG1293|consen 462 GIDILESMLTDPDFNSRANSLWVLRHLMFNCDEEEKFQLLAKIPANLILDLIND-PDWAVQEQCFQLLRNLTCN 534 (678)
T ss_pred cHHHHHHHhcCCCchHHHHHHHHHHHHHhcchHHHHHHHHHHhhHHHHHHHHhC-CCHHHHHHHHHHHHHhhcC
Confidence 467777888889999999999999999999999999888877666667666665 6899999999999988753
No 68
>KOG1820 consensus Microtubule-associated protein [Cytoskeleton]
Probab=49.14 E-value=1.6e+02 Score=36.55 Aligned_cols=92 Identities=15% Similarity=0.255 Sum_probs=68.7
Q ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHh-c--cCCC
Q 005882 19 WAMNIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIA-R--KKPD 95 (672)
Q Consensus 19 W~~ileICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLv-k--~k~d 95 (672)
.+.++.+||.|-. ....-...++|.--++++||..-..++.+|+-|+++-+. ....++-++.++..+ + +.++
T Consensus 353 ~d~l~~~~d~~~n-s~~l~~~~~~I~e~lk~knp~~k~~~~~~l~r~~~~~~~----~~~~~~t~~~l~p~~~~~~~D~~ 427 (815)
T KOG1820|consen 353 RDALLKALDAILN-STPLSKMSEAILEALKGKNPQIKGECLLLLDRKLRKLGP----KTVEKETVKTLVPHLIKHINDTD 427 (815)
T ss_pred HHHHHHHHHHHHh-cccHHHHHHHHHHHhcCCChhhHHHHHHHHHHHHhhcCC----cCcchhhHHHHhHHHhhhccCCc
Confidence 3456777887655 334577888899999999999999999999999999885 233344455554432 2 2368
Q ss_pred hhHHHHHHHHHHHHHHHhCC
Q 005882 96 THVKEKILILIDTWQEAFGG 115 (672)
Q Consensus 96 ~~VKeKILeLIq~WaeaF~~ 115 (672)
..||+-.++.|-.-...|+.
T Consensus 428 ~~VR~Aa~e~~~~v~k~~Ge 447 (815)
T KOG1820|consen 428 KDVRKAALEAVAAVMKVHGE 447 (815)
T ss_pred HHHHHHHHHHHHHHHHHhhH
Confidence 89999999999988888864
No 69
>PF00618 RasGEF_N: RasGEF N-terminal motif; InterPro: IPR000651 The crystal structure of the guanine nucleotide exchange factor (GEF) region of human Sos1 complexes with Ras has been solved []. The structure consists of two distinct alpha helical structural domains: the N-terminal domain which seems to have a purely structural role and the C-terminal domain which is sufficient for catalytic activity and contains all residues that interact with Ras. A main feature of the catalytic domain is the protrusion of a helical hairpin important for the nucleotide-exchange mechanism. The N-terminal domain is likely to be important for the stability and correct placement of the hairpin structure. This entry represents a domain found in several GEF for Ras-like small GTPases which lies N-terminal to the RasGef (Cdc25-like) domain. ; GO: 0005085 guanyl-nucleotide exchange factor activity, 0051056 regulation of small GTPase mediated signal transduction, 0005622 intracellular; PDB: 3CF6_E 2BYV_E 1NVW_S 1BKD_S 1XDV_A 2II0_A 1NVU_S 1NVX_S 1NVV_S 1XD4_B ....
Probab=47.52 E-value=59 Score=28.76 Aligned_cols=57 Identities=9% Similarity=0.237 Sum_probs=36.3
Q ss_pred chhhhhcchHHHHHHHHHhcc---C-CC----------hhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHH
Q 005882 72 IVHMHVAEKNVLHEMVKIARK---K-PD----------THVKEKILILIDTWQEAFGGPRARYPQYYAAYQELL 131 (672)
Q Consensus 72 ~Fh~eVask~FLneLvKLvk~---k-~d----------~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~Lk 131 (672)
.++.-+...++++.|+..... . .. ..+|.||+.+|..|-+.+..+ +..-..+++.|+
T Consensus 32 Tyr~F~tp~~Ll~~L~~ry~~~~~~~~~~~~~~~~~~~~~i~~rv~~~l~~Wi~~~~~d---f~~~~~l~~~l~ 102 (104)
T PF00618_consen 32 TYRSFTTPEELLDKLIQRYNIPPPNGLSQDESWDQDSQEPIRLRVLNVLKYWIENYPDD---FRDDPELLEKLK 102 (104)
T ss_dssp HHHHCS-HHHHHHHHHHHHT---SSS-HHHHT-HHHHHHHHHHHHHHHHHHHHHHHCCC---CHH-HHHHHHHH
T ss_pred HhHhhCCHHHHHHHHHHHhcccCCccccccchhhhhhhHHHHHHHHHHHHHHHHHChHh---hCCCHHHHHHHH
Confidence 355556778888888877631 1 11 138889999999999999863 443333555554
No 70
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=46.95 E-value=1e+02 Score=35.66 Aligned_cols=92 Identities=17% Similarity=0.239 Sum_probs=70.5
Q ss_pred CHHHHHHHHHHHhC--CCCC----HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhc
Q 005882 18 DWAMNIEICDMLNH--DPGQ----AKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIAR 91 (672)
Q Consensus 18 DW~~ileICD~In~--~~~~----aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk 91 (672)
+-+.+..+|++|++ +... .......|.+-|.|.++.|..+||..|.-|+.+-. .....+.+.+++..+..++.
T Consensus 51 ~~e~v~~~~~iL~~~l~~~~~~~l~~~~~~~L~~gL~h~~~~Vr~l~l~~l~~~~~~~~-~~~~~~~~~~l~~~i~~~L~ 129 (503)
T PF10508_consen 51 NREQVELICDILKRLLSALSPDSLLPQYQPFLQRGLTHPSPKVRRLALKQLGRIARHSE-GAAQLLVDNELLPLIIQCLR 129 (503)
T ss_pred ChHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhcCCH-HHHHHhcCccHHHHHHHHHc
Confidence 55667778887665 2222 34566678888899999999999999999988764 45556778888888888876
Q ss_pred cCCChhHHHHHHHHHHHHHH
Q 005882 92 KKPDTHVKEKILILIDTWQE 111 (672)
Q Consensus 92 ~k~d~~VKeKILeLIq~Wae 111 (672)
. .+..|.+.++.+|..-..
T Consensus 130 ~-~d~~Va~~A~~~L~~l~~ 148 (503)
T PF10508_consen 130 D-PDLSVAKAAIKALKKLAS 148 (503)
T ss_pred C-CcHHHHHHHHHHHHHHhC
Confidence 5 678999999998887764
No 71
>PTZ00429 beta-adaptin; Provisional
Probab=45.68 E-value=1e+02 Score=37.64 Aligned_cols=68 Identities=13% Similarity=0.081 Sum_probs=43.1
Q ss_pred HHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHH--HHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccch
Q 005882 6 VDRATSDMLIGPDWAMNIEICDMLNHDPGQAK--DVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIV 73 (672)
Q Consensus 6 IekATse~l~~pDW~~ileICD~In~~~~~aK--EAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~F 73 (672)
|.++..+...----..++.+..+...+++-.. +-+..|++-|..+|+.|+..||.+|..+..+|+..|
T Consensus 145 lkk~L~D~~pYVRKtAalai~Kly~~~pelv~~~~~~~~L~~LL~D~dp~Vv~nAl~aL~eI~~~~~~~l 214 (746)
T PTZ00429 145 LRRAVADPDPYVRKTAAMGLGKLFHDDMQLFYQQDFKKDLVELLNDNNPVVASNAAAIVCEVNDYGSEKI 214 (746)
T ss_pred HHHHhcCCCHHHHHHHHHHHHHHHhhCcccccccchHHHHHHHhcCCCccHHHHHHHHHHHHHHhCchhh
Confidence 34444443333333445666666665554422 234556677789999999999999988888876544
No 72
>PRK01005 V-type ATP synthase subunit E; Provisional
Probab=45.43 E-value=48 Score=34.17 Aligned_cols=61 Identities=11% Similarity=0.022 Sum_probs=48.6
Q ss_pred HHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccC-CChh-HHHHHHHHHHHHHHH
Q 005882 52 SKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKK-PDTH-VKEKILILIDTWQEA 112 (672)
Q Consensus 52 p~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k-~d~~-VKeKILeLIq~Waea 112 (672)
..+.-++..-++.-.+++-.....+|.+.-|-..+.+++... .|++ +++.|++++..|...
T Consensus 63 e~ek~r~~s~a~l~~R~~~l~aKqevi~~vf~~a~~~lv~~~~~d~~~l~~lI~~~v~~~~~~ 125 (207)
T PRK01005 63 DQKLKQGESALVQAGKRSLESLKQAVENKIFRESLGEWLEHVLTDPEVSAKLIQALVQAIEAQ 125 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhc
Confidence 344447888888888998888888888888888899998865 4666 667788899999875
No 73
>PF12333 Ipi1_N: Rix1 complex component involved in 60S ribosome maturation; InterPro: IPR024679 This domain is found in IPI1, which is a component of the Rix1 complex involved in pre-rRNA-processing [, ]. It is also found in testis-expressed sequence 10 protein, a nuclear membrane protein, which is a component of the MLL1/MLL complex [].
Probab=44.58 E-value=1.6e+02 Score=26.82 Aligned_cols=51 Identities=10% Similarity=0.155 Sum_probs=36.2
Q ss_pred HHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhc
Q 005882 40 VKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIAR 91 (672)
Q Consensus 40 vRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk 91 (672)
+-.|+-=+.|-.+.++.-||.+||.|++.|+..+-.. .-.+.|+.+..++.
T Consensus 13 ~~~i~sAMTHi~~~Ir~dsl~~L~~lL~~~p~~~~~~-~~~kil~~f~~ll~ 63 (102)
T PF12333_consen 13 MLYISSAMTHISPDIREDSLKFLDLLLEHAPDELCSG-GWVKILPNFLDLLG 63 (102)
T ss_pred HHHHHHHHHhCCHHHHHhHHHHHHHHHHHCChHhHhh-hHHHHHHHHHHHHC
Confidence 3445556678899999999999999999999872222 22345666666654
No 74
>PF02854 MIF4G: MIF4G domain; InterPro: IPR003890 This entry represents an MIF4G-like domain. MIF4G domains share a common structure but can differ in sequence. This entry is designated "type 3", and is found in nuclear cap-binding proteins, eIF4G, and UPF2. The MIF4G domain is a structural motif with an ARM (Armadillo) repeat-type fold, consisting of a 2-layer alpha/alpha right-handed superhelix. Proteins usually contain two or more structurally similar MIF4G domains connected by unstructured linkers. MIF4G domains are found in several proteins involved in RNA metabolism, including eIF4G (eukaryotic initiation factor 4-gamma), eIF-2b (translation initiation factor), UPF2 (regulator of nonsense transcripts 2), and nuclear cap-binding proteins (CBP80, CBC1, NCBP1), although the sequence identity between them may be low []. The nuclear cap-binding complex (CBC) is a heterodimer. Human CBC consists of a large CBP80 subunit and a small CBP20 subunit, the latter being critical for cap binding. CBP80 contains three MIF4G domains connected with long linkers, while CBP20 has an RNP (ribonucleoprotein)-type domain that associates with domains 2 and 3 of CBP80 []. The complex binds to 5'-cap of eukaryotic RNA polymerase II transcripts, such as mRNA and U snRNA. The binding is important for several mRNA nuclear maturation steps and for nonsense-mediated decay. It is also essential for nuclear export of U snRNAs in metazoans []. Eukaryotic translation initiation factor 4 gamma (eIF4G) plays a critical role in protein expression, and is at the centre of a complex regulatory network. Together with the cap-binding protein eIF4E, it recruits the small ribosomal subunit to the 5'-end of mRNA and promotes the assembly of a functional translation initiation complex, which scans along the mRNA to the translation start codon. The activity of eIF4G in translation initiation could be regulated through intra- and inter-protein interactions involving the ARM repeats []. In eIF4G, the MIF4G domain binds eIF4A, eIF3, RNA and DNA. Nonsense-mediated mRNA decay (NMD) in eukaryotes involves UPF1, UPF2 and UPF3 to accelerate the decay rate of two unique classes of transcripts: (1) nonsense mRNAs that arise through errors in gene expression, and (2) naturally occurring transcripts that lack coding errors but have built-in features that target them for accelerated decay (error-free mRNAs). NMD can trigger decay during any round of translation and can target CBC-bound or eIF-4E-bound transcripts []. UPF2 contains MIF4G domains, while UPF3 contains an RNP domain []. ; GO: 0005515 protein binding, 0016070 RNA metabolic process; PDB: 3FEY_A 3FEX_A 1H6K_C 1H2V_C 1H2U_A 1H2T_C 1N54_A 1N52_A 1HU3_A 3RK6_A ....
Probab=43.61 E-value=1e+02 Score=29.47 Aligned_cols=86 Identities=14% Similarity=0.201 Sum_probs=54.1
Q ss_pred HHHHHHHHhCCCCCHHHHHHHHHHHhCCCCH----HHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHH----Hhcc-
Q 005882 22 NIEICDMLNHDPGQAKDVVKGIKKRIGSRNS----KVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVK----IARK- 92 (672)
Q Consensus 22 ileICD~In~~~~~aKEAvRaLrKRLksknp----~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvK----Lvk~- 92 (672)
+.=||++.+..-...+.....|+.=|..... ......+.++=.++++||..+...-..++.++++.. .+..
T Consensus 107 ~~fl~eL~~~~vv~~~~i~~~l~~ll~~~~~~~~~~~~~~~ie~~~~lL~~~G~~l~~~~~~~~~l~~~~~~~~~~~~~~ 186 (209)
T PF02854_consen 107 IRFLAELFNFGVVSEKIIFDILRELLSDGTDECQPPPDEENIECLCTLLKTCGKKLENSEESPKALDEIFERLQKYANSK 186 (209)
T ss_dssp HHHHHHHHHTTSSCHHHHHHHHHHHHHHTSHHCCHHTCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHC
T ss_pred hhHHHhhHhhccccchhHHHHHHHHHhcccccccCCCcHhHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHHHhh
Confidence 4458888888777776666666655554443 445566777777888999888822334455555443 3332
Q ss_pred ---CCChhHHHHHHHHHH
Q 005882 93 ---KPDTHVKEKILILID 107 (672)
Q Consensus 93 ---k~d~~VKeKILeLIq 107 (672)
..+.+||-.+.++|.
T Consensus 187 ~~~~~~~r~~~~l~~l~~ 204 (209)
T PF02854_consen 187 KDPNLSSRIRFMLEDLIE 204 (209)
T ss_dssp HSSSSSHHHHHHHHHHHH
T ss_pred cccCCCHHHHHHHHHHHH
Confidence 345677777766664
No 75
>cd08306 Death_FADD Fas-associated Death Domain protein-protein interaction domain. Death domain (DD) found in FAS-associated via death domain (FADD). FADD is a component of the death-inducing signaling complex (DISC) and serves as an adaptor in the signaling pathway of death receptor proteins. It modulates apoptosis as well as non-apoptotic processes such as cell cycle progression, survival, innate immune signaling, and hematopoiesis. FADD contains an N-terminal DED and a C-terminal DD. Its DD interacts with the DD of the activated death receptor, FAS, and its DED recruits the initiator caspases, caspase-8 and -10, to the DISC complex via a homotypic interaction with the N-terminal DED of the caspase. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain),
Probab=42.82 E-value=60 Score=28.72 Aligned_cols=70 Identities=9% Similarity=0.126 Sum_probs=42.8
Q ss_pred HHHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHHhc
Q 005882 61 LLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQEAFGGPRARYPQYYAAYQELLRAG 134 (672)
Q Consensus 61 LLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~LkrkG 134 (672)
..+.+.+|-|..+....-.=.|-+.=+.-++......+++++.++|..|.+..+.. ..+..+.+.|++-|
T Consensus 4 ~f~~i~~~lG~~Wk~laR~LGlse~~Id~i~~~~~~~~~eq~~~mL~~W~~~~g~~----At~~~L~~aL~~~~ 73 (86)
T cd08306 4 AFDVICENVGRDWRKLARKLGLSETKIESIEEAHPRNLREQVRQSLREWKKIKKKE----AKVADLIKALRDCQ 73 (86)
T ss_pred HHHHHHHHHhhhHHHHHHHcCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHhHCcc----hHHHHHHHHHHHcC
Confidence 45667777777666433333455443333333233469999999999999987642 33455566665544
No 76
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=42.58 E-value=2.6e+02 Score=27.32 Aligned_cols=76 Identities=16% Similarity=0.209 Sum_probs=51.1
Q ss_pred HHHHHHHHHHHHHHHHHHhcC--CCChH--HHHHHHHHHHHHHHHHHHHHhhcC--CCHHHHHHHhhhhHHHHHHHHHHH
Q 005882 187 TEIQNARGIMDVLAEMLNALD--PNNKE--EVIVDLVDQCRTYKQRVVHLVNST--ADESLLCQGLQLNDDLQRLLAKHE 260 (672)
Q Consensus 187 sELe~ak~nvkLL~EML~~l~--P~~~e--Eli~EL~~qCR~mr~RV~rLIq~t--~DEElL~eLL~lNDeLn~VLekYE 260 (672)
.++..++..++-|..=|..+. |.+.+ +.|.+|-..|+.+..||..|-... -+++....+..-...+.+...+-.
T Consensus 86 ~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~~~~~k~w~kRK 165 (169)
T PF07106_consen 86 EELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKLRSGSKPVSPEEKEKLEKEYKKWRKEWKKRK 165 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 567777777777777777653 44444 888999999999999999998754 245555555555555555444444
Q ss_pred hh
Q 005882 261 SF 262 (672)
Q Consensus 261 ~l 262 (672)
++
T Consensus 166 ri 167 (169)
T PF07106_consen 166 RI 167 (169)
T ss_pred HH
Confidence 43
No 77
>PRK14148 heat shock protein GrpE; Provisional
Probab=42.18 E-value=87 Score=32.19 Aligned_cols=66 Identities=12% Similarity=0.214 Sum_probs=46.9
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHHHHHHhhcC---CCHHHHHHHhhhhHHHHHHHHH
Q 005882 188 EIQNARGIMDVLAEMLNALDPNNKEEVIVDLVDQCRTYKQRVVHLVNST---ADESLLCQGLQLNDDLQRLLAK 258 (672)
Q Consensus 188 ELe~ak~nvkLL~EML~~l~P~~~eEli~EL~~qCR~mr~RV~rLIq~t---~DEElL~eLL~lNDeLn~VLek 258 (672)
+++.++..+.-|.+-+..+. +.+..+...+..+|+|..+=++.. .-+.++.+||.+=|+|.+||+.
T Consensus 41 e~~~l~~~l~~l~~e~~elk-----d~~lR~~Ae~eN~rKR~~rE~e~~~~~a~~~~~~~LLpV~DnlerAl~~ 109 (195)
T PRK14148 41 QLERAKDTIKELEDSCDQFK-----DEALRAKAEMENIRKRAERDVSNARKFGIEKFAKELLPVIDSIEQALKH 109 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHhc
Confidence 44555554544444343331 556677778888888888877665 6888999999999999999963
No 78
>cd08779 Death_PIDD Death Domain of p53-induced protein with a death domain. Death domain (DD) found in PIDD (p53-induced protein with a death domain) and similar proteins. PIDD is a component of the PIDDosome complex, which is an oligomeric caspase-activating complex involved in caspase-2 activation and plays a role in mediating stress-induced apoptosis. The PIDDosome complex is composed of three components, PIDD, RAIDD and caspase-2, which interact through their DDs and DD-like domains. The DD of PIDD interacts with the DD of RAIDD, which also contains a Caspase Activation and Recruitment Domain (CARD) that interacts with the caspase-2 CARD. Autoproteolysis of PIDD determines the downstream signaling event, between pro-survival NF-kB or pro-death caspase-2 activation. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members
Probab=41.56 E-value=30 Score=30.65 Aligned_cols=42 Identities=14% Similarity=0.245 Sum_probs=28.0
Q ss_pred hccCCChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHHhc
Q 005882 90 ARKKPDTHVKEKILILIDTWQEAFGGPRARYPQYYAAYQELLRAG 134 (672)
Q Consensus 90 vk~k~d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~LkrkG 134 (672)
++.+.+..++++|.++|..|.+..+++. ..+..+.+-|++-|
T Consensus 33 Ie~~~~~dl~eq~~~mL~~W~~~~~~~~---atv~~L~~AL~~~g 74 (86)
T cd08779 33 IKYNNRDDLDEQIFDMLFSWAQRQAGDP---DAVGKLVTALEESG 74 (86)
T ss_pred HHHHCccCHHHHHHHHHHHHHHhcCCCc---hHHHHHHHHHHHcC
Confidence 3333345799999999999999876532 23555566665543
No 79
>PF11698 V-ATPase_H_C: V-ATPase subunit H; InterPro: IPR011987 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents the C-terminal domain of subunit H (also known as Vma13p) found in the V1 complex of V-ATPases. This subunit has a regulatory function, being responsible for activating ATPase activity and coupling ATPase activity to proton flow []. The yeast enzyme contains five motifs similar to the HEAT or Armadillo repeats seen in the importins, and can be divided into two distinct domains: a large N-terminal domain consisting of stacked alpha helices, and a smaller C-terminal alpha-helical domain with a similar superhelical topology to an armadillo repeat []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=40.76 E-value=94 Score=29.62 Aligned_cols=74 Identities=9% Similarity=0.170 Sum_probs=43.0
Q ss_pred CHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHH
Q 005882 35 QAKDVVKGIKKRI-GSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQ 110 (672)
Q Consensus 35 ~aKEAvRaLrKRL-ksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~Wa 110 (672)
.--+.+|.|.+-| .+.++.+..-|+.=|-.+|+.+.. -+..|.+-..-..+-+|+. ..+++||..+|..++.|=
T Consensus 40 ~~~~llk~L~~lL~~s~d~~~laVac~Dig~~vr~~p~-gr~ii~~lg~K~~vM~Lm~-h~d~eVr~eAL~avQklm 114 (119)
T PF11698_consen 40 NNFELLKKLIKLLDKSDDPTTLAVACHDIGEFVRHYPN-GRNIIEKLGAKERVMELMN-HEDPEVRYEALLAVQKLM 114 (119)
T ss_dssp GGGHHHHHHHHHH-SHHHHHHHHHHHHHHHHHHHH-GG-GHHHHHHHSHHHHHHHHTS--SSHHHHHHHHHHHHHHH
T ss_pred cccHHHHHHHHHHccCCCcceeehhhcchHHHHHHChh-HHHHHHhcChHHHHHHHhc-CCCHHHHHHHHHHHHHHH
Confidence 3446677777777 445666666777777788887632 1111111111122233333 478999999999988763
No 80
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=40.67 E-value=1.4e+02 Score=34.45 Aligned_cols=91 Identities=21% Similarity=0.199 Sum_probs=53.3
Q ss_pred HHHHHHHHHHHhCCCC-CHHHHHHHHHHHhCCCCHHHHH---HHHHHHHHHHhccc-------------------cchhh
Q 005882 19 WAMNIEICDMLNHDPG-QAKDVVKGIKKRIGSRNSKVQL---LALTLLETIIKNCG-------------------DIVHM 75 (672)
Q Consensus 19 W~~ileICD~In~~~~-~aKEAvRaLrKRLksknp~vqL---lALtLLEtcVKNCG-------------------~~Fh~ 75 (672)
-+.+..|++.|..... -++.|+++|++=.++...-.++ ..+.-|..++++|. ..|.
T Consensus 118 ~~l~~~i~~~L~~~d~~Va~~A~~~L~~l~~~~~~~~~l~~~~~~~~L~~l~~~~~~~vR~Rv~el~v~i~~~S~~~~~- 196 (503)
T PF10508_consen 118 NELLPLIIQCLRDPDLSVAKAAIKALKKLASHPEGLEQLFDSNLLSKLKSLMSQSSDIVRCRVYELLVEIASHSPEAAE- 196 (503)
T ss_pred ccHHHHHHHHHcCCcHHHHHHHHHHHHHHhCCchhHHHHhCcchHHHHHHHHhccCHHHHHHHHHHHHHHHhcCHHHHH-
Confidence 3456667777766443 3566777766665554322222 11233344444432 2222
Q ss_pred hhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHH
Q 005882 76 HVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQE 111 (672)
Q Consensus 76 eVask~FLneLvKLvk~k~d~~VKeKILeLIq~Wae 111 (672)
.+.+..|++.+++.++. .|.-||.-++++|...++
T Consensus 197 ~~~~sgll~~ll~eL~~-dDiLvqlnalell~~La~ 231 (503)
T PF10508_consen 197 AVVNSGLLDLLLKELDS-DDILVQLNALELLSELAE 231 (503)
T ss_pred HHHhccHHHHHHHHhcC-ccHHHHHHHHHHHHHHHc
Confidence 22334577777777776 788899999999998887
No 81
>PRK14154 heat shock protein GrpE; Provisional
Probab=40.58 E-value=80 Score=32.79 Aligned_cols=46 Identities=13% Similarity=0.155 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcC---CCHHHHHHHhhhhHHHHHHHHH
Q 005882 213 EVIVDLVDQCRTYKQRVVHLVNST---ADESLLCQGLQLNDDLQRLLAK 258 (672)
Q Consensus 213 Eli~EL~~qCR~mr~RV~rLIq~t---~DEElL~eLL~lNDeLn~VLek 258 (672)
+.+..+...+..+|+|+.+-++.. .-+.++.+||.+-|+|.+||..
T Consensus 73 d~~lRl~ADfeNyRKR~~kE~e~~~~~a~e~~~~~LLpVlDnLeRAL~~ 121 (208)
T PRK14154 73 TQYLRAQAEMDNLRKRIEREKADIIKFGSKQLITDLLPVADSLIHGLES 121 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHhc
Confidence 444556677777888888777655 5778888888888888888864
No 82
>PF04961 FTCD_C: Formiminotransferase-cyclodeaminase; InterPro: IPR007044 Enzymes containing the cyclodeaminase domain function in channeling one-carbon units to the folate pool. In most cases, this domain catalyses the cyclisation of formimidoyltetrahydrofolate to methenyltetrahydrofolate as shown in reaction (1). In the methylotrophic bacterium Methylobacterium extorquens, however, it catalyses the interconversion of formyltetrahydrofolate and methylenetetrahydrofolate [],as shown in reaction (2) (1) 5-formimidoyltetrahydrofolate = 5,10-methenyltetrahydrofolate + NH(3) (2) 10- formyltetrahydrofolate = 5,10-methenyltetrahydrofolate + H(2)O In prokaryotes, this domain mostly occurs on its own, while in eukaryotes it is fused to a glutamate formiminotransferase domain (which catalyses the previous step in the pathway) to form the bifunctional enzyme formiminotransferase-cyclodeaminase []. The eukaryotic enzyme is a circular tetramer of homodimers [], while the prokaryotic enzyme is a dimer [, ]. The crystal structure of the cyclodeaminase enzyme (Q9X1P6 from SWISSPROT) from Thermaotogoa maritima has been studied []. It is a homodimer, where each monomer is composed of six alpha helices arranged in an up and down helical bundle, forming a novel fold. The location of the active site is not known, but sequence alignments revealed two clusters of conserved residues located in a deep pocket within the dimmer interface. This pocket was large enough to accommodate the reaction product and it was postulated that this is the active site.; GO: 0003824 catalytic activity, 0044237 cellular metabolic process; PDB: 2PFD_C 1O5H_B.
Probab=40.42 E-value=73 Score=32.12 Aligned_cols=37 Identities=19% Similarity=0.447 Sum_probs=30.7
Q ss_pred HHHHHHHhcCCCCh-----HHHHHHHHHHHHHHHHHHHHHhh
Q 005882 198 VLAEMLNALDPNNK-----EEVIVDLVDQCRTYKQRVVHLVN 234 (672)
Q Consensus 198 LL~EML~~l~P~~~-----eEli~EL~~qCR~mr~RV~rLIq 234 (672)
-|..|+.+++-+.+ ++.++++.++|+.+|.+++.|+.
T Consensus 32 aL~~Mv~~lT~gkk~~~~~~~~~~~~~~~~~~~~~~ll~l~d 73 (184)
T PF04961_consen 32 ALGSMVANLTLGKKKYEDVEEELKEIIEKLEELREELLDLAD 73 (184)
T ss_dssp HHHHHHHHCTTTSTTSGGGHHHHHHHHHHHHHHHHHHHCHHH
T ss_pred HHHHHHHHHhCCCccchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36688888876653 28999999999999999999985
No 83
>PRK14140 heat shock protein GrpE; Provisional
Probab=40.05 E-value=1e+02 Score=31.56 Aligned_cols=46 Identities=24% Similarity=0.294 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcC---CCHHHHHHHhhhhHHHHHHHHH
Q 005882 213 EVIVDLVDQCRTYKQRVVHLVNST---ADESLLCQGLQLNDDLQRLLAK 258 (672)
Q Consensus 213 Eli~EL~~qCR~mr~RV~rLIq~t---~DEElL~eLL~lNDeLn~VLek 258 (672)
+.+..+...|..+|+|..+=+... .-+.++.+||.+-|+|.+||..
T Consensus 58 d~~lR~~Ae~eN~rkR~~rE~~~~~~~a~~~~~~~LLpvlDnLerAl~~ 106 (191)
T PRK14140 58 ERYLRLQADFENYKRRIQKENEAAEKYRAQSLASDLLPALDNFERALQI 106 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 555566677788888888776654 5788999999999999999863
No 84
>PRK14162 heat shock protein GrpE; Provisional
Probab=40.04 E-value=95 Score=31.87 Aligned_cols=66 Identities=18% Similarity=0.176 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHHHHHHhhcC---CCHHHHHHHhhhhHHHHHHHH
Q 005882 187 TEIQNARGIMDVLAEMLNALDPNNKEEVIVDLVDQCRTYKQRVVHLVNST---ADESLLCQGLQLNDDLQRLLA 257 (672)
Q Consensus 187 sELe~ak~nvkLL~EML~~l~P~~~eEli~EL~~qCR~mr~RV~rLIq~t---~DEElL~eLL~lNDeLn~VLe 257 (672)
.++..+...+.-|.+-+..+ .+.+..+...+..+|+|..+-++.. .-+.++.+||.+=|+|.+||.
T Consensus 39 ~e~~~l~~~l~~l~~e~~el-----kd~~lR~~AEfeN~rkR~~kE~e~~~~~a~~~~~~~LLpV~DnLerAl~ 107 (194)
T PRK14162 39 NPVEDLEKEIADLKAKNKDL-----EDKYLRSQAEIQNMQNRYAKERAQLIKYESQSLAKDVLPAMDNLERALA 107 (194)
T ss_pred hhHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHh
Confidence 34555444444444433332 1556667777888888888877654 578899999999999999996
No 85
>cd08319 Death_RAIDD Death domain of RIP-associated ICH-1 homologous protein with a death domain. Death domain (DD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal Caspase Activation and Recruitment Domain (CARD), which interacts with the caspase-2 CARD, and a C-terminal DD, which interacts with the DD of PIDD. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD, DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other pr
Probab=39.89 E-value=62 Score=28.75 Aligned_cols=70 Identities=13% Similarity=0.216 Sum_probs=41.8
Q ss_pred HHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHHhcc
Q 005882 62 LETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQEAFGGPRARYPQYYAAYQELLRAGA 135 (672)
Q Consensus 62 LEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~LkrkGi 135 (672)
|..+..|-|.......-.=.|-+.=+..++...+..+.++|.+++..|.+..+.. ..+..+.+.|++-|+
T Consensus 5 L~~la~~LG~~W~~Lar~Lgls~~~I~~i~~~~p~~l~eQv~~mL~~W~~r~G~~----ATv~~L~~aL~~~~~ 74 (83)
T cd08319 5 LNQLAQRLGPEWEQVLLDLGLSQTDIYRCKENHPHNVQSQIVEALVKWRQRFGKK----ATVQSLIQSLKAVEV 74 (83)
T ss_pred HHHHHHHHhhhHHHHHHHcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHhcCCC----CcHHHHHHHHHHcCC
Confidence 4455566665554322222233332233333334579999999999999998642 346667777777664
No 86
>COG5369 Uncharacterized conserved protein [Function unknown]
Probab=39.01 E-value=74 Score=37.57 Aligned_cols=104 Identities=17% Similarity=0.247 Sum_probs=68.6
Q ss_pred HHHHHHHcCCCCCCcCHHHHHHHHHHHhC-CCCCH----HHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhh
Q 005882 3 NSMVDRATSDMLIGPDWAMNIEICDMLNH-DPGQA----KDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHV 77 (672)
Q Consensus 3 ~~lIekATse~l~~pDW~~ileICD~In~-~~~~a----KEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eV 77 (672)
.+++-+|-|..-+-.....-..||+.|-. ++-++ +-.+..|.+-|.+|+...|-.++-+|.-+|-||.+...
T Consensus 433 ~elLi~~Ls~Peimi~~~~t~~icn~vv~fsnL~~~fL~~~iIdvl~~~v~sKDdaLqans~wvlrHlmyncq~~ek--- 509 (743)
T COG5369 433 VELLIDALSNPEIMIEFPDTIDICNKVVPFSNLGAGFLEKSIIDVLVNLVMSKDDALQANSEWVLRHLMYNCQKNEK--- 509 (743)
T ss_pred HHHHHHHhcCccceeeccchhhhhheeeeccchHHHHHHhhHHHHHHHHhhcchhhhhhcchhhhhhhhhcCcchhh---
Confidence 34444555553222233345678887543 33333 56778888999999998888899999999999987654
Q ss_pred cchHHHHH--HHHHhc--cCCChhHHHHHHHHHHHHHH
Q 005882 78 AEKNVLHE--MVKIAR--KKPDTHVKEKILILIDTWQE 111 (672)
Q Consensus 78 ask~FLne--LvKLvk--~k~d~~VKeKILeLIq~Wae 111 (672)
++||.. +.|++. +.+.-.|++.++.++..+.-
T Consensus 510 --f~~Lakig~~kvl~~~NDpc~~vq~q~lQilrNftc 545 (743)
T COG5369 510 --FKFLAKIGVEKVLSYTNDPCFKVQHQVLQILRNFTC 545 (743)
T ss_pred --hhhHHhcCHHHHHHHhcCcccccHHHHHHHHHhccc
Confidence 345544 344443 33556888888888877653
No 87
>PRK14145 heat shock protein GrpE; Provisional
Probab=38.32 E-value=1.1e+02 Score=31.49 Aligned_cols=46 Identities=20% Similarity=0.346 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcC---CCHHHHHHHhhhhHHHHHHHHH
Q 005882 213 EVIVDLVDQCRTYKQRVVHLVNST---ADESLLCQGLQLNDDLQRLLAK 258 (672)
Q Consensus 213 Eli~EL~~qCR~mr~RV~rLIq~t---~DEElL~eLL~lNDeLn~VLek 258 (672)
+.+..+...+..+|+|+.+=++.. .-+.++.+||-+-|+|.+||..
T Consensus 66 d~~lR~~AEfeN~rkR~~kE~e~~~~~a~e~~~~~LLpV~DnLerAl~~ 114 (196)
T PRK14145 66 DIAQRLKAEFENYRKRTEKEKSEMVEYGKEQVILELLPVMDNFERALAS 114 (196)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHhc
Confidence 556667788888999998877655 6788999999999999999965
No 88
>TIGR00153 conserved hypothetical protein TIGR00153. An apparent homolog with a suggested function is Pit accessory protein from Sinorhizobium meliloti, which may be involved in phosphate (Pi) transport.
Probab=38.15 E-value=1.8e+02 Score=29.46 Aligned_cols=73 Identities=19% Similarity=0.285 Sum_probs=49.8
Q ss_pred HHHHHHHHHHHHHHHHhcCCCChH------HHHHHHHHHHHHHHHHHHHHhhcC----CCHHHHHHHhhhhHHHHHHHHH
Q 005882 189 IQNARGIMDVLAEMLNALDPNNKE------EVIVDLVDQCRTYKQRVVHLVNST----ADESLLCQGLQLNDDLQRLLAK 258 (672)
Q Consensus 189 Le~ak~nvkLL~EML~~l~P~~~e------Eli~EL~~qCR~mr~RV~rLIq~t----~DEElL~eLL~lNDeLn~VLek 258 (672)
.+.+...+.+|.+++.++..++.+ ..|.++=.+|..++++|...+..+ -|-+ +++.+.+.+.++++.
T Consensus 20 ~~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~I~~lE~eaD~i~~~i~~~L~~~fitP~dRe---Di~~L~~~lD~I~D~ 96 (216)
T TIGR00153 20 IEKVGECVQLLIKSFELLKSGNNEKDEELRKEIIEIEHEADEIKREIRLNLEKGAFLPNDRR---DLLELAELLDEILDS 96 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccccCcCcHH---HHHHHHHHHHHHHHH
Confidence 456778888999999887544321 777888899999999999988765 2433 345555555555555
Q ss_pred HHhhhc
Q 005882 259 HESFAS 264 (672)
Q Consensus 259 YE~l~~ 264 (672)
=+....
T Consensus 97 i~~~a~ 102 (216)
T TIGR00153 97 LEHAAM 102 (216)
T ss_pred HHHHHH
Confidence 555443
No 89
>PRK14143 heat shock protein GrpE; Provisional
Probab=38.01 E-value=1.1e+02 Score=32.47 Aligned_cols=46 Identities=11% Similarity=0.186 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcC---CCHHHHHHHhhhhHHHHHHHHH
Q 005882 213 EVIVDLVDQCRTYKQRVVHLVNST---ADESLLCQGLQLNDDLQRLLAK 258 (672)
Q Consensus 213 Eli~EL~~qCR~mr~RV~rLIq~t---~DEElL~eLL~lNDeLn~VLek 258 (672)
+.+..+...+..+|+|..+=++.. .-+.++.+||.+-|+|.++|..
T Consensus 88 d~~lR~~AdfeN~RKR~~kE~e~~~~~a~~~~~~~lLpV~DnLerAl~~ 136 (238)
T PRK14143 88 SQYMRIAADFDNFRKRTSREQEDLRLQLKCNTLSEILPVVDNFERARQQ 136 (238)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhc
Confidence 555667777888888888766654 5788999999999999999863
No 90
>PRK14161 heat shock protein GrpE; Provisional
Probab=38.00 E-value=70 Score=32.33 Aligned_cols=46 Identities=17% Similarity=0.273 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcC---CCHHHHHHHhhhhHHHHHHHHH
Q 005882 213 EVIVDLVDQCRTYKQRVVHLVNST---ADESLLCQGLQLNDDLQRLLAK 258 (672)
Q Consensus 213 Eli~EL~~qCR~mr~RV~rLIq~t---~DEElL~eLL~lNDeLn~VLek 258 (672)
+.+..+...+..+|+|..+=.+.. .-+.++.+||.+=|+|.+||..
T Consensus 40 d~~lR~~AefeN~rkR~~ke~~~~~~~a~~~~~~~LLpv~DnlerAl~~ 88 (178)
T PRK14161 40 DKLIRTTAEIDNTRKRLEKARDEAKDYAIATFAKELLNVSDNLSRALAH 88 (178)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHhc
Confidence 555566777788888888776654 5778899999999999999863
No 91
>KOG1242 consensus Protein containing adaptin N-terminal region [Translation, ribosomal structure and biogenesis]
Probab=37.61 E-value=2.1e+02 Score=34.06 Aligned_cols=97 Identities=13% Similarity=0.261 Sum_probs=67.1
Q ss_pred HHHhCCCCCHHHHHHHHHHHhCCCC--------------H--HHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHh
Q 005882 27 DMLNHDPGQAKDVVKGIKKRIGSRN--------------S--KVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIA 90 (672)
Q Consensus 27 D~In~~~~~aKEAvRaLrKRLkskn--------------p--~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLv 90 (672)
|.++.-...+.+|+|+|...+.-.- . +.-.-+|.+|. ||--| ..+..+.+-.+.+-.|.+++
T Consensus 227 d~~~~Vr~Aa~~a~kai~~~~~~~aVK~llpsll~~l~~~kWrtK~aslellg-~m~~~-ap~qLs~~lp~iiP~lsevl 304 (569)
T KOG1242|consen 227 DKINKVREAAVEAAKAIMRCLSAYAVKLLLPSLLGSLLEAKWRTKMASLELLG-AMADC-APKQLSLCLPDLIPVLSEVL 304 (569)
T ss_pred ccchhhhHHHHHHHHHHHHhcCcchhhHhhhhhHHHHHHHhhhhHHHHHHHHH-HHHHh-chHHHHHHHhHhhHHHHHHH
Confidence 4455555678999999988775211 1 23346778888 66667 46676777666666666666
Q ss_pred ccCCChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHH
Q 005882 91 RKKPDTHVKEKILILIDTWQEAFGGPRARYPQYYAAYQELL 131 (672)
Q Consensus 91 k~k~d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~Lk 131 (672)
.+ ++++||+-..+.|.....-..+ +.|...+..|.
T Consensus 305 ~D-T~~evr~a~~~~l~~~~svidN-----~dI~~~ip~Ll 339 (569)
T KOG1242|consen 305 WD-TKPEVRKAGIETLLKFGSVIDN-----PDIQKIIPTLL 339 (569)
T ss_pred cc-CCHHHHHHHHHHHHHHHHhhcc-----HHHHHHHHHHH
Confidence 55 7889999999999999887754 44666666664
No 92
>PRK14158 heat shock protein GrpE; Provisional
Probab=37.14 E-value=1.3e+02 Score=30.80 Aligned_cols=45 Identities=22% Similarity=0.309 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcC---CCHHHHHHHhhhhHHHHHHHH
Q 005882 213 EVIVDLVDQCRTYKQRVVHLVNST---ADESLLCQGLQLNDDLQRLLA 257 (672)
Q Consensus 213 Eli~EL~~qCR~mr~RV~rLIq~t---~DEElL~eLL~lNDeLn~VLe 257 (672)
+.+..+...+..+|+|..+-++.. .-+.++.+||.+-|+|.++|.
T Consensus 61 d~~lR~~AefeN~RkR~~kE~e~~~~~a~~~~~~~lLpV~DnLerAl~ 108 (194)
T PRK14158 61 DKYLRERADLENYRKRVQKEKEELLKYGNESLILEILPAVDNMERALD 108 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHh
Confidence 344455556666777776665544 567778888888888888775
No 93
>PRK14139 heat shock protein GrpE; Provisional
Probab=36.97 E-value=1.1e+02 Score=31.14 Aligned_cols=45 Identities=22% Similarity=0.221 Sum_probs=35.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcC---CCHHHHHHHhhhhHHHHHHHH
Q 005882 213 EVIVDLVDQCRTYKQRVVHLVNST---ADESLLCQGLQLNDDLQRLLA 257 (672)
Q Consensus 213 Eli~EL~~qCR~mr~RV~rLIq~t---~DEElL~eLL~lNDeLn~VLe 257 (672)
+.+..+...+..+|+|+.+-.+.. .-+.++.+||.+-|+|.++|.
T Consensus 53 d~~lR~~AefeN~rKR~~kE~e~~~~~a~~~~~~~LLpv~DnLerAl~ 100 (185)
T PRK14139 53 DSFLRAKAETENVRRRAQEDVAKAHKFAIESFAESLLPVKDSLEAALA 100 (185)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHh
Confidence 555667777888888888877655 577899999999999999985
No 94
>PRK14144 heat shock protein GrpE; Provisional
Probab=36.77 E-value=1.4e+02 Score=30.75 Aligned_cols=46 Identities=22% Similarity=0.251 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcC---CCHHHHHHHhhhhHHHHHHHHH
Q 005882 213 EVIVDLVDQCRTYKQRVVHLVNST---ADESLLCQGLQLNDDLQRLLAK 258 (672)
Q Consensus 213 Eli~EL~~qCR~mr~RV~rLIq~t---~DEElL~eLL~lNDeLn~VLek 258 (672)
+.+..+...+..+|+|..+=++.. .-+.++.+||.+-|+|.+||.-
T Consensus 66 dk~lR~~AefeN~RKR~~kE~e~~~~~a~~~~~~~LLpV~DnLerAl~~ 114 (199)
T PRK14144 66 EKSVRALAELENVRRRMEREVANAHKYGVEKLISALLPVVDSLEQALQL 114 (199)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHc
Confidence 445566677778888888776654 5678888899999999988853
No 95
>PLN03200 cellulose synthase-interactive protein; Provisional
Probab=36.23 E-value=1.3e+02 Score=40.80 Aligned_cols=70 Identities=17% Similarity=0.198 Sum_probs=58.0
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHH
Q 005882 39 VVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTW 109 (672)
Q Consensus 39 AvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~W 109 (672)
++..|.+-|.+.++..|..|..+|-.++.+|++ ....|.+...+..|+++++...+..||+.+...|..-
T Consensus 190 aVp~LV~LLsS~d~~lQ~eAa~aLa~Lass~ee-~~~aVIeaGaVP~LV~LL~sg~~~~VRE~AA~AL~nL 259 (2102)
T PLN03200 190 GVDILVKLLSSGNSDAQANAASLLARLMMAFES-SISKVLDAGAVKQLLKLLGQGNEVSVRAEAAGALEAL 259 (2102)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHcCChH-HHHHHHHCCCHHHHHHHHccCCChHHHHHHHHHHHHH
Confidence 677888899999999999999999999999876 4556667788999999998767778999888776443
No 96
>PF12530 DUF3730: Protein of unknown function (DUF3730) ; InterPro: IPR022542 This domain is found in eukaryotes, and is typically between 220 and 262 amino acids in length.
Probab=35.28 E-value=2.5e+02 Score=29.00 Aligned_cols=58 Identities=21% Similarity=0.187 Sum_probs=47.8
Q ss_pred CCCCCcCHHHHH----HHHHHHhCCCCCHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHHhcc
Q 005882 12 DMLIGPDWAMNI----EICDMLNHDPGQAKDVVKGIKKRI-GSRNSKVQLLALTLLETIIKNC 69 (672)
Q Consensus 12 e~l~~pDW~~il----eICD~In~~~~~aKEAvRaLrKRL-ksknp~vqLlALtLLEtcVKNC 69 (672)
....+.+|...+ .+.|++...++...|.+..|..=| ++.++.++.+||..|..+.++.
T Consensus 91 ~~~~~~~~~~~i~~a~s~~~ic~~~p~~g~~ll~~ls~~L~~~~~~~~~alale~l~~Lc~~~ 153 (234)
T PF12530_consen 91 FSSKDEFWECLISIAASIRDICCSRPDHGVDLLPLLSGCLNQSCDEVAQALALEALAPLCEAE 153 (234)
T ss_pred cCCCcchHHHHHHHHHHHHHHHHhChhhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHh
Confidence 334556777655 578888899999999999999999 8999999999999999998443
No 97
>PF08389 Xpo1: Exportin 1-like protein; InterPro: IPR013598 The exchange of macromolecules between the nucleus and cytoplasm takes place through nuclear pore complexes within the nuclear membrane. Active transport of large molecules through these pore complexes require carrier proteins, called karyopherins (importins and exportins), which shuttle between the two compartments. This domain is found close to the N terminus of yeast exportin 1 (Xpo1, Crm1, P14068 from SWISSPROT), as well as adjacent to the N-terminal domain of importin-beta (IPR001494 from INTERPRO). Exportin 1 is a nuclear export receptor that translocates proteins out of the nucleus; it interacts with leucine-rich nuclear export signal (NES) sequences in proteins to be transported, as well as with RanGTP [, ]. Importin-beta is a nuclear import receptor that translocates proteins into the nucleus; it interacts with RanGTP and importin-alpha, the latter binding with the nuclear localisation signal (NLS) sequences in proteins to be transported []. More information about these proteins can be found at Protein of the Month: Importins [].; PDB: 3IBV_A 3ICQ_U 3M1I_C 3NC1_A 3NBY_D 3NBZ_D 3NC0_A 3GJX_D 2XWU_B 2X19_B ....
Probab=34.71 E-value=1.2e+02 Score=27.71 Aligned_cols=89 Identities=15% Similarity=0.282 Sum_probs=53.3
Q ss_pred HHHHHHHhCC-CCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccch-hhhhc---c-----------hHHHHHH
Q 005882 23 IEICDMLNHD-PGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIV-HMHVA---E-----------KNVLHEM 86 (672)
Q Consensus 23 leICD~In~~-~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~F-h~eVa---s-----------k~FLneL 86 (672)
.-|++++..+ +..-.+.+.-|...+++ ++......|.+|..+.+.+.. | +..+. . ..+++-+
T Consensus 10 ~~l~~i~~~~~P~~Wp~~l~~l~~~~~~-~~~~~~~~L~iL~~l~eEi~~-~~~~~~~~~r~~~l~~~l~~~~~~i~~~l 87 (148)
T PF08389_consen 10 QVLAEIAKRDWPQQWPDFLEDLLQLLQS-SPQHLELVLRILRILPEEITD-FRRSSLSQERRRELKDALRSNSPDILEIL 87 (148)
T ss_dssp HHHHHHHHHHTTTTSTTHHHHHHHHHHT-THHHHHHHHHHHHHHHHHHHT-SHCCHSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHChhhCchHHHHHHHHhcc-chhHHHHHHHHHHHHHHHHHh-hhchhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555554 55566777777777776 477777888888888887764 2 11111 1 1122222
Q ss_pred HHHhccCCC---hhHHHHHHHHHHHHHHHh
Q 005882 87 VKIARKKPD---THVKEKILILIDTWQEAF 113 (672)
Q Consensus 87 vKLvk~k~d---~~VKeKILeLIq~WaeaF 113 (672)
.+++....+ .++..++|+.+..|-..+
T Consensus 88 ~~~l~~~~~~~~~~~~~~~L~~l~s~i~~~ 117 (148)
T PF08389_consen 88 SQILSQSSSEANEELVKAALKCLKSWISWI 117 (148)
T ss_dssp HHHHHHHCHCCHHHHHHHHHHHHHHHTTTS
T ss_pred HHHHHhhccccHHHHHHHHHHHHHHHHHhC
Confidence 223322222 788899999999998744
No 98
>KOG1511 consensus Mevalonate kinase MVK/ERG12 [Lipid transport and metabolism]
Probab=33.86 E-value=1.5e+02 Score=33.46 Aligned_cols=44 Identities=25% Similarity=0.311 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhc----C--CCHHHHHHHhhhhHHHHHHH
Q 005882 213 EVIVDLVDQCRTYKQRVVHLVNS----T--ADESLLCQGLQLNDDLQRLL 256 (672)
Q Consensus 213 Eli~EL~~qCR~mr~RV~rLIq~----t--~DEElL~eLL~lNDeLn~VL 256 (672)
|+|+.+++.|..+-.....+++. . .+|+-|.+|+++|-+|-.+|
T Consensus 259 evi~~i~~aid~is~ea~~il~~e~~~~~~~~Eq~L~eLi~iNq~LL~al 308 (397)
T KOG1511|consen 259 EVIKAIFDAIDEISLEAVWILQRENDEFSSPKEQKLEELIRINQDLLDAL 308 (397)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcccccCCCcHHHHHHHHHHHhHHHHHHh
Confidence 89999999999999999998884 2 34667999999999988776
No 99
>PRK14163 heat shock protein GrpE; Provisional
Probab=33.78 E-value=1.2e+02 Score=31.60 Aligned_cols=46 Identities=24% Similarity=0.263 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcC---CCHHHHHHHhhhhHHHHHHHHH
Q 005882 213 EVIVDLVDQCRTYKQRVVHLVNST---ADESLLCQGLQLNDDLQRLLAK 258 (672)
Q Consensus 213 Eli~EL~~qCR~mr~RV~rLIq~t---~DEElL~eLL~lNDeLn~VLek 258 (672)
+.+..+...+..+|+|+.+=++.. .-+.++.+||.+-|+|.++|..
T Consensus 61 d~~lR~~AEfeN~rkR~~kE~e~~~~~a~~~~~~~LLpVlDnLerAl~~ 109 (214)
T PRK14163 61 ADLQRLQAEYQNYRRRVERDRVTVKEIAVANLLSELLPVLDDVGRAREH 109 (214)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHhHHHHHHhc
Confidence 555677778888888888877655 6788999999999999999864
No 100
>PF02985 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT repeat is a tandemly repeated, 37-47 amino acid long module occurring in a number of cytoplasmic proteins, including the four name-giving proteins huntingtin, elongation factor 3 (EF3), the 65 Kd alpha regulatory subunit of protein phosphatase 2A (PP2A) and the yeast PI3-kinase TOR1 []. Arrays of HEAT repeats consists of 3 to 36 units forming a rod-like helical structure and appear to function as protein-protein interaction surfaces. It has been noted that many HEAT repeat-containing proteins are involved in intracellular transport processes. In the crystal structure of PP2A PR65/A [], the HEAT repeats consist of pairs of antiparallel alpha helices [].; GO: 0005515 protein binding; PDB: 3FGA_A 2PF4_C 2IAE_A 2BKU_D 3EA5_B 3ND2_A 2BPT_A 2NYL_A 2NPP_D 2PKG_B ....
Probab=33.56 E-value=1e+02 Score=21.78 Aligned_cols=30 Identities=17% Similarity=0.275 Sum_probs=25.7
Q ss_pred HHHHHHHhCCCCHHHHHHHHHHHHHHHhcc
Q 005882 40 VKGIKKRIGSRNSKVQLLALTLLETIIKNC 69 (672)
Q Consensus 40 vRaLrKRLksknp~vqLlALtLLEtcVKNC 69 (672)
+-.|.+-+.+++++|-..|+.-|..+++.|
T Consensus 2 lp~l~~~l~D~~~~VR~~a~~~l~~i~~~~ 31 (31)
T PF02985_consen 2 LPILLQLLNDPSPEVRQAAAECLGAIAEHC 31 (31)
T ss_dssp HHHHHHHHT-SSHHHHHHHHHHHHHHHHTS
T ss_pred HHHHHHHcCCCCHHHHHHHHHHHHHHHhhC
Confidence 356788899999999999999999999987
No 101
>PRK14155 heat shock protein GrpE; Provisional
Probab=33.40 E-value=96 Score=32.16 Aligned_cols=46 Identities=20% Similarity=0.190 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcC---CCHHHHHHHhhhhHHHHHHHHH
Q 005882 213 EVIVDLVDQCRTYKQRVVHLVNST---ADESLLCQGLQLNDDLQRLLAK 258 (672)
Q Consensus 213 Eli~EL~~qCR~mr~RV~rLIq~t---~DEElL~eLL~lNDeLn~VLek 258 (672)
+.+..+...|..+|+|..+=++.. .-+.++.+||.+=|+|.++|+.
T Consensus 34 d~~lR~~AefeN~RKR~~kE~e~~~~~a~~~~~~~LLpV~DnLerAl~~ 82 (208)
T PRK14155 34 DQALRYAAEAENTKRRAEREMNDARAYAIQKFARDLLGAADNLGRATAA 82 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhhHHHHHhc
Confidence 444555666677777777666544 4667777777777777777753
No 102
>PF06209 COBRA1: Cofactor of BRCA1 (COBRA1); InterPro: IPR010405 This family consists of several cofactor of BRCA1 (COBRA1) like proteins. It is thought that COBRA1 along with BRCA1 is involved in chromatin unfolding. COBRA1 is recruited to the chromosome site by the first BRCT repeat of BRCA1, and is itself sufficient to induce chromatin unfolding. BRCA1 mutations that enhance chromatin unfolding also increase its affinity for, and recruitment of, COBRA1. It is thought that that reorganisation of higher levels of chromatin structure is an important regulated step in BRCA1-mediated nuclear functions [].; GO: 0045892 negative regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=32.97 E-value=6e+02 Score=29.71 Aligned_cols=81 Identities=11% Similarity=0.089 Sum_probs=49.6
Q ss_pred HHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccc----------------hhhhhcchHHHHHHHH
Q 005882 25 ICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDI----------------VHMHVAEKNVLHEMVK 88 (672)
Q Consensus 25 ICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~----------------Fh~eVask~FLneLvK 88 (672)
+--.|..+....+-+...+-++++.++-...++.| .++++.++.. +-.++++++|..-++.
T Consensus 308 f~~~l~~~~va~~l~l~YiLh~~~~rd~~al~rlL---p~L~~~~~d~~~~d~FlH~Lv~~L~~l~~ef~~e~fc~~vfD 384 (474)
T PF06209_consen 308 FEAYLRESRVARKLALYYILHLLKKRDKNALMRLL---PALVECDDDSAFEDIFLHLLVSSLVQLSDEFSTEDFCTIVFD 384 (474)
T ss_pred HHHHHHhhHHHHHHHHHHHHHHHhcccHHHHHHHH---HHhhhhcccccccchHHHHHHHHHHhhHHhcCChhHHHHHHH
Confidence 33456777777788888899999999887665444 4444444332 2334555666655443
Q ss_pred --Hhc-cCCChhHHHHHHHHHHH
Q 005882 89 --IAR-KKPDTHVKEKILILIDT 108 (672)
Q Consensus 89 --Lvk-~k~d~~VKeKILeLIq~ 108 (672)
++. -...+.|++-+|.|+-.
T Consensus 385 ~FlL~~~~~~~~v~rhlLRLL~~ 407 (474)
T PF06209_consen 385 EFLLAGLSSKENVHRHLLRLLWY 407 (474)
T ss_pred HHHHHhcccchHHHHHHHHHHHH
Confidence 221 12356788888887633
No 103
>PF07531 TAFH: NHR1 homology to TAF; InterPro: IPR003894 The TAF homology (TAFH) or Nervy homology region 1 (NHR1) domain is a domain of 95-100 amino acids present in eukaryotic proteins of the MTG/ETO family and whereof the core ~75-80 residues occur in TAF proteins. The transcription initiation TFIID complex is composed of TATA binding protein (TBP) and a number of TBP-associated factors (TAFs). The TAFH/NHR1 domain is named after fruit fly TATA-box-associated factor 110 (TAF110), human TAF105 and TAF130, and the fruit fly protein Nervy, which is a homologue of human MTG8/ETO [, ]. The human eight twenty-one (ETO or MTG8) and related myeloid transforming gene products MTGR1 and MTG16 as well as the Nervy protein contain the NHR1-4 domains. The NHR1/TAFH domain occurs in the N-terminal part of these proteins, while a MYND-type zinc finger forms the NHR4 domain []. The TAFH/NHR1 domain can be involved in protein-protein interactions, e.g in MTG8/ETO with HSP90 and Gfi-1 []. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2P6V_A 2KNH_A 2PP4_A 2H7B_A.
Probab=32.68 E-value=55 Score=30.12 Aligned_cols=33 Identities=24% Similarity=0.440 Sum_probs=27.3
Q ss_pred hHHHHHHHHHhccCCChhHHHHHHHHHHHHHHH
Q 005882 80 KNVLHEMVKIARKKPDTHVKEKILILIDTWQEA 112 (672)
Q Consensus 80 k~FLneLvKLvk~k~d~~VKeKILeLIq~Waea 112 (672)
+.||..|+++.+++..++|.+++.+||+..-++
T Consensus 7 k~FL~tLi~las~~~spev~~~Vr~LV~~L~~~ 39 (96)
T PF07531_consen 7 KNFLNTLIQLASDKQSPEVGENVRELVQNLVDG 39 (96)
T ss_dssp HHHHHHHHHHHCCSC-CCHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHhcCCCChHHHHHHHHHHHHHHcC
Confidence 689999999999877778888888888887764
No 104
>KOG0593 consensus Predicted protein kinase KKIAMRE [General function prediction only]
Probab=32.64 E-value=1e+02 Score=34.38 Aligned_cols=68 Identities=21% Similarity=0.323 Sum_probs=49.9
Q ss_pred HHHHHHHHH--HHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHH
Q 005882 36 AKDVVKGIK--KRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTW 109 (672)
Q Consensus 36 aKEAvRaLr--KRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~W 109 (672)
-|.|+|.|| |.|+|.| =..|+|.|=++---.+--|+++.-.|+||.+.-..=++..||..+..+|..-
T Consensus 45 kKIAlREIrmLKqLkH~N------LVnLiEVFrrkrklhLVFE~~dhTvL~eLe~~p~G~~~~~vk~~l~Q~l~ai 114 (396)
T KOG0593|consen 45 KKIALREIRMLKQLKHEN------LVNLIEVFRRKRKLHLVFEYCDHTVLHELERYPNGVPSELVKKYLYQLLKAI 114 (396)
T ss_pred HHHHHHHHHHHHhcccch------HHHHHHHHHhcceeEEEeeecchHHHHHHHhccCCCCHHHHHHHHHHHHHHh
Confidence 378899876 5677874 3578999988863333347889999999998766545567888888877643
No 105
>KOG2236 consensus Uncharacterized conserved protein [Function unknown]
Probab=32.41 E-value=2.1e+02 Score=33.10 Aligned_cols=25 Identities=16% Similarity=0.130 Sum_probs=14.3
Q ss_pred CCCCCCcCCCCCCCCCccC-CCCCCCC
Q 005882 452 PAWNGQLALPQPTSPAYGM-QSGGSLP 477 (672)
Q Consensus 452 ~~~~~~~~~~~~~~~~~~~-~~~~~~p 477 (672)
.-||++... ++..-.|+- ++.-.+.
T Consensus 359 ~ean~~Ssn-~p~~~~y~~r~~~~gf~ 384 (483)
T KOG2236|consen 359 GEANRTSSN-QPAPQMYRGRDQNRGFK 384 (483)
T ss_pred ccccccccc-CCcccccCCcccccCCC
Confidence 479987776 444444544 4444455
No 106
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=32.38 E-value=2.3e+02 Score=34.52 Aligned_cols=81 Identities=16% Similarity=0.279 Sum_probs=50.7
Q ss_pred CCHHHHHHHHHHHhCCCCH--HHHHHHHHHHHHHHhccccchhhhhcch-HHHHHHHHHhcc----------C-CChhHH
Q 005882 34 GQAKDVVKGIKKRIGSRNS--KVQLLALTLLETIIKNCGDIVHMHVAEK-NVLHEMVKIARK----------K-PDTHVK 99 (672)
Q Consensus 34 ~~aKEAvRaLrKRLksknp--~vqLlALtLLEtcVKNCG~~Fh~eVask-~FLneLvKLvk~----------k-~d~~VK 99 (672)
+++-|.+.+|.+-|...+. -.=+-=|.|+.-++-||-.++....+=+ .|--.|.+|+.. + .....|
T Consensus 462 ~aa~EI~eci~eSlt~~~t~~~kKiarLyLvsDIL~N~sarv~nas~YR~~FEa~L~~Ifd~l~~~yr~I~gRIkaE~fk 541 (877)
T KOG0151|consen 462 DAAGEIVECITESLTNKETPLPKKIARLYLVSDILHNSSARVANASAYRKSFEATLEDIFDDLNDLYRSIGGRIKAEAFK 541 (877)
T ss_pred hhHHHHHHHHHHHHhccCCcchhHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHH
Confidence 4577888888888865321 1122335677777889877655433322 222224444432 1 335789
Q ss_pred HHHHHHHHHHHHHhC
Q 005882 100 EKILILIDTWQEAFG 114 (672)
Q Consensus 100 eKILeLIq~WaeaF~ 114 (672)
+||+.+|+.|.+.|.
T Consensus 542 qRV~kVirvWedW~i 556 (877)
T KOG0151|consen 542 QRVMKVIRVWEDWAI 556 (877)
T ss_pred HHHHHHHHHHHHHHh
Confidence 999999999999975
No 107
>KOG2021 consensus Nuclear mRNA export factor receptor LOS1/Exportin-t (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport; Translation, ribosomal structure and biogenesis]
Probab=32.31 E-value=3.1e+02 Score=33.95 Aligned_cols=92 Identities=15% Similarity=0.244 Sum_probs=63.8
Q ss_pred HHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhc---cccchhhhhcchHHHHHHHHH-hcc---C
Q 005882 21 MNIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKN---CGDIVHMHVAEKNVLHEMVKI-ARK---K 93 (672)
Q Consensus 21 ~ileICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKN---CG~~Fh~eVask~FLneLvKL-vk~---k 93 (672)
..+++|.-|+.++.+.+.|+.++..|- ++++++..+|..|+-+|+- --.....++-.+....-+.-. +.+ +
T Consensus 24 qA~~y~~qiKsSp~aw~Icie~l~~~t--s~d~vkf~clqtL~e~vrekyne~nl~elqlvR~sv~swlk~qvl~ne~~~ 101 (980)
T KOG2021|consen 24 QAIEYLNQIKSSPNAWEICIELLINET--SNDLVKFYCLQTLIELVREKYNEANLNELQLVRFSVTSWLKFQVLGNEQTK 101 (980)
T ss_pred HHHHHHHhhcCCccHHHHHHHHHHhhc--ccchhhhhhHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHhCcccCC
Confidence 578999999999999999999998887 7899999999999999872 223344444444444333332 222 2
Q ss_pred CChhHHHHHHHHH---------HHHHHHhC
Q 005882 94 PDTHVKEKILILI---------DTWQEAFG 114 (672)
Q Consensus 94 ~d~~VKeKILeLI---------q~WaeaF~ 114 (672)
-+.-|+.|+.+++ ..|..-|-
T Consensus 102 ~p~fi~Nk~aqvlttLf~~eYp~~WnsfF~ 131 (980)
T KOG2021|consen 102 LPDFIMNKIAQVLTTLFMLEYPDCWNSFFD 131 (980)
T ss_pred CChHHHHHHHHHHHHHHHHHhhhhhHHHHH
Confidence 3456787776655 45666654
No 108
>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []. It is also involved in sporulation [].
Probab=31.90 E-value=6.1e+02 Score=26.70 Aligned_cols=107 Identities=10% Similarity=0.073 Sum_probs=59.1
Q ss_pred HHHHHHHcCCCC-CCcCHHHHHHHH-HHHhCCCCC-HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccc-----cchh
Q 005882 3 NSMVDRATSDML-IGPDWAMNIEIC-DMLNHDPGQ-AKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCG-----DIVH 74 (672)
Q Consensus 3 ~~lIekATse~l-~~pDW~~ileIC-D~In~~~~~-aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG-----~~Fh 74 (672)
++.+.++..... .+..|..+++.. +.+...+.. .+..-+.|..|+.....+ +....|+..++-... ..-.
T Consensus 141 ~~~L~~mi~~~~~~e~~~~~~l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~~~--~~e~~vl~~~~~~~~~~~~~~~~~ 218 (278)
T PF08631_consen 141 EEILMRMIRSVDHSESNFDSILHHIKQLAEKSPELAAFCLDYLLLNRFKSSEDQ--WLEKLVLTRVLLTTQSKDLSSSEK 218 (278)
T ss_pred HHHHHHHHHhcccccchHHHHHHHHHHHHhhCcHHHHHHHHHHHHHHhCCChhH--HHHHHHHHHHHHHcCCccccchhH
Confidence 345556666655 677888877766 445555543 455667788888755333 333333333333222 2211
Q ss_pred hhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHHH
Q 005882 75 MHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQEA 112 (672)
Q Consensus 75 ~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~Waea 112 (672)
.+.. .+|++.+.+.....-..+-..-+..||=.++..
T Consensus 219 i~~l-~~~~~~v~~~~~~~ls~~~~~a~~~LLW~~~~~ 255 (278)
T PF08631_consen 219 IESL-EELLSIVEHSLGKQLSAEAASAIHTLLWNKGKK 255 (278)
T ss_pred HHHH-HHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Confidence 2222 357776666666656666666666666555554
No 109
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=31.78 E-value=2.4e+02 Score=25.57 Aligned_cols=64 Identities=17% Similarity=0.270 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHH
Q 005882 36 AKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKI 102 (672)
Q Consensus 36 aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKI 102 (672)
-++-++-|-+-+...+.+|-+.|.+.|-.++|.++..+-.. -.+..+.|.|++.. +++.||.-+
T Consensus 25 l~~Il~pVL~~~~D~d~rVRy~AcEaL~ni~k~~~~~~l~~--f~~IF~~L~kl~~D-~d~~Vr~~a 88 (97)
T PF12755_consen 25 LDEILPPVLKCFDDQDSRVRYYACEALYNISKVARGEILPY--FNEIFDALCKLSAD-PDENVRSAA 88 (97)
T ss_pred HHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHcC-CchhHHHHH
Confidence 35666777777789999999999999999999997755432 23456666666665 677888755
No 110
>PF12210 Hrs_helical: Hepatocyte growth factor-regulated tyrosine kinase substrate; InterPro: IPR024641 This domain comprises the helical region of hepatocyte growth factor-regulated tyrosine kinase substrate (HRS). It is approximately 100 amino acids in length. Hrs, together with signal transducing adaptor molecule (STAM), forms the ESCRT-0 complex, which sorts ubiquitinated cell surface receptors to lysosomes for degradation []. ; PDB: 3F1I_H.
Probab=31.78 E-value=1.3e+02 Score=27.75 Aligned_cols=51 Identities=4% Similarity=0.233 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHHHH-HhcCCCCh---HHHHHHHHHHHHHHHHHHHHHhhcCCCH
Q 005882 189 IQNARGIMDVLAEML-NALDPNNK---EEVIVDLVDQCRTYKQRVVHLVNSTADE 239 (672)
Q Consensus 189 Le~ak~nvkLL~EML-~~l~P~~~---eEli~EL~~qCR~mr~RV~rLIq~t~DE 239 (672)
+...+..+++|.+=+ ++...|.. |..++.||.+.-.|.++|+++|++.+|.
T Consensus 4 ~~~l~~~v~if~nRmksns~RGrsIanDsaVqsLF~~lt~mH~~LL~~i~~~ee~ 58 (96)
T PF12210_consen 4 CNTLRSSVEIFVNRMKSNSSRGRSIANDSAVQSLFQTLTAMHPQLLKYIQEQEEK 58 (96)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTT--GGG-HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhHhcCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456778888887744 44444432 3899999999999999999999876543
No 111
>cd08777 Death_RIP1 Death Domain of Receptor-Interacting Protein 1. Death domain (DD) found in Receptor-Interacting Protein 1 (RIP1) and related proteins. RIP kinases serve as essential sensors of cellular stress. Vertebrates contain several types containing a homologous N-terminal kinase domain and varying C-terminal domains. RIP1 harbors a C-terminal DD, which binds death receptors (DRs) including TNF receptor 1, Fas, TNF-related apoptosis-inducing ligand receptor 1 (TRAILR1), and TRAILR2. It also interacts with other DD-containing adaptor proteins such as TRADD and FADD. RIP1 plays a crucial role in determining a cell's fate, between survival or death, following exposure to stress signals. It is important in the signaling of NF-kappaB and MAPKs, and it links DR-associated signaling to reactive oxygen species (ROS) production. Abnormal RIP1 function may result in ROS accumulation affecting inflammatory responses, innate immunity, stress responses, and cell survival. In general, DDs ar
Probab=31.59 E-value=62 Score=28.78 Aligned_cols=69 Identities=14% Similarity=0.129 Sum_probs=41.9
Q ss_pred HHHHHhccccchhhhhcchHHHHHHHHHhccCC-ChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHHh
Q 005882 62 LETIIKNCGDIVHMHVAEKNVLHEMVKIARKKP-DTHVKEKILILIDTWQEAFGGPRARYPQYYAAYQELLRA 133 (672)
Q Consensus 62 LEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~-d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~Lkrk 133 (672)
|+.+..|-|..+....-.=.|-+.=++.+.... ...+++++.++|..|....+.. ...+..+.+.|++-
T Consensus 5 l~~l~~~lG~~Wk~lar~LG~s~~eI~~ie~~~~r~~~~eq~~~mL~~W~~r~g~~---~ATv~~L~~aL~~~ 74 (86)
T cd08777 5 LDLLRENLGKKWKRCARKLGFTESEIEEIDHDYERDGLKEKVHQMLHKWKMKEGSK---GATVGKLAQALEGC 74 (86)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHhcccCCHHHHHHHHHHHHHHccCCC---CcHHHHHHHHHHHc
Confidence 556667777766644444445554444454332 3458999999999999987532 12355555555543
No 112
>PF14500 MMS19_N: Dos2-interacting transcription regulator of RNA-Pol-II
Probab=31.56 E-value=2.3e+02 Score=30.17 Aligned_cols=63 Identities=10% Similarity=0.218 Sum_probs=43.5
Q ss_pred CCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHhC
Q 005882 50 RNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQEAFG 114 (672)
Q Consensus 50 knp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF~ 114 (672)
....+-+..+.||+.++.|-....+ .++ .+|+..++.++....|++---.+.+++..-...|.
T Consensus 94 ~~q~~R~~~~~ll~~l~~~~~~~l~-~~~-~~fv~~~i~~~~gEkDPRnLl~~F~l~~~i~~~~~ 156 (262)
T PF14500_consen 94 LPQSTRYAVYQLLDSLLENHREALQ-SMG-DDFVYGFIQLIDGEKDPRNLLLSFKLLKVILQEFD 156 (262)
T ss_pred hhHHHHHHHHHHHHHHHHHhHHHHH-hch-hHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHhcc
Confidence 3455556778899999999654443 344 58999999999876777665566666665555554
No 113
>PF12830 Nipped-B_C: Sister chromatid cohesion C-terminus
Probab=31.20 E-value=1.9e+02 Score=28.89 Aligned_cols=65 Identities=22% Similarity=0.359 Sum_probs=51.9
Q ss_pred HHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHhC
Q 005882 43 IKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQEAFG 114 (672)
Q Consensus 43 LrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF~ 114 (672)
|.+-..+.+..+.+.|+.+|+.+++.+ .+.=.+.+-.|+.|... ++..|++++..++..-.+.+.
T Consensus 13 Il~~~~~~~~~vr~~Al~~l~~il~qG------LvnP~~cvp~lIAL~ts-~~~~ir~~A~~~l~~l~eK~~ 77 (187)
T PF12830_consen 13 ILELCLSSDDSVRLAALQVLELILRQG------LVNPKQCVPTLIALETS-PNPSIRSRAYQLLKELHEKHE 77 (187)
T ss_pred HHHHHhCCCHHHHHHHHHHHHHHHhcC------CCChHHHHhHhhhhhCC-CChHHHHHHHHHHHHHHHHhH
Confidence 344446899999999999999999985 23445677788888776 788999999999988887654
No 114
>PF11864 DUF3384: Domain of unknown function (DUF3384); InterPro: IPR024584 This entry represents the N-terminal domain of tuberin which is functionally uncharacterised.
Probab=31.07 E-value=2.8e+02 Score=31.73 Aligned_cols=93 Identities=18% Similarity=0.264 Sum_probs=56.7
Q ss_pred HHHHHHHHHHHhCCCCCH-HHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHhcccc-------chhhhhcch-------HH
Q 005882 19 WAMNIEICDMLNHDPGQA-KDVVKGIKKRIGSR-NSKVQLLALTLLETIIKNCGD-------IVHMHVAEK-------NV 82 (672)
Q Consensus 19 W~~ileICD~In~~~~~a-KEAvRaLrKRLksk-np~vqLlALtLLEtcVKNCG~-------~Fh~eVask-------~F 82 (672)
...+.+||+.|..-+-.+ .+...+.+-=|... .......+|.||.+|++-... .|...|.+. .+
T Consensus 8 ~~a~~~l~~~i~~~~~~~i~~iW~~~~DLi~~~~p~e~R~~~~~ll~~~i~~~~~~~~~~R~~fF~~I~~~~~~~d~~~~ 87 (464)
T PF11864_consen 8 IKAAEELCESIQKYPLSSIEEIWYAAKDLIDPNQPSEARRAALELLIACIKRQDSSSGLMRAEFFRDISDPSNDDDFDLR 87 (464)
T ss_pred HHHHHHHHHHHHhCCchHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHhcCCCchhHHHH
Confidence 456788999999866544 45555555555554 355677889999999998876 233334322 33
Q ss_pred HHHHHHHhccCCCh-hHHHHHHHHHHHHHH
Q 005882 83 LHEMVKIARKKPDT-HVKEKILILIDTWQE 111 (672)
Q Consensus 83 LneLvKLvk~k~d~-~VKeKILeLIq~Wae 111 (672)
|+.|+.|.+...+- ..-+.|..+|..|-.
T Consensus 88 l~aL~~LT~~Grdi~~~~~~i~~~L~~wl~ 117 (464)
T PF11864_consen 88 LEALIALTDNGRDIDFFEYEIGPFLLSWLE 117 (464)
T ss_pred HHHHHHHHcCCcCchhcccchHHHHHHHHH
Confidence 44444444443332 234556666666664
No 115
>PRK14147 heat shock protein GrpE; Provisional
Probab=31.05 E-value=1.3e+02 Score=30.33 Aligned_cols=45 Identities=22% Similarity=0.216 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcC---CCHHHHHHHhhhhHHHHHHHH
Q 005882 213 EVIVDLVDQCRTYKQRVVHLVNST---ADESLLCQGLQLNDDLQRLLA 257 (672)
Q Consensus 213 Eli~EL~~qCR~mr~RV~rLIq~t---~DEElL~eLL~lNDeLn~VLe 257 (672)
+.+..+...|..+|+|+.+-++.. ..+.++.+||.+-|+|.++|.
T Consensus 39 d~~lR~~Ad~eN~rkR~~kE~e~~~~~a~~~~~~~lLpv~DnlerAl~ 86 (172)
T PRK14147 39 ADALRERADLENQRKRIARDVEQARKFANEKLLGELLPVFDSLDAGLT 86 (172)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHh
Confidence 444566677888888888877654 578899999999999999986
No 116
>KOG1077 consensus Vesicle coat complex AP-2, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.02 E-value=1.5e+02 Score=36.26 Aligned_cols=72 Identities=11% Similarity=0.250 Sum_probs=51.2
Q ss_pred HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHH
Q 005882 36 AKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQE 111 (672)
Q Consensus 36 aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~Wae 111 (672)
-..|+..|.+-|.|+-.+.-++||+-+-.|.. ..|-.+.-+++ .+.++..++...|..||+|+++|++...+
T Consensus 327 l~~~~~~Lg~fls~rE~NiRYLaLEsm~~L~s---s~~s~davK~h-~d~Ii~sLkterDvSirrravDLLY~mcD 398 (938)
T KOG1077|consen 327 LSRAVNQLGQFLSHRETNIRYLALESMCKLAS---SEFSIDAVKKH-QDTIINSLKTERDVSIRRRAVDLLYAMCD 398 (938)
T ss_pred HHHHHHHHHHHhhcccccchhhhHHHHHHHHh---ccchHHHHHHH-HHHHHHHhccccchHHHHHHHHHHHHHhc
Confidence 45678888888889988888888755544433 24444444444 77778778866788899999999887654
No 117
>smart00549 TAFH TAF homology. Domain in Drosophila nervy, CBFA2T1, human TAF105, human TAF130, and Drosophila TAF110. Also known as nervy homology region 1 (NHR1).
Probab=30.98 E-value=71 Score=29.22 Aligned_cols=33 Identities=15% Similarity=0.303 Sum_probs=26.9
Q ss_pred hHHHHHHHHHhccCCChhHHHHHHHHHHHHHHH
Q 005882 80 KNVLHEMVKIARKKPDTHVKEKILILIDTWQEA 112 (672)
Q Consensus 80 k~FLneLvKLvk~k~d~~VKeKILeLIq~Waea 112 (672)
++||..|+++.++...++|-+++.+||+..-++
T Consensus 6 k~FL~tLi~ls~~~~qpe~~~~Vr~LV~~L~~~ 38 (92)
T smart00549 6 KRFLTTLIQLSNDISQPEVAERVRTLVLGLVNG 38 (92)
T ss_pred HHHHHHHHHHhcCCCcchHHHHHHHHHHHHHhC
Confidence 689999999988755478888888888877765
No 118
>COG4342 Uncharacterized protein conserved in archaea [Function unknown]
Probab=30.79 E-value=2.9e+02 Score=29.88 Aligned_cols=78 Identities=19% Similarity=0.204 Sum_probs=49.8
Q ss_pred HhCCCCCHHHHHHHHHHHhCCCCHHHH-HHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccC---------CChhH
Q 005882 29 LNHDPGQAKDVVKGIKKRIGSRNSKVQ-LLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKK---------PDTHV 98 (672)
Q Consensus 29 In~~~~~aKEAvRaLrKRLksknp~vq-LlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k---------~d~~V 98 (672)
|......++|-+.+|++-|.+.+.+-= .-|+.++ ++=| ....|.+++|.++|.+.++.| ++.+-
T Consensus 53 i~~~~k~ardyls~l~r~ig~~~~kdKy~kA~R~f---~~fl---~~rgiise~~Ae~lrk~lk~k~~~g~dlyIp~de~ 126 (291)
T COG4342 53 IKLCGKTARDYLSALNRPIGSVREKDKYQKAYRLF---IKFL---TSRGIISEEFAEKLRKPLKVKKSNGVDLYIPSDEE 126 (291)
T ss_pred HhhhHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHH---HHHH---HHcccccHHHHHHHHHHhccCcCCCcceecCCHHH
Confidence 333344588999999999955332221 1233333 3333 123588899999999998754 34566
Q ss_pred HHHHHHHHHHHHHH
Q 005882 99 KEKILILIDTWQEA 112 (672)
Q Consensus 99 KeKILeLIq~Waea 112 (672)
..+.+++...|.+.
T Consensus 127 ir~~~~l~r~~~e~ 140 (291)
T COG4342 127 IRATEELAREYSER 140 (291)
T ss_pred HHHHHHHHHHhcch
Confidence 66778888888764
No 119
>PF12783 Sec7_N: Guanine nucleotide exchange factor in Golgi transport N-terminal
Probab=30.69 E-value=2.3e+02 Score=27.35 Aligned_cols=71 Identities=13% Similarity=0.192 Sum_probs=51.7
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHH-HhccCC-ChhHHHHHHHHHHHHHH
Q 005882 39 VVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVK-IARKKP-DTHVKEKILILIDTWQE 111 (672)
Q Consensus 39 AvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvK-Lvk~k~-d~~VKeKILeLIq~Wae 111 (672)
..++|-+-+.+.++.+-.++|.++-.|+.+-+..+..|+ .-|+..+.. ++..+. ...-|..+||.+..+-.
T Consensus 74 l~~~Ll~~~~~~~~~i~~~slri~~~l~~~~~~~Lk~el--e~~l~~i~~~il~~~~~~~~~k~~~Le~l~~l~~ 146 (168)
T PF12783_consen 74 LCPALLKNLSSSDFPIFSRSLRIFLTLLSRFRSHLKLEL--EVFLSHIILRILESDNSSLWQKELALEILRELCK 146 (168)
T ss_pred HHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHccCCCcHHHHHHHHHHHHHHHh
Confidence 334444455567788999999999999988766666555 568999776 666543 45677888888888765
No 120
>PLN03060 inositol phosphatase-like protein; Provisional
Probab=30.52 E-value=5.1e+02 Score=27.02 Aligned_cols=117 Identities=13% Similarity=0.151 Sum_probs=72.6
Q ss_pred HHHHHcCCCCCCcCHHHHHH-HHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHH--------HHHHHHhc-cccchh
Q 005882 5 MVDRATSDMLIGPDWAMNIE-ICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALT--------LLETIIKN-CGDIVH 74 (672)
Q Consensus 5 lIekATse~l~~pDW~~ile-ICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALt--------LLEtcVKN-CG~~Fh 74 (672)
..++-+...-.++|-+.|.+ ||..++.+++.-+.-++.|.+-.+..+.....-.|. |..++... .+..||
T Consensus 57 ~fd~fm~GY~Pee~~~~IF~Alc~a~~~dp~~~r~dA~~l~~~a~~~s~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~f~ 136 (206)
T PLN03060 57 VYDQLMDGYPNATDRDAIFKAYIEALGEDPDQYRKDAKKLEEWASSQSASGIADFNSGDGEVEAVLKDIAERAAGKTKFH 136 (206)
T ss_pred HHHHHHcCCCChHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCHHHHHHHHhcccccchHHHHHHHHhhcCCCcc
Confidence 44566666667788876655 999999999988888888888888877776555554 33333322 234576
Q ss_pred hhhcchHHHHHHHHHhccC--CChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHH
Q 005882 75 MHVAEKNVLHEMVKIARKK--PDTHVKEKILILIDTWQEAFGGPRARYPQYYAAYQELL 131 (672)
Q Consensus 75 ~eVask~FLneLvKLvk~k--~d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~Lk 131 (672)
- ++=|-=-|.+|+..- .++ +.+..|.+.+.=...+..+-.++|+.+.
T Consensus 137 Y---SRl~AIGL~~LLe~a~~~d~-------~~l~~l~~~L~ls~~kv~kDL~lYrsnL 185 (206)
T PLN03060 137 Y---SRFFAIGLFRLLECAKASDP-------AVLEKLSKALNVSKRSVDRDLDVYRNLL 185 (206)
T ss_pred h---HHHHHHHHHHHHHHcCCCCH-------HHHHHHHHHcCCCHHHHHhhHHHHHhHH
Confidence 3 233333377776532 233 2778888887643333344456666543
No 121
>smart00229 RasGEFN Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif. A subset of guanine nucleotide exchange factor for Ras-like small GTPases appear to possess this domain N-terminal to the RasGef (Cdc25-like) domain. The recent crystal structureof Sos shows that this domain is alpha-helical and plays a "purely structural role" (Nature 394, 337-343).
Probab=29.99 E-value=2.1e+02 Score=26.09 Aligned_cols=44 Identities=16% Similarity=0.342 Sum_probs=28.8
Q ss_pred hhhhhcchHHHHHHHHHhccCC----------ChhHHHHHHHHHHHHHHHhCCC
Q 005882 73 VHMHVAEKNVLHEMVKIARKKP----------DTHVKEKILILIDTWQEAFGGP 116 (672)
Q Consensus 73 Fh~eVask~FLneLvKLvk~k~----------d~~VKeKILeLIq~WaeaF~~~ 116 (672)
++.-+...++++.|........ ...++.||+.+|..|-+.+..+
T Consensus 36 yr~F~tp~~ll~~L~~rf~~~~~~~~~~~~~~~~~~~~rv~~~l~~Wv~~~~~d 89 (127)
T smart00229 36 YRSFITTQELLQLLLYRYNAIPPESWVERKVNPLRVKNRVLNILRHWVENYWQD 89 (127)
T ss_pred hhhhCCHHHHHHHHHHHhCCCCcHHHHHHHhhHHHHHHHHHHHHHHHHHHCCcc
Confidence 3333445566666655543211 1358999999999999998754
No 122
>smart00005 DEATH DEATH domain, found in proteins involved in cell death (apoptosis). Alpha-helical domain present in a variety of proteins with apoptotic functions. Some (but not all) of these domains form homotypic and heterotypic dimers.
Probab=29.99 E-value=1.2e+02 Score=25.89 Aligned_cols=69 Identities=13% Similarity=0.199 Sum_probs=38.5
Q ss_pred HHHHHhc-cccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHHhc
Q 005882 62 LETIIKN-CGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQEAFGGPRARYPQYYAAYQELLRAG 134 (672)
Q Consensus 62 LEtcVKN-CG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~LkrkG 134 (672)
+..+.++ -|..+......-.|-+.-+.-++......+++++.+||..|....+.. ..+..+...|++-|
T Consensus 8 ~~~l~~~~~g~~W~~la~~Lg~~~~~i~~i~~~~~~~~~~~~~~lL~~W~~~~g~~----at~~~L~~aL~~~~ 77 (88)
T smart00005 8 LAKLLDHPLGLDWRELARKLGLSEADIDQIRTEAPRDLAEQSVQLLRLWEQREGKN----ATLGTLLEALRKMG 77 (88)
T ss_pred HHHHHcCccchHHHHHHHHcCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHccchh----hHHHHHHHHHHHcC
Confidence 3344444 444444322222342332333332233468999999999999987632 34666677776655
No 123
>PF11099 M11L: Apoptosis regulator M11L like; InterPro: IPR021119 This entry includes the poxvirus familes F1 and C10. C10 proteins are apoptosis regulators, which function to modulate the apoptotic cascades and thereby favour productive viral replication. One of these, M11L inhibits mitochondrial-dependent apoptosis by mimicking and competing with host proteins for the binding and blocking of Bak and Bax, two executioner proteins []. The poxvirus F1 family are a family of conserved proteins related to Vaccinia virus protein F1L. They have no known function.; PDB: 2O42_B 2JBY_A 2JBX_B 2VTY_A.
Probab=29.97 E-value=1.6e+02 Score=29.67 Aligned_cols=65 Identities=14% Similarity=0.331 Sum_probs=41.4
Q ss_pred HHHHHHhCCCCC--HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHH
Q 005882 24 EICDMLNHDPGQ--AKDVVKGIKKRIG-SRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVK 88 (672)
Q Consensus 24 eICD~In~~~~~--aKEAvRaLrKRLk-sknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvK 88 (672)
.+||.|..+... -.+.-..|..=|. ...|.|-|-+|.||-.+++-||..........-.+++++.
T Consensus 48 ~mcd~i~~~~~S~~I~~Ikn~v~~~L~~D~rpsVkLAtISLiS~I~~k~~~~~~ti~m~~~l~~dIi~ 115 (167)
T PF11099_consen 48 SMCDIIEANDISYNIDDIKNEVIEILLSDNRPSVKLATISLISIIIEKWGNKNKTIHMDSLLSNDIID 115 (167)
T ss_dssp HHHHHHHCCCCTT-HHHHHHHHHHHCCHT--HHHHHHHHHHHHHHHHHH--HHCCCHHHHHHHHHHHH
T ss_pred HHHHHHhcccccccHHHHHHHHHHHHhccCCCceeehHHHHHHHHHHHHhhccchhhHHHHHHHHHHH
Confidence 389987765544 4777777777777 4569999999999999999885433332232233444443
No 124
>PF00531 Death: Death domain; InterPro: IPR000488 The death domain (DD) is a homotypic protein interaction module composed of a bundle of six alpha-helices. DD is related in sequence and structure to the death effector domain (DED, see IPR001875 from INTERPRO) and the caspase recruitment domain (CARD, see IPR001315 from INTERPRO), which work in similar pathways and show similar interaction properties []. DD bind each other forming oligomers. Mammals have numerous and diverse DD-containing proteins []. Within these proteins, the DD domains can be found in combination with other domains, including: CARDs, DEDs, ankyrin repeats (IPR002110 from INTERPRO), caspase-like folds, kinase domains, leucine zippers (IPR002158 from INTERPRO), leucine-rich repeats (LRR) (IPR001611 from INTERPRO), TIR domains (IPR000157 from INTERPRO), and ZU5 domains (IPR000906 from INTERPRO) []. Some DD-containing proteins are involved in the regulation of apoptosis and inflammation through their activation of caspases and NF-kappaB, which typically involves interactions with TNF (tumour necrosis factor) cytokine receptors [, ]. In humans, eight of the over 30 known TNF receptors contain DD in their cytoplasmic tails; several of these TNF receptors use caspase activation as a signalling mechanism. The DD mediates self-association of these receptors, thus giving the signal to downstream events that lead to apoptosis. Other DD-containing proteins, such as ankyrin, MyD88 and pelle, are probably not directly involved in cell death signalling. DD-containing proteins also have links to innate immunity, communicating with Toll family receptors through bipartite adapter proteins such as MyD88 [].; GO: 0005515 protein binding, 0007165 signal transduction; PDB: 3OQ9_L 3EZQ_F 1E41_A 1E3Y_A 2GF5_A 2OF5_L 3EWV_E 3G5B_A 3MOP_L 2A9I_A ....
Probab=29.48 E-value=1.3e+02 Score=25.21 Aligned_cols=66 Identities=9% Similarity=0.151 Sum_probs=34.2
Q ss_pred HHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHHh
Q 005882 63 ETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQEAFGGPRARYPQYYAAYQELLRA 133 (672)
Q Consensus 63 EtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~Lkrk 133 (672)
+.+....|..+......=.|-+.-+..+...... +++++.++|..|....... ..+..+...|++-
T Consensus 5 ~~l~~~~~~~Wk~La~~Lg~~~~~i~~i~~~~~~-~~~~~~~~L~~W~~~~~~~----at~~~L~~aL~~~ 70 (83)
T PF00531_consen 5 DLLAEDLGSDWKRLARKLGLSESEIENIEEENPD-LREQTYEMLQRWRQREGPN----ATVDQLIQALRDI 70 (83)
T ss_dssp HHHHHSHSTCHHHHHHHTTS-HHHHHHHHHHSTS-HHHHHHHHHHHHHHHHGST----SSHHHHHHHHHHT
T ss_pred HHHhhcchhhHHHHHHHhCcCHHHHHHHHHhCCC-hHHHHHHHHHHHHHhcCCC----CcHHHHHHHHHHC
Confidence 3333444444443332223433333333322333 9999999999999995432 2344455555443
No 125
>KOG1062 consensus Vesicle coat complex AP-1, gamma subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=28.91 E-value=3.9e+02 Score=33.15 Aligned_cols=95 Identities=18% Similarity=0.278 Sum_probs=57.5
Q ss_pred HhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHH
Q 005882 29 LNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDT 108 (672)
Q Consensus 29 In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~ 108 (672)
|..++..+.-=-..|-..|++.++..+.+||+|+=.+++--.- +..++||..-+.. .++++|.-|..-|..
T Consensus 341 V~~d~~avqrHr~tIleCL~DpD~SIkrralELs~~lvn~~Nv--------~~mv~eLl~fL~~-~d~~~k~~~as~I~~ 411 (866)
T KOG1062|consen 341 VQQDPTAVQRHRSTILECLKDPDVSIKRRALELSYALVNESNV--------RVMVKELLEFLES-SDEDFKADIASKIAE 411 (866)
T ss_pred hcCCcHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHhccccH--------HHHHHHHHHHHHh-ccHHHHHHHHHHHHH
Confidence 3344433333344455566777777788888888777764432 1234444444433 378899999999999
Q ss_pred HHHHhCCCCCChhHHHHHHHHHHHhc
Q 005882 109 WQEAFGGPRARYPQYYAAYQELLRAG 134 (672)
Q Consensus 109 WaeaF~~~~~~~p~~~~aY~~LkrkG 134 (672)
.++.|..+. ++ .|-.+.+-|+..|
T Consensus 412 laEkfaP~k-~W-~idtml~Vl~~aG 435 (866)
T KOG1062|consen 412 LAEKFAPDK-RW-HIDTMLKVLKTAG 435 (866)
T ss_pred HHHhcCCcc-hh-HHHHHHHHHHhcc
Confidence 999997542 22 3444445555566
No 126
>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]
Probab=28.15 E-value=1.1e+03 Score=28.18 Aligned_cols=144 Identities=16% Similarity=0.261 Sum_probs=81.1
Q ss_pred hHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHHhccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCchhhhHhhhhh
Q 005882 97 HVKEKILILIDTWQEAFGGPRARYPQYYAAYQELLRAGAVFPQRSERSAPVFTPPQTHPLTSYPQNFRNPEHQQEAAEAS 176 (672)
Q Consensus 97 ~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~LkrkGi~FP~~~e~s~piftPp~t~p~S~~P~dlr~an~~q~~~e~s 176 (672)
...++|=.||......+++ .+..+...|++|+.+||.|+...-. . +.+..++.-
T Consensus 211 ~~~e~IP~L~~e~~~~lP~---ql~~Lk~Gyr~m~~~gY~l~~~~id-~----------------------~~~~L~~~l 264 (570)
T COG4477 211 SIMERIPSLLAELQTELPG---QLQDLKAGYRDMKEEGYHLEHVNID-S----------------------RLERLKEQL 264 (570)
T ss_pred HHHHHHHHHHHHHHhhchH---HHHHHHHHHHHHHHccCCcccccHH-H----------------------HHHHHHHHH
Confidence 5678888899999999875 6889999999999999999854210 0 001000000
Q ss_pred c-cCCCCC-C----CHHHHHHHHHHHHHHHHHHHh-cCCCC-hH---HHHHHHHHHHHHHHHHHHHHhhcC-----CCHH
Q 005882 177 A-ESEFPT-L----SLTEIQNARGIMDVLAEMLNA-LDPNN-KE---EVIVDLVDQCRTYKQRVVHLVNST-----ADES 240 (672)
Q Consensus 177 ~-~~e~~s-~----~lsELe~ak~nvkLL~EML~~-l~P~~-~e---Eli~EL~~qCR~mr~RV~rLIq~t-----~DEE 240 (672)
+ ..+..+ + --.+|..+..+++.|=+.|.. +...+ -+ ..+.+-++..|..-..+..=|..+ =.|.
T Consensus 265 ~~~~~~l~~Leld~aeeel~~I~e~ie~lYd~lE~EveA~~~V~~~~~~l~~~l~k~ke~n~~L~~Eie~V~~sY~l~e~ 344 (570)
T COG4477 265 VENSELLTQLELDEAEEELGLIQEKIESLYDLLEREVEAKNVVEENLPILPDYLEKAKENNEHLKEEIERVKESYRLAET 344 (570)
T ss_pred HHHHhHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHHHHHHHHhccChh
Confidence 0 000000 0 012455566666666666543 11111 01 333444444444444444444433 2566
Q ss_pred HHHHHhhhhHHHHHHHHHHHhhhcCC
Q 005882 241 LLCQGLQLNDDLQRLLAKHESFASGK 266 (672)
Q Consensus 241 lL~eLL~lNDeLn~VLekYE~l~~g~ 266 (672)
-++.....-.+|...-..|+.+.+..
T Consensus 345 e~~~vr~~e~eL~el~~~~~~i~~~~ 370 (570)
T COG4477 345 ELGSVRKFEKELKELESVLDEILENI 370 (570)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 67777777778888777777776553
No 127
>PF13513 HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O_A 2H4M_A 2QMR_A 1QBK_B 2Z5M_A 2Z5K_A 2Z5N_A 1GCJ_B ....
Probab=28.03 E-value=76 Score=24.75 Aligned_cols=51 Identities=14% Similarity=0.260 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHH
Q 005882 53 KVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILI 106 (672)
Q Consensus 53 ~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLI 106 (672)
.+...|+..|-.+..+|+..+.. .-.+.+..|.++++. .+..||...+..|
T Consensus 2 ~vR~~A~~aLg~l~~~~~~~~~~--~~~~~~~~L~~~L~d-~~~~VR~~A~~aL 52 (55)
T PF13513_consen 2 RVRRAAAWALGRLAEGCPELLQP--YLPELLPALIPLLQD-DDDSVRAAAAWAL 52 (55)
T ss_dssp HHHHHHHHHHHCTTTTTHHHHHH--HHHHHHHHHHHHTTS-SSHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhHhcccHHHHHH--HHHHHHHHHHHHHcC-CCHHHHHHHHHHH
Confidence 45667777777788888766654 234677777777765 4559998876554
No 128
>PF08045 CDC14: Cell division control protein 14, SIN component; InterPro: IPR012535 Cdc14 is a component of the septation initiation network (SIN) and is required for the localisation and activity of Sid1. Sid1 is a protein kinase that localises asymmetrically to one spindle pole body (SPB) in anaphase disappears prior to cell separation [], [].
Probab=28.02 E-value=1.9e+02 Score=31.04 Aligned_cols=74 Identities=14% Similarity=0.152 Sum_probs=49.7
Q ss_pred HHHHHHHHHHh-CCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhcc-CCChhHHHHHHHHHHHHHH
Q 005882 37 KDVVKGIKKRI-GSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARK-KPDTHVKEKILILIDTWQE 111 (672)
Q Consensus 37 KEAvRaLrKRL-ksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~-k~d~~VKeKILeLIq~Wae 111 (672)
+-+++.|-.=| ....+.++..+|..|-.++-.+-..+. .+-.-+=+..++++++. .++.+||-||+|.+.-|=.
T Consensus 132 ~~~m~lll~LL~~~~~~~i~~a~L~tLv~iLld~p~N~r-~FE~~~Gl~~v~~llk~~~~~~~~r~K~~EFL~fyl~ 207 (257)
T PF08045_consen 132 EQNMELLLDLLSPSNPPAIQSACLDTLVCILLDSPENQR-DFEELNGLSTVCSLLKSKSTDRELRLKCIEFLYFYLM 207 (257)
T ss_pred hhhHHHHHHHhccCCCchHHHHHHHHHHHHHHcChHHHH-HHHHhCCHHHHHHHHccccccHHHhHHHHHHHHHHHc
Confidence 45667777777 456789999999666665555433333 23333345667777875 4788999999999876643
No 129
>cd08317 Death_ank Death domain associated with Ankyrins. Death Domain (DD) associated with Ankyrins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. Ankyrins function as adaptor proteins and they interact, through ANK repeats, with structurally diverse membrane proteins, including ion channels/pumps, calcium release channels, and cell adhesion molecules. They play critical roles in the proper expression and membrane localization of these proteins. In mammals, this family includes ankyrin-R for restricted (or ANK1), ankyrin-B for broadly expressed (or ANK2) and ankyrin-G for general or giant (or ANK3). They are expressed in different combinations in many tissues and play non-overlapping functions. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-associati
Probab=27.89 E-value=1.2e+02 Score=26.42 Aligned_cols=68 Identities=13% Similarity=0.148 Sum_probs=36.6
Q ss_pred HHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHHhc
Q 005882 63 ETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQEAFGGPRARYPQYYAAYQELLRAG 134 (672)
Q Consensus 63 EtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~LkrkG 134 (672)
..+.++-|..+......=.|-+.=+..++...+..+.+++.++|..|.+..+.. ..+..+...|++-|
T Consensus 8 ~~ia~~lG~dW~~LAr~Lg~~~~dI~~i~~~~~~~~~eq~~~mL~~W~~r~g~~----at~~~L~~AL~~i~ 75 (84)
T cd08317 8 ADISNLLGSDWPQLARELGVSETDIDLIKAENPNSLAQQAQAMLKLWLEREGKK----ATGNSLEKALKKIG 75 (84)
T ss_pred HHHHHHHhhHHHHHHHHcCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHhcCCc----chHHHHHHHHHHcC
Confidence 334444455444333323333322233333334457899999999999987642 23445555555433
No 130
>TIGR01385 TFSII transcription elongation factor S-II. This model represents eukaryotic transcription elongation factor S-II. This protein allows stalled RNA transcription complexes to perform a cleavage of the nascent RNA and restart at the newly generated 3-prime end.
Probab=27.72 E-value=1.3e+02 Score=32.90 Aligned_cols=26 Identities=19% Similarity=0.509 Sum_probs=21.7
Q ss_pred hccCCChhHHHHHHHHHHHHHHHhCC
Q 005882 90 ARKKPDTHVKEKILILIDTWQEAFGG 115 (672)
Q Consensus 90 vk~k~d~~VKeKILeLIq~WaeaF~~ 115 (672)
++++.+.+|+..+.+||..|...+..
T Consensus 52 lrkh~~~~I~~lAk~li~~WK~~v~~ 77 (299)
T TIGR01385 52 LRKHPNEDISKLAKKIIKSWKKVVDK 77 (299)
T ss_pred HHcCCcHHHHHHHHHHHHHHHHHHhh
Confidence 34457889999999999999998753
No 131
>cd06224 REM Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal domain (RasGef_N), also called REM domain (Ras exchanger motif). This domain is common in nucleotide exchange factors for Ras-like small GTPases and is typically found immediately N-terminal to the RasGef (Cdc25-like) domain. REM contacts the GTPase and is assumed to participate in the catalytic activity of the exchange factor. Proteins with the REM domain include Sos1 and Sos2, which relay signals from tyrosine-kinase mediated signalling to Ras, RasGRP1-4, RasGRF1,2, CNrasGEF, and RAP-specific nucleotide exchange factors, to name a few.
Probab=27.68 E-value=2.5e+02 Score=25.07 Aligned_cols=45 Identities=13% Similarity=0.335 Sum_probs=31.6
Q ss_pred chhhhhcchHHHHHHHHHhccCC-------------ChhHHHHHHHHHHHHHHHhCCC
Q 005882 72 IVHMHVAEKNVLHEMVKIARKKP-------------DTHVKEKILILIDTWQEAFGGP 116 (672)
Q Consensus 72 ~Fh~eVask~FLneLvKLvk~k~-------------d~~VKeKILeLIq~WaeaF~~~ 116 (672)
.++.-+...++++.|+....... ...+|.||+.+|..|-+.+..+
T Consensus 27 TyrsF~s~~~ll~~L~~rf~~~~~~~~~~~~~~~~~~~~~~~~v~~~l~~Wv~~~~~d 84 (122)
T cd06224 27 TYRSFTTPTELLEKLIERYEIAPPENLEYNDWDKKKSKPIRLRVLNVLRTWVENYPYD 84 (122)
T ss_pred HhhhhCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc
Confidence 34444556777777776654321 2358999999999999998764
No 132
>PF11083 Streptin-Immun: Lantibiotic streptin immunity protein; InterPro: IPR021112 Streptococcal species produce a lantibiotic, streptin, in a similar manner to the production of nisin and subtilin by other lactic acid bacteria, in order to compete against competing bacteria within the environment []. The immunity protein protects the bacterium from destruction by its own lantibiotic. In general, there is little homology between the immunity proteins of different genera of bacteria.
Probab=26.62 E-value=2.6e+02 Score=26.01 Aligned_cols=32 Identities=19% Similarity=0.124 Sum_probs=26.7
Q ss_pred hcCCCHHHHHHHhhhhHHHHHHHHHHHhhhcC
Q 005882 234 NSTADESLLCQGLQLNDDLQRLLAKHESFASG 265 (672)
Q Consensus 234 q~t~DEElL~eLL~lNDeLn~VLekYE~l~~g 265 (672)
+.++=|..-.++..+..+|..-+.+||.+++.
T Consensus 50 esitle~ve~Ei~~lQ~qL~~~ldeYE~~Vrr 81 (99)
T PF11083_consen 50 ESITLEQVEKEIRELQNQLGLYLDEYEKLVRR 81 (99)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34466777788999999999999999998765
No 133
>PF03395 Pox_P4A: Poxvirus P4A protein; InterPro: IPR005058 P4A is one of the most abundant structural proteins in the Vaccinia virion.; GO: 0005198 structural molecule activity, 0019012 virion
Probab=26.47 E-value=3.4e+02 Score=33.82 Aligned_cols=70 Identities=17% Similarity=0.174 Sum_probs=45.1
Q ss_pred HHHHHHhCCCCHHHHHHHHHHHHHHHh----------ccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHH
Q 005882 41 KGIKKRIGSRNSKVQLLALTLLETIIK----------NCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQ 110 (672)
Q Consensus 41 RaLrKRLksknp~vqLlALtLLEtcVK----------NCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~Wa 110 (672)
-|||+++...+...+-.+|.-.-...| +|.....++.+ +-+..++||++-+...+||-.+||-...+.
T Consensus 729 ~aLK~~~~K~n~~~vs~~lnsva~~s~kqL~~ik~~tc~~a~~fK~la--~sIytiErif~~kisDdVKi~ileKyk~f~ 806 (888)
T PF03395_consen 729 NALKETYSKDNTFIVSQALNSVAAISEKQLNDIKQSTCRMACIFKNLA--QSIYTIERIFNAKISDDVKISILEKYKNFS 806 (888)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH--HHHHHHHHHhCCccchhhhhHHHHHHHHHH
Confidence 346777766666666666644433333 33444444454 356678889988889999999998876665
Q ss_pred HH
Q 005882 111 EA 112 (672)
Q Consensus 111 ea 112 (672)
+-
T Consensus 807 ~i 808 (888)
T PF03395_consen 807 DI 808 (888)
T ss_pred HH
Confidence 53
No 134
>COG3002 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.46 E-value=5.6e+02 Score=31.28 Aligned_cols=131 Identities=13% Similarity=0.157 Sum_probs=82.1
Q ss_pred HHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCC--HHHHHHHHHHHhCCCCHHHHHHHH--HHHHHHHhccc----cchh
Q 005882 3 NSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQ--AKDVVKGIKKRIGSRNSKVQLLAL--TLLETIIKNCG----DIVH 74 (672)
Q Consensus 3 ~~lIekATse~l~~pDW~~ileICD~In~~~~~--aKEAvRaLrKRLksknp~vqLlAL--tLLEtcVKNCG----~~Fh 74 (672)
+.+|..|-+-...+++. ...++-+++++.... -....|.|.+-++.......+.-= .|+|.|+--|. +..|
T Consensus 60 ~~mi~sa~nkg~Ide~~-~~~~lk~~l~s~~~~i~~d~~lr~i~~~k~~~~l~~~l~~~n~dlvekll~~~s~~p~d~~e 138 (880)
T COG3002 60 DRMIASAPNKGEIDEPF-AAAELKQLLASHMYMIPSDYHLRWINKQKQLADLPQALAEQNSDLVEKLLIEASQQPTDPSE 138 (880)
T ss_pred HHHHHhcccccccChHH-HHHHHHHHHhccCCCCcHHHHHHHHHHHhhcccchHHHHhhchhHHHHHHHHHhcCCccccc
Confidence 56777777777777777 667788888875533 456778888877766555444433 56665555554 2333
Q ss_pred hhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHhCCC-------CCChhHHHHHHHHHHHhccCC
Q 005882 75 MHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQEAFGGP-------RARYPQYYAAYQELLRAGAVF 137 (672)
Q Consensus 75 ~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF~~~-------~~~~p~~~~aY~~LkrkGi~F 137 (672)
.-. -|++.|..-+.....+.+-+.|-..|..|...|-++ +.+...|+.+|+.|......|
T Consensus 139 n~~---~~~~t~ss~idle~ge~ln~~vn~qiik~s~~ylD~~qa~wtMP~reegffrawrelaq~dl~~ 205 (880)
T COG3002 139 NWP---LLCDTVSSRIDLEHGEALNDAVNHQIIKWSKLYLDHHQADWTMPDREEGFFRAWRELAQHDLLL 205 (880)
T ss_pred ccc---cccccHHHHhhhhcchHHHHHHHHHHHHHHHHHHhcccccccCCcchhHHHHHHHHHHHhChhh
Confidence 222 233333333333345678888888889999887653 345567999999886544433
No 135
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=26.36 E-value=1e+02 Score=23.69 Aligned_cols=34 Identities=26% Similarity=0.357 Sum_probs=22.5
Q ss_pred HHHHHhhcC-CCHHHHHHHhhhhH-HHHHHHHHHHh
Q 005882 228 RVVHLVNST-ADESLLCQGLQLND-DLQRLLAKHES 261 (672)
Q Consensus 228 RV~rLIq~t-~DEElL~eLL~lND-eLn~VLekYE~ 261 (672)
+|.+++.-| .+++.-..+|+.|+ +|.+|++.|=.
T Consensus 3 ~i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~~y~~ 38 (43)
T PF14555_consen 3 KIAQFMSITGADEDVAIQYLEANNWDLEAAVNAYFD 38 (43)
T ss_dssp HHHHHHHHH-SSHHHHHHHHHHTTT-HHHHHHHHHH
T ss_pred HHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 334443333 37777778888888 99999998853
No 136
>PF14663 RasGEF_N_2: Rapamycin-insensitive companion of mTOR RasGEF_N domain
Probab=26.29 E-value=1.4e+02 Score=27.68 Aligned_cols=90 Identities=16% Similarity=0.203 Sum_probs=54.2
Q ss_pred HHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHH--------HhccCCCh---hHHHHHHHH
Q 005882 37 KDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVK--------IARKKPDT---HVKEKILIL 105 (672)
Q Consensus 37 KEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvK--------Lvk~k~d~---~VKeKILeL 105 (672)
+=+++.|.+.|...++.|...|+.+|+-+...- ......|..+..|+-|.+ +++...-. .=..-|-..
T Consensus 7 ~w~i~lLv~QL~D~~~~V~~~A~~iL~e~c~~~-~~le~~v~~~p~l~~L~~~g~~Ll~~~lS~~~Gf~~L~~~~~v~~E 85 (115)
T PF14663_consen 7 DWGIELLVTQLYDPSPEVVAAALEILEEACEDK-EYLEYLVSLRPSLDHLGDIGSPLLLRFLSTPSGFRYLNEIGYVEKE 85 (115)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhch-hhHHHHHHcCcHHHHHHHcCHHHHHHHHcchHHHHHhcchhHHHHH
Confidence 457899999999999999999999987655433 444444544555555543 22211111 112346778
Q ss_pred HHHHHHHhCCCCCChhHHHHHHHHHHHh
Q 005882 106 IDTWQEAFGGPRARYPQYYAAYQELLRA 133 (672)
Q Consensus 106 Iq~WaeaF~~~~~~~p~~~~aY~~Lkrk 133 (672)
++.|-..+. ..|...++...++
T Consensus 86 l~~W~~~~N------~~YV~~vE~~l~~ 107 (115)
T PF14663_consen 86 LDKWFESFN------KEYVKLVEEFLSE 107 (115)
T ss_pred HHHHHHccc------HHHHHHHHHHHHH
Confidence 888987653 2355555544443
No 137
>PF05400 FliT: Flagellar protein FliT; InterPro: IPR008622 This entry represents the bacterial flagellar FliT family of dual-function proteins. Together with FlgN, FliT has been proposed to act as a substrate-specific export chaperone, facilitating the incorporation of the enterobacterial hook-associated axial proteins (HAPs) FlgK/FlgL and FliD into the growing flagellum []. FliT has also been shown to act as a transcriptional regulator in Salmonella typhimurium [].; GO: 0019861 flagellum; PDB: 3A7M_A 3H3M_B 3NKZ_C 2G42_A 2FZT_B.
Probab=26.18 E-value=1.6e+02 Score=24.64 Aligned_cols=59 Identities=22% Similarity=0.370 Sum_probs=36.8
Q ss_pred HHHhcCCCChHHHHHHHHHHHHHHHHHHHH---HhhcC---CCHHHHHHHhhhhHHHHHHHHHHHh
Q 005882 202 MLNALDPNNKEEVIVDLVDQCRTYKQRVVH---LVNST---ADESLLCQGLQLNDDLQRLLAKHES 261 (672)
Q Consensus 202 ML~~l~P~~~eEli~EL~~qCR~mr~RV~r---LIq~t---~DEElL~eLL~lNDeLn~VLekYE~ 261 (672)
||....-++. |.+.+|.+.|..+-.+|+. .+... ...+.|..||.++.+|...++.-..
T Consensus 1 ml~aa~~~dW-e~l~~l~~~R~~ll~~l~~~~~~~~~~~~~~~~~~l~~Il~~d~~i~~ll~~~~~ 65 (84)
T PF05400_consen 1 MLEAAEAGDW-EELEELLDERQELLERLFEEQAALSPPEQEELRELLRRILELDQEIRALLQARRD 65 (84)
T ss_dssp HHHHHHCT-H-HHHHHHHHHHHHHHHHHHHCHTTS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ChHHHhhCcH-HHHHHHHHHHHHHHHHHhhccccCChhhHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 4444443444 7788888888877777776 11111 2336778888888888887765543
No 138
>cd08805 Death_ank1 Death domain of Ankyrin-1. Death Domain (DD) of the human protein ankyrin-1 (ANK-1) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-1, also called ankyrin-R (for restricted), is found in brain, muscle, and erythrocytes and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. It plays a critical nonredundant role in erythroid development and is associated with hereditary spherocytosis (HS), a common disorder of the red cell membrane. The small alternatively-spliced variant, sANK-1, found in striated muscle and concentrated in the sarcoplasmic reticulum (SR) binds obscurin and titin, which facilitates the anchoring of the network SR to the contractile apparatus. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common featur
Probab=26.16 E-value=1.5e+02 Score=26.38 Aligned_cols=69 Identities=16% Similarity=0.169 Sum_probs=46.4
Q ss_pred HHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHHhc
Q 005882 62 LETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQEAFGGPRARYPQYYAAYQELLRAG 134 (672)
Q Consensus 62 LEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~LkrkG 134 (672)
|+.+.+|-|.........-.|-+.=+..++...+..+.+++..+|..|.+..+.. ..+..++..|++-|
T Consensus 7 l~~Ia~~LG~dW~~Lar~L~vs~~dI~~I~~e~p~~l~~Q~~~~L~~W~~r~g~~----At~~~L~~AL~~i~ 75 (84)
T cd08805 7 MAVIREHLGLSWAELARELQFSVEDINRIRVENPNSLLEQSTALLNLWVDREGEN----AKMSPLYPALYSID 75 (84)
T ss_pred HHHHHHHhcchHHHHHHHcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHhcCcc----chHHHHHHHHHHCC
Confidence 5566777788777665555565543333443334569999999999999987643 34666777776643
No 139
>PHA02855 anti-apoptotic membrane protein; Provisional
Probab=26.09 E-value=4.6e+02 Score=26.63 Aligned_cols=67 Identities=18% Similarity=0.337 Sum_probs=45.0
Q ss_pred HHHHHHhCCCC---CHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhc
Q 005882 24 EICDMLNHDPG---QAKDVVKGIKKRI-GSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIAR 91 (672)
Q Consensus 24 eICD~In~~~~---~aKEAvRaLrKRL-ksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk 91 (672)
+|||.++.+.. .-.+.=..|---| ....|.|-|.+|.||-..++--|.+=...+.+ +.+++++..++
T Consensus 59 ~ic~~i~~ndi~~~nI~~IK~~iie~L~~D~rPSVKLA~iSLlSiIiek~~~kn~~~v~s-~lid~I~~kiS 129 (180)
T PHA02855 59 EICNFIKVNDVTEENINDIKSQIIESLNNDNRPSVKLAIISLISMIAEKKGYKNNNIVMS-DLINEIANKIS 129 (180)
T ss_pred HHHHHHHHcchHHHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHhccchHHHHHH-HHHHHHHHHhh
Confidence 47777776442 2234444444445 46789999999999999999888755544554 67888875554
No 140
>PF14726 RTTN_N: Rotatin, an armadillo repeat protein, centriole functioning
Probab=26.06 E-value=1.7e+02 Score=26.88 Aligned_cols=69 Identities=12% Similarity=0.157 Sum_probs=51.9
Q ss_pred CHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcc-ccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHH
Q 005882 35 QAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNC-GDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILID 107 (672)
Q Consensus 35 ~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNC-G~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq 107 (672)
..+.-++.|-.=.++...-..-..|.||..+++.- |...-..++..+||..|++.+. +..+.+|-++++
T Consensus 27 ~~~~Ll~~LleWFnf~~~~~~~~VL~Ll~~L~~~~~a~~~l~~iG~~~fL~klr~~~~----~~~~~~id~il~ 96 (98)
T PF14726_consen 27 KERLLLKQLLEWFNFPPVPMKEEVLALLLRLLKSPYAAQILRDIGAVRFLSKLRPNVE----PNLQAEIDEILD 96 (98)
T ss_pred cHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHhCcHHHHHHHHccHHHHHHHHHhcCC----HHHHHHHHHHHh
Confidence 35666666666777777778889999999999988 7777788999999888886544 355656655554
No 141
>PF12719 Cnd3: Nuclear condensing complex subunits, C-term domain
Probab=25.67 E-value=4.3e+02 Score=28.11 Aligned_cols=82 Identities=16% Similarity=0.281 Sum_probs=52.5
Q ss_pred HHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHH-HHHHHHHhccccchhhhhc------chHHHHHHHHHhccCCC
Q 005882 23 IEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLAL-TLLETIIKNCGDIVHMHVA------EKNVLHEMVKIARKKPD 95 (672)
Q Consensus 23 leICD~In~~~~~aKEAvRaLrKRLksknp~vqLlAL-tLLEtcVKNCG~~Fh~eVa------sk~FLneLvKLvk~k~d 95 (672)
+.+|=+++. +.+++.+..+.+-+......+..-|| .+.|.++...-..|...-. ...+++-+.+.+... +
T Consensus 51 LGl~~Lld~--~~a~~~l~l~~~~~~~~~~~v~~~al~~l~Dll~~~g~~~~~~~~~~~~~~~~~~l~~~l~~~l~~~-~ 127 (298)
T PF12719_consen 51 LGLCCLLDK--ELAKEHLPLFLQALQKDDEEVKITALKALFDLLLTHGIDIFDSESDNDESVDSKSLLKILTKFLDSE-N 127 (298)
T ss_pred HHHHHHhCh--HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCchhccchhccCccchHhHHHHHHHHHHhcC-C
Confidence 455555555 45888888888888777888888888 4567777775444443332 355666666666653 5
Q ss_pred hhHHHHHHHHHH
Q 005882 96 THVKEKILILID 107 (672)
Q Consensus 96 ~~VKeKILeLIq 107 (672)
.+|+..+.|-+-
T Consensus 128 ~~~~~~a~EGl~ 139 (298)
T PF12719_consen 128 PELQAIAVEGLC 139 (298)
T ss_pred HHHHHHHHHHHH
Confidence 556655554443
No 142
>PF08328 ASL_C: Adenylosuccinate lyase C-terminal; InterPro: IPR013539 This domain is found at the C terminus of adenylosuccinate lyase(ASL; PurB in Escherichia coli). It has been identified in bacteria, eukaryotes and archaea and is found together with the lyase domain IPR000362 from INTERPRO. ASL catalyses the cleavage of succinylaminoimidazole carboxamide ribotide to aminoimidazole carboxamide ribotide and fumarate and the cleavage of adenylosuccinate to adenylate and fumarate []. ; GO: 0004018 N6-(1,2-dicarboxyethyl)AMP AMP-lyase (fumarate-forming) activity, 0006188 IMP biosynthetic process; PDB: 2HVG_A 2QGA_C 2PTS_A 2PTR_A 2PTQ_B 3BHG_A 3GZH_A.
Probab=25.65 E-value=1.4e+02 Score=28.40 Aligned_cols=63 Identities=17% Similarity=0.236 Sum_probs=38.5
Q ss_pred HHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHH
Q 005882 28 MLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILIL 105 (672)
Q Consensus 28 ~In~~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeL 105 (672)
-++..-+--.|++..+.+|-+..+|.+++.+|+- |..+..+.- ++|++.|. .+..+|++++.|
T Consensus 47 dL~~nWeVlaEpIQTvmRr~g~~~pYE~LK~lTR--------g~~it~~~l-~~fI~~L~------ip~~~k~~L~~l 109 (115)
T PF08328_consen 47 DLDENWEVLAEPIQTVMRRYGIPNPYEKLKELTR--------GKKITKEDL-REFIESLD------IPEEAKARLLAL 109 (115)
T ss_dssp HHCT-GGGGHHHHHHHHHHTT-SSHHHHHHHHHT--------TS---HHHH-HHHHHTSS------S-HHHHHHHHH-
T ss_pred HHHHCHHHHHHHHHHHHHHcCCCCHHHHHHHHHc--------CCCCCHHHH-HHHHHhCC------CCHHHHHHHHhc
Confidence 3455555678999999999999999999999874 543333221 23333322 466788887765
No 143
>PF05769 DUF837: Protein of unknown function (DUF837); InterPro: IPR008555 This family consists of several eukaryotic proteins of unknown function. One of the family members (O02197 from SWISSPROT) is a circulating cathodic antigen (CCA) found in Schistosoma mansoni (Blood fluke) [].
Probab=25.64 E-value=2.6e+02 Score=28.28 Aligned_cols=76 Identities=21% Similarity=0.301 Sum_probs=47.8
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCChH-HHHHHHHHHHHHHHHHHHHHhhcC---------CCHHHHHHHhhhhHHHHHHHH
Q 005882 188 EIQNARGIMDVLAEMLNALDPNNKE-EVIVDLVDQCRTYKQRVVHLVNST---------ADESLLCQGLQLNDDLQRLLA 257 (672)
Q Consensus 188 ELe~ak~nvkLL~EML~~l~P~~~e-Eli~EL~~qCR~mr~RV~rLIq~t---------~DEElL~eLL~lNDeLn~VLe 257 (672)
-|..|+.-+.-|++--.+.+.--.+ +.+..-+..|++++.-|..+=..+ .++.-+.+|.+=|.+|..+|+
T Consensus 8 il~dak~L~~rL~~~d~~ad~Ll~qa~~l~~~i~sm~~y~eei~~l~~~~~~~~~~~l~~En~qi~~Lq~EN~eL~~~le 87 (181)
T PF05769_consen 8 ILADAKRLVERLKDHDNAADSLLSQAEALNKQIESMRQYQEEIQELNELSKNRPRAGLQQENRQIRQLQQENRELRQSLE 87 (181)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccchhHHHhhHHHHHHHHHHHHHHHHHH
Confidence 3556666666666543332211111 566666778888887776542211 244558999999999999999
Q ss_pred HHHhhh
Q 005882 258 KHESFA 263 (672)
Q Consensus 258 kYE~l~ 263 (672)
.|+.-.
T Consensus 88 Ehq~al 93 (181)
T PF05769_consen 88 EHQSAL 93 (181)
T ss_pred HHHHHH
Confidence 998643
No 144
>PF07415 Herpes_LMP2: Gammaherpesvirus latent membrane protein (LMP2) protein; InterPro: IPR010881 This family consists of several Gammaherpesvirus latent membrane protein (LMP2) proteins. Epstein-Barr virus (strain GD1) (HHV-4) (Human herpesvirus 4) is a human gammaherpesvirus that infects and establishes latency in B lymphocytes in vivo. The latent membrane protein 2 (LMP2) gene is expressed in latently infected B cells and encodes two protein isoforms, LMP2A and LMP2B, that are identical except for an additional N-terminal 119 aa cytoplasmic domain which is present in the LMP2A isoform. LMP2A is thought to play a key role in either the establishment or the maintenance of latency and/or the reactivation of productive infection from the latent state. The significance of LMP2B and its role in pathogenesis remain unclear [].; GO: 0019042 latent virus infection, 0033644 host cell membrane; PDB: 2JO9_B 1UXW_C.
Probab=25.59 E-value=24 Score=39.27 Aligned_cols=18 Identities=39% Similarity=0.995 Sum_probs=0.0
Q ss_pred cCCCCCCCCCCCcccccC
Q 005882 469 GMQSGGSLPPPPWEAQAA 486 (672)
Q Consensus 469 ~~~~~~~~pp~pw~~~~~ 486 (672)
|.+.|+.+||||+..+..
T Consensus 86 ~~~~~~g~ppppysp~~~ 103 (489)
T PF07415_consen 86 GQNGGNGLPPPPYSPRRQ 103 (489)
T ss_dssp ------------------
T ss_pred cCCCCCCCCCCCCCCCcc
Confidence 345566799999987744
No 145
>PRK07360 FO synthase subunit 2; Reviewed
Probab=25.54 E-value=85 Score=34.75 Aligned_cols=129 Identities=12% Similarity=0.209 Sum_probs=66.8
Q ss_pred HHHHHHHcCCCCCCcCHHHHHHHHHHHhCCC-C---CHHHHHHHHHHHhCCCCHHHH-HHHHHHHHHHHhccccc-hhhh
Q 005882 3 NSMVDRATSDMLIGPDWAMNIEICDMLNHDP-G---QAKDVVKGIKKRIGSRNSKVQ-LLALTLLETIIKNCGDI-VHMH 76 (672)
Q Consensus 3 ~~lIekATse~l~~pDW~~ileICD~In~~~-~---~aKEAvRaLrKRLksknp~vq-LlALtLLEtcVKNCG~~-Fh~e 76 (672)
..+++|+.+. .+++.- ++..+++... + .--.+++.||++...+..... -.-|.+-..|..||... |...
T Consensus 8 ~~~~~~~~~g----~~ls~~-e~~~Ll~~~~~~~l~~L~~~A~~ir~~~~G~~v~~~~~~~i~~Tn~C~~~C~fC~~~~~ 82 (371)
T PRK07360 8 EDILERARKG----KDLSKE-DALELLETTEPRRIFEILELADRLRKEQVGDTVTYVVNRNINFTNICEGHCGFCAFRRD 82 (371)
T ss_pred HHHHHHHhcC----CCCCHH-HHHHHhcCCChHHHHHHHHHHHHHHHHhcCCeEEEEeccCcccchhhhcCCccCCcccC
Confidence 4566666654 233221 3333444322 1 124567778877764322211 12356689999999762 2221
Q ss_pred --------hcchHHHHHHHHHhccC---------CCh--hHHHHHHHHHHHHHHHhCCCCCC-h-------------hHH
Q 005882 77 --------VAEKNVLHEMVKIARKK---------PDT--HVKEKILILIDTWQEAFGGPRAR-Y-------------PQY 123 (672)
Q Consensus 77 --------Vask~FLneLvKLvk~k---------~d~--~VKeKILeLIq~WaeaF~~~~~~-~-------------p~~ 123 (672)
+...++++.+..+.... .++ .--++++++|....+.|.+-.-. + -..
T Consensus 83 ~~~~~~y~ls~eeI~~~a~~a~~~G~~~i~l~~G~~p~~~~~e~~~~~i~~ik~~~~~i~i~a~s~~ei~~~~~~~G~~~ 162 (371)
T PRK07360 83 EGDHGAFWLTIAEILEKAAEAVKRGATEVCIQGGLHPAADSLEFYLEILEAIKEEFPDIHLHAFSPMEVYFAAREDGLSY 162 (371)
T ss_pred CCCCCCeeCCHHHHHHHHHHHHhCCCCEEEEccCCCCCCCcHHHHHHHHHHHHHhCCCcceeeCCHHHHHHHHhhcCCCH
Confidence 22333443333322221 122 22477888888888876431100 0 123
Q ss_pred HHHHHHHHHhccC
Q 005882 124 YAAYQELLRAGAV 136 (672)
Q Consensus 124 ~~aY~~LkrkGi~ 136 (672)
.+.|++||..|+.
T Consensus 163 ~e~l~~LkeAGld 175 (371)
T PRK07360 163 EEVLKALKDAGLD 175 (371)
T ss_pred HHHHHHHHHcCCC
Confidence 6789999999975
No 146
>PF07899 Frigida: Frigida-like protein; InterPro: IPR012474 This family is composed of plant proteins that are similar to FRIGIDA protein expressed by Arabidopsis thaliana (Mouse-ear cress) (Q9FDW0 from SWISSPROT). This protein is probably nuclear and is required for the regulation of flowering time in the late-flowering phenotype. It is known to increase RNA levels of flowering locus C. Allelic variation at the FRIGIDA locus is a major determinant of natural variation in flowering time [].
Probab=25.45 E-value=7.4e+02 Score=26.94 Aligned_cols=47 Identities=21% Similarity=0.237 Sum_probs=30.0
Q ss_pred hccCCChhHHHHHHHHHHHHHHHh-CCCCCChhHHHHHHHHHHHhccC
Q 005882 90 ARKKPDTHVKEKILILIDTWQEAF-GGPRARYPQYYAAYQELLRAGAV 136 (672)
Q Consensus 90 vk~k~d~~VKeKILeLIq~WaeaF-~~~~~~~p~~~~aY~~LkrkGi~ 136 (672)
+.....++||+++..+-..|...+ ......-.......+.|-.-|+.
T Consensus 96 ~~~~is~~vke~A~~lA~~WK~~l~~~~~~~~lea~gFL~lla~fgi~ 143 (290)
T PF07899_consen 96 ISPEISPEVKEEAKKLAEEWKSKLDGVNNENSLEALGFLQLLAAFGIV 143 (290)
T ss_pred cCCCCCHHHHHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHcCCc
Confidence 345567899999999999999999 32211112334444555555653
No 147
>KOG4403 consensus Cell surface glycoprotein STIM, contains SAM domain [General function prediction only]
Probab=25.43 E-value=5.5e+02 Score=29.81 Aligned_cols=40 Identities=20% Similarity=0.255 Sum_probs=32.7
Q ss_pred hhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHHhccCCCC
Q 005882 96 THVKEKILILIDTWQEAFGGPRARYPQYYAAYQELLRAGAVFPQ 139 (672)
Q Consensus 96 ~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~LkrkGi~FP~ 139 (672)
.+|..-.++-+-.|-..|- .+|+|.++|+..+-.|...|.
T Consensus 130 Sev~nWT~e~tvqWLi~~V----eLPqyve~fk~~kv~G~alPR 169 (575)
T KOG4403|consen 130 SEVHNWTNERTVQWLINDV----ELPQYVEAFKAKKVDGKALPR 169 (575)
T ss_pred hhhhcchHHHHHHHHHHhc----ccHHHHHHHHhccCCcccccc
Confidence 3677777777888888876 489999999999999988774
No 148
>KOG4535 consensus HEAT and armadillo repeat-containing protein [General function prediction only]
Probab=25.43 E-value=58 Score=37.98 Aligned_cols=48 Identities=23% Similarity=0.329 Sum_probs=37.8
Q ss_pred HHHHHHHHhCCCCC------HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcc
Q 005882 22 NIEICDMLNHDPGQ------AKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNC 69 (672)
Q Consensus 22 ileICD~In~~~~~------aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNC 69 (672)
+.=++.+|...+-. -.+.+..|||.|+|+++.|..-||+||+++|...
T Consensus 128 ~kcla~lv~~~p~~~l~~~~~~~~~~~ik~~i~~~d~~v~vs~l~~~~~~v~t~ 181 (728)
T KOG4535|consen 128 IKCLANLVSNAPYDRLKLSLLTKVWNQIKPYIRHKDVNVRVSSLTLLGAIVSTH 181 (728)
T ss_pred HHHHHHHHhcCchHHHHHHHHHHHHHHHHHHhhcCCCChhhHHHHHHHHHHhcC
Confidence 33355666665532 3578889999999999999999999999999753
No 149
>KOG2160 consensus Armadillo/beta-catenin-like repeat-containing protein [Posttranslational modification, protein turnover, chaperones]
Probab=25.42 E-value=9.7e+02 Score=26.92 Aligned_cols=110 Identities=12% Similarity=0.109 Sum_probs=70.8
Q ss_pred hHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHH-----HHHHHHHhCC--CCHHHHHHHHHHHHHHHhccccchh
Q 005882 2 VNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDV-----VKGIKKRIGS--RNSKVQLLALTLLETIIKNCGDIVH 74 (672)
Q Consensus 2 v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEA-----vRaLrKRLks--knp~vqLlALtLLEtcVKNCG~~Fh 74 (672)
+..|+...+++.....--.....||-+|+..+.+..+- ...|++-+++ .+.+.+..|+.|+..+++-- +-+
T Consensus 168 L~~Ll~~ls~~~~~~~r~kaL~AissLIRn~~~g~~~fl~~~G~~~L~~vl~~~~~~~~lkrK~~~Ll~~Ll~~~--~s~ 245 (342)
T KOG2160|consen 168 LSKLLKILSSDDPNTVRTKALFAISSLIRNNKPGQDEFLKLNGYQVLRDVLQSNNTSVKLKRKALFLLSLLLQED--KSD 245 (342)
T ss_pred HHHHHHHHccCCCchHHHHHHHHHHHHHhcCcHHHHHHHhcCCHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhh--hhh
Confidence 35667777766665555667888999999987654433 4568888887 67888899999999888732 222
Q ss_pred h-hhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHhC
Q 005882 75 M-HVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQEAFG 114 (672)
Q Consensus 75 ~-eVask~FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF~ 114 (672)
. +++...|..-++.++.. -+..+++.++..+.+--..|.
T Consensus 246 ~d~~~~~~f~~~~~~l~~~-l~~~~~e~~l~~~l~~l~~~~ 285 (342)
T KOG2160|consen 246 EDIASSLGFQRVLENLISS-LDFEVNEAALTALLSLLSELS 285 (342)
T ss_pred hhHHHHhhhhHHHHHHhhc-cchhhhHHHHHHHHHHHHHHh
Confidence 2 44444555555555544 344566555555555444443
No 150
>PHA02713 hypothetical protein; Provisional
Probab=25.03 E-value=2.7e+02 Score=32.56 Aligned_cols=110 Identities=11% Similarity=0.089 Sum_probs=64.6
Q ss_pred hHHHHHHHcCCCCCCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHH------HHHHHHHHHhccccchhh
Q 005882 2 VNSMVDRATSDMLIGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLL------ALTLLETIIKNCGDIVHM 75 (672)
Q Consensus 2 v~~lIekATse~l~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLksknp~vqLl------ALtLLEtcVKNCG~~Fh~ 75 (672)
++.+|+-+-...+..++...+++.+|++.-.. --+.|.+.|+++|...|=-..+. .+.|++.+-+=.-+.|..
T Consensus 79 ~~~ll~y~Yt~~i~~~nv~~ll~aA~~lqi~~-l~~~C~~~l~~~l~~~NCl~i~~~~~~~~~~~L~~~a~~~i~~~f~~ 157 (557)
T PHA02713 79 VKNIVQYLYNRHISSMNVIDVLKCADYLLIDD-LVTDCESYIKDYTNHDTCIYMYHRLYEMSHIPIVKYIKRMLMSNIPT 157 (557)
T ss_pred HHHHHHHhcCCCCCHHHHHHHHHHHHHHCHHH-HHHHHHHHHHhhCCccchHHHHHHHHhccchHHHHHHHHHHHHHHHH
Confidence 35566666555566666667777777766433 24567788888887766433321 123333333222345666
Q ss_pred hhcchHHHH----HHHHHhccCCChhH--HHHHHHHHHHHHHH
Q 005882 76 HVAEKNVLH----EMVKIARKKPDTHV--KEKILILIDTWQEA 112 (672)
Q Consensus 76 eVask~FLn----eLvKLvk~k~d~~V--KeKILeLIq~Waea 112 (672)
.+.+++|++ +|++|++......| -+.+++.+..|-+.
T Consensus 158 v~~~~ef~~L~~~~l~~lL~~d~~l~v~~Ee~v~eav~~W~~~ 200 (557)
T PHA02713 158 LITTDAFKKTVFEILFDIISTNDNVYLYREGYKVTILLKWLEY 200 (557)
T ss_pred HhCChhhhhCCHHHHHHHhccccccCCCcHHHHHHHHHHHHhc
Confidence 666788875 36666765322233 46788899999763
No 151
>PF01865 PhoU_div: Protein of unknown function DUF47; InterPro: IPR018445 This family includes prokaryotic proteins of unknown function, as well as a protein annotated as the pit accessory protein from Rhizobium meliloti (Sinorhizobium meliloti) (O30498 from SWISSPROT). However, the function of this protein is also unknown (Pit stands for Phosphate transport) [].; PDB: 2OLT_C 2IIU_C 3L39_A.
Probab=24.93 E-value=4.1e+02 Score=26.56 Aligned_cols=69 Identities=17% Similarity=0.215 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCh-H-----HHHHHHHHHHHHHHHHHHHHhhcC----CCHHHHHHHhhhhHHHHHHH
Q 005882 188 EIQNARGIMDVLAEMLNALDPNNK-E-----EVIVDLVDQCRTYKQRVVHLVNST----ADESLLCQGLQLNDDLQRLL 256 (672)
Q Consensus 188 ELe~ak~nvkLL~EML~~l~P~~~-e-----Eli~EL~~qCR~mr~RV~rLIq~t----~DEElL~eLL~lNDeLn~VL 256 (672)
-++.+...+..+.++|..+-.++. + +.|.++=.+|..++++|+..+..+ -|=+.+..|+..=|++...+
T Consensus 16 ~~~~~~~~~~~~~e~l~~~~~~~~~~~~~~~~~i~~lE~~aD~i~~~i~~~L~~~fitP~dRedi~~L~~~lD~I~d~i 94 (214)
T PF01865_consen 16 HFEEVAEASVLLAELLEAYLEGDYEDVEELLEEIKELEHEADEIKREIREELYKSFITPFDREDILRLISSLDDIADYI 94 (214)
T ss_dssp HHHHHHHHHHCHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-SS-SS-HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcHHHHHHHHHHHHHHHHHH
Confidence 356777778888888887655442 2 677888889999999999988764 23344444555444444433
No 152
>KOG3523 consensus Putative guanine nucleotide exchange factor TIM [Signal transduction mechanisms]
Probab=24.81 E-value=8.7e+02 Score=29.41 Aligned_cols=56 Identities=14% Similarity=0.221 Sum_probs=36.5
Q ss_pred cchHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHhCCCCCChhHH-------HHHHHHHHHhccCCCC
Q 005882 78 AEKNVLHEMVKIARKKPDTHVKEKILILIDTWQEAFGGPRARYPQY-------YAAYQELLRAGAVFPQ 139 (672)
Q Consensus 78 ask~FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF~~~~~~~p~~-------~~aY~~LkrkGi~FP~ 139 (672)
++++||.+|...+... -+..-|..+|..-+..|-+. |-.| .++|+.|+.....|.+
T Consensus 311 ~Serfl~dLE~r~e~n---i~i~dicDiv~~ha~~~f~v---Yv~Y~tNQ~YQeRT~qrL~~~n~~F~e 373 (695)
T KOG3523|consen 311 VSERFLCDLEARLEEN---IFIDDICDIVEDHAAKHFSV---YVKYCTNQVYQERTLQRLLTENPAFRE 373 (695)
T ss_pred HHHHHHHHHHHHHHhC---chhhHHHHHHHHhcccccce---eehhccchHHHHHHHHHHHhcChHHHH
Confidence 5678888888777654 34555666666666665432 3222 4688888887777764
No 153
>PF08711 Med26: TFIIS helical bundle-like domain; InterPro: IPR017923 Transcription factor IIS (TFIIS) is a transcription elongation factor that increases the overall transcription rate of RNA polymerase II by reactivating transcription elongation complexes that have arrested transcription. The three structural domains of TFIIS are conserved from yeast to human. The 80 or so N-terminal residues form a protein interaction domain containing a conserved motif, which has been called the LW motif because of the invariant leucine and tryptophan residues it contains. Although the N-terminal domain is not needed for transcriptional activity, a similar sequence has been identified in other transcription factors and proteins that are predominantly nuclear localized [, ]: MED26 (also known as CRSP70 and ARC70), a subunit of the Mediator complex, which is required for the activity of the enhancer-binding protein Sp1. Elongin A, a subunit of a transcription elongation factor previously known as SIII. It increases the rate of transcription by suppressing transient pausing of the elongation complex. PPP1R10, a nuclear regulatory subunit of protein phosphatase 1 that was previously known as p99, FB19 or PNUTS. PIBP, a small hypothetical protein that could be a phosphoinositide binding protein. IWS1, which is thought to function in both transcription initiation and elongation. The TFIIS N-terminal domain is a compact four-helix bundle. The hydrophobic core residues of helices 2, 3, and 4 are well conserved among TFIIS domains, although helix 1 is less conserved []. ; GO: 0003677 DNA binding, 0006351 transcription, DNA-dependent, 0005634 nucleus; PDB: 1EO0_A 3OAK_A 3NFQ_B 3O8Z_A 1WJT_A 2XPL_A 2XPO_A 2XPP_A 2XPN_A.
Probab=24.81 E-value=1.7e+02 Score=23.09 Aligned_cols=20 Identities=15% Similarity=0.426 Sum_probs=17.0
Q ss_pred CChhHHHHHHHHHHHHHHHh
Q 005882 94 PDTHVKEKILILIDTWQEAF 113 (672)
Q Consensus 94 ~d~~VKeKILeLIq~WaeaF 113 (672)
.+++|++++.++|..|...+
T Consensus 33 ~~~~i~~~A~~Li~~Wk~~v 52 (53)
T PF08711_consen 33 ENPEIRKLAKELIKKWKRIV 52 (53)
T ss_dssp S-HHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHhHhc
Confidence 78899999999999998753
No 154
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=24.55 E-value=58 Score=39.65 Aligned_cols=99 Identities=18% Similarity=0.278 Sum_probs=60.9
Q ss_pred HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchh--hhhcchHHHHHHHHHhcc--CCChhHHHHHHHHHHHHHH
Q 005882 36 AKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVH--MHVAEKNVLHEMVKIARK--KPDTHVKEKILILIDTWQE 111 (672)
Q Consensus 36 aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh--~eVask~FLneLvKLvk~--k~d~~VKeKILeLIq~Wae 111 (672)
=|.+|..+-|-|+.-.+.-=+-+|.++|.+|...-+-|. ..+...+|...+.+-+.+ +...+.|.||+..+-.|..
T Consensus 40 ykhVVqsVeKfi~kCkpe~Kl~gLYVIDSIVRqsrhq~~~~kd~F~prf~~n~~~tf~~L~~c~~edks~iIrvlNlwqk 119 (894)
T KOG0132|consen 40 YKHVVQSVEKFIKKCKPEYKLPGLYVIDSIVRQSRHQFGKEKDVFGPRFSKNFTGTFQNLYECPQEDKSDIIRVLNLWQK 119 (894)
T ss_pred HHHHHHHHHHHHHhCCcccccCeeEEehHHHHHHHHhhcccccccCCccchhHHHHHHHHHhcCHHHHHHHHHhhhhhhc
Confidence 345555666666655566667788999999876543333 122223344444333221 2456889999999999998
Q ss_pred H--hCCCCCChhHHHHHHHHHHHhcc-CCCC
Q 005882 112 A--FGGPRARYPQYYAAYQELLRAGA-VFPQ 139 (672)
Q Consensus 112 a--F~~~~~~~p~~~~aY~~LkrkGi-~FP~ 139 (672)
- |+. ..|.-+.++....|. .||.
T Consensus 120 n~VfK~-----e~IqpLlDm~~~s~~~~~p~ 145 (894)
T KOG0132|consen 120 NNVFKS-----EIIQPLLDMADGSGLSVFPK 145 (894)
T ss_pred ccchhH-----HHHHHHHHHHhccCccccCC
Confidence 6 653 346666666666663 5664
No 155
>PF09758 FPL: Uncharacterised conserved protein; InterPro: IPR019155 The proteins in this family are functionally uncharacterised. They contain a highly conserved FPL motif.
Probab=24.51 E-value=1.7e+02 Score=29.00 Aligned_cols=50 Identities=18% Similarity=0.242 Sum_probs=42.2
Q ss_pred ccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHhCCCC
Q 005882 68 NCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQEAFGGPR 117 (672)
Q Consensus 68 NCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF~~~~ 117 (672)
+....|...++++.++..++++++......|+-.+|..+.-|-+..++..
T Consensus 13 q~~~~~Fd~F~E~nil~~f~~il~~~~~~~V~~QlLQtlsiLiqNi~~~~ 62 (149)
T PF09758_consen 13 QNDPSFFDFFMEKNILSTFVRILKQSRSSSVKLQLLQTLSILIQNIRSET 62 (149)
T ss_pred cCCcHHHHHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHhcCCCc
Confidence 33456888899999999999999987788999999999999988887643
No 156
>PRK10992 iron-sulfur cluster repair di-iron protein; Provisional
Probab=24.35 E-value=8.1e+02 Score=25.39 Aligned_cols=48 Identities=13% Similarity=0.240 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCCh-HHHHHHHHHHHHHHHHHHHHHhh
Q 005882 187 TEIQNARGIMDVLAEMLNALDPNNK-EEVIVDLVDQCRTYKQRVVHLVN 234 (672)
Q Consensus 187 sELe~ak~nvkLL~EML~~l~P~~~-eEli~EL~~qCR~mr~RV~rLIq 234 (672)
.|=+.++..++-|.++.+.+.+... -.....+|..++.+...|.+-|.
T Consensus 158 ~EHd~~~~~l~~L~~lt~~~~~p~~ac~~~~~l~~~l~~~~~dL~~HI~ 206 (220)
T PRK10992 158 SEHDEAGELLEVIKHLTNNVTPPPEACTTWRALYNGINELIDDLMEHIH 206 (220)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCChhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555677778888888887655432 26678888888888877777664
No 157
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=23.55 E-value=4.2e+02 Score=32.98 Aligned_cols=13 Identities=46% Similarity=1.009 Sum_probs=9.5
Q ss_pred CCCCCCcccccCC
Q 005882 475 SLPPPPWEAQAAD 487 (672)
Q Consensus 475 ~~pp~pw~~~~~~ 487 (672)
...|||||..|.+
T Consensus 623 ~~~~ppw~~~p~~ 635 (830)
T PRK07003 623 RGAPPPWEDIPPD 635 (830)
T ss_pred CCCCCCcccCCcc
Confidence 4556999988763
No 158
>cd01670 Death Death Domain: a protein-protein interaction domain. Death Domains (DDs) are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. Structural analysis of DD-DD complexes show that the domains interact with each other in many different ways. DD-containing proteins serve as adaptors in signaling pathways and they can recruit other proteins into signaling complexes. In mammals, they are prominent components of the programmed cell death (apoptosis) pathway and are found in a number of other signaling pathways. In invertebrates, they are involved in transcriptional regulation of zygotic patterning genes in insect embryogenesis, and are components of the ToII/NF-kappaB pathway, a conserved innate immune pathway in a
Probab=23.40 E-value=1.4e+02 Score=24.79 Aligned_cols=34 Identities=24% Similarity=0.338 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHHhcc
Q 005882 98 VKEKILILIDTWQEAFGGPRARYPQYYAAYQELLRAGA 135 (672)
Q Consensus 98 VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~LkrkGi 135 (672)
+.+++.++|..|....+.. ..+..++..|++-|.
T Consensus 37 ~~~~~~~mL~~W~~~~~~~----at~~~L~~aL~~~~~ 70 (79)
T cd01670 37 VREQAYQLLLKWEEREGDN----ATVGNLIEALREIGR 70 (79)
T ss_pred HHHHHHHHHHHHHhccCcC----cHHHHHHHHHHHcCH
Confidence 8999999999999988642 346667777776553
No 159
>KOG3192 consensus Mitochondrial J-type chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=23.28 E-value=1.8e+02 Score=29.25 Aligned_cols=19 Identities=16% Similarity=0.422 Sum_probs=13.7
Q ss_pred CCHHHHHHHhhhhHHHHHH
Q 005882 237 ADESLLCQGLQLNDDLQRL 255 (672)
Q Consensus 237 ~DEElL~eLL~lNDeLn~V 255 (672)
+|.++|.++|.++|+|.+.
T Consensus 93 tDpe~Lmevle~~E~IS~~ 111 (168)
T KOG3192|consen 93 TDPEFLMEVLEYHEAISEM 111 (168)
T ss_pred cCHHHHHHHHHHHHHHHhc
Confidence 4777788777777777653
No 160
>PF14500 MMS19_N: Dos2-interacting transcription regulator of RNA-Pol-II
Probab=23.18 E-value=6.3e+02 Score=26.89 Aligned_cols=15 Identities=20% Similarity=0.087 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHHH
Q 005882 52 SKVQLLALTLLETII 66 (672)
Q Consensus 52 p~vqLlALtLLEtcV 66 (672)
.....-||.-|.+|+
T Consensus 54 ~~~~~~~l~gl~~L~ 68 (262)
T PF14500_consen 54 HACVQPALKGLLALV 68 (262)
T ss_pred HhhHHHHHHHHHHHH
Confidence 333434444444444
No 161
>PF03224 V-ATPase_H_N: V-ATPase subunit H; InterPro: IPR004908 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents subunit H (also known as Vma13p) found in the V1 complex of V-ATPases. This subunit has a regulatory function, being responsible for activating ATPase activity and coupling ATPase activity to proton flow []. The yeast enzyme contains five motifs similar to the HEAT or Armadillo repeats seen in the importins, and can be divided into two distinct domains: a large N-terminal domain consisting of stacked alpha helices, and a smaller C-terminal alpha-helical domain with a similar superhelical topology to an armadillo repeat []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=23.17 E-value=8.9e+02 Score=25.86 Aligned_cols=67 Identities=22% Similarity=0.307 Sum_probs=44.0
Q ss_pred HHHHHhCCCCCHH-----------HHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccC
Q 005882 25 ICDMLNHDPGQAK-----------DVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKK 93 (672)
Q Consensus 25 ICD~In~~~~~aK-----------EAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k 93 (672)
|+|++..++...+ +....+-+-+.+.+..+++.|+.+|-.++..++......+ ++++..+..++++.
T Consensus 81 i~dll~~~~~~~~~~~~~~~~~~~~~~~~fl~ll~~~D~~i~~~a~~iLt~Ll~~~~~~~~~~~--~~~l~~ll~~L~~~ 158 (312)
T PF03224_consen 81 IDDLLSDDPSRVELFLELAKQDDSDPYSPFLKLLDRNDSFIQLKAAFILTSLLSQGPKRSEKLV--KEALPKLLQWLSSQ 158 (312)
T ss_dssp HHHHHH-SSSSHHHHHHHHH-TTH--HHHHHHH-S-SSHHHHHHHHHHHHHHHTSTTT--HHHH--HHHHHHHHHHHH-T
T ss_pred HHHHHhcCHHHHHHHHHhcccccchhHHHHHHHhcCCCHHHHHHHHHHHHHHHHcCCccccchH--HHHHHHHHHHHHHh
Confidence 6778887774321 2445566677889999999999999999999987666533 56777777766653
No 162
>PRK14151 heat shock protein GrpE; Provisional
Probab=23.06 E-value=2.3e+02 Score=28.65 Aligned_cols=45 Identities=20% Similarity=0.188 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcC---CCHHHHHHHhhhhHHHHHHHH
Q 005882 213 EVIVDLVDQCRTYKQRVVHLVNST---ADESLLCQGLQLNDDLQRLLA 257 (672)
Q Consensus 213 Eli~EL~~qCR~mr~RV~rLIq~t---~DEElL~eLL~lNDeLn~VLe 257 (672)
+.+..+...+..+|+|..+=.+.. .-+.++.+||.+-|+|.++|+
T Consensus 41 d~~lR~~Ae~eN~rkR~~kE~e~~~~~a~~~~~~~LLpv~DnlerAl~ 88 (176)
T PRK14151 41 DQSLRAAADLQNVRRRAEQDVEKAHKFALEKFAGDLLPVVDSLERGLE 88 (176)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHh
Confidence 444555666777777777766554 567788888888888888885
No 163
>PF10363 DUF2435: Protein of unknown function (DUF2435)
Probab=23.01 E-value=4.4e+02 Score=23.72 Aligned_cols=87 Identities=11% Similarity=0.172 Sum_probs=53.3
Q ss_pred HHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHhCCC
Q 005882 37 KDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQEAFGGP 116 (672)
Q Consensus 37 KEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF~~~ 116 (672)
++..+.+.+-|.++.+-+.-.+|.+|..|++... ...+.-...++-+...++. .|.-|--.++..+...++.+++.
T Consensus 2 ~~~~~~al~~L~dp~~PvRa~gL~~L~~Li~~~~---~~~~~~~~il~l~l~~L~d-~DsyVYL~aI~~L~~La~~~p~~ 77 (92)
T PF10363_consen 2 RETLQEALSDLNDPLPPVRAHGLVLLRKLIESKS---EPVIDIPKILDLFLSQLKD-EDSYVYLNAIKGLAALADRHPDE 77 (92)
T ss_pred hHHHHHHHHHccCCCcchHHHHHHHHHHHHHcCC---cchhhHHHHHHHHHHHcCC-CCchHHHHHHHHHHHHHHHChHH
Confidence 3556667777788888888888888888888875 1122223344444444544 45566666666666666666531
Q ss_pred CCChhHHHHHHHH
Q 005882 117 RARYPQYYAAYQE 129 (672)
Q Consensus 117 ~~~~p~~~~aY~~ 129 (672)
-++.+.+.|..
T Consensus 78 --vl~~L~~~y~~ 88 (92)
T PF10363_consen 78 --VLPILLDEYAD 88 (92)
T ss_pred --HHHHHHHHHhC
Confidence 24555666643
No 164
>KOG3091 consensus Nuclear pore complex, p54 component (sc Nup57) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=22.91 E-value=3.4e+02 Score=31.74 Aligned_cols=55 Identities=18% Similarity=0.268 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHhcCCCChH--HHHHHHHHHHHHHHHHHHHHhhc-----------CCCHHHHHHHh
Q 005882 192 ARGIMDVLAEMLNALDPNNKE--EVIVDLVDQCRTYKQRVVHLVNS-----------TADESLLCQGL 246 (672)
Q Consensus 192 ak~nvkLL~EML~~l~P~~~e--Eli~EL~~qCR~mr~RV~rLIq~-----------t~DEElL~eLL 246 (672)
.+..++.+.|=|.++.....+ -.|.++-.+...+.+||+|++-. ..|||.|..=|
T Consensus 353 ~r~ri~~i~e~v~eLqk~~ad~~~KI~~~k~r~~~Ls~RiLRv~ikqeilr~~G~~L~~~EE~Lr~Kl 420 (508)
T KOG3091|consen 353 HRIRINAIGERVTELQKHHADAVAKIEEAKNRHVELSHRILRVMIKQEILRKRGYALTPDEEELRAKL 420 (508)
T ss_pred HHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCcCCccHHHHHHHH
Confidence 334444444444444422333 66777778888889999998631 25887766544
No 165
>PF05004 IFRD: Interferon-related developmental regulator (IFRD); InterPro: IPR007701 Interferon-related developmental regulator (IFRD1) is the human homologue of the Rattus norvegicus early response protein PC4 and its murine homologue TIS7 []. The exact function of IFRD1 is unknown but it has been shown that PC4 is necessary for muscle differentiation and that it might have a role in signal transduction. This entry also contains IFRD2 and its murine equivalent SKMc15, which are highly expressed soon after gastrulation and in the hepatic primordium, suggesting an involvement in early hematopoiesis [].
Probab=22.84 E-value=2.9e+02 Score=30.03 Aligned_cols=70 Identities=14% Similarity=0.304 Sum_probs=48.2
Q ss_pred CHHHHHHHHHH--HhCCCCCHHHHHHHHHHHhCCCCHHHHHHH---HHHHHHHHhccccchhhhhcchHHHHHHHHHhc
Q 005882 18 DWAMNIEICDM--LNHDPGQAKDVVKGIKKRIGSRNSKVQLLA---LTLLETIIKNCGDIVHMHVAEKNVLHEMVKIAR 91 (672)
Q Consensus 18 DW~~ileICD~--In~~~~~aKEAvRaLrKRLksknp~vqLlA---LtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk 91 (672)
-|++++.+|+. |+ ...++++..|..-|.+.+..|++-| |.||-.+..+....|-.+ ...++++.|..|.+
T Consensus 209 aW~lLlt~~~~~~~~---~~~~~~~~~l~~lL~s~d~~VRiAAGEaiAll~E~~~~~~~~~~~~-~~~~l~~~l~~La~ 283 (309)
T PF05004_consen 209 AWALLLTTLPDSKLE---DLLEEALPALSELLDSDDVDVRIAAGEAIALLYELARDHEEDFLYE-DMEELLEQLRELAT 283 (309)
T ss_pred HHHHHHhcCCHHHHH---HHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhhccccccccc-CHHHHHHHHHHHHH
Confidence 38888888887 55 3467889999999999999998855 555555555554445222 44556666666654
No 166
>PLN03076 ARF guanine nucleotide exchange factor (ARF-GEF); Provisional
Probab=22.83 E-value=3.4e+02 Score=36.60 Aligned_cols=89 Identities=15% Similarity=0.154 Sum_probs=52.3
Q ss_pred cCHHHHHHHHHHHhCCC-CCHHHHHHHHHHH---h-CCCCHHHHHHHHHHHHHHHhccccchhhhhcc----hHHHHHHH
Q 005882 17 PDWAMNIEICDMLNHDP-GQAKDVVKGIKKR---I-GSRNSKVQLLALTLLETIIKNCGDIVHMHVAE----KNVLHEMV 87 (672)
Q Consensus 17 pDW~~ileICD~In~~~-~~aKEAvRaLrKR---L-ksknp~vqLlALtLLEtcVKNCG~~Fh~eVas----k~FLneLv 87 (672)
--|..+.|||..=-..- --.......|... + -|+|..+.+.||..|..|.--+-+ ..|+.. ++||.-+.
T Consensus 1111 FsLqKLveIa~~Nm~Rirl~W~~iW~~l~~hf~~vg~~~n~~va~fAidsLrQLs~kfle--~eEL~~f~FQkefLkPfe 1188 (1780)
T PLN03076 1111 FSLTKIVEIAHYNMNRIRLVWSSIWHVLSDFFVTIGCSENLSIAIFAMDSLRQLSMKFLE--REELANYNFQNEFMKPFV 1188 (1780)
T ss_pred hHHHHHHHHHHhcccchheehHhHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHHHHhcc--hhhhhchhHHHHHHHHHH
Confidence 34666777776422111 1223433334433 2 467888888888876554433321 112222 57777788
Q ss_pred HHhccCCChhHHHHHHHHHH
Q 005882 88 KIARKKPDTHVKEKILILID 107 (672)
Q Consensus 88 KLvk~k~d~~VKeKILeLIq 107 (672)
.++++..+.+||+.|++.|.
T Consensus 1189 ~im~~s~~~eVrE~ILeCv~ 1208 (1780)
T PLN03076 1189 IVMRKSNAVEIRELIIRCVS 1208 (1780)
T ss_pred HHHHhcCchHHHHHHHHHHH
Confidence 88887778899999998774
No 167
>cd08318 Death_NMPP84 Death domain of Nuclear Matrix Protein P84. Death domain (DD) found in the Nuclear Matrix Protein P84 (also known as HPR1 or THOC1). HPR1/p84 resides in the nuclear matrix and is part of the THO complex, also called TREX (transcription/export) complex, which functions in mRNP biogenesis at the interface between transcription and export of mRNA from the nucleus. Mice lacking THOC1 have abnormal testis development and are sterile. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=22.80 E-value=1.7e+02 Score=25.78 Aligned_cols=68 Identities=13% Similarity=0.192 Sum_probs=40.7
Q ss_pred HHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHHhc
Q 005882 62 LETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQEAFGGPRARYPQYYAAYQELLRAG 134 (672)
Q Consensus 62 LEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~LkrkG 134 (672)
|+.+.+|-|..+....-.=.|-+.=+.-++.. +..+++++.++|..|.+..+.. ..+..+.+.|++-|
T Consensus 10 l~~ia~~iG~~Wk~Lar~LGls~~dI~~i~~~-~~~~~eq~~~mL~~W~~r~g~~----AT~~~L~~aL~~~~ 77 (86)
T cd08318 10 ITVFANKLGEDWKTLAPHLEMKDKEIRAIESD-SEDIKMQAKQLLVAWQDREGSQ----ATPETLITALNAAG 77 (86)
T ss_pred HHHHHHHHhhhHHHHHHHcCCCHHHHHHHHhc-CCCHHHHHHHHHHHHHHhcCcc----ccHHHHHHHHHHcC
Confidence 44455666766665444444444433333332 2368999999999999987643 23455566666544
No 168
>PF04826 Arm_2: Armadillo-like; InterPro: IPR006911 This entry consists of mammalian proteins of unknown function.
Probab=22.77 E-value=7e+02 Score=26.45 Aligned_cols=75 Identities=12% Similarity=0.217 Sum_probs=56.6
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHhCC
Q 005882 39 VVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVKIARKKPDTHVKEKILILIDTWQEAFGG 115 (672)
Q Consensus 39 AvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF~~ 115 (672)
.+..|-.=|.+++.+++.++|.+|=-|.+|-- ... ++-..+-+..+..|+..+.+.++-.++|.++..-.+.++.
T Consensus 135 ~i~~ll~LL~~G~~~~k~~vLk~L~nLS~np~-~~~-~Ll~~q~~~~~~~Lf~~~~~~~~l~~~l~~~~ni~~~~~~ 209 (254)
T PF04826_consen 135 YIPDLLSLLSSGSEKTKVQVLKVLVNLSENPD-MTR-ELLSAQVLSSFLSLFNSSESKENLLRVLTFFENINENIKK 209 (254)
T ss_pred hHHHHHHHHHcCChHHHHHHHHHHHHhccCHH-HHH-HHHhccchhHHHHHHccCCccHHHHHHHHHHHHHHHhhCc
Confidence 34444455678899999999999999998863 233 3333457888899998888889999999888887777653
No 169
>COG3515 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.59 E-value=2.7e+02 Score=30.81 Aligned_cols=76 Identities=13% Similarity=0.080 Sum_probs=61.8
Q ss_pred HHHHHHcCCCCCC-cCHHHHHHHHHHHhC-CCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcc
Q 005882 4 SMVDRATSDMLIG-PDWAMNIEICDMLNH-DPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAE 79 (672)
Q Consensus 4 ~lIekATse~l~~-pDW~~ileICD~In~-~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVas 79 (672)
..++++-...-.+ -||..+.++|..+-. ....-+-|+-..+-|++-.--..-.--|++|..|+.|-+..+|-++.+
T Consensus 38 ~e~~~~~~~~~~~~~dW~~v~~la~~L~~~~~kDlrva~~l~~A~~~~~GlaGL~eglella~l~~~~~d~l~pq~~~ 115 (346)
T COG3515 38 EELQTLLKVAEPEQVDWTAVEELALALLRARSKDLRVAAWLTRARLRTQGLAGLAEGLELLAALLANYWDALWPQLEG 115 (346)
T ss_pred HHHHhccccccccccchHHHHHHHHHHHHhccccHHHHHHHHHHhhccccHHHHHHHHHHHHHHHhccchhhCcCCcc
Confidence 3444444444555 899999999998776 667788888889999888778888888999999999999999998744
No 170
>PRK14153 heat shock protein GrpE; Provisional
Probab=22.46 E-value=1.9e+02 Score=29.83 Aligned_cols=45 Identities=20% Similarity=0.383 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcC---CCHHHHHHHhhhhHHHHHHHH
Q 005882 213 EVIVDLVDQCRTYKQRVVHLVNST---ADESLLCQGLQLNDDLQRLLA 257 (672)
Q Consensus 213 Eli~EL~~qCR~mr~RV~rLIq~t---~DEElL~eLL~lNDeLn~VLe 257 (672)
+.+..+...+..+|+|..+=++.. .-+.++.+||.+-|+|.++|+
T Consensus 54 d~~lR~~AEfeN~rKR~~kE~e~~~~~a~~~~~~~LLpv~DnLerAl~ 101 (194)
T PRK14153 54 EQLFRLAAEFDNFRKRTAREMEENRKFVLEQVLLDLLEVTDNFERALE 101 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHh
Confidence 444556666777777777766554 567888899999999998885
No 171
>TIGR02147 Fsuc_second hypothetical protein, TIGR02147. This family consists of the 40 members of a paralogous protein family in the rumen anaerobe Fibrobacter succinogenes S85. Member proteins are about 270 residues long and appear to lack signal sequences and transmembrane helices. The only perfectly conserved residue is a glycine in an otherwise poorly conserved region, suggesting members are not enzymes. The family is not characterized.
Probab=22.26 E-value=1e+03 Score=25.69 Aligned_cols=49 Identities=20% Similarity=0.528 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHHHhcCCCChH----------HHHHHHHHHHHHHHHHHHHHhhcCCCHH
Q 005882 192 ARGIMDVLAEMLNALDPNNKE----------EVIVDLVDQCRTYKQRVVHLVNSTADES 240 (672)
Q Consensus 192 ak~nvkLL~EML~~l~P~~~e----------Eli~EL~~qCR~mr~RV~rLIq~t~DEE 240 (672)
=+..+++-.+.|+.+.+++.+ +-+.++.+..+..|++|+.+++...+++
T Consensus 199 h~q~l~lA~~al~~~p~~eR~~S~lT~~i~~~~~~~i~~~i~~fRk~i~~i~~~~~~~~ 257 (271)
T TIGR02147 199 QKQMIDLAKEALDALPPSERDVSTVTFGISEEAYKEIVKKIQEFRKEVLAIATKDKEED 257 (271)
T ss_pred HHHHHHHHHHHHHhCCccccccceeeEecCHHHHHHHHHHHHHHHHHHHHHHhcCCCcC
Confidence 345667777888887776543 7777777788888889998877654433
No 172
>PRK14160 heat shock protein GrpE; Provisional
Probab=22.10 E-value=3e+02 Score=28.70 Aligned_cols=46 Identities=24% Similarity=0.317 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcC---CCHHHHHHHhhhhHHHHHHHHH
Q 005882 213 EVIVDLVDQCRTYKQRVVHLVNST---ADESLLCQGLQLNDDLQRLLAK 258 (672)
Q Consensus 213 Eli~EL~~qCR~mr~RV~rLIq~t---~DEElL~eLL~lNDeLn~VLek 258 (672)
+.+..+...+..+|+|..+=+... .-+.++.+||-+=|+|-+||..
T Consensus 82 d~~lR~~AefeN~RKR~~kE~e~~~~~a~e~~~~~LLpVlDnLerAl~~ 130 (211)
T PRK14160 82 DRLLRTVAEYDNYRKRTAKEKEGIYSDACEDVLKELLPVLDNLERAAAV 130 (211)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHhc
Confidence 555566677778888888776654 6888999999999999999963
No 173
>KOG1820 consensus Microtubule-associated protein [Cytoskeleton]
Probab=22.03 E-value=2.7e+02 Score=34.59 Aligned_cols=97 Identities=20% Similarity=0.304 Sum_probs=64.7
Q ss_pred CCCcCHHHHHHHHH----HHhCCC-----CCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHH
Q 005882 14 LIGPDWAMNIEICD----MLNHDP-----GQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLH 84 (672)
Q Consensus 14 l~~pDW~~ileICD----~In~~~-----~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLn 84 (672)
+...||....|..+ .+.... ..--+..+.|+.|++.-|.+|..+|+..|+.+.+=-+..|...+. ....
T Consensus 262 ~~s~~WK~R~Eale~l~~~l~e~~~~~~~~~~~ll~~~~ki~~kDaN~~v~~~aa~~l~~ia~~lr~~~~~~~~--~v~p 339 (815)
T KOG1820|consen 262 MLSKKWKDRKEALEELVAILEEAKKEIVKGYTGLLGILLKIRLKDANINVVMLAAQILELIAKKLRPLFRKYAK--NVFP 339 (815)
T ss_pred hhccchHHHHHHHHHHHHHHhccccccccCcchHHHHHHHHhccCcchhHHHHHHHHHHHHHHhcchhhHHHHH--hhcc
Confidence 34578886655444 333322 335678899999999999999999999999988877666554322 1222
Q ss_pred HHHHHhccCCChhHHHHHHHHHHHHHHHh
Q 005882 85 EMVKIARKKPDTHVKEKILILIDTWQEAF 113 (672)
Q Consensus 85 eLvKLvk~k~d~~VKeKILeLIq~WaeaF 113 (672)
.|..-++.+ -.+|++-++..+..|....
T Consensus 340 ~lld~lkek-k~~l~d~l~~~~d~~~ns~ 367 (815)
T KOG1820|consen 340 SLLDRLKEK-KSELRDALLKALDAILNST 367 (815)
T ss_pred hHHHHhhhc-cHHHHHHHHHHHHHHHhcc
Confidence 222222221 2489999999999998854
No 174
>cd00446 GrpE GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding. In eukaryotes, only the mitochondrial Hsp70, not the cytosolic form, is GrpE dependent.
Probab=21.92 E-value=1.3e+02 Score=28.54 Aligned_cols=43 Identities=21% Similarity=0.273 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHhhcC---CCHHHHHHHhhhhHHHHHHHHH
Q 005882 216 VDLVDQCRTYKQRVVHLVNST---ADESLLCQGLQLNDDLQRLLAK 258 (672)
Q Consensus 216 ~EL~~qCR~mr~RV~rLIq~t---~DEElL~eLL~lNDeLn~VLek 258 (672)
..+...|+.+|+|..+-++.. .-+.++.+||.+-|+|.++++.
T Consensus 9 ~r~~ae~~N~rkr~~~e~~~~~~~~~~~~~~~ll~v~D~le~a~~~ 54 (137)
T cd00446 9 LRALAEFENYRKRTEREREEARKYAIEKFAKDLLPVLDNLERALEA 54 (137)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 344444555555554444433 3455666666666666666654
No 175
>TIGR01802 CM_pl-yst monofunctional chorismate mutase, eukaryotic type. This model represents the plant and yeast (plastidic) chorismate mutase. These CM's are distinct from other forms by the presence of an extended regulatory domain.
Probab=21.78 E-value=5.2e+02 Score=27.69 Aligned_cols=23 Identities=30% Similarity=0.374 Sum_probs=19.2
Q ss_pred CChhHHHHHHHHHHHHHHHhCCC
Q 005882 94 PDTHVKEKILILIDTWQEAFGGP 116 (672)
Q Consensus 94 ~d~~VKeKILeLIq~WaeaF~~~ 116 (672)
++..|-+||++-+..=+..|+.+
T Consensus 183 T~~aVE~~Vl~Rv~~KA~~yGqd 205 (246)
T TIGR01802 183 TDPAVEEKILERLAKKARVYGVD 205 (246)
T ss_pred hhHHHHHHHHHHHHHHHHhhCCC
Confidence 56789999999999989888754
No 176
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=21.70 E-value=5.8e+02 Score=25.89 Aligned_cols=73 Identities=12% Similarity=0.139 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCChH--------HHHHHHHHHHHHHHHHHHHHhhcCCCHHHHHHHhhhhHHHHHHHHH
Q 005882 187 TEIQNARGIMDVLAEMLNALDPNNKE--------EVIVDLVDQCRTYKQRVVHLVNSTADESLLCQGLQLNDDLQRLLAK 258 (672)
Q Consensus 187 sELe~ak~nvkLL~EML~~l~P~~~e--------Eli~EL~~qCR~mr~RV~rLIq~t~DEElL~eLL~lNDeLn~VLek 258 (672)
.+++.++..+.-|.+-|.....+..+ +.+.+|-.+++.++..+..+.. .|.+.+.++-.....+..++++
T Consensus 76 ~~~~~~~~~i~~l~~~i~~~~~~r~~~~eR~~~l~~l~~l~~~~~~l~~el~~~~~--~Dp~~i~~~~~~~~~~~~~anr 153 (188)
T PF03962_consen 76 KEIEELEKKIEELEEKIEEAKKGREESEEREELLEELEELKKELKELKKELEKYSE--NDPEKIEKLKEEIKIAKEAANR 153 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--cCHHHHHHHHHHHHHHHHHHHH
Confidence 56777777777777777665433221 4455566666666666654432 5777777777777777777776
Q ss_pred HHh
Q 005882 259 HES 261 (672)
Q Consensus 259 YE~ 261 (672)
|-+
T Consensus 154 wTD 156 (188)
T PF03962_consen 154 WTD 156 (188)
T ss_pred HHh
Confidence 643
No 177
>PF07539 DRIM: Down-regulated in metastasis; InterPro: IPR011430 These eukaryotic proteins include DRIM (Down-Regulated In Metastasis) (O75691 from SWISSPROT), which is differentially expressed in metastatic and non-metastatic human breast carcinoma cells []. It is believed to be involved in processing of non-coding RNA [].
Probab=21.55 E-value=3.9e+02 Score=25.89 Aligned_cols=55 Identities=20% Similarity=0.250 Sum_probs=39.5
Q ss_pred HHHHHHHHHHhCCCCHHHHHHHHHHHH-----HHHhccccchhhhhcchHHHHHHHHHhcc
Q 005882 37 KDVVKGIKKRIGSRNSKVQLLALTLLE-----TIIKNCGDIVHMHVAEKNVLHEMVKIARK 92 (672)
Q Consensus 37 KEAvRaLrKRLksknp~vqLlALtLLE-----tcVKNCG~~Fh~eVask~FLneLvKLvk~ 92 (672)
.+.-.++..=|.++++.+|.+||..|= .+++-. +.+...+.++.|-+||.++...
T Consensus 16 ~~l~~~~~~LL~~~d~~vQklAL~cll~~k~~~l~pY~-d~L~~Lldd~~frdeL~~f~~~ 75 (141)
T PF07539_consen 16 DELYDALLRLLSSRDPEVQKLALDCLLTWKDPYLTPYK-DNLENLLDDKTFRDELTTFNLS 75 (141)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHhCcHHHHhHH-HHHHHHcCcchHHHHHHhhccc
Confidence 344444555568999999999997763 333333 5777888889999999887654
No 178
>PF06012 DUF908: Domain of Unknown Function (DUF908); InterPro: IPR010309 This is a domain of unknown function found at the N terminus of a family of E3 ubiquitin protein ligases, including yeast TOM1, many of which appear to play a role in mRNA transcription and processing. This domain is found in association with and immediately N-terminal to another domain of unknown function: IPR010314 from INTERPRO.
Probab=21.52 E-value=6.7e+02 Score=27.37 Aligned_cols=90 Identities=19% Similarity=0.186 Sum_probs=59.2
Q ss_pred HHHHHHHHhCCCCCHHHHHHHHHHHhC------CCCHHHHHHHHHHHHHHHhccc---cchhhhhc--chHHHHHHHHHh
Q 005882 22 NIEICDMLNHDPGQAKDVVKGIKKRIG------SRNSKVQLLALTLLETIIKNCG---DIVHMHVA--EKNVLHEMVKIA 90 (672)
Q Consensus 22 ileICD~In~~~~~aKEAvRaLrKRLk------sknp~vqLlALtLLEtcVKNCG---~~Fh~eVa--sk~FLneLvKLv 90 (672)
+.+|+|.+-.+-.-++|---.|..||. ....+.++..+.||-.++-+|= ..|...|- +.+|+++|+.++
T Consensus 195 ~~~i~~~~~~~~~iP~~~~f~ll~riR~A~af~~~~~R~~~l~iRllAi~~l~~~~~~~~~~~~~l~~dp~l~~eL~eLi 274 (329)
T PF06012_consen 195 LQQILDKLMEDYNIPKESRFELLHRIRVAKAFSSSSYRRQLLQIRLLAIANLVYIHPESQFSSKLLEQDPELVNELVELI 274 (329)
T ss_pred HHHHHHHHhhhcCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHhhCCCHHHHHHHHhcChHHHHHHHHHh
Confidence 466677665554456665555555553 4455777777777777666542 24444443 345999999999
Q ss_pred cc--CCChhHHHHHHHHHHHHHH
Q 005882 91 RK--KPDTHVKEKILILIDTWQE 111 (672)
Q Consensus 91 k~--k~d~~VKeKILeLIq~Wae 111 (672)
+. ..+..|+.-++.++..-..
T Consensus 275 ~~~~~v~~~i~~~Al~~L~ai~~ 297 (329)
T PF06012_consen 275 SPEEKVPMDIQTAALRALEAISH 297 (329)
T ss_pred CCCCCCCHHHHHHHHHHHHHHHh
Confidence 75 4667888888888877665
No 179
>KOG4246 consensus Predicted DNA-binding protein, contains SAP domain [General function prediction only]
Probab=21.41 E-value=87 Score=38.54 Aligned_cols=32 Identities=34% Similarity=0.614 Sum_probs=18.4
Q ss_pred ccCCCCCCCCCCCcccccC---CCCCCC-CCCCCcccccee
Q 005882 468 YGMQSGGSLPPPPWEAQAA---DSSPVA-GAQYPQQMQVTQ 504 (672)
Q Consensus 468 ~~~~~~~~~pp~pw~~~~~---~~~~~~-~~~~~~~~~~~~ 504 (672)
||-+.| |||-.+.. -++|.+ |+++|+=....+
T Consensus 4 fGgqk~-----pPg~s~~~~~~~~~paalg~~~Psl~Gas~ 39 (1194)
T KOG4246|consen 4 FGGQKG-----PPGSSVSGGAEGGSPAALGSRHPSLTGASQ 39 (1194)
T ss_pred cCCCCC-----CCCcccccccccCCCcCccCCCccccCCCc
Confidence 666665 88987754 244444 445666444443
No 180
>PLN00047 photosystem II biogenesis protein Psb29; Provisional
Probab=21.36 E-value=8.5e+02 Score=26.65 Aligned_cols=116 Identities=11% Similarity=0.124 Sum_probs=72.2
Q ss_pred HHHHHcCCCCCCcCHHHHHH-HHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHHHHHHH---HH----HHHhc--cccchh
Q 005882 5 MVDRATSDMLIGPDWAMNIE-ICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQLLALTL---LE----TIIKN--CGDIVH 74 (672)
Q Consensus 5 lIekATse~l~~pDW~~ile-ICD~In~~~~~aKEAvRaLrKRLksknp~vqLlALtL---LE----tcVKN--CG~~Fh 74 (672)
..|+-+...-.++|-+.|.+ ||..++.+++.-+.-++.|.+-.+..+.....-.|.. |+ .+.++ ....||
T Consensus 110 vfd~fm~GY~Pee~~~~IF~Alc~a~g~Dp~qyr~dA~~l~~~A~~~s~~~l~~~l~~~~~l~~~l~~IA~~a~~~~~f~ 189 (283)
T PLN00047 110 VYDQLMEGYPSDEDRDAIFKAYIKALGEDPEQYRKDAAKLEEWARSQTGSSLVDFSSKEGEIEGILKDIAERAGSKGKFS 189 (283)
T ss_pred HHHHHHccCCChHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCHHHHHHHHhcchHHHHHHHHHHHhhccCCCcc
Confidence 34566666667788887655 9999999999888888888888888777766655531 22 22211 235676
Q ss_pred hhhcchHHHHH-HHHHhccC--CChhHHHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHH
Q 005882 75 MHVAEKNVLHE-MVKIARKK--PDTHVKEKILILIDTWQEAFGGPRARYPQYYAAYQELL 131 (672)
Q Consensus 75 ~eVask~FLne-LvKLvk~k--~d~~VKeKILeLIq~WaeaF~~~~~~~p~~~~aY~~Lk 131 (672)
- + +|+.- |.+|+..- .++ +.|..|.+.+.-...+..+-.++|+.+.
T Consensus 190 Y---S-RlfAIGLf~LLe~a~~~d~-------~~l~~l~e~Lgls~~kv~KDLdlYrsnL 238 (283)
T PLN00047 190 Y---S-RFFAIGLFRLLELANATEP-------TALEKLCAALNINKRSVDRDLDVYRGLL 238 (283)
T ss_pred h---H-HHHHHHHHHHHHhcCCCCH-------HHHHHHHHHcCCCHHHHHhhHHHHHhHH
Confidence 3 2 34443 77776532 232 2777788877643333344556676554
No 181
>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=21.24 E-value=2.6e+02 Score=30.97 Aligned_cols=69 Identities=23% Similarity=0.400 Sum_probs=45.0
Q ss_pred HcCCCCCCcCHH-HHHHHHHHHhCCCCCHH--HHHHHHHHHhCCCC-HHHHHHHHHHHHHHHhccccchhhhhcc
Q 005882 9 ATSDMLIGPDWA-MNIEICDMLNHDPGQAK--DVVKGIKKRIGSRN-SKVQLLALTLLETIIKNCGDIVHMHVAE 79 (672)
Q Consensus 9 ATse~l~~pDW~-~ileICD~In~~~~~aK--EAvRaLrKRLkskn-p~vqLlALtLLEtcVKNCG~~Fh~eVas 79 (672)
|++.....+||. .+.++++.|-.+..-++ ++-..|-.-|.|-- |++.+. .||+.|+.||....+.+++.
T Consensus 241 a~~~~i~~~dWe~~i~e~a~~i~~eQs~~~L~~vR~~LYeLL~~CIPP~~Ilk--~Ll~~Ll~~~d~~~k~~~~~ 313 (351)
T KOG2035|consen 241 ANSQVIPKPDWEIYIQEIARVILKEQSPAKLLEVRGRLYELLSHCIPPNTILK--ELLEELLLKCDTQLKLEVIQ 313 (351)
T ss_pred ccCCCCCCccHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhccCChHHHHH--HHHHHHHhcCCchhHHHHHH
Confidence 344566789999 46789998877554332 22222333345653 555543 67899999998888888775
No 182
>PRK14141 heat shock protein GrpE; Provisional
Probab=21.18 E-value=2.3e+02 Score=29.50 Aligned_cols=45 Identities=18% Similarity=0.283 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcC---CCHHHHHHHhhhhHHHHHHHH
Q 005882 213 EVIVDLVDQCRTYKQRVVHLVNST---ADESLLCQGLQLNDDLQRLLA 257 (672)
Q Consensus 213 Eli~EL~~qCR~mr~RV~rLIq~t---~DEElL~eLL~lNDeLn~VLe 257 (672)
+.+..+...+..+|+|..+=++.. .-+.++.+||.+-|+|.++|+
T Consensus 52 d~~lR~~Ae~eN~RKR~~kE~e~~~~~a~~~~~~dLLpViDnLerAl~ 99 (209)
T PRK14141 52 DRMLRLAAEMENLRKRTQRDVADARAYGIAGFARDMLSVSDNLRRALD 99 (209)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHhHHHHHHh
Confidence 333445555666666666655543 456677777777777777765
No 183
>PF08767 CRM1_C: CRM1 C terminal; InterPro: IPR014877 CRM1 (also known as Exportin1) mediates the nuclear export of proteins bearing a leucine-rich nuclear export signal (NES). CRM1 forms a complex with the NES containing protein and the small GTPase Ran. This region forms an alpha helical structure formed by six helical hairpin motifs that are structurally similar to the HEAT repeat, but share little sequence similarity to the HEAT repeat []. ; PDB: 3M1I_C 3GB8_A 1W9C_A 3NC1_A 3NBY_D 3NBZ_D 3NC0_A 3GJX_D.
Probab=21.15 E-value=1.4e+02 Score=32.37 Aligned_cols=57 Identities=18% Similarity=0.190 Sum_probs=42.8
Q ss_pred CCCCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcccc---chhhhhcchHHHHHHHH
Q 005882 32 DPGQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKNCGD---IVHMHVAEKNVLHEMVK 88 (672)
Q Consensus 32 ~~~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKNCG~---~Fh~eVask~FLneLvK 88 (672)
.++.-+..+..|.-=++|.+..+...+|.+|..+++||.. .|..++...-|+.-|..
T Consensus 159 p~~~f~~~idsi~wg~kh~~~~I~~~~L~~l~~ll~~~~~~~~~~~~~F~~~y~~~il~~ 218 (319)
T PF08767_consen 159 PPEQFKLVIDSIVWGFKHTNREISETGLNILLELLNNVSKTNPEFANQFYQQYYLDILQD 218 (319)
T ss_dssp -HHHHHHHHHHHHHHHTSSSHHHHHHHHHHHHHHHHHHHH-SHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHH
Confidence 4445678888888889999999999999999999999977 55555555444444433
No 184
>PHA03098 kelch-like protein; Provisional
Probab=20.88 E-value=2.8e+02 Score=31.68 Aligned_cols=107 Identities=14% Similarity=0.167 Sum_probs=59.6
Q ss_pred HHHHHHcCCCC--CCcCHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCHHHHH------HHHHHHHHHHhccccchhh
Q 005882 4 SMVDRATSDML--IGPDWAMNIEICDMLNHDPGQAKDVVKGIKKRIGSRNSKVQL------LALTLLETIIKNCGDIVHM 75 (672)
Q Consensus 4 ~lIekATse~l--~~pDW~~ileICD~In~~~~~aKEAvRaLrKRLksknp~vqL------lALtLLEtcVKNCG~~Fh~ 75 (672)
.+|+-+-...+ ..++..-+++++|...-.. -.+.|.+.|.++|...|--..+ .+-.|.+.|.+=.-+.|..
T Consensus 61 ~~l~y~Ytg~~~i~~~~~~~ll~~A~~l~~~~-l~~~C~~~l~~~l~~~nc~~~~~~a~~~~~~~L~~~~~~~i~~nf~~ 139 (534)
T PHA03098 61 EVIKYIYTGKINITSNNVKDILSIANYLIIDF-LINLCINYIIKIIDDNNCIDIYRFSFFYGCKKLYSAAYNYIRNNIEL 139 (534)
T ss_pred HHHHHhcCCceEEcHHHHHHHHHHHHHhCcHH-HHHHHHHHHHHhCCHhHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHH
Confidence 34444433333 2334445566666655432 2345667777777655432111 1224555555554455665
Q ss_pred hhcchHHH----HHHHHHhccCCChhH--HHHHHHHHHHHHHH
Q 005882 76 HVAEKNVL----HEMVKIARKKPDTHV--KEKILILIDTWQEA 112 (672)
Q Consensus 76 eVask~FL----neLvKLvk~k~d~~V--KeKILeLIq~Waea 112 (672)
...+++|+ +.|++|++.. +..| -+.+++.+..|.+.
T Consensus 140 v~~~~~f~~l~~~~l~~ll~~~-~L~v~~E~~v~~av~~W~~~ 181 (534)
T PHA03098 140 IYNDPDFIYLSKNELIKILSDD-KLNVSSEDVVLEIIIKWLTS 181 (534)
T ss_pred HhcCchhhcCCHHHHHHHhcCC-CcCcCCHHHHHHHHHHHHhc
Confidence 56666774 4577777753 3444 35689999999875
No 185
>COG4229 Predicted enolase-phosphatase [Energy production and conversion]
Probab=20.87 E-value=1.2e+02 Score=31.38 Aligned_cols=53 Identities=17% Similarity=0.238 Sum_probs=30.8
Q ss_pred HHHHHHHhccCCChhHHHHHHHHHH--HHHHHhCCCCCChhHHHHHHHHHHH---hcc
Q 005882 83 LHEMVKIARKKPDTHVKEKILILID--TWQEAFGGPRARYPQYYAAYQELLR---AGA 135 (672)
Q Consensus 83 LneLvKLvk~k~d~~VKeKILeLIq--~WaeaF~~~~~~~p~~~~aY~~Lkr---kGi 135 (672)
.++|+.++..=.+..+|+..|..+| .|+..|.+..-.-+.|-++++.||+ .|+
T Consensus 63 ~E~lva~~~~wiaed~K~t~lK~lQG~iWa~Gy~sgelkahlypDav~~ik~wk~~g~ 120 (229)
T COG4229 63 EEALVALLLEWIAEDSKDTPLKALQGMIWAHGYESGELKAHLYPDAVQAIKRWKALGM 120 (229)
T ss_pred HHHHHHHHHHHHhcccccchHHHHHhHHHHhccccCccccccCHhHHHHHHHHHHcCC
Confidence 3344444433233456667777775 5999998754333456666666654 554
No 186
>PF13618 Gluconate_2-dh3: Gluconate 2-dehydrogenase subunit 3
Probab=20.70 E-value=6.7e+02 Score=23.07 Aligned_cols=74 Identities=15% Similarity=0.130 Sum_probs=42.0
Q ss_pred cCHHHHHHHHHHHhC--CCCCHHH--HHHHHHHHhCC-CCHHHHH---HHHHHHHHHHh-ccccchhhhhcchHHHHHHH
Q 005882 17 PDWAMNIEICDMLNH--DPGQAKD--VVKGIKKRIGS-RNSKVQL---LALTLLETIIK-NCGDIVHMHVAEKNVLHEMV 87 (672)
Q Consensus 17 pDW~~ileICD~In~--~~~~aKE--AvRaLrKRLks-knp~vqL---lALtLLEtcVK-NCG~~Fh~eVask~FLneLv 87 (672)
..|..+.+|||.|-= +.-++++ +++.|-++|.+ ..+..+. ..|..||...+ --|+.|. ++...+-..-|.
T Consensus 3 ~e~~~L~ai~~~iiP~~~~pgA~~~~v~~fId~~l~~~~~~~~~~~~~~gl~~ld~~a~~~~g~~F~-~l~~~~~~~lL~ 81 (131)
T PF13618_consen 3 EEAATLAAIADTIIPADDTPGASDAGVPEFIDRMLADCYMPEDRRAFRAGLAALDAYAQKRYGKSFA-ELSPAQREALLD 81 (131)
T ss_pred HHHHHHHHHHHHhcCCCCCCChhhcChHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHhCCChh-hCCHHHHHHHHH
Confidence 468889999998872 2244544 67788888876 3344333 33444443332 2266666 344444444444
Q ss_pred HHhc
Q 005882 88 KIAR 91 (672)
Q Consensus 88 KLvk 91 (672)
++.+
T Consensus 82 ~~~~ 85 (131)
T PF13618_consen 82 ALEK 85 (131)
T ss_pred HHHh
Confidence 4444
No 187
>PF09324 DUF1981: Domain of unknown function (DUF1981); InterPro: IPR015403 This domain is functionally uncharacterised and found in various plant and yeast protein transport proteins. It is noramlly associated with and C-termianl to the SEC7 domain. The SEC7 domain was named after the first protein found to contain such a region []. It has been shown to be linked with guanine nucleotide exchange function [, ].
Probab=20.61 E-value=2.3e+02 Score=25.05 Aligned_cols=34 Identities=26% Similarity=0.270 Sum_probs=27.0
Q ss_pred hHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHh
Q 005882 80 KNVLHEMVKIARKKPDTHVKEKILILIDTWQEAF 113 (672)
Q Consensus 80 k~FLneLvKLvk~k~d~~VKeKILeLIq~WaeaF 113 (672)
++||.=++.|+....+.+||+++|+.|..--...
T Consensus 16 ~~fL~Pf~~i~~~~~~~~vre~il~ci~qil~~~ 49 (86)
T PF09324_consen 16 KDFLKPFEYIMSNNPSIDVRELILECILQILQSR 49 (86)
T ss_pred HHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHHh
Confidence 5788888888877788899999999877666653
No 188
>PF04740 LXG: LXG domain of WXG superfamily; InterPro: IPR006829 This group of putative transposases is found in Gram-positive bacteria, mostly Bacillus members and is thought to be a Cytosolic protein. However, we have also found a Bacillus subtilis bacteriophage SPbetac2 homologue (O64023 from SWISSPROT), possibly arising as a result of horizontal transfer. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=20.53 E-value=6.4e+02 Score=24.97 Aligned_cols=75 Identities=15% Similarity=0.288 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHHHHhcCCCC----hHHHHH-HHHHHHHHHHHHHHHHhhcC----------------CCHHHHHHHhhh
Q 005882 190 QNARGIMDVLAEMLNALDPNN----KEEVIV-DLVDQCRTYKQRVVHLVNST----------------ADESLLCQGLQL 248 (672)
Q Consensus 190 e~ak~nvkLL~EML~~l~P~~----~eEli~-EL~~qCR~mr~RV~rLIq~t----------------~DEElL~eLL~l 248 (672)
+.....++.+.+.+..+++.. .++.++ |+-..++.+...+..+...+ ....+...+-.+
T Consensus 71 ~~~~~~l~~~~~~~~~vd~~~~a~i~e~~L~~el~~~l~~~~~~~~~~~~~~~~~~~~vsdiv~~~~~~~~~~~~~~~~~ 150 (204)
T PF04740_consen 71 EEYQEALKFIKDFQSEVDSSSNAIIDEDFLESELKKKLNQLKEQIEDLQDEINSILSSVSDIVSLPKPSSSSFIDSLEKA 150 (204)
T ss_pred HHHHHHHHhHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccchHHHHhhccchHHHHHHHHHHH
Confidence 344444455555555554422 125555 55555555555554443221 234555556667
Q ss_pred hHHHHHHHHHHHhhhc
Q 005882 249 NDDLQRLLAKHESFAS 264 (672)
Q Consensus 249 NDeLn~VLekYE~l~~ 264 (672)
.++|.+.|++...|-.
T Consensus 151 ~~~l~~~lekL~~fd~ 166 (204)
T PF04740_consen 151 KKKLQETLEKLRAFDQ 166 (204)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 7777777777777654
No 189
>PF05633 DUF793: Protein of unknown function (DUF793); InterPro: IPR008511 This entry includes Protein BYPASS 1 which is required for normal root and shoot development. Prevents constitutive production of a root mobile carotenoid-derived signaling compound that is capable of arresting shoot and leaf development [, ].
Probab=20.40 E-value=1.7e+02 Score=33.13 Aligned_cols=62 Identities=23% Similarity=0.336 Sum_probs=39.8
Q ss_pred HhhhhhccCCCC--CCCHHHHHHHHHHHHHHHHHHHhcC-CCChH------HHHHHHHHHHHHHHHHHHHH
Q 005882 171 EAAEASAESEFP--TLSLTEIQNARGIMDVLAEMLNALD-PNNKE------EVIVDLVDQCRTYKQRVVHL 232 (672)
Q Consensus 171 ~~~e~s~~~e~~--s~~lsELe~ak~nvkLL~EML~~l~-P~~~e------Eli~EL~~qCR~mr~RV~rL 232 (672)
.+.++.++.+.. .-.+.||+.+...++-|.|+++... |.+.| +.+.||...|+.++.=|-.|
T Consensus 297 rI~eEikkk~~kgs~gLLkEl~~ve~~vr~L~el~d~~~~p~~~e~~~ev~~~V~EL~~~~~~L~~GLdpL 367 (389)
T PF05633_consen 297 RINEEIKKKERKGSCGLLKELQQVEASVRELHELIDSFQFPLEEEKEEEVREAVEELARVCEALSQGLDPL 367 (389)
T ss_pred HHHHHHhhccccCcchHHHHHHHHHHHHHHHHHHHHhccCCcchhHHHHHHHHHHHHHHHHHHHHcccHHH
Confidence 344545554433 1237899999999999999999764 22222 56677777777766544333
No 190
>PF09388 SpoOE-like: Spo0E like sporulation regulatory protein; InterPro: IPR018540 Spore formation is an extreme response to starvation and can also be a component of disease transmission. Sporulation is controlled by an expanded two-component system where starvation signals result in sensor kinase activation and phosphorylation of the master sporulation response regulator Spo0A. Phosphatases such as Spo0E dephosphorylate Spo0A thereby inhibiting sporulation. This is a family of Spo0E-like phosphatases. The structure of a Bacillus anthracis member of this family has revealed an anti-parallel alpha-helical structure []. ; PDB: 2BZB_B 2C0S_A.
Probab=20.38 E-value=3.5e+02 Score=20.98 Aligned_cols=42 Identities=19% Similarity=0.445 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHHHhhcC--CCHHHHHHHhhhhHHHHHHHHHHHhh
Q 005882 217 DLVDQCRTYKQRVVHLVNST--ADESLLCQGLQLNDDLQRLLAKHESF 262 (672)
Q Consensus 217 EL~~qCR~mr~RV~rLIq~t--~DEElL~eLL~lNDeLn~VLekYE~l 262 (672)
+|..+.+.+|.++..++..- .|++ .|.+.-+|...|..|.++
T Consensus 1 ~L~~~Ie~~R~~L~~~~~~~~l~~~~----vl~~Sq~LD~lI~~y~~~ 44 (45)
T PF09388_consen 1 ELLEEIEELRQELNELAEKKGLTDPE----VLELSQELDKLINEYQKL 44 (45)
T ss_dssp HHHHHHHHHHHHHHHHHHHCCTTCHH----HHHHHHHHHHHHHHHHCH
T ss_pred CHHHHHHHHHHHHHHHHHHcCCCCHH----HHHHHHHHHHHHHHHhhh
Confidence 35667778888999988763 5665 478899999999998764
No 191
>PF07197 DUF1409: Protein of unknown function (DUF1409); InterPro: IPR010811 This represents a short conserved region (approximately 50 residues long), sometimes repeated, within a number of hypothetical Oryza sativa proteins of unknown function.
Probab=20.36 E-value=79 Score=26.00 Aligned_cols=28 Identities=21% Similarity=0.568 Sum_probs=17.4
Q ss_pred HHHHHhcccc---chhhhhcchHHHHHHHHHhc
Q 005882 62 LETIIKNCGD---IVHMHVAEKNVLHEMVKIAR 91 (672)
Q Consensus 62 LEtcVKNCG~---~Fh~eVask~FLneLvKLvk 91 (672)
||.+|.|||. +|| | +....-+++.+++.
T Consensus 7 ld~lv~~cg~Irarle-E-~qa~i~~e~~~l~~ 37 (51)
T PF07197_consen 7 LDLLVVDCGSIRARLE-E-IQAQIPDELAKLAT 37 (51)
T ss_pred HHHHHhccchHHHHHH-H-HHHHhhHHHHHhcC
Confidence 7899999995 333 2 23345555666554
No 192
>PF14911 MMS22L_C: S-phase genomic integrity recombination mediator, C-terminal
Probab=20.28 E-value=2.5e+02 Score=31.71 Aligned_cols=42 Identities=17% Similarity=0.323 Sum_probs=31.3
Q ss_pred hCCCCHHHHHHHHHHHHHHHhccccchhhhhcchHHHHHHHH
Q 005882 47 IGSRNSKVQLLALTLLETIIKNCGDIVHMHVAEKNVLHEMVK 88 (672)
Q Consensus 47 Lksknp~vqLlALtLLEtcVKNCG~~Fh~eVask~FLneLvK 88 (672)
|+.++...-.+...++-.+||||+..|...=-...|+..++.
T Consensus 78 l~~~~se~l~~~Y~~lg~lvk~c~~llytksk~~cll~~~vd 119 (373)
T PF14911_consen 78 LKSKSSEGLQRIYRVLGILVKHCSPLLYTKSKSQCLLFRIVD 119 (373)
T ss_pred cccCCHHHHHHHHHHHHHHHHhcchhheecCccccHHHHHHH
Confidence 334588888899999999999999888764445566666543
No 193
>PF13251 DUF4042: Domain of unknown function (DUF4042)
Probab=20.02 E-value=1.1e+02 Score=30.88 Aligned_cols=35 Identities=23% Similarity=0.424 Sum_probs=31.6
Q ss_pred CCHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhc
Q 005882 34 GQAKDVVKGIKKRIGSRNSKVQLLALTLLETIIKN 68 (672)
Q Consensus 34 ~~aKEAvRaLrKRLksknp~vqLlALtLLEtcVKN 68 (672)
+-..+.++.|+.+|.|+++.++..+|.+++.++..
T Consensus 141 ~ll~~~v~~v~~~l~~~d~~v~v~~l~~~~~l~s~ 175 (182)
T PF13251_consen 141 GLLTEVVTQVRPLLRHRDPNVRVAALSCLGALLSV 175 (182)
T ss_pred hHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcC
Confidence 34689999999999999999999999999998864
Done!