Query psy12750
Match_columns 93
No_of_seqs 104 out of 427
Neff 6.2
Searched_HMMs 46136
Date Fri Aug 16 18:42:51 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12750.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12750hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd03567 VHS_GGA VHS domain fam 100.0 2.8E-36 6.1E-41 207.2 10.7 88 3-90 51-138 (139)
2 cd03565 VHS_Tom1 VHS domain fa 100.0 7.2E-34 1.6E-38 195.2 10.2 86 3-91 52-141 (141)
3 cd03568 VHS_STAM VHS domain fa 100.0 4.5E-33 9.9E-38 192.0 10.3 84 3-91 50-136 (144)
4 cd03569 VHS_Hrs_Vps27p VHS dom 100.0 3.1E-32 6.7E-37 187.3 10.2 85 3-92 54-141 (142)
5 smart00288 VHS Domain present 100.0 1.5E-29 3.3E-34 171.8 10.0 81 3-87 50-133 (133)
6 PF00790 VHS: VHS domain; Int 100.0 1E-28 2.2E-33 168.4 9.3 81 3-87 55-140 (140)
7 KOG1086|consensus 99.9 6.2E-28 1.3E-32 190.2 8.3 87 5-91 60-146 (594)
8 cd03561 VHS VHS domain family; 99.9 4.6E-27 1E-31 159.2 10.0 80 3-85 50-133 (133)
9 KOG1087|consensus 99.9 2.7E-26 5.8E-31 182.3 9.3 85 3-91 51-139 (470)
10 KOG2199|consensus 99.9 1.6E-24 3.5E-29 168.9 8.7 84 3-91 58-144 (462)
11 cd00197 VHS_ENTH_ANTH VHS, ENT 99.8 1.6E-19 3.4E-24 118.7 7.6 66 3-68 50-115 (115)
12 KOG1818|consensus 99.7 4.3E-18 9.3E-23 138.9 6.1 86 2-91 57-145 (634)
13 cd03562 CID CID (CTD-Interacti 97.2 0.00085 1.8E-08 43.6 4.9 62 3-71 50-111 (114)
14 PF01417 ENTH: ENTH domain; I 96.2 0.02 4.3E-07 37.9 6.0 61 3-65 55-118 (125)
15 cd03571 ENTH_epsin ENTH domain 95.9 0.039 8.4E-07 37.2 6.1 61 3-65 52-115 (123)
16 KOG2056|consensus 95.7 0.054 1.2E-06 42.4 7.0 66 3-68 72-138 (336)
17 smart00582 RPR domain present 94.3 0.11 2.4E-06 33.7 4.7 63 6-71 48-112 (121)
18 cd03572 ENTH_epsin_related ENT 93.8 0.29 6.3E-06 33.1 5.9 63 3-65 51-116 (122)
19 smart00273 ENTH Epsin N-termin 92.8 0.8 1.7E-05 30.2 6.8 64 3-66 53-117 (127)
20 KOG0946|consensus 92.3 0.54 1.2E-05 40.9 6.6 80 2-87 134-221 (970)
21 cd08779 Death_PIDD Death Domai 92.1 0.61 1.3E-05 29.3 5.3 69 14-87 5-74 (86)
22 PF04818 CTD_bind: RNA polymer 91.7 0.23 5.1E-06 29.1 2.9 57 8-68 2-59 (64)
23 KOG2057|consensus 90.4 1.5 3.2E-05 35.0 7.0 60 3-64 77-139 (499)
24 cd08319 Death_RAIDD Death doma 89.1 1.7 3.6E-05 27.4 5.3 71 14-90 5-76 (83)
25 cd08306 Death_FADD Fas-associa 88.4 2.1 4.6E-05 26.8 5.4 70 13-88 4-74 (86)
26 PF11841 DUF3361: Domain of un 87.8 2.7 5.8E-05 29.7 6.2 59 3-68 73-131 (160)
27 PF12348 CLASP_N: CLASP N term 87.3 3.2 6.9E-05 29.2 6.4 64 3-72 144-210 (228)
28 PF07531 TAFH: NHR1 homology t 85.1 2 4.4E-05 28.0 4.1 33 32-69 7-39 (96)
29 cd08318 Death_NMPP84 Death dom 83.9 4.5 9.8E-05 25.2 5.3 69 14-88 10-78 (86)
30 cd01670 Death Death Domain: a 83.5 4.5 9.7E-05 23.9 5.0 34 55-88 37-70 (79)
31 cd08777 Death_RIP1 Death Domai 83.2 4.5 9.8E-05 25.4 5.1 70 14-87 5-75 (86)
32 smart00005 DEATH DEATH domain, 83.2 3.5 7.6E-05 25.0 4.5 69 15-88 9-78 (88)
33 smart00549 TAFH TAF homology. 82.7 6 0.00013 25.7 5.5 33 32-69 6-38 (92)
34 cd08805 Death_ank1 Death domai 82.7 5.6 0.00012 25.1 5.3 68 14-87 7-75 (84)
35 PRK01005 V-type ATP synthase s 82.3 8 0.00017 28.2 6.7 80 9-92 68-165 (207)
36 KOG2160|consensus 79.3 12 0.00026 29.5 7.1 62 4-71 138-199 (342)
37 KOG1293|consensus 78.4 9.4 0.0002 32.6 6.7 62 2-69 473-534 (678)
38 cd08317 Death_ank Death domain 77.4 8.9 0.00019 23.6 4.9 68 14-87 7-75 (84)
39 PF00531 Death: Death domain; 77.0 5.3 0.00012 23.6 3.8 34 55-88 39-72 (83)
40 PF07197 DUF1409: Protein of u 76.7 3.2 7E-05 24.1 2.6 31 14-44 7-38 (51)
41 cd08804 Death_ank2 Death domai 75.1 11 0.00023 23.5 4.8 67 14-85 7-73 (84)
42 PF09324 DUF1981: Domain of un 74.8 7.3 0.00016 24.3 4.1 34 32-70 16-49 (86)
43 PF00618 RasGEF_N: RasGEF N-te 74.5 13 0.00028 23.1 5.2 48 25-73 33-90 (104)
44 PF09712 PHA_synth_III_E: Poly 74.1 16 0.00034 27.9 6.5 65 12-83 215-281 (293)
45 cd03564 ANTH_AP180_CALM ANTH d 72.6 5.6 0.00012 25.8 3.3 30 3-32 50-79 (117)
46 cd06224 REM Guanine nucleotide 71.8 13 0.00029 23.4 4.9 22 52-73 63-84 (122)
47 PF12783 Sec7_N: Guanine nucle 69.2 25 0.00054 23.9 6.1 64 3-72 35-106 (168)
48 cd00020 ARM Armadillo/beta-cat 67.1 25 0.00054 21.2 5.4 56 3-65 62-117 (120)
49 PF12348 CLASP_N: CLASP N term 65.3 33 0.00072 23.9 6.2 61 3-71 66-126 (228)
50 cd08803 Death_ank3 Death domai 63.2 25 0.00054 22.0 4.7 68 15-87 8-75 (84)
51 smart00229 RasGEFN Guanine nuc 62.9 27 0.00058 22.4 5.0 34 53-86 69-110 (127)
52 PF13513 HEAT_EZ: HEAT-like re 60.7 26 0.00056 19.1 4.8 51 4-62 1-51 (55)
53 PF11426 Tn7_TnsC_Int: Tn7 tra 59.7 6.7 0.00015 22.4 1.5 14 78-91 26-39 (48)
54 PF12755 Vac14_Fab1_bd: Vacuol 58.7 45 0.00097 21.2 5.4 49 3-59 40-88 (97)
55 cd08316 Death_FAS_TNFRSF6 Deat 57.0 50 0.0011 21.2 6.0 36 52-87 45-80 (97)
56 PRK11639 zinc uptake transcrip 56.5 41 0.00088 23.3 5.3 53 30-89 5-57 (169)
57 PF11707 Npa1: Ribosome 60S bi 56.5 87 0.0019 23.9 8.1 42 5-46 71-114 (330)
58 KOG3219|consensus 56.0 23 0.0005 25.9 4.0 38 53-90 147-185 (195)
59 PF09447 Cnl2_NKP2: Cnl2/NKP2 56.0 18 0.00038 22.1 3.0 24 63-86 22-49 (67)
60 COG1725 Predicted transcriptio 55.9 18 0.00039 24.5 3.3 16 76-91 52-67 (125)
61 PF05596 Taeniidae_ag: Taeniid 55.4 44 0.00095 20.1 4.7 18 54-71 27-44 (64)
62 PF02005 TRM: N2,N2-dimethylgu 55.1 33 0.00071 27.1 5.1 60 27-91 278-354 (377)
63 PF08285 DPM3: Dolichol-phosph 54.5 13 0.00028 23.8 2.3 16 75-90 76-91 (91)
64 cd00773 HisRS-like_core Class 54.0 25 0.00054 25.6 4.1 68 9-88 123-191 (261)
65 PF12993 DUF3877: Domain of un 52.9 14 0.0003 26.6 2.5 41 23-70 85-125 (175)
66 cd08051 gp6_gp15_like Head-Tai 51.5 51 0.0011 20.9 4.8 44 7-68 19-62 (94)
67 PF13812 PPR_3: Pentatricopept 51.3 27 0.0006 16.6 3.0 15 75-89 19-33 (34)
68 PF04123 DUF373: Domain of unk 49.3 28 0.0006 27.4 3.8 41 51-91 22-68 (344)
69 COG4229 Predicted enolase-phos 49.0 23 0.0005 26.2 3.1 34 52-85 75-114 (229)
70 COG1867 TRM1 N2,N2-dimethylgua 48.8 46 0.001 26.7 5.0 67 22-91 271-351 (380)
71 PF12243 CTK3: CTD kinase subu 48.0 88 0.0019 21.4 7.4 33 54-86 105-138 (139)
72 PF08711 Med26: TFIIS helical 47.3 30 0.00065 19.2 2.9 19 51-69 33-51 (53)
73 TIGR01834 PHA_synth_III_E poly 46.5 1.2E+02 0.0025 23.9 6.8 65 13-84 233-299 (320)
74 PF12830 Nipped-B_C: Sister ch 46.3 1E+02 0.0022 21.6 6.7 71 3-85 21-97 (187)
75 PF02854 MIF4G: MIF4G domain; 45.6 26 0.00055 23.5 2.8 55 9-64 146-204 (209)
76 PF07962 Swi3: Replication For 45.4 51 0.0011 20.5 4.0 33 54-87 33-66 (83)
77 COG4477 EzrA Negative regulato 44.9 1.1E+02 0.0023 25.9 6.7 80 6-92 161-250 (570)
78 TIGR00308 TRM1 tRNA(guanine-26 44.0 52 0.0011 25.9 4.7 60 26-91 270-346 (374)
79 cd08784 Death_DRs Death Domain 43.6 74 0.0016 19.3 5.9 34 55-88 38-71 (79)
80 PF08784 RPA_C: Replication pr 42.8 70 0.0015 19.9 4.4 39 53-92 46-98 (102)
81 cd00020 ARM Armadillo/beta-cat 42.3 75 0.0016 19.0 5.7 61 3-70 20-80 (120)
82 PF09336 Vps4_C: Vps4 C termin 42.0 32 0.00069 20.3 2.5 34 28-71 29-62 (62)
83 TIGR02093 P_ylase glycogen/sta 41.0 1.5E+02 0.0033 26.1 7.3 79 6-84 405-504 (794)
84 KOG3036|consensus 38.8 84 0.0018 24.3 4.9 36 8-43 143-178 (293)
85 COG5209 RCD1 Uncharacterized p 38.2 70 0.0015 24.6 4.4 37 8-44 164-200 (315)
86 cd08313 Death_TNFR1 Death doma 38.2 90 0.0019 19.4 4.2 35 54-88 37-72 (80)
87 cd08324 CARD_NOD1_CARD4 Caspas 37.9 56 0.0012 20.9 3.3 34 51-84 43-81 (85)
88 PF12333 Ipi1_N: Rix1 complex 37.0 1.1E+02 0.0024 19.4 7.7 42 3-45 24-65 (102)
89 cd08315 Death_TRAILR_DR4_DR5 D 36.4 1.1E+02 0.0025 19.3 5.3 33 56-88 47-79 (96)
90 KOG3835|consensus 36.2 1.3E+02 0.0028 24.6 5.8 53 11-69 24-78 (495)
91 KOG1663|consensus 35.8 62 0.0013 24.4 3.7 75 9-88 37-123 (237)
92 KOG1268|consensus 35.4 19 0.00042 30.4 1.1 20 20-39 362-381 (670)
93 PF04124 Dor1: Dor1-like famil 35.4 1.3E+02 0.0028 23.0 5.6 27 12-40 111-137 (338)
94 PRK09552 mtnX 2-hydroxy-3-keto 35.4 1.2E+02 0.0026 21.2 5.0 22 70-91 73-94 (219)
95 PF14726 RTTN_N: Rotatin, an a 35.0 1.3E+02 0.0027 19.4 5.1 49 7-64 47-96 (98)
96 smart00229 RasGEFN Guanine nuc 34.9 1.2E+02 0.0025 19.3 4.6 37 6-42 71-107 (127)
97 smart00509 TFS2N Domain in the 34.6 65 0.0014 19.5 3.2 20 51-70 54-73 (75)
98 cd08356 Glo_EDI_BRP_like_17 Th 33.5 34 0.00075 21.2 1.8 18 74-91 64-81 (113)
99 COG5573 Predicted nucleic-acid 32.5 70 0.0015 22.2 3.3 61 2-71 8-77 (142)
100 PHA00670 hypothetical protein 32.5 1.7E+02 0.0037 24.3 6.1 61 27-88 353-419 (540)
101 KOG2071|consensus 32.3 26 0.00056 29.6 1.4 61 3-70 53-113 (579)
102 PF01535 PPR: PPR repeat; Int 31.3 45 0.00098 15.3 1.7 14 75-88 18-31 (31)
103 KOG3120|consensus 31.2 99 0.0021 23.5 4.2 46 32-88 56-101 (256)
104 PF02671 PAH: Paired amphipath 30.8 87 0.0019 16.8 3.0 31 32-66 5-35 (47)
105 PRK04778 septation ring format 30.6 60 0.0013 26.7 3.2 32 61-92 219-251 (569)
106 KOG3489|consensus 30.5 24 0.00052 22.6 0.7 12 14-25 54-65 (86)
107 PF08158 NUC130_3NT: NUC130/3N 30.2 1.1E+02 0.0023 17.5 3.4 29 31-61 13-41 (52)
108 PF12765 Cohesin_HEAT: HEAT re 30.1 94 0.002 16.7 3.0 26 32-63 17-42 (42)
109 KOG2999|consensus 30.1 1.6E+02 0.0035 25.3 5.6 64 3-73 184-247 (713)
110 cd00183 TFIIS_I N-terminal dom 29.9 92 0.002 18.7 3.3 20 51-70 56-75 (76)
111 TIGR03044 PS_II_psb27 photosys 29.6 1.9E+02 0.0042 19.9 6.3 52 32-84 42-99 (135)
112 smart00543 MIF4G Middle domain 29.0 1.5E+02 0.0033 19.7 4.6 30 9-39 138-167 (200)
113 KOG2501|consensus 28.6 39 0.00084 23.8 1.6 19 74-92 53-71 (157)
114 PLN00139 hypothetical protein; 28.1 55 0.0012 25.2 2.5 29 64-93 189-217 (320)
115 KOG3675|consensus 27.8 73 0.0016 25.7 3.1 28 59-87 387-414 (417)
116 COG0735 Fur Fe2+/Zn2+ uptake r 27.4 1.1E+02 0.0024 20.6 3.7 29 56-88 23-51 (145)
117 PF07793 DUF1631: Protein of u 27.4 3.1E+02 0.0067 23.1 6.9 52 32-83 404-457 (729)
118 PF11140 DUF2913: Protein of u 27.3 2.2E+02 0.0048 20.4 5.4 40 5-45 8-48 (207)
119 COG3355 Predicted transcriptio 27.1 62 0.0013 22.0 2.3 23 50-72 91-113 (126)
120 PF06012 DUF908: Domain of Unk 26.6 2.9E+02 0.0063 21.0 8.6 58 6-68 238-297 (329)
121 PF10073 DUF2312: Uncharacteri 26.6 57 0.0012 20.3 1.9 16 75-90 26-41 (74)
122 PF00897 Orbi_VP7: Orbivirus i 25.7 23 0.0005 28.1 0.0 29 6-34 4-32 (350)
123 PRK04338 N(2),N(2)-dimethylgua 25.5 2E+02 0.0044 22.6 5.2 63 22-91 275-355 (382)
124 PF08388 GIIM: Group II intron 25.4 1.5E+02 0.0032 17.3 6.2 40 32-72 2-41 (80)
125 cd08357 Glo_EDI_BRP_like_18 Th 25.3 61 0.0013 19.7 1.9 18 74-91 76-93 (125)
126 PF12550 GCR1_C: Transcription 25.3 97 0.0021 18.8 2.8 16 60-75 12-27 (81)
127 KOG0151|consensus 25.1 1E+02 0.0022 27.1 3.7 60 11-70 489-555 (877)
128 cd07233 Glyoxalase_I Glyoxalas 24.7 61 0.0013 19.5 1.8 18 75-92 80-97 (121)
129 PF08494 DEAD_assoc: DEAD/H as 24.7 2.3E+02 0.005 19.8 5.0 49 41-90 110-159 (187)
130 PF02953 zf-Tim10_DDP: Tim10/D 24.6 41 0.00089 19.5 1.0 11 15-25 42-52 (66)
131 TIGR01873 cas_CT1978 CRISPR-as 24.5 77 0.0017 20.2 2.3 41 19-66 7-48 (87)
132 cd08353 Glo_EDI_BRP_like_7 Thi 24.2 62 0.0013 20.5 1.9 17 75-91 97-113 (142)
133 PF06160 EzrA: Septation ring 24.0 85 0.0018 25.9 3.0 36 57-92 211-247 (560)
134 smart00775 LNS2 LNS2 domain. T 23.9 61 0.0013 22.1 1.9 17 74-90 30-46 (157)
135 TIGR00756 PPR pentatricopeptid 23.9 84 0.0018 14.4 2.0 16 75-90 18-33 (35)
136 PF02262 Cbl_N: CBL proto-onco 23.8 81 0.0018 21.7 2.4 33 5-37 8-40 (130)
137 PF06135 DUF965: Bacterial pro 23.8 67 0.0015 20.2 1.8 14 76-89 21-34 (79)
138 PF12181 MogR_DNAbind: DNA bin 23.7 69 0.0015 22.3 2.1 19 74-92 105-123 (148)
139 PF12994 DUF3878: Domain of un 23.6 3.6E+02 0.0078 21.1 8.0 77 8-89 169-263 (299)
140 KOG4841|consensus 23.5 67 0.0015 20.8 1.8 17 74-90 79-95 (95)
141 PF12552 DUF3741: Protein of u 23.3 1.2E+02 0.0027 17.0 2.7 13 30-43 19-31 (46)
142 COG4902 Uncharacterized protei 23.0 67 0.0014 23.0 1.9 15 74-88 118-132 (189)
143 KOG1793|consensus 23.0 2E+02 0.0043 23.5 4.7 56 24-88 203-258 (417)
144 cd07266 HPCD_N_class_II N-term 22.8 71 0.0015 19.5 1.9 19 74-92 72-90 (121)
145 COG3705 HisZ ATP phosphoribosy 22.7 1.1E+02 0.0024 24.5 3.4 47 11-64 138-185 (390)
146 COG1654 BirA Biotin operon rep 22.5 1.2E+02 0.0026 18.8 2.8 18 75-92 35-52 (79)
147 COG3880 Modulator of heat shoc 22.3 1.3E+02 0.0029 21.6 3.3 68 19-86 78-170 (176)
148 PRK11558 putative ssRNA endonu 22.0 93 0.002 20.2 2.3 44 18-68 8-52 (97)
149 PF07709 SRR: Seven Residue Re 21.9 54 0.0012 13.7 0.8 10 75-84 5-14 (14)
150 PRK12292 hisZ ATP phosphoribos 21.7 1.5E+02 0.0032 23.1 3.8 30 10-39 140-170 (391)
151 cd06257 DnaJ DnaJ domain or J- 21.5 1.5E+02 0.0032 15.7 3.4 34 51-84 13-54 (55)
152 PF13646 HEAT_2: HEAT repeats; 21.5 1.8E+02 0.0038 16.7 5.9 31 28-64 26-56 (88)
153 KOG2636|consensus 21.2 97 0.0021 25.7 2.7 33 56-88 445-496 (497)
154 PF14776 UNC-79: Cation-channe 21.0 1.3E+02 0.0027 25.3 3.4 40 49-88 395-436 (525)
155 PTZ00100 DnaJ chaperone protei 20.9 1.6E+02 0.0036 19.6 3.4 35 50-84 77-115 (116)
156 PF12834 Phage_int_SAM_2: Phag 20.9 2.3E+02 0.0049 17.7 4.8 54 15-69 9-64 (91)
157 PRK05932 RNA polymerase factor 20.7 99 0.0021 25.1 2.7 39 50-91 394-433 (455)
158 cd04300 GT1_Glycogen_Phosphory 20.5 5.1E+02 0.011 22.9 7.0 54 10-63 412-476 (797)
159 COG4472 Uncharacterized protei 20.4 82 0.0018 20.1 1.8 14 76-89 24-37 (88)
160 PF09277 Erythro-docking: Eryt 20.2 1.6E+02 0.0035 17.3 2.9 21 52-72 28-48 (58)
161 cd06454 KBL_like KBL_like; thi 20.2 2.3E+02 0.005 20.6 4.4 29 42-70 7-35 (349)
162 PF08332 CaMKII_AD: Calcium/ca 20.0 62 0.0013 21.8 1.2 25 56-80 2-28 (128)
No 1
>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=2.8e-36 Score=207.22 Aligned_cols=88 Identities=63% Similarity=1.081 Sum_probs=85.2
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCchHHHHHHH
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRESKIREAYEM 82 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~~i~~~Y~~ 82 (93)
|.|||++||+|||+||||||++||.|||+++|+++|+++++++|+|+.++.+||+||++||++|+++|+++|+|.++|++
T Consensus 51 n~~v~l~AL~LLe~~vkNCG~~fh~evas~~Fl~el~kl~~~k~~~~~~~~~Vk~kil~li~~W~~~f~~~p~~~~~Y~~ 130 (139)
T cd03567 51 QEKEALQALTVLEACMKNCGERFHSEVGKFRFLNELIKLVSPKYLGSRTSEKVKTKIIELLYSWTLELPHEPKIKEAYDM 130 (139)
T ss_pred CHHHHHHHHHHHHHHHHHcCHHHHHHHHhHHHHHHHHHHhccccCCCCCCHHHHHHHHHHHHHHHHHhcccchHHHHHHH
Confidence 78999999999999999999999999999999999999999988888899999999999999999999999999999999
Q ss_pred HHHcCccc
Q psy12750 83 LKKQQVVQ 90 (93)
Q Consensus 83 Lk~~G~~f 90 (93)
||++|++.
T Consensus 131 Lk~~G~i~ 138 (139)
T cd03567 131 LKKQGIIK 138 (139)
T ss_pred HHHCCCcC
Confidence 99999875
No 2
>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=7.2e-34 Score=195.22 Aligned_cols=86 Identities=35% Similarity=0.656 Sum_probs=80.5
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHH-HHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCch---HHH
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNE-LIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRESK---IRE 78 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~-l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~~---i~~ 78 (93)
|+|||++||+|||+||||||.+||.|||+++|+++ |+++++++++ +|..||+||+++|++|+.+|+++|. |.+
T Consensus 52 n~~v~l~aL~LLe~~vkNCG~~fh~eiask~Fl~e~L~~~i~~~~~---~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~ 128 (141)
T cd03565 52 NHKEVMLTLTVLETCVKNCGHRFHVLVAKKDFIKDVLVKLINPKNN---PPTIVQEKVLALIQAWADAFRGSPDLTGVVE 128 (141)
T ss_pred CHHHHHHHHHHHHHHHHHccHHHHHHHHHHHhhhHHHHHHHcccCC---CcHHHHHHHHHHHHHHHHHhCCCccchHHHH
Confidence 68999999999999999999999999999999999 9999987743 6789999999999999999998864 999
Q ss_pred HHHHHHHcCcccc
Q psy12750 79 AYEMLKKQQVVQA 91 (93)
Q Consensus 79 ~Y~~Lk~~G~~f~ 91 (93)
+|++|+++||.|.
T Consensus 129 ~y~~L~~~G~~FP 141 (141)
T cd03565 129 VYEELKKKGIEFP 141 (141)
T ss_pred HHHHHHHcCCCCC
Confidence 9999999999983
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=4.5e-33 Score=192.02 Aligned_cols=84 Identities=26% Similarity=0.511 Sum_probs=80.1
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCc---hHHHH
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRES---KIREA 79 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~---~i~~~ 79 (93)
|.|||++||+|||+||||||.+||.|||+++|+++|+++++++ ++.+||+||+++|++|+.+|+++| .|.++
T Consensus 50 n~~v~l~AL~LLe~~vkNCG~~fh~evask~Fl~eL~kl~~~~-----~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~ 124 (144)
T cd03568 50 DPNVQLRALTLLDACAENCGKRFHQEVASRDFTQELKKLINDR-----VHPTVKEKLREVVKQWADEFKNDPSLSLMSDL 124 (144)
T ss_pred CHHHHHHHHHHHHHHHHHCCHHHHHHHhhHHHHHHHHHHhccc-----CCHHHHHHHHHHHHHHHHHhCCCcccHHHHHH
Confidence 7899999999999999999999999999999999999999876 689999999999999999999887 48999
Q ss_pred HHHHHHcCcccc
Q psy12750 80 YEMLKKQQVVQA 91 (93)
Q Consensus 80 Y~~Lk~~G~~f~ 91 (93)
|++|+++|+.|.
T Consensus 125 y~~L~~~G~~f~ 136 (144)
T cd03568 125 YKKLKNEGPDLV 136 (144)
T ss_pred HHHHHHcCCCCC
Confidence 999999999984
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=99.98 E-value=3.1e-32 Score=187.31 Aligned_cols=85 Identities=28% Similarity=0.620 Sum_probs=80.3
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCch---HHHH
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRESK---IREA 79 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~~---i~~~ 79 (93)
|.|||++||+|||+||||||.+||.|||+++|+++|+++++++ ++..||+|++++|++|+.+|+++|+ |.++
T Consensus 54 n~~vql~AL~LLe~~vkNCG~~fh~evas~~fl~~l~~l~~~~-----~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~ 128 (142)
T cd03569 54 NPNVQLYALLLLESCVKNCGTHFHDEVASREFMDELKDLIKTT-----KNEEVRQKILELIQAWALAFRNKPQLKYVVDT 128 (142)
T ss_pred ChHHHHHHHHHHHHHHHHCCHHHHHHHhhHHHHHHHHHHHccc-----CCHHHHHHHHHHHHHHHHHhCCCcccHHHHHH
Confidence 7899999999999999999999999999999999999999863 7899999999999999999998875 9999
Q ss_pred HHHHHHcCccccc
Q psy12750 80 YEMLKKQQVVQAW 92 (93)
Q Consensus 80 Y~~Lk~~G~~f~~ 92 (93)
|++|+++||.|..
T Consensus 129 y~~L~~~G~~FP~ 141 (142)
T cd03569 129 YQILKAEGHKFPE 141 (142)
T ss_pred HHHHHHcCCCCCC
Confidence 9999999999963
No 5
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=99.96 E-value=1.5e-29 Score=171.77 Aligned_cols=81 Identities=38% Similarity=0.778 Sum_probs=75.3
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCc---hHHHH
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRES---KIREA 79 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~---~i~~~ 79 (93)
|+|||++||+|||+||||||.+||.||++++|+++|++++++++ +++.|++|++++|++|+.+|+++| .|.++
T Consensus 50 n~~v~l~AL~lLe~~vkNcg~~f~~ev~s~~fl~~L~~l~~~~~----~~~~Vk~kil~li~~W~~~f~~~~~~~~i~~~ 125 (133)
T smart00288 50 NPHVALLALTLLDACVKNCGSKFHLEVASKEFLNELVKLIKPKY----PLPLVKKRILELIQEWADAFKNDPDLSQIVDV 125 (133)
T ss_pred CHHHHHHHHHHHHHHHHHCCHHHHHHHHhHHHHHHHHHHHcCCC----CcHHHHHHHHHHHHHHHHHHcCCCCchHHHHH
Confidence 78999999999999999999999999999999999999999875 345599999999999999998775 59999
Q ss_pred HHHHHHcC
Q psy12750 80 YEMLKKQQ 87 (93)
Q Consensus 80 Y~~Lk~~G 87 (93)
|++||++|
T Consensus 126 y~~L~~~g 133 (133)
T smart00288 126 YDLLKKKG 133 (133)
T ss_pred HHHHHHCc
Confidence 99999998
No 6
>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=99.96 E-value=1e-28 Score=168.39 Aligned_cols=81 Identities=36% Similarity=0.678 Sum_probs=74.7
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHH--HHHHHHHHHHHHHHhCCCCc---hHH
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDA--VRTEIIELLYLWTLEYPRES---KIR 77 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~--Vk~kil~liq~Wa~~f~~~~---~i~ 77 (93)
|+|+|++||+|||+||||||++||.||++++|+++|.+++.+++ ++.. ||+|++++|+.|+.+|+++| .|.
T Consensus 55 ~~~vq~~aL~lld~lvkNcg~~f~~ev~~~~fl~~l~~l~~~~~----~~~~~~Vk~k~l~ll~~W~~~f~~~~~~~~i~ 130 (140)
T PF00790_consen 55 NPNVQLLALTLLDALVKNCGPRFHREVASKEFLDELVKLIKSKK----TDPETPVKEKILELLQEWAEAFKSDPELSLIQ 130 (140)
T ss_dssp SHHHHHHHHHHHHHHHHHSHHHHHHHHTSHHHHHHHHHHHHHTT----THHHSHHHHHHHHHHHHHHHHTTTSTTGHHHH
T ss_pred CHHHHHHHHHHHHHHHHcCCHHHHHHHhHHHHHHHHHHHHccCC----CCchhHHHHHHHHHHHHHHHHHCCCCCchHHH
Confidence 78999999999999999999999999999999999999998763 3444 99999999999999998776 489
Q ss_pred HHHHHHHHcC
Q psy12750 78 EAYEMLKKQQ 87 (93)
Q Consensus 78 ~~Y~~Lk~~G 87 (93)
++|+.||++|
T Consensus 131 ~~y~~Lk~~G 140 (140)
T PF00790_consen 131 DTYKRLKRKG 140 (140)
T ss_dssp HHHHHHHHTT
T ss_pred HHHHHHHHCc
Confidence 9999999998
No 7
>KOG1086|consensus
Probab=99.95 E-value=6.2e-28 Score=190.24 Aligned_cols=87 Identities=56% Similarity=1.023 Sum_probs=84.2
Q ss_pred HHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHH
Q psy12750 5 RLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRESKIREAYEMLK 84 (93)
Q Consensus 5 ~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~~i~~~Y~~Lk 84 (93)
-.+++||++||+||+|||++||.|++..+|+|+|+|++++||+|++++.+||.||++|+.+|+.+|+.+++|+++|++||
T Consensus 60 ~EAl~altvLe~cmkncGekfH~evgkfrFLNELIkvvsPKYlG~~tSekvKtkiIelLfsWtv~lpe~~KikdaYqmLK 139 (594)
T KOG1086|consen 60 WEALQALTVLEYCMKNCGEKFHEEVGKFRFLNELIKVVSPKYLGSRTSEKVKTKIIELLFSWTVSLPEEPKIKDAYQMLK 139 (594)
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhCchhcchhhhHHHHHHHHHHHhhheecCcccchHHHHHHHHH
Confidence 35899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HcCcccc
Q psy12750 85 KQQVVQA 91 (93)
Q Consensus 85 ~~G~~f~ 91 (93)
++||+.+
T Consensus 140 kqgIik~ 146 (594)
T KOG1086|consen 140 KQGIIKS 146 (594)
T ss_pred hcCcccC
Confidence 9999764
No 8
>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=99.94 E-value=4.6e-27 Score=159.19 Aligned_cols=80 Identities=29% Similarity=0.547 Sum_probs=74.4
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCC----chHHH
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRE----SKIRE 78 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~----~~i~~ 78 (93)
|+|||++||+|||+||||||++||.+|++++|+++|++++.++ +.++.+||+|++++|+.|+.+|+++ |.|.+
T Consensus 50 n~~vql~AL~lLd~~vkNcg~~f~~~i~s~~fl~~l~~l~~~~---~~~~~~Vk~kil~ll~~W~~~f~~~~~~~~~~~~ 126 (133)
T cd03561 50 NPHVQLLALTLLELLVKNCGKPFHLQVADKEFLLELVKIAKNS---PKYDPKVREKALELILAWSESFGGHSEDLPGIED 126 (133)
T ss_pred CHHHHHHHHHHHHHHHHhCChHHHHHHhhHHHHHHHHHHhCCC---CCCCHHHHHHHHHHHHHHHHHhcCCCccchHHHH
Confidence 7899999999999999999999999999999999999999875 2478999999999999999999874 67999
Q ss_pred HHHHHHH
Q psy12750 79 AYEMLKK 85 (93)
Q Consensus 79 ~Y~~Lk~ 85 (93)
+|+.||+
T Consensus 127 ~y~~lk~ 133 (133)
T cd03561 127 AYKLLKR 133 (133)
T ss_pred HHHHHhC
Confidence 9999984
No 9
>KOG1087|consensus
Probab=99.93 E-value=2.7e-26 Score=182.35 Aligned_cols=85 Identities=28% Similarity=0.515 Sum_probs=78.4
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCC----CchHHH
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPR----ESKIRE 78 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~----~~~i~~ 78 (93)
+++||++||+|||+||||||+.||.+||+++|+++|++++..+ + .+.+||+|||.||++|+.+|.+ .|++..
T Consensus 51 ~s~vq~lALtlLE~cvkNCG~~fh~~Va~k~fL~emVk~~k~~---~-~~~~Vr~kiL~LI~~W~~af~~~~~~~~~~~~ 126 (470)
T KOG1087|consen 51 NSKVQLLALTLLETCVKNCGYSFHLQVASKEFLNEMVKRPKNK---P-RDLKVREKILELIDTWQQAFCGPDGYLPDYYQ 126 (470)
T ss_pred CcHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhccccC---C-cchhHHHHHHHHHHHHHHHccCCCCcchhHHH
Confidence 4699999999999999999999999999999999999988654 1 5789999999999999999988 478999
Q ss_pred HHHHHHHcCcccc
Q psy12750 79 AYEMLKKQQVVQA 91 (93)
Q Consensus 79 ~Y~~Lk~~G~~f~ 91 (93)
+|++|+++||+|-
T Consensus 127 ~y~~l~~~G~~FP 139 (470)
T KOG1087|consen 127 IYDELRRKGVEFP 139 (470)
T ss_pred HHHHHHHcCCcCC
Confidence 9999999999985
No 10
>KOG2199|consensus
Probab=99.91 E-value=1.6e-24 Score=168.87 Aligned_cols=84 Identities=27% Similarity=0.521 Sum_probs=79.6
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCch---HHHH
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRESK---IREA 79 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~~---i~~~ 79 (93)
+.||+|+||||||+|++|||++||.||+||+|.++|.+++.++ +|..|++|+..+++.|++.|+++|. |.++
T Consensus 58 dphV~L~AlTLlda~~~NCg~~~r~EVsSr~F~~el~al~~~~-----~h~kV~~k~~~lv~eWsee~K~Dp~lsLi~~l 132 (462)
T KOG2199|consen 58 DPHVVLQALTLLDACVANCGKRFRLEVSSRDFTTELRALIESK-----AHPKVCEKMRDLVKEWSEEFKKDPSLSLISAL 132 (462)
T ss_pred CcchHHHHHHHHHHHHHhcchHHHHHHhhhhHHHHHHHHHhhc-----ccHHHHHHHHHHHHHHHHHhccCcchhHHHHH
Confidence 5799999999999999999999999999999999999999865 7999999999999999999999974 9999
Q ss_pred HHHHHHcCcccc
Q psy12750 80 YEMLKKQQVVQA 91 (93)
Q Consensus 80 Y~~Lk~~G~~f~ 91 (93)
|..||++||.|-
T Consensus 133 ~~klk~~g~~f~ 144 (462)
T KOG2199|consen 133 YKKLKEEGITFL 144 (462)
T ss_pred HHHHHHcCCCcc
Confidence 999999999883
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=99.80 E-value=1.6e-19 Score=118.74 Aligned_cols=66 Identities=36% Similarity=0.642 Sum_probs=60.5
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHH
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTL 68 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~ 68 (93)
|+++++.||+|||+||||||++||.+++++.|+.++.++..++..|...+..||+|+++|++.|+.
T Consensus 50 ~~~~~lkaL~lLe~lvkN~g~~f~~~i~~~~~~~~l~~~~~~~~~~~~~~~~Vr~k~~~l~~~w~~ 115 (115)
T cd00197 50 NPHVVLKALTLLEYCVKNCGERFHQEVASNDFAVELLKFDKSKLLGDDVSTNVREKAIELVQLWAS 115 (115)
T ss_pred cHHHHHHHHHHHHHHHHHccHHHHHHHHHhHHHHHHHHhhccccccCCCChHHHHHHHHHHHHHhC
Confidence 789999999999999999999999999999999999887656666667899999999999999984
No 12
>KOG1818|consensus
Probab=99.73 E-value=4.3e-18 Score=138.86 Aligned_cols=86 Identities=23% Similarity=0.481 Sum_probs=79.7
Q ss_pred chHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCch---HHH
Q psy12750 2 FPLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRESK---IRE 78 (93)
Q Consensus 2 ~~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~~---i~~ 78 (93)
-|.|+++.+|.++|.|+||||..||.||++|+|++.+..++... .++.+|+.|+++++|.|+.+|++.++ +.+
T Consensus 57 ~np~~~~~~~~~~d~cvkn~G~gv~~ei~tre~m~~~~~~l~~~----~~~e~v~~~~l~~~q~wa~af~~~~~~~~v~~ 132 (634)
T KOG1818|consen 57 ENPNVQLFTLKLTDHCVKNCGHGVHCEIATREFMDLLKSLLESQ----RIHEEVKNKILELIQNWAAAFRNSSKYSYVLD 132 (634)
T ss_pred cCCCcccchhhhHHHHHhcCCcchhHHHHHHHHHHHHHhhhccc----cccchHHHHHHHHHHHHHHHccCchHHHHHHH
Confidence 37899999999999999999999999999999999999888764 37999999999999999999998764 899
Q ss_pred HHHHHHHcCcccc
Q psy12750 79 AYEMLKKQQVVQA 91 (93)
Q Consensus 79 ~Y~~Lk~~G~~f~ 91 (93)
+|+.||..|+.|-
T Consensus 133 t~~~lk~~g~~Fp 145 (634)
T KOG1818|consen 133 TYQKLKGGGHVFP 145 (634)
T ss_pred HHHHHhcCCcccc
Confidence 9999999999984
No 13
>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=97.20 E-value=0.00085 Score=43.61 Aligned_cols=62 Identities=11% Similarity=0.340 Sum_probs=45.2
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCC
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYP 71 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~ 71 (93)
++...|.+|-|+|++++|||.+-...++. .+.+-+..... ..++.+|.|+..|+..|.+.+.
T Consensus 50 ~~~~KL~~LYL~dsIvkn~~~~~~~~~~~-~~~~~f~~~~~------~~~~~~r~kl~rl~~iW~~~~~ 111 (114)
T cd03562 50 PPEQKLPLLYLLDSIVKNVGRKYKEFFSE-FLVPLFLDAYE------KVDEKTRKKLERLLNIWEERFV 111 (114)
T ss_pred CcccchHHHHHHHHHHHHcccchHHHHHH-HHHHHHHHHHH------hCCHHHHHHHHHHHHHccCCCC
Confidence 34566889999999999999987655443 22333333332 2689999999999999998654
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=96.24 E-value=0.02 Score=37.90 Aligned_cols=61 Identities=23% Similarity=0.270 Sum_probs=40.8
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCC---CCCCCcHHHHHHHHHHHHH
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKY---LGNLTPDAVRTEIIELLYL 65 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~---~~~~~~~~Vk~kil~liq~ 65 (93)
+|++.+-||+||+-|++||.+.|-.++ ++=.+.+..+.+=++ .|......||++.-+++.-
T Consensus 55 ~wr~~~KaL~ll~yLl~nG~~~~~~~~--~~~~~~I~~l~~f~~~d~~g~d~~~~VR~~A~~i~~l 118 (125)
T PF01417_consen 55 NWRHVYKALTLLEYLLKNGSERFVDEL--RDHIDIIRELQDFQYVDPKGKDQGQNVREKAKEILEL 118 (125)
T ss_dssp GHHHHHHHHHHHHHHHHHS-HHHHHHH--HHTHHHHHGGGG---BBTTSTBHHHHHHHHHHHHHHH
T ss_pred chhHHHHHHHHHHHHHHHCCHHHHHHH--HHHHHHHhhcceeeccCCCCccHHHHHHHHHHHHHHH
Confidence 689999999999999999999998888 333333433322111 2333446799988887654
No 15
>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=95.88 E-value=0.039 Score=37.22 Aligned_cols=61 Identities=20% Similarity=0.173 Sum_probs=41.7
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCC---CCCCCcHHHHHHHHHHHHH
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKY---LGNLTPDAVRTEIIELLYL 65 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~---~~~~~~~~Vk~kil~liq~ 65 (93)
+|+.++-||+|||-|++|+.++|-.++-+.-+ .+..|-+=.| .|..-...||+|.-+++.-
T Consensus 52 ~WR~vyKaL~lleyLl~nGse~vv~~~r~~~~--~i~~L~~F~~~d~~g~d~G~~VR~ka~~i~~L 115 (123)
T cd03571 52 NWRHVYKALTLLEYLLKNGSERVVDDARENLY--IIRTLKDFQYIDENGKDQGINVREKAKEILEL 115 (123)
T ss_pred cHHHHHHHHHHHHHHHHhCCHHHHHHHHHhHH--HHHhhccceeeCCCCCchhHHHHHHHHHHHHH
Confidence 78999999999999999999998887744422 2222211111 2333457899998887653
No 16
>KOG2056|consensus
Probab=95.67 E-value=0.054 Score=42.36 Aligned_cols=66 Identities=21% Similarity=0.092 Sum_probs=44.0
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHH-HHHhhCCCCCCCCCcHHHHHHHHHHHHHHHH
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNE-LIKLISPKYLGNLTPDAVRTEIIELLYLWTL 68 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~-l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~ 68 (93)
||+.++-||+|||.|++|+.++|-.++-..-++-+ |.....=...|..-...||+|+-+++.-..+
T Consensus 72 nWR~VyKaLtlleyLl~~GSErv~~~~ren~~~I~tL~~Fq~iD~~G~dqG~nVRkkak~l~~LL~D 138 (336)
T KOG2056|consen 72 NWRHVYKALTLLEYLLKNGSERVVDETRENIYTIETLKDFQYIDEDGKDQGLNVRKKAKELLSLLED 138 (336)
T ss_pred hHHHHHHHHHHHHHHHhcCcHHHHHHHHhhhHHHHHHhhceeeCCCCccchHHHHHHHHHHHHHhcc
Confidence 78999999999999999998887666655444333 2221111112333456899998888765544
No 17
>smart00582 RPR domain present in proteins, which are involved in regulation of nuclear pre-mRNA.
Probab=94.32 E-value=0.11 Score=33.67 Aligned_cols=63 Identities=14% Similarity=0.258 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHH--hCC
Q psy12750 6 LVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTL--EYP 71 (93)
Q Consensus 6 v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~--~f~ 71 (93)
.-+..|-|+|..++||+.+.-.. ....|...+...+..-. +..++++|+|+..++..|.+ -|+
T Consensus 48 ~kL~~LYlindIl~n~~~~~~~~-f~~~~~~~~~~~~~~~~--~~~~~~~~~ki~kll~iW~~~~iF~ 112 (121)
T smart00582 48 RKLPLLYLLDSIVQNSKRKYGSE-FGDELGPVFQDALRDVL--GAANDETKKKIRRLLNIWEERGIFP 112 (121)
T ss_pred ceehhHHhHHHHHHHHhhccHHH-HHHHHHHHHHHHHHHHH--HhCCHHHHHHHHHHHHHHhcCCCCC
Confidence 44677889999999997763111 11233333222222111 11357899999999999998 455
No 18
>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=93.78 E-value=0.29 Score=33.07 Aligned_cols=63 Identities=16% Similarity=0.237 Sum_probs=46.0
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHH-HHHHHHhhCC--CCCCCCCcHHHHHHHHHHHHH
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRF-LNELIKLISP--KYLGNLTPDAVRTEIIELLYL 65 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~F-l~~l~kl~~~--k~~~~~~~~~Vk~kil~liq~ 65 (93)
+.||-+-+|.+|+.|+.++.+.|.+++..... +.++...-.+ ...|+.....||...-+++..
T Consensus 51 ~~hVK~K~Lrilk~l~~~G~~~f~~~~~~~~~~Ik~~~~f~g~~Dp~~Gd~~~~~VR~~A~El~~~ 116 (122)
T cd03572 51 SPHVKLKVLKIIKHLCEKGNSDFKRELQRNSAQIRECANYKGPPDPLKGDSLNEKVREEAQELIKA 116 (122)
T ss_pred CCcchHHHHHHHHHHHhhCCHHHHHHHHHhHHHHHHHHHcCCCCCcccCcchhHHHHHHHHHHHHH
Confidence 46888999999999999999999999887643 3333322221 124677788999998888653
No 19
>smart00273 ENTH Epsin N-terminal homology (ENTH) domain.
Probab=92.77 E-value=0.8 Score=30.16 Aligned_cols=64 Identities=17% Similarity=0.100 Sum_probs=42.1
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccH-HHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHH
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKF-RFLNELIKLISPKYLGNLTPDAVRTEIIELLYLW 66 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~-~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~W 66 (93)
||.+++-||.|++-+++|+.+.+-.+.-+. ..+.+|..+-...-.|..-...|+.+...|..--
T Consensus 53 ~w~~v~KsL~llh~ll~~G~~~~~~~~~~~~~~i~~L~~f~~~~~~~~d~g~~VR~ya~~L~~~l 117 (127)
T smart00273 53 NWRVVYKALILLHYLLRNGSPRVILEALRNRNRILNLSDFQDIDSRGKDQGANIRTYAKYLLERL 117 (127)
T ss_pred cHHHHHHHHHHHHHHHhcCCHHHHHHHHHhhHHHhhHhhCeecCCCCeeCcHHHHHHHHHHHHHH
Confidence 689999999999999999999886665433 2233344333211122234567888888876543
No 20
>KOG0946|consensus
Probab=92.25 E-value=0.54 Score=40.87 Aligned_cols=80 Identities=15% Similarity=0.282 Sum_probs=64.5
Q ss_pred chHHHHHHHHHHHHHHHhccCHHHHhhhccHHH-HHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCch-----
Q psy12750 2 FPLRLVILTIWVLEACMQHCGPQFHAEVGKFRF-LNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRESK----- 75 (93)
Q Consensus 2 ~~~~v~l~aL~LLd~cvkNCG~~fh~evas~~F-l~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~~----- 75 (93)
|+.||-++|+.|+.+++++-|...+..+-..+- +..|+.++.+ +.+.||+-.+-|+..-..+-++-.+
T Consensus 134 ~DF~VR~~aIqLlsalls~r~~e~q~~ll~~P~gIS~lmdlL~D------srE~IRNe~iLlL~eL~k~n~~IQKlVAFE 207 (970)
T KOG0946|consen 134 FDFHVRLYAIQLLSALLSCRPTELQDALLVSPMGISKLMDLLRD------SREPIRNEAILLLSELVKDNSSIQKLVAFE 207 (970)
T ss_pred hchhhhhHHHHHHHHHHhcCCHHHHHHHHHCchhHHHHHHHHhh------hhhhhchhHHHHHHHHHccCchHHHHHHHH
Confidence 789999999999999999999999998877655 5667778866 4788999999999988876655432
Q ss_pred --HHHHHHHHHHcC
Q psy12750 76 --IREAYEMLKKQQ 87 (93)
Q Consensus 76 --i~~~Y~~Lk~~G 87 (93)
|..++..+..+|
T Consensus 208 NaFerLfsIIeeEG 221 (970)
T KOG0946|consen 208 NAFERLFSIIEEEG 221 (970)
T ss_pred HHHHHHHHHHHhcC
Confidence 566666667776
No 21
>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=92.10 E-value=0.61 Score=29.33 Aligned_cols=69 Identities=13% Similarity=0.217 Sum_probs=44.3
Q ss_pred HHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCc-hHHHHHHHHHHcC
Q psy12750 14 LEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRES-KIREAYEMLKKQQ 87 (93)
Q Consensus 14 Ld~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~-~i~~~Y~~Lk~~G 87 (93)
|..+..|=|+....-.-.=.+.+.=+..|...| +..+++++.+|++.|...-++++ .+..+...|+.-|
T Consensus 5 l~~ia~~LG~~Wk~lar~LGlse~~Id~Ie~~~-----~~dl~eq~~~mL~~W~~~~~~~~atv~~L~~AL~~~g 74 (86)
T cd08779 5 LLSIAGRLGLDWQAIGLHLGLSYRELQRIKYNN-----RDDLDEQIFDMLFSWAQRQAGDPDAVGKLVTALEESG 74 (86)
T ss_pred HHHHHHHHhHHHHHHHHHcCCCHHHHHHHHHHC-----ccCHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHcC
Confidence 445667778777333323344444333443332 45689999999999999887764 3677777777655
No 22
>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=91.75 E-value=0.23 Score=29.07 Aligned_cols=57 Identities=18% Similarity=0.302 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHhccCHHHHh-hhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHH
Q psy12750 8 ILTIWVLEACMQHCGPQFHA-EVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTL 68 (93)
Q Consensus 8 l~aL~LLd~cvkNCG~~fh~-evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~ 68 (93)
|.-|-|++..++||... +. ++. ..|..-|..++..-+. ..++++++++..++.-|..
T Consensus 2 L~~lYl~ndI~q~sk~k-~~~~f~-~~F~~~l~~~~~~~~~--~~~~~~~~kv~rll~iW~~ 59 (64)
T PF04818_consen 2 LALLYLANDILQNSKRK-NPDEFA-PAFSPVLPDAFAHAYK--NVDPEVRKKVQRLLNIWEE 59 (64)
T ss_dssp HHHHHHHHHHHHHHHHH-TTHCHH-HHHHCCHHHHHHHHCC--CS-HHHHHHHHHHHHHHHH
T ss_pred cceeehHHHHHHHhhhc-ChHHHH-HHHHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHhhC
Confidence 34577899999999654 11 111 3333333333333221 2488999999999999975
No 23
>KOG2057|consensus
Probab=90.42 E-value=1.5 Score=34.99 Aligned_cols=60 Identities=18% Similarity=0.236 Sum_probs=42.7
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCC---CCCCCcHHHHHHHHHHHH
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKY---LGNLTPDAVRTEIIELLY 64 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~---~~~~~~~~Vk~kil~liq 64 (93)
+|+.++-+|-||+-+++|+.++|-+|.- +-.=+|++|-+=++ +|..-...+|.|+.+++.
T Consensus 77 ~WRRVYKSLiLLaYLikNGSER~VqeAR--Eh~YdLR~LEnYhfiDEhGKDQGINIR~kVKeilE 139 (499)
T KOG2057|consen 77 AWRRVYKSLILLAYLIKNGSERFVQEAR--EHAYDLRRLENYHFIDEHGKDQGINIRHKVKEILE 139 (499)
T ss_pred HHHHHHHHHHHHHHHHhcccHHHHHHHH--HHHHHHHhhhhccchhhhCccccccHHHHHHHHHH
Confidence 6889999999999999999999988764 44445655544332 233334578888888764
No 24
>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=89.11 E-value=1.7 Score=27.41 Aligned_cols=71 Identities=18% Similarity=0.383 Sum_probs=49.9
Q ss_pred HHHHHhccCHHHHhhhccHHHHHH-HHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHcCccc
Q psy12750 14 LEACMQHCGPQFHAEVGKFRFLNE-LIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRESKIREAYEMLKKQQVVQ 90 (93)
Q Consensus 14 Ld~cvkNCG~~fh~evas~~Fl~~-l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~~i~~~Y~~Lk~~G~~f 90 (93)
|..+..|-|+....-.-.-.|.+. +..+-. . -|..+.+++.+++..|........-+..+...|++-|+..
T Consensus 5 L~~la~~LG~~W~~Lar~Lgls~~~I~~i~~-~-----~p~~l~eQv~~mL~~W~~r~G~~ATv~~L~~aL~~~~~~~ 76 (83)
T cd08319 5 LNQLAQRLGPEWEQVLLDLGLSQTDIYRCKE-N-----HPHNVQSQIVEALVKWRQRFGKKATVQSLIQSLKAVEVDP 76 (83)
T ss_pred HHHHHHHHhhhHHHHHHHcCCCHHHHHHHHH-h-----CCCCHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHcCCCH
Confidence 455677788777554333356555 444333 2 2456899999999999998876666888889998888653
No 25
>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=88.37 E-value=2.1 Score=26.78 Aligned_cols=70 Identities=14% Similarity=0.302 Sum_probs=47.8
Q ss_pred HHHHHHhccCHHHHhhhccHHHHHH-HHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHcCc
Q psy12750 13 VLEACMQHCGPQFHAEVGKFRFLNE-LIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRESKIREAYEMLKKQQV 88 (93)
Q Consensus 13 LLd~cvkNCG~~fh~evas~~Fl~~-l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~~i~~~Y~~Lk~~G~ 88 (93)
..+...+|-|+.+..-.-.-.|.+. +..+-.+ .+..+++++.+++..|...-....-+..+...|+.-|.
T Consensus 4 ~f~~i~~~lG~~Wk~laR~LGlse~~Id~i~~~------~~~~~~eq~~~mL~~W~~~~g~~At~~~L~~aL~~~~l 74 (86)
T cd08306 4 AFDVICENVGRDWRKLARKLGLSETKIESIEEA------HPRNLREQVRQSLREWKKIKKKEAKVADLIKALRDCQL 74 (86)
T ss_pred HHHHHHHHHhhhHHHHHHHcCCCHHHHHHHHHH------CCCCHHHHHHHHHHHHHHhHCcchHHHHHHHHHHHcCc
Confidence 4566778888887553333367666 4444432 13568999999999999977765567777777776654
No 26
>PF11841 DUF3361: Domain of unknown function (DUF3361)
Probab=87.84 E-value=2.7 Score=29.74 Aligned_cols=59 Identities=19% Similarity=0.264 Sum_probs=47.8
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHH
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTL 68 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~ 68 (93)
+.+++..||.+||..|.| .+..+..|+.+==++.|...+.. ++++++...+.||-+-=.
T Consensus 73 d~~i~q~sLaILEs~Vl~-S~~ly~~V~~evt~~~Li~hLq~------~~~~iq~naiaLinAL~~ 131 (160)
T PF11841_consen 73 DASILQRSLAILESIVLN-SPKLYQLVEQEVTLESLIRHLQV------SNQEIQTNAIALINALFL 131 (160)
T ss_pred cchHHHHHHHHHHHHHhC-CHHHHHHHhccCCHHHHHHHHHc------CCHHHHHHHHHHHHHHHh
Confidence 568899999999999996 55667778776667788888875 578999999999876543
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=87.26 E-value=3.2 Score=29.20 Aligned_cols=64 Identities=17% Similarity=0.185 Sum_probs=44.0
Q ss_pred hHHHHHHHHHHHHHHHhccC---HHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCC
Q psy12750 3 PLRLVILTIWVLEACMQHCG---PQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPR 72 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG---~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~ 72 (93)
|+.+-..++..+..++.+.| ..+.....-..+...+.+++++ ++++||+-...++......|+.
T Consensus 144 n~~vR~~~~~~l~~~l~~~~~~~~~l~~~~~~~~l~~~l~~~l~D------~~~~VR~~Ar~~~~~l~~~~~~ 210 (228)
T PF12348_consen 144 NPQVREECAEWLAIILEKWGSDSSVLQKSAFLKQLVKALVKLLSD------ADPEVREAARECLWALYSHFPE 210 (228)
T ss_dssp -HHHHHHHHHHHHHHHTT-----GGG--HHHHHHHHHHHHHHHTS------S-HHHHHHHHHHHHHHHHHH-H
T ss_pred CHHHHHHHHHHHHHHHHHccchHhhhcccchHHHHHHHHHHHCCC------CCHHHHHHHHHHHHHHHHHCCH
Confidence 56677888889999999998 4443333335677778888877 4789999999999888877764
No 28
>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=85.13 E-value=2 Score=27.99 Aligned_cols=33 Identities=33% Similarity=0.324 Sum_probs=25.7
Q ss_pred HHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHh
Q psy12750 32 FRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLE 69 (93)
Q Consensus 32 ~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~ 69 (93)
+.|+..|+++.+++ .+++|.+++.+||+.--++
T Consensus 7 k~FL~tLi~las~~-----~spev~~~Vr~LV~~L~~~ 39 (96)
T PF07531_consen 7 KNFLNTLIQLASDK-----QSPEVGENVRELVQNLVDG 39 (96)
T ss_dssp HHHHHHHHHHHCCS-----C-CCHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHhcCC-----CChHHHHHHHHHHHHHHcC
Confidence 78999999999873 4567888888888877654
No 29
>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=83.85 E-value=4.5 Score=25.22 Aligned_cols=69 Identities=10% Similarity=0.222 Sum_probs=48.1
Q ss_pred HHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHcCc
Q psy12750 14 LEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRESKIREAYEMLKKQQV 88 (93)
Q Consensus 14 Ld~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~~i~~~Y~~Lk~~G~ 88 (93)
++.+.+|-|..+..-.-.-.|.+.=+.-+... ++.+++++.+|+..|...-....-+..+...|++-|.
T Consensus 10 l~~ia~~iG~~Wk~Lar~LGls~~dI~~i~~~------~~~~~eq~~~mL~~W~~r~g~~AT~~~L~~aL~~~~~ 78 (86)
T cd08318 10 ITVFANKLGEDWKTLAPHLEMKDKEIRAIESD------SEDIKMQAKQLLVAWQDREGSQATPETLITALNAAGL 78 (86)
T ss_pred HHHHHHHHhhhHHHHHHHcCCCHHHHHHHHhc------CCCHHHHHHHHHHHHHHhcCccccHHHHHHHHHHcCc
Confidence 45566888888866555557766633444332 2347999999999999988766667777777777664
No 30
>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=83.46 E-value=4.5 Score=23.89 Aligned_cols=34 Identities=21% Similarity=0.315 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHhCCCCchHHHHHHHHHHcCc
Q psy12750 55 VRTEIIELLYLWTLEYPRESKIREAYEMLKKQQV 88 (93)
Q Consensus 55 Vk~kil~liq~Wa~~f~~~~~i~~~Y~~Lk~~G~ 88 (93)
..+++.++++.|.....+...+..+++.|++-|.
T Consensus 37 ~~~~~~~mL~~W~~~~~~~at~~~L~~aL~~~~~ 70 (79)
T cd01670 37 VREQAYQLLLKWEEREGDNATVGNLIEALREIGR 70 (79)
T ss_pred HHHHHHHHHHHHHhccCcCcHHHHHHHHHHHcCH
Confidence 7899999999999999877789999999998775
No 31
>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=83.21 E-value=4.5 Score=25.41 Aligned_cols=70 Identities=16% Similarity=0.315 Sum_probs=45.7
Q ss_pred HHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCC-CCchHHHHHHHHHHcC
Q psy12750 14 LEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYP-RESKIREAYEMLKKQQ 87 (93)
Q Consensus 14 Ld~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~-~~~~i~~~Y~~Lk~~G 87 (93)
++.+..|-|+....-.-.=.|.+.=++.+...| .....++++.+|+..|..... ....+..+...|++-|
T Consensus 5 l~~l~~~lG~~Wk~lar~LG~s~~eI~~ie~~~----~r~~~~eq~~~mL~~W~~r~g~~~ATv~~L~~aL~~~~ 75 (86)
T cd08777 5 LDLLRENLGKKWKRCARKLGFTESEIEEIDHDY----ERDGLKEKVHQMLHKWKMKEGSKGATVGKLAQALEGCI 75 (86)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHhc----ccCCHHHHHHHHHHHHHHccCCCCcHHHHHHHHHHHcc
Confidence 566778888888544444466666344454322 234578999999999999876 3455666666666543
No 32
>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=83.21 E-value=3.5 Score=24.95 Aligned_cols=69 Identities=19% Similarity=0.327 Sum_probs=43.0
Q ss_pred HHHHhc-cCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHcCc
Q psy12750 15 EACMQH-CGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRESKIREAYEMLKKQQV 88 (93)
Q Consensus 15 d~cvkN-CG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~~i~~~Y~~Lk~~G~ 88 (93)
+...++ -|..+..-...-.|.+.-+.-+... .+..+++++.+|++.|....+.+..+..+...|++-|.
T Consensus 9 ~~l~~~~~g~~W~~la~~Lg~~~~~i~~i~~~-----~~~~~~~~~~~lL~~W~~~~g~~at~~~L~~aL~~~~~ 78 (88)
T smart00005 9 AKLLDHPLGLDWRELARKLGLSEADIDQIRTE-----APRDLAEQSVQLLRLWEQREGKNATLGTLLEALRKMGR 78 (88)
T ss_pred HHHHcCccchHHHHHHHHcCCCHHHHHHHHHH-----CCCCHHHHHHHHHHHHHHccchhhHHHHHHHHHHHcCh
Confidence 334444 5555533322235533322333222 13458899999999999988766778888888888774
No 33
>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=82.67 E-value=6 Score=25.67 Aligned_cols=33 Identities=24% Similarity=0.242 Sum_probs=25.8
Q ss_pred HHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHh
Q psy12750 32 FRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLE 69 (93)
Q Consensus 32 ~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~ 69 (93)
+.|+..|+++-++. +.++|.+++.+||+.--++
T Consensus 6 k~FL~tLi~ls~~~-----~qpe~~~~Vr~LV~~L~~~ 38 (92)
T smart00549 6 KRFLTTLIQLSNDI-----SQPEVAERVRTLVLGLVNG 38 (92)
T ss_pred HHHHHHHHHHhcCC-----CcchHHHHHHHHHHHHHhC
Confidence 78999999999864 2277888888888877654
No 34
>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=82.66 E-value=5.6 Score=25.07 Aligned_cols=68 Identities=18% Similarity=0.303 Sum_probs=50.0
Q ss_pred HHHHHhccCHHHHhhhccHHHHHH-HHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHcC
Q psy12750 14 LEACMQHCGPQFHAEVGKFRFLNE-LIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRESKIREAYEMLKKQQ 87 (93)
Q Consensus 14 Ld~cvkNCG~~fh~evas~~Fl~~-l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~~i~~~Y~~Lk~~G 87 (93)
++...+|-|.......-.-.|.+. +..+... | |..+.+++..++..|.........+..++..|++-|
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 MAVIREHLGLSWAELARELQFSVEDINRIRVE-N-----PNSLLEQSTALLNLWVDREGENAKMSPLYPALYSID 75 (84)
T ss_pred HHHHHHHhcchHHHHHHHcCCCHHHHHHHHHh-C-----CCCHHHHHHHHHHHHHHhcCccchHHHHHHHHHHCC
Confidence 455667888888666666677665 5544443 2 345899999999999998887777888888887654
No 35
>PRK01005 V-type ATP synthase subunit E; Provisional
Probab=82.31 E-value=8 Score=28.15 Aligned_cols=80 Identities=14% Similarity=0.012 Sum_probs=57.5
Q ss_pred HHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHH-HHHHHHHHHHHHHHhC---------CC--Cch-
Q psy12750 9 LTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDA-VRTEIIELLYLWTLEY---------PR--ESK- 75 (93)
Q Consensus 9 ~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~-Vk~kil~liq~Wa~~f---------~~--~~~- 75 (93)
.+.+-++.-.++.-....+++.+.-|-..+.+++..-. ++++ +++-|+++++.|.... +. +|.
T Consensus 68 r~~s~a~l~~R~~~l~aKqevi~~vf~~a~~~lv~~~~----~d~~~l~~lI~~~v~~~~~~~~~~~~~~~i~~~~~~~~ 143 (207)
T PRK01005 68 QGESALVQAGKRSLESLKQAVENKIFRESLGEWLEHVL----TDPEVSAKLIQALVQAIEAQGISGNLTAYIGKHVSARA 143 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----cCHHHHHHHHHHHHHHHhhcccccccchhhhhcCCHHH
Confidence 45666666777777888899999899999988887653 3444 7777888999998752 11 121
Q ss_pred -----HHHHHHHHHHcCccccc
Q psy12750 76 -----IREAYEMLKKQQVVQAW 92 (93)
Q Consensus 76 -----i~~~Y~~Lk~~G~~f~~ 92 (93)
...+=..|+++||.|..
T Consensus 144 ~~~~~~~~~~~~l~~~gv~~~~ 165 (207)
T PRK01005 144 VNELLGKEVTKKLKEKGVSVGS 165 (207)
T ss_pred HHHHHHHHHHHHHHHcCeEEec
Confidence 23446788999998865
No 36
>KOG2160|consensus
Probab=79.26 E-value=12 Score=29.53 Aligned_cols=62 Identities=23% Similarity=0.308 Sum_probs=51.0
Q ss_pred HHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCC
Q psy12750 4 LRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYP 71 (93)
Q Consensus 4 ~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~ 71 (93)
..+--+|..++-+|++|= ++.+..|-...|+..|.++++.. .+..||.|+|.-|-+--..|+
T Consensus 138 ~~lR~~Aa~Vigt~~qNN-P~~Qe~v~E~~~L~~Ll~~ls~~-----~~~~~r~kaL~AissLIRn~~ 199 (342)
T KOG2160|consen 138 AELRELAARVIGTAVQNN-PKSQEQVIELGALSKLLKILSSD-----DPNTVRTKALFAISSLIRNNK 199 (342)
T ss_pred HHHHHHHHHHHHHHHhcC-HHHHHHHHHcccHHHHHHHHccC-----CCchHHHHHHHHHHHHHhcCc
Confidence 445667889999999995 67788888888999999999843 578899999999888777664
No 37
>KOG1293|consensus
Probab=78.41 E-value=9.4 Score=32.60 Aligned_cols=62 Identities=21% Similarity=0.198 Sum_probs=55.6
Q ss_pred chHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHh
Q psy12750 2 FPLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLE 69 (93)
Q Consensus 2 ~~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~ 69 (93)
+++++--.++.+|-.+|=||...+..+.-++=+.+-+..++++ +..+|.+.++.++......
T Consensus 473 ~~~n~r~~~~~~Lr~l~f~~de~~k~~~~~ki~a~~i~~l~nd------~d~~Vqeq~fqllRNl~c~ 534 (678)
T KOG1293|consen 473 PDFNSRANSLWVLRHLMFNCDEEEKFQLLAKIPANLILDLIND------PDWAVQEQCFQLLRNLTCN 534 (678)
T ss_pred CCchHHHHHHHHHHHHHhcchHHHHHHHHHHhhHHHHHHHHhC------CCHHHHHHHHHHHHHhhcC
Confidence 5677888999999999999999999999999999999999987 4789999999999988765
No 38
>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=77.37 E-value=8.9 Score=23.56 Aligned_cols=68 Identities=13% Similarity=0.178 Sum_probs=43.6
Q ss_pred HHHHHhccCHHHHhhhccHHHHHH-HHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHcC
Q psy12750 14 LEACMQHCGPQFHAEVGKFRFLNE-LIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRESKIREAYEMLKKQQ 87 (93)
Q Consensus 14 Ld~cvkNCG~~fh~evas~~Fl~~-l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~~i~~~Y~~Lk~~G 87 (93)
+....++-|..+..-...-.|.+. +..+-.. .+..+.+++.++++.|........-+..+...|++-|
T Consensus 7 l~~ia~~lG~dW~~LAr~Lg~~~~dI~~i~~~------~~~~~~eq~~~mL~~W~~r~g~~at~~~L~~AL~~i~ 75 (84)
T cd08317 7 LADISNLLGSDWPQLARELGVSETDIDLIKAE------NPNSLAQQAQAMLKLWLEREGKKATGNSLEKALKKIG 75 (84)
T ss_pred HHHHHHHHhhHHHHHHHHcCCCHHHHHHHHHH------CCCCHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHcC
Confidence 344556667777554444466554 4444332 1345779999999999998765555777777777655
No 39
>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=76.97 E-value=5.3 Score=23.62 Aligned_cols=34 Identities=15% Similarity=0.285 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHhCCCCchHHHHHHHHHHcCc
Q psy12750 55 VRTEIIELLYLWTLEYPRESKIREAYEMLKKQQV 88 (93)
Q Consensus 55 Vk~kil~liq~Wa~~f~~~~~i~~~Y~~Lk~~G~ 88 (93)
+.+++.++++.|.........+..+...|++-|.
T Consensus 39 ~~~~~~~~L~~W~~~~~~~at~~~L~~aL~~~~~ 72 (83)
T PF00531_consen 39 LREQTYEMLQRWRQREGPNATVDQLIQALRDIGR 72 (83)
T ss_dssp HHHHHHHHHHHHHHHHGSTSSHHHHHHHHHHTTH
T ss_pred hHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHCCc
Confidence 8999999999999995445568888888877663
No 40
>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=76.70 E-value=3.2 Score=24.12 Aligned_cols=31 Identities=29% Similarity=0.424 Sum_probs=18.7
Q ss_pred HHHHHhccCHH-HHhhhccHHHHHHHHHhhCC
Q psy12750 14 LEACMQHCGPQ-FHAEVGKFRFLNELIKLISP 44 (93)
Q Consensus 14 Ld~cvkNCG~~-fh~evas~~Fl~~l~kl~~~ 44 (93)
||.+|-|||+- -.-+=+.....+++.+++.+
T Consensus 7 ld~lv~~cg~IrarleE~qa~i~~e~~~l~~~ 38 (51)
T PF07197_consen 7 LDLLVVDCGSIRARLEEIQAQIPDELAKLATP 38 (51)
T ss_pred HHHHHhccchHHHHHHHHHHHhhHHHHHhcCh
Confidence 78999999972 22222334455566666654
No 41
>cd08804 Death_ank2 Death domain of Ankyrin-2. Death Domain (DD) of Ankyrin-2 (ANK-2) 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-2, also called ankyrin-B (for broadly expressed), is required for proper function of the Na/Ca ion exchanger-1 in cardiomyocytes, and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. Human ANK-2 is associated with "Ankyrin-B syndrome", an atypical arrythmia disorder with risk of sudden cardiac death. It also plays key roles in the brain and striated muscle. Loss of ANK-2 is associated with significant nervous system defects and sarcomere disorganization. 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
Probab=75.12 E-value=11 Score=23.54 Aligned_cols=67 Identities=19% Similarity=0.295 Sum_probs=43.3
Q ss_pred HHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHH
Q psy12750 14 LEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRESKIREAYEMLKK 85 (93)
Q Consensus 14 Ld~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~~i~~~Y~~Lk~ 85 (93)
|+...+|=|..+..-.-.-.|.+.=+..+... -+..+.+.+.+|++.|...-.....+..++..|++
T Consensus 7 l~~ia~~LG~dWk~LAr~Lg~se~dI~~i~~~-----~~~~~~eq~~~mL~~W~~r~g~~At~~~L~~aL~~ 73 (84)
T cd08804 7 LAVIADHLGFSWTELARELDFTEEQIHQIRIE-----NPNSLQDQSHALLKYWLERDGKHATDTNLMKCLTK 73 (84)
T ss_pred HHHHHHHHhhhHHHHHHHcCCCHHHHHHHHHH-----CcccHHHHHHHHHHHHHHccCCCchHHHHHHHHHH
Confidence 34455777888744444446666633344332 14568999999999999987655556666666654
No 42
>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=74.77 E-value=7.3 Score=24.26 Aligned_cols=34 Identities=21% Similarity=0.175 Sum_probs=25.2
Q ss_pred HHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhC
Q psy12750 32 FRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEY 70 (93)
Q Consensus 32 ~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f 70 (93)
++|+..+..+++.. ++.+||+.+++.|.+--.+.
T Consensus 16 ~~fL~Pf~~i~~~~-----~~~~vre~il~ci~qil~~~ 49 (86)
T PF09324_consen 16 KDFLKPFEYIMSNN-----PSIDVRELILECILQILQSR 49 (86)
T ss_pred HHHHHHHHHHHhcc-----CcHHHHHHHHHHHHHHHHHh
Confidence 67888888887543 67899999999877655543
No 43
>PF00618 RasGEF_N: RasGEF N-terminal motif; InterPro: IPR000651 The crystal structure of the guanine nucleotide exchange factor (GEF) region of human Sos1 complexes with Ras has been solved []. The structure consists of two distinct alpha helical structural domains: the N-terminal domain which seems to have a purely structural role and the C-terminal domain which is sufficient for catalytic activity and contains all residues that interact with Ras. A main feature of the catalytic domain is the protrusion of a helical hairpin important for the nucleotide-exchange mechanism. The N-terminal domain is likely to be important for the stability and correct placement of the hairpin structure. This entry represents a domain found in several GEF for Ras-like small GTPases which lies N-terminal to the RasGef (Cdc25-like) domain. ; GO: 0005085 guanyl-nucleotide exchange factor activity, 0051056 regulation of small GTPase mediated signal transduction, 0005622 intracellular; PDB: 3CF6_E 2BYV_E 1NVW_S 1BKD_S 1XDV_A 2II0_A 1NVU_S 1NVX_S 1NVV_S 1XD4_B ....
Probab=74.46 E-value=13 Score=23.06 Aligned_cols=48 Identities=21% Similarity=0.489 Sum_probs=29.8
Q ss_pred HHhhhccHHHHHHHHHhhC-CCCCCCCCc---------HHHHHHHHHHHHHHHHhCCCC
Q psy12750 25 FHAEVGKFRFLNELIKLIS-PKYLGNLTP---------DAVRTEIIELLYLWTLEYPRE 73 (93)
Q Consensus 25 fh~evas~~Fl~~l~kl~~-~k~~~~~~~---------~~Vk~kil~liq~Wa~~f~~~ 73 (93)
++.=+.+.++++.|..... ....+. .. ..++.||+.++..|-+.++.+
T Consensus 33 yr~F~tp~~Ll~~L~~ry~~~~~~~~-~~~~~~~~~~~~~i~~rv~~~l~~Wi~~~~~d 90 (104)
T PF00618_consen 33 YRSFTTPEELLDKLIQRYNIPPPNGL-SQDESWDQDSQEPIRLRVLNVLKYWIENYPDD 90 (104)
T ss_dssp HHHCS-HHHHHHHHHHHHT---SSS--HHHHT-HHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_pred hHhhCCHHHHHHHHHHHhcccCCccc-cccchhhhhhhHHHHHHHHHHHHHHHHHChHh
Confidence 3444556778888766652 111111 11 248899999999999988764
No 44
>PF09712 PHA_synth_III_E: Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E)
Probab=74.13 E-value=16 Score=27.88 Aligned_cols=65 Identities=14% Similarity=0.196 Sum_probs=53.2
Q ss_pred HHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhC--CCCchHHHHHHHH
Q psy12750 12 WVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEY--PRESKIREAYEML 83 (93)
Q Consensus 12 ~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f--~~~~~i~~~Y~~L 83 (93)
.+-|.=++.|...|-..+.|.+|.....++++ ....+|...=+++..+-..+ |....|.++|+.|
T Consensus 215 e~~d~Wi~~ae~~~~~~~~S~ef~~~~g~~~~-------a~m~~r~~~~~~~e~~L~~l~lPTr~evd~l~k~l 281 (293)
T PF09712_consen 215 EFYDIWIDAAEEAYEELFRSEEFAQAYGQLVN-------ALMDLRKQQQEVVEEYLRSLNLPTRSEVDELYKRL 281 (293)
T ss_pred HHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
Confidence 35566788899999999999999999999996 35789999999999998876 5656777777765
No 45
>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=72.60 E-value=5.6 Score=25.84 Aligned_cols=30 Identities=17% Similarity=0.223 Sum_probs=27.2
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccH
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKF 32 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~ 32 (93)
|+.|++-||.|+.-++++|.+.|..+..+.
T Consensus 50 ~w~v~~K~LillH~llr~G~~~~~~~~~~~ 79 (117)
T cd03564 50 NWVVVLKALILLHRLLREGHPSFLQELLSR 79 (117)
T ss_pred cHHHHHHHHHHHHHHHhcCCHHHHHHHHHc
Confidence 788999999999999999999998887764
No 46
>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=71.79 E-value=13 Score=23.37 Aligned_cols=22 Identities=23% Similarity=0.700 Sum_probs=18.5
Q ss_pred cHHHHHHHHHHHHHHHHhCCCC
Q psy12750 52 PDAVRTEIIELLYLWTLEYPRE 73 (93)
Q Consensus 52 ~~~Vk~kil~liq~Wa~~f~~~ 73 (93)
...++.+|+.+++.|-+.++.+
T Consensus 63 ~~~~~~~v~~~l~~Wv~~~~~d 84 (122)
T cd06224 63 SKPIRLRVLNVLRTWVENYPYD 84 (122)
T ss_pred HHHHHHHHHHHHHHHHHhCCCc
Confidence 3568999999999999988753
No 47
>PF12783 Sec7_N: Guanine nucleotide exchange factor in Golgi transport N-terminal
Probab=69.24 E-value=25 Score=23.85 Aligned_cols=64 Identities=16% Similarity=0.230 Sum_probs=43.3
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhh--------hccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCC
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAE--------VGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPR 72 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~e--------vas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~ 72 (93)
..+...++|.++++..+|+|+.|.+. +.+.+....+.+.+.. .+..|=.+.+.++..--..|+.
T Consensus 35 ~~~~k~l~LeLl~~iL~~~~~~f~~~~~~~~l~~~lk~~l~~~Ll~~~~~------~~~~i~~~slri~~~l~~~~~~ 106 (168)
T PF12783_consen 35 DERSKLLSLELLESILENHGSVFRSSEEHPSLINLLKDDLCPALLKNLSS------SDFPIFSRSLRIFLTLLSRFRS 106 (168)
T ss_pred hHHHHHHHHHHHHHHHHhCHHHHhCCcchHHHHHHHHHHHHHHHHHHHhh------hhhHHHHHHHHHHHHHHHHHHH
Confidence 45678899999999999999988731 1233444444455543 2366777888887776666653
No 48
>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=67.13 E-value=25 Score=21.17 Aligned_cols=56 Identities=13% Similarity=0.132 Sum_probs=41.0
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHH
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYL 65 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~ 65 (93)
+++++..|+..|-.+..++... ...+....++..+.+++++. +.++++.++..+..
T Consensus 62 ~~~v~~~a~~~L~~l~~~~~~~-~~~~~~~g~l~~l~~~l~~~------~~~~~~~a~~~l~~ 117 (120)
T cd00020 62 DEEVVKAALWALRNLAAGPEDN-KLIVLEAGGVPKLVNLLDSS------NEDIQKNATGALSN 117 (120)
T ss_pred CHHHHHHHHHHHHHHccCcHHH-HHHHHHCCChHHHHHHHhcC------CHHHHHHHHHHHHH
Confidence 5788889999999998887543 33334456888888888753 67888888877654
No 49
>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=65.28 E-value=33 Score=23.92 Aligned_cols=61 Identities=13% Similarity=0.089 Sum_probs=37.1
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCC
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYP 71 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~ 71 (93)
++.|+..|+.++..+..++|..|... ...++..|.+.+.++ ..-|++.....+..+.....
T Consensus 66 Rs~v~~~A~~~l~~l~~~l~~~~~~~--~~~~l~~Ll~~~~~~------~~~i~~~a~~~L~~i~~~~~ 126 (228)
T PF12348_consen 66 RSKVSKTACQLLSDLARQLGSHFEPY--ADILLPPLLKKLGDS------KKFIREAANNALDAIIESCS 126 (228)
T ss_dssp ---HHHHHHHHHHHHHHHHGGGGHHH--HHHHHHHHHHGGG---------HHHHHHHHHHHHHHHTTS-
T ss_pred HHHHHHHHHHHHHHHHHHHhHhHHHH--HHHHHHHHHHHHccc------cHHHHHHHHHHHHHHHHHCC
Confidence 45677888899999999999887554 345555655555432 34566666666666655444
No 50
>cd08803 Death_ank3 Death domain of Ankyrin-3. Death Domain (DD) of the human protein ankyrin-3 (ANK-3) 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-3, also called anykyrin-G (for general or giant), is found in neurons and at least one splice variant has been shown to be essential for propagation of action potentials as a binding partner to neurofascin and voltage-gated sodium channels. It is required for maintaining axo-dendritic polarity, and may be a genetic risk factor associated with bipolar disorder. ANK-3 may also play roles in other cell types. Mutations affecting ANK-3 pathways for Na channel localization are associated with Brugada syndrome, a potentially fata arrythmia. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by se
Probab=63.25 E-value=25 Score=21.98 Aligned_cols=68 Identities=16% Similarity=0.248 Sum_probs=44.9
Q ss_pred HHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHcC
Q psy12750 15 EACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRESKIREAYEMLKKQQ 87 (93)
Q Consensus 15 d~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~~i~~~Y~~Lk~~G 87 (93)
....+|-|+...+-.-.=.|...=+..+...| +..+.+++..++..|......+..+..+...|++-|
T Consensus 8 ~~ia~~LG~dW~~LA~eLg~s~~dI~~i~~e~-----p~~~~~q~~~lL~~W~~r~g~~At~~~L~~aL~~i~ 75 (84)
T cd08803 8 AIVADHLGLSWTELARELNFSVDEINQIRVEN-----PNSLIAQSFMLLKKWVTRDGKNATTDALTSVLTKIN 75 (84)
T ss_pred HHHHHHhhccHHHHHHHcCCCHHHHHHHHHhC-----CCCHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHHCC
Confidence 34456677777555555567665333443321 345889999999999998876666777777776644
No 51
>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=62.86 E-value=27 Score=22.37 Aligned_cols=34 Identities=18% Similarity=0.472 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHhCCCC----ch----HHHHHHHHHHc
Q psy12750 53 DAVRTEIIELLYLWTLEYPRE----SK----IREAYEMLKKQ 86 (93)
Q Consensus 53 ~~Vk~kil~liq~Wa~~f~~~----~~----i~~~Y~~Lk~~ 86 (93)
..++.+|+.+++.|-+.+..+ |. +.+.++.+...
T Consensus 69 ~~~~~rv~~~l~~Wv~~~~~dF~~~~~l~~~l~~f~~~~~~~ 110 (127)
T smart00229 69 LRVKNRVLNILRHWVENYWQDFEDDPKLILRLLEFLDLVDQE 110 (127)
T ss_pred HHHHHHHHHHHHHHHHHCCcccccCHHHHHHHHHHHHHHhhC
Confidence 358999999999999987643 43 45555544333
No 52
>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=60.73 E-value=26 Score=19.10 Aligned_cols=51 Identities=22% Similarity=0.268 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHH
Q psy12750 4 LRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIEL 62 (93)
Q Consensus 4 ~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~l 62 (93)
+.|...|+..|-.+..+|+..+.. ...+.+..|..++.+ ++..||.....-
T Consensus 1 p~vR~~A~~aLg~l~~~~~~~~~~--~~~~~~~~L~~~L~d------~~~~VR~~A~~a 51 (55)
T PF13513_consen 1 PRVRRAAAWALGRLAEGCPELLQP--YLPELLPALIPLLQD------DDDSVRAAAAWA 51 (55)
T ss_dssp HHHHHHHHHHHHCTTTTTHHHHHH--HHHHHHHHHHHHTTS------SSHHHHHHHHHH
T ss_pred CHHHHHHHHHHhhHhcccHHHHHH--HHHHHHHHHHHHHcC------CCHHHHHHHHHH
Confidence 345666677776677788777644 334556666677755 355898877543
No 53
>PF11426 Tn7_TnsC_Int: Tn7 transposition regulator TnsC; InterPro: IPR021542 TnsC is a molecular switch that regulates transposition and interacts with TnsA which is a component of the transposase. The two proteins interact via the residues 504-555 on TnsC. The TnsA/TnsC interaction is very important in Tn7 transposition []. ; PDB: 1T0F_C.
Probab=59.69 E-value=6.7 Score=22.44 Aligned_cols=14 Identities=29% Similarity=0.510 Sum_probs=10.7
Q ss_pred HHHHHHHHcCcccc
Q psy12750 78 EAYEMLKKQQVVQA 91 (93)
Q Consensus 78 ~~Y~~Lk~~G~~f~ 91 (93)
++|+.||.+|+.|.
T Consensus 26 ~~y~~Lk~~Glifd 39 (48)
T PF11426_consen 26 SVYEALKQNGLIFD 39 (48)
T ss_dssp -HHHHHHHTTSB--
T ss_pred HHHHHHHHCCeeee
Confidence 79999999999884
No 54
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=58.66 E-value=45 Score=21.21 Aligned_cols=49 Identities=14% Similarity=0.056 Sum_probs=35.3
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHH
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEI 59 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~ki 59 (93)
+++|-++|..-|-..+|.++..+.. --.+..+.|.+++.+ +++.||.=.
T Consensus 40 d~rVRy~AcEaL~ni~k~~~~~~l~--~f~~IF~~L~kl~~D------~d~~Vr~~a 88 (97)
T PF12755_consen 40 DSRVRYYACEALYNISKVARGEILP--YFNEIFDALCKLSAD------PDENVRSAA 88 (97)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHcC------CchhHHHHH
Confidence 4788899998888899999877643 224556667788876 467777644
No 55
>cd08316 Death_FAS_TNFRSF6 Death domain of FAS or TNF receptor superfamily member 6. Death Domain (DD) found in the FS7-associated cell surface antigen (FAS). FAS, also known as TNFRSF6 (TNF receptor superfamily member 6), APT1, CD95, FAS1, or APO-1, together with FADD (Fas-associating via Death Domain) and caspase 8, is an integral part of the death inducing signalling complex (DISC), which plays an important role in the induction of apoptosis and is activated by binding of the ligand FasL to FAS. FAS also plays a critical role in self-tolerance by eliminating cell types (autoreactive T and B cells) that contribute to autoimmunity. 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 sign
Probab=57.05 E-value=50 Score=21.24 Aligned_cols=36 Identities=19% Similarity=0.375 Sum_probs=26.6
Q ss_pred cHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHcC
Q psy12750 52 PDAVRTEIIELLYLWTLEYPRESKIREAYEMLKKQQ 87 (93)
Q Consensus 52 ~~~Vk~kil~liq~Wa~~f~~~~~i~~~Y~~Lk~~G 87 (93)
+...+++..+|++.|.........+.++-..|+.-|
T Consensus 45 ~~d~~Eq~~qmL~~W~~~~G~~a~~~~Li~aLr~~~ 80 (97)
T cd08316 45 PQDTAEQKVQLLRAWYQSHGKTGAYRTLIKTLRKAK 80 (97)
T ss_pred CCChHHHHHHHHHHHHHHhCCCchHHHHHHHHHHcc
Confidence 345699999999999998876655555556666544
No 56
>PRK11639 zinc uptake transcriptional repressor; Provisional
Probab=56.51 E-value=41 Score=23.33 Aligned_cols=53 Identities=17% Similarity=0.270 Sum_probs=33.3
Q ss_pred ccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHcCcc
Q psy12750 30 GKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRESKIREAYEMLKKQQVV 89 (93)
Q Consensus 30 as~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~~i~~~Y~~Lk~~G~~ 89 (93)
+..++++.+..++..... -...-|..||++|.. .++-+...++|+.|+.+|..
T Consensus 5 ~~~~~~~~~~~~L~~~Gl---R~T~qR~~IL~~l~~----~~~hlSa~eI~~~L~~~~~~ 57 (169)
T PRK11639 5 TTQELLAQAEKLCAQRNV---RLTPQRLEVLRLMSL----QPGAISAYDLLDLLREAEPQ 57 (169)
T ss_pred cHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHHh----cCCCCCHHHHHHHHHhhCCC
Confidence 356677777777765421 123457889988874 23334577888888877754
No 57
>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=56.49 E-value=87 Score=23.86 Aligned_cols=42 Identities=24% Similarity=0.328 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHHh-ccCHHHHhhhccHHHHHH-HHHhhCCCC
Q psy12750 5 RLVILTIWVLEACMQ-HCGPQFHAEVGKFRFLNE-LIKLISPKY 46 (93)
Q Consensus 5 ~v~l~aL~LLd~cvk-NCG~~fh~evas~~Fl~~-l~kl~~~k~ 46 (93)
+.+.-+|.||-++|. |.|..-..-+..++|.-. +.+++.++.
T Consensus 71 ~~~~~~LrLL~~iv~f~~g~~a~~v~~~fd~~~~~l~kll~~~~ 114 (330)
T PF11707_consen 71 SLTNPALRLLTAIVSFDGGALAREVLRSFDFSLKSLPKLLTPRK 114 (330)
T ss_pred HHHHHHHHHHHHHHccCCHHHHHHHHHhcCCchhhHHHHhcccc
Confidence 457789999999999 999888777778899654 888887663
No 58
>KOG3219|consensus
Probab=56.01 E-value=23 Score=25.91 Aligned_cols=38 Identities=34% Similarity=0.430 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHHHhCCCCch-HHHHHHHHHHcCccc
Q psy12750 53 DAVRTEIIELLYLWTLEYPRESK-IREAYEMLKKQQVVQ 90 (93)
Q Consensus 53 ~~Vk~kil~liq~Wa~~f~~~~~-i~~~Y~~Lk~~G~~f 90 (93)
-+|.+-.+.+-..|.+.=|=.|. |+++|+.|+.+|-..
T Consensus 147 GEvVEeAl~V~~~~~e~~PLqP~HIREA~rrL~~qgk~~ 185 (195)
T KOG3219|consen 147 GEVVEEALDVREEWGESGPLQPKHIREAYRRLKLQGKLP 185 (195)
T ss_pred HHHHHHHHHHHHHhccCCCCCcHHHHHHHHHHHhcCCCC
Confidence 36778889999999983333454 999999999999643
No 59
>PF09447 Cnl2_NKP2: Cnl2/NKP2 family protein; InterPro: IPR018565 This entry includes the Cnl2 kinetochore protein [].
Probab=55.98 E-value=18 Score=22.05 Aligned_cols=24 Identities=33% Similarity=0.537 Sum_probs=18.8
Q ss_pred HHHHHHhCCC----CchHHHHHHHHHHc
Q psy12750 63 LYLWTLEYPR----ESKIREAYEMLKKQ 86 (93)
Q Consensus 63 iq~Wa~~f~~----~~~i~~~Y~~Lk~~ 86 (93)
+++|..-||. .|.+...|+.|..+
T Consensus 22 l~qF~~LFPr~~~~~P~ir~LYr~Lq~q 49 (67)
T PF09447_consen 22 LEQFRKLFPRRLRSHPQIRSLYRDLQAQ 49 (67)
T ss_pred HHHHHHHccccCCCChHHHHHHHHHHHH
Confidence 5778888863 47899999999764
No 60
>COG1725 Predicted transcriptional regulators [Transcription]
Probab=55.86 E-value=18 Score=24.55 Aligned_cols=16 Identities=25% Similarity=0.673 Sum_probs=14.6
Q ss_pred HHHHHHHHHHcCcccc
Q psy12750 76 IREAYEMLKKQQVVQA 91 (93)
Q Consensus 76 i~~~Y~~Lk~~G~~f~ 91 (93)
+..+|++|.++|+.+.
T Consensus 52 v~raY~eLE~eG~i~t 67 (125)
T COG1725 52 VQRAYQELEREGIVET 67 (125)
T ss_pred HHHHHHHHHHCCCEEE
Confidence 8999999999999764
No 61
>PF05596 Taeniidae_ag: Taeniidae antigen; InterPro: IPR008860 This family consists of several antigen proteins from Taenia and Echinococcus (tapeworm) species.
Probab=55.43 E-value=44 Score=20.13 Aligned_cols=18 Identities=17% Similarity=0.231 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHhCC
Q psy12750 54 AVRTEIIELLYLWTLEYP 71 (93)
Q Consensus 54 ~Vk~kil~liq~Wa~~f~ 71 (93)
.+.++|.+|...|...++
T Consensus 27 PlGqkIa~l~kdw~~~~~ 44 (64)
T PF05596_consen 27 PLGQKIAQLAKDWNEICQ 44 (64)
T ss_pred chHHHHHHHHHHHHHHHH
Confidence 356666666666666554
No 62
>PF02005 TRM: N2,N2-dimethylguanosine tRNA methyltransferase; InterPro: IPR002905 This enzyme 2.1.1.32 from EC uses S-adenosyl-L-methionine to methylate tRNA: S-AdoMet + tRNA = S-adenosyl-L-homocysteine + tRNA containing N2-methylguanine The TRM1 gene of Saccharomyces cerevisiae is necessary for the N2,N2-dimethylguanosine modification of both mitochondrial and cytoplasmic tRNAs []. The enzyme is found in both eukaryotes and archaea [].; GO: 0003723 RNA binding, 0004809 tRNA (guanine-N2-)-methyltransferase activity, 0008033 tRNA processing; PDB: 2YTZ_B 2DUL_A 2EJU_A 2EJT_A 3AXT_A 3AXS_A.
Probab=55.15 E-value=33 Score=27.06 Aligned_cols=60 Identities=12% Similarity=0.091 Sum_probs=40.8
Q ss_pred hhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCC-----------------CchHHHHHHHHHHcCcc
Q psy12750 27 AEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPR-----------------ESKIREAYEMLKKQQVV 89 (93)
Q Consensus 27 ~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~-----------------~~~i~~~Y~~Lk~~G~~ 89 (93)
-.+-+.+|++.+...+... .......++..+++...++..+ .|.+.++-+.|++.||.
T Consensus 278 GpL~d~~fl~~ml~~~~~~-----~~~~~~~ri~~lL~~i~eE~~~~P~yY~l~~ias~lk~~~P~~~~ii~aL~~~Gy~ 352 (377)
T PF02005_consen 278 GPLHDKEFLEKMLEEAEEM-----PELNTSKRIEKLLETIKEELIDPPFYYDLHEIASRLKCNPPPLDKIISALRNAGYR 352 (377)
T ss_dssp S-SB-HHHHHHHHHHHCT------S-TTTHHHHHHHHHHHHHCHS-SSS-EEHHHHHHHHT-SC--HHHHHHHHHHTTTT
T ss_pred cccCCHHHHHHHHhhhhcc-----chhhhHHHHhhhcchhhhhcccceeEEeHHHHHHhcCCCCCCHHHHHHHHhhcceE
Confidence 3466899999998888753 1222378888888888887321 25689999999999997
Q ss_pred cc
Q psy12750 90 QA 91 (93)
Q Consensus 90 f~ 91 (93)
.+
T Consensus 353 aS 354 (377)
T PF02005_consen 353 AS 354 (377)
T ss_dssp EE
T ss_pred EE
Confidence 54
No 63
>PF08285 DPM3: Dolichol-phosphate mannosyltransferase subunit 3 (DPM3); InterPro: IPR013174 This family corresponds to subunit 3 of dolichol-phosphate mannosyltransferase, an enzyme which generates mannosyl donors for glycosylphosphatidylinositols, N-glycan and protein O- and C-mannosylation. DPM3 is an integral membrane protein and plays a role in stabilising the dolichol-phosphate mannosyl transferase complex [].
Probab=54.49 E-value=13 Score=23.80 Aligned_cols=16 Identities=38% Similarity=0.380 Sum_probs=14.1
Q ss_pred hHHHHHHHHHHcCccc
Q psy12750 75 KIREAYEMLKKQQVVQ 90 (93)
Q Consensus 75 ~i~~~Y~~Lk~~G~~f 90 (93)
+|.++=+.||++|+.+
T Consensus 76 eI~eAK~dLr~kGv~~ 91 (91)
T PF08285_consen 76 EIKEAKADLRKKGVDV 91 (91)
T ss_pred HHHHHHHHHHHcCCCC
Confidence 3999999999999875
No 64
>cd00773 HisRS-like_core Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. This domain is also found at the C-terminus of eukaryotic GCN2 protein kinase and at the N-terminus of the ATP phosphoribosyltransferase accessory subunit, HisZ. HisZ along with HisG catalyze the first reaction in histidine biosynthesis. HisZ is found only in a subset of bacteria and differs from HisRS in lacking a C-terminal anti-codon binding domain.
Probab=53.98 E-value=25 Score=25.57 Aligned_cols=68 Identities=13% Similarity=0.204 Sum_probs=48.6
Q ss_pred HHHHHHHHHHhccC-HHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHcC
Q psy12750 9 LTIWVLEACMQHCG-PQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRESKIREAYEMLKKQQ 87 (93)
Q Consensus 9 ~aL~LLd~cvkNCG-~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~~i~~~Y~~Lk~~G 87 (93)
-.|.++..+.+..| +.+...|+...+++.+.+-+. .+++.+.+++..+.. +....+.++++.|+.-|
T Consensus 123 E~i~l~~~~l~~lg~~~~~i~l~~~~i~~~l~~~~~-------~~~~~~~~l~~~l~~-----~~l~~l~~l~~~l~~~~ 190 (261)
T cd00773 123 EVIALAVEILEALGLKDFQIKINHRGILDGIAGLLE-------DREEYIERLIDKLDK-----EALAHLEKLLDYLEALG 190 (261)
T ss_pred HHHHHHHHHHHHcCCCceEEEECCHHHHHHHhhccC-------CCHHHHHHHHHHhhH-----HHHHHHHHHHHHHHHcC
Confidence 35666777777777 568889999999998765443 346667777777776 22235888888888877
Q ss_pred c
Q psy12750 88 V 88 (93)
Q Consensus 88 ~ 88 (93)
+
T Consensus 191 ~ 191 (261)
T cd00773 191 V 191 (261)
T ss_pred C
Confidence 4
No 65
>PF12993 DUF3877: Domain of unknown function, E. rectale Gene description (DUF3877); InterPro: IPR024539 This entry represents proteins of unknown function found primarily in Firmicutes. The Eubacterium rectale gene appears to be upregulated in the presence of Bacteroides thetaiotaomicron compared to growth in pure culture [].
Probab=52.91 E-value=14 Score=26.58 Aligned_cols=41 Identities=22% Similarity=0.384 Sum_probs=33.3
Q ss_pred HHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhC
Q psy12750 23 PQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEY 70 (93)
Q Consensus 23 ~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f 70 (93)
.-+|.++...+|+.+|+.+++.. .--.+.|++++.+|++..
T Consensus 85 ~YVhe~~~~~eFik~lIe~v~~h-------gcT~e~I~~~F~~ys~~~ 125 (175)
T PF12993_consen 85 EYVHEHTKENEFIKELIELVGKH-------GCTLEDILELFHKYSDNV 125 (175)
T ss_pred HHHHhcCCCCHHHHHHHHHHhcC-------CcCHHHHHHHHHHhcCCe
Confidence 34788999999999999999863 223588999999999864
No 66
>cd08051 gp6_gp15_like Head-Tail Connector Proteins gp6 and gp15, and similar proteins. Members of this family include the proteins gp6 and gp15 from bacteriophage HK97 and SPP1, respectively. They are critical in the assembly of the connector, a specialized structure that serves as an interface for head and tail attachment, as well as a point at which DNA exits the head during infection by the bacteriophage. They form dodecameric ring structures that comprise the middle ring of the connector, located between the portal protein (attached to the head) and the gp7/gp16 ring (attached to the tail). They are components of the mature phage and the absence or mutation of HK97 gp6 or SPP1 gp15, respectively, result in defective head-tail joining and the absence of mature phage particles. The genome maps of HK97 and SPP1 show that genes encoding gp6 and gp15 are in the same relative position on the genome, located adjacent to the major capsid protein (MCP) gene and in between head and tail gene
Probab=51.48 E-value=51 Score=20.90 Aligned_cols=44 Identities=14% Similarity=0.351 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHH
Q psy12750 7 VILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTL 68 (93)
Q Consensus 7 ~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~ 68 (93)
+.+.....+.|-.-||.+|-.+ . +...|+.||.-++.+++-|+.
T Consensus 19 ~~~i~aA~~~~e~~~~~~~~~~----------------~--~~~lp~~vk~A~l~li~~~ye 62 (94)
T cd08051 19 TLYAQAAFDYCXRWCDEPFWDA----------------V--AADIPAAVKGAVLKVFQFYFE 62 (94)
T ss_pred HHHHHHHHHHHHHHhccccccc----------------c--ccCCCHHHHHHHHHHHHHHHH
Confidence 3445555666666676543221 0 233689999999999999965
No 67
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=51.35 E-value=27 Score=16.56 Aligned_cols=15 Identities=20% Similarity=0.302 Sum_probs=12.5
Q ss_pred hHHHHHHHHHHcCcc
Q psy12750 75 KIREAYEMLKKQQVV 89 (93)
Q Consensus 75 ~i~~~Y~~Lk~~G~~ 89 (93)
...++|+.|+++|+.
T Consensus 19 ~a~~~~~~M~~~gv~ 33 (34)
T PF13812_consen 19 AALQLFDEMKEQGVK 33 (34)
T ss_pred HHHHHHHHHHHhCCC
Confidence 488899999999874
No 68
>PF04123 DUF373: Domain of unknown function (DUF373); InterPro: IPR007254 This archaeal family of unknown function is predicted to be an integral membrane protein with six transmembrane regions.
Probab=49.28 E-value=28 Score=27.41 Aligned_cols=41 Identities=22% Similarity=0.273 Sum_probs=32.1
Q ss_pred CcHHHHHHHHHHHHHHHHhCCCCch------HHHHHHHHHHcCcccc
Q psy12750 51 TPDAVRTEIIELLYLWTLEYPRESK------IREAYEMLKKQQVVQA 91 (93)
Q Consensus 51 ~~~~Vk~kil~liq~Wa~~f~~~~~------i~~~Y~~Lk~~G~~f~ 91 (93)
+|.-=|+.+++....-+.+=|+|+. =.++|++||++|.+.|
T Consensus 22 tPVvGre~vl~AA~~l~laDPeDSD~N~if~avkiydeL~~~Gedve 68 (344)
T PF04123_consen 22 TPVVGREAVLDAAVKLALADPEDSDVNAIFGAVKIYDELKAEGEDVE 68 (344)
T ss_pred CCcccHHHHHHHHHHHhcCCcccccHHHHHHHHHHHHHHHhcCCCeE
Confidence 5544478888888888888888875 3789999999997655
No 69
>COG4229 Predicted enolase-phosphatase [Energy production and conversion]
Probab=48.98 E-value=23 Score=26.22 Aligned_cols=34 Identities=15% Similarity=0.372 Sum_probs=24.6
Q ss_pred cHHHHHHHHHHHH--HHHHhCCCC----chHHHHHHHHHH
Q psy12750 52 PDAVRTEIIELLY--LWTLEYPRE----SKIREAYEMLKK 85 (93)
Q Consensus 52 ~~~Vk~kil~liq--~Wa~~f~~~----~~i~~~Y~~Lk~ 85 (93)
....|...|..+| -|+..|++. |.+.|+|+.+|+
T Consensus 75 aed~K~t~lK~lQG~iWa~Gy~sgelkahlypDav~~ik~ 114 (229)
T COG4229 75 AEDSKDTPLKALQGMIWAHGYESGELKAHLYPDAVQAIKR 114 (229)
T ss_pred hcccccchHHHHHhHHHHhccccCccccccCHhHHHHHHH
Confidence 3455677777776 599999864 458888888775
No 70
>COG1867 TRM1 N2,N2-dimethylguanosine tRNA methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=48.82 E-value=46 Score=26.70 Aligned_cols=67 Identities=16% Similarity=0.292 Sum_probs=40.1
Q ss_pred CHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHH-------------HHHHhCC-CCchHHHHHHHHHHcC
Q psy12750 22 GPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLY-------------LWTLEYP-RESKIREAYEMLKKQQ 87 (93)
Q Consensus 22 G~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq-------------~Wa~~f~-~~~~i~~~Y~~Lk~~G 87 (93)
|+-+---+.+++|++++..+......| +...+ .|+|.++. .|+...+ +-|.+.++-+.|++.|
T Consensus 271 GPlW~GpL~d~~f~e~~l~~~~~~~l~--~~~~~-~klL~~i~~E~~~~p~fydl~~ias~l~~s~p~~~~vv~~L~~~G 347 (380)
T COG1867 271 GPLWLGPLHDEEFIEEMLEIAEGLELG--TKKRA-LKLLKLIKKELDISPLFYDLHRIASKLGLSAPPLEEVVEALRSAG 347 (380)
T ss_pred cCcccCcccCHHHHHHHHHHhhccccc--cHHHH-HHHHHHHHhhcCCCceEEEHHHHHHHhCCCCCCHHHHHHHHHhcC
Confidence 444444577899999998888654221 12222 34444442 2332222 2267999999999999
Q ss_pred cccc
Q psy12750 88 VVQA 91 (93)
Q Consensus 88 ~~f~ 91 (93)
+.-+
T Consensus 348 ~~as 351 (380)
T COG1867 348 YEAS 351 (380)
T ss_pred ceee
Confidence 8643
No 71
>PF12243 CTK3: CTD kinase subunit gamma CTK3
Probab=48.04 E-value=88 Score=21.44 Aligned_cols=33 Identities=18% Similarity=0.218 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHhCCCCc-hHHHHHHHHHHc
Q psy12750 54 AVRTEIIELLYLWTLEYPRES-KIREAYEMLKKQ 86 (93)
Q Consensus 54 ~Vk~kil~liq~Wa~~f~~~~-~i~~~Y~~Lk~~ 86 (93)
.-..-+...++.|...+.=++ .+.+++..|+.+
T Consensus 105 ~N~~~~~kvL~~~~~k~~l~~~~~~~~~~~l~~r 138 (139)
T PF12243_consen 105 ANLKSVRKVLKNWSKKKILDPEEYEEIEASLKER 138 (139)
T ss_pred hHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHhcc
Confidence 344667778899998776444 588888888754
No 72
>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=47.30 E-value=30 Score=19.17 Aligned_cols=19 Identities=21% Similarity=0.284 Sum_probs=16.1
Q ss_pred CcHHHHHHHHHHHHHHHHh
Q psy12750 51 TPDAVRTEIIELLYLWTLE 69 (93)
Q Consensus 51 ~~~~Vk~kil~liq~Wa~~ 69 (93)
.+++|++..-+++..|...
T Consensus 33 ~~~~i~~~A~~Li~~Wk~~ 51 (53)
T PF08711_consen 33 ENPEIRKLAKELIKKWKRI 51 (53)
T ss_dssp S-HHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHhHh
Confidence 5789999999999999863
No 73
>TIGR01834 PHA_synth_III_E poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit. This model represents the PhaE subunit of the heterodimeric class (class III) of polymerase for poly(R)-hydroxyalkanoic acids (PHAs), carbon and energy storage polymers of many bacteria. The most common PHA is polyhydroxybutyrate but about 150 different constituent hydroxyalkanoic acids (HAs) have been identified in various species. This model must be designated subfamily to indicate the heterogeneity of PHAs.
Probab=46.52 E-value=1.2e+02 Score=23.86 Aligned_cols=65 Identities=12% Similarity=0.087 Sum_probs=51.2
Q ss_pred HHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhC--CCCchHHHHHHHHH
Q psy12750 13 VLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEY--PRESKIREAYEMLK 84 (93)
Q Consensus 13 LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f--~~~~~i~~~Y~~Lk 84 (93)
+-|-=++.|...|...++|.+|.....++++ ...+.|...=+++..+-..+ |...+|.++|+.|.
T Consensus 233 ~~d~W~~~ae~~~~e~~~S~efak~~G~lvn-------a~m~lr~~~qe~~e~~L~~LnlPTRsElDe~~krL~ 299 (320)
T TIGR01834 233 LYDLWVIAAEEAYAEVFASEENAKVHGKFIN-------ALMRLRIQQQEIVEALLKMLNLPTRSELDEAHQRIQ 299 (320)
T ss_pred HHHHHHHHHHHHHHHHHcCHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 4556677888999999999999999988886 35778888888888888765 56567777776653
No 74
>PF12830 Nipped-B_C: Sister chromatid cohesion C-terminus
Probab=46.28 E-value=1e+02 Score=21.56 Aligned_cols=71 Identities=18% Similarity=0.191 Sum_probs=47.6
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCC------chH
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRE------SKI 76 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~------~~i 76 (93)
+..+++.|+.++..+++.+= +-=.+.+..++.|..+ +++.++++...++..-.+.+++- .++
T Consensus 21 ~~~vr~~Al~~l~~il~qGL------vnP~~cvp~lIAL~ts------~~~~ir~~A~~~l~~l~eK~~s~v~~~~~~gi 88 (187)
T PF12830_consen 21 DDSVRLAALQVLELILRQGL------VNPKQCVPTLIALETS------PNPSIRSRAYQLLKELHEKHESLVESRYSEGI 88 (187)
T ss_pred CHHHHHHHHHHHHHHHhcCC------CChHHHHhHhhhhhCC------CChHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 35677888888888877662 2223455566666654 57889999999998888877653 246
Q ss_pred HHHHHHHHH
Q psy12750 77 REAYEMLKK 85 (93)
Q Consensus 77 ~~~Y~~Lk~ 85 (93)
+.+|+--++
T Consensus 89 ~~af~~~~~ 97 (187)
T PF12830_consen 89 RLAFDYQRR 97 (187)
T ss_pred HHHHHHHHH
Confidence 666665544
No 75
>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=45.56 E-value=26 Score=23.47 Aligned_cols=55 Identities=20% Similarity=0.239 Sum_probs=28.8
Q ss_pred HHHHHHHHHHhccCHHHHhhhccHHHHHH----HHHhhCCCCCCCCCcHHHHHHHHHHHH
Q psy12750 9 LTIWVLEACMQHCGPQFHAEVGKFRFLNE----LIKLISPKYLGNLTPDAVRTEIIELLY 64 (93)
Q Consensus 9 ~aL~LLd~cvkNCG~~fh~evas~~Fl~~----l~kl~~~k~~~~~~~~~Vk~kil~liq 64 (93)
..+.++=.+.++||..+...=.++..+++ +...+..+. .+..+..++..+.+++.
T Consensus 146 ~~ie~~~~lL~~~G~~l~~~~~~~~~l~~~~~~~~~~~~~~~-~~~~~~r~~~~l~~l~~ 204 (209)
T PF02854_consen 146 ENIECLCTLLKTCGKKLENSEESPKALDEIFERLQKYANSKK-DPNLSSRIRFMLEDLIE 204 (209)
T ss_dssp HHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCH-SSSSSHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHHHhhc-ccCCCHHHHHHHHHHHH
Confidence 34555666778888888722223333333 333333210 02356677777766654
No 76
>PF07962 Swi3: Replication Fork Protection Component Swi3; InterPro: IPR012923 Replication fork pausing is required to initiate recombination events. More specifically, Swi1 is required for recombination near the mat1 locus. Swi3 has been found to co-purify with Swi1. Together they define a fork protection complex that coordinates leading- and lagging-strand synthesis and stabilises stalled replication forks []. This complex is required for accurate replication, fork protection and replication checkpoint signalling [, ].; GO: 0006974 response to DNA damage stimulus, 0007049 cell cycle, 0048478 replication fork protection, 0005634 nucleus
Probab=45.40 E-value=51 Score=20.47 Aligned_cols=33 Identities=15% Similarity=0.386 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHcC
Q psy12750 54 AVRTEIIELLYLWTLEY-PRESKIREAYEMLKKQQ 87 (93)
Q Consensus 54 ~Vk~kil~liq~Wa~~f-~~~~~i~~~Y~~Lk~~G 87 (93)
+==.+++.+.|.|+..+ |. -.|.|+...+.+-|
T Consensus 33 ~dL~~ll~~Yq~W~h~LfPk-~~F~d~i~~vE~LG 66 (83)
T PF07962_consen 33 EDLRRLLQFYQLWAHRLFPK-ASFEDFIERVEKLG 66 (83)
T ss_pred HHHHHHHHHHHHHHHhcCCC-CCHHHHHHHHHHHc
Confidence 33479999999999975 53 45666666666555
No 77
>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]
Probab=44.88 E-value=1.1e+02 Score=25.93 Aligned_cols=80 Identities=15% Similarity=0.100 Sum_probs=48.4
Q ss_pred HHHHHHHHHHHHHhccCHHHHhhhc---------cHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCC-ch
Q psy12750 6 LVILTIWVLEACMQHCGPQFHAEVG---------KFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRE-SK 75 (93)
Q Consensus 6 v~l~aL~LLd~cvkNCG~~fh~eva---------s~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~-~~ 75 (93)
.--.|+..+|.=+.|-.+.|.+-+. .++.+++..+.+.. =...-++|=+||..-...+|+. ..
T Consensus 161 ~~Ge~~~~lEk~Le~i~~~l~qf~~lt~~Gd~ieA~evl~~~ee~~~~-------L~~~~e~IP~L~~e~~~~lP~ql~~ 233 (570)
T COG4477 161 QYGEAAPELEKKLENIEEELSQFVELTSSGDYIEAREVLEEAEEHMIA-------LRSIMERIPSLLAELQTELPGQLQD 233 (570)
T ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHhccCCChhHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHhhchHHHHH
Confidence 3344666777777776666644332 12222222211110 1234466777777778888875 56
Q ss_pred HHHHHHHHHHcCccccc
Q psy12750 76 IREAYEMLKKQQVVQAW 92 (93)
Q Consensus 76 i~~~Y~~Lk~~G~~f~~ 92 (93)
.+.-|+.|+.+||.++.
T Consensus 234 Lk~Gyr~m~~~gY~l~~ 250 (570)
T COG4477 234 LKAGYRDMKEEGYHLEH 250 (570)
T ss_pred HHHHHHHHHHccCCccc
Confidence 99999999999999874
No 78
>TIGR00308 TRM1 tRNA(guanine-26,N2-N2) methyltransferase. This enzyme is responsible for two methylations of a characteristic guanine of most tRNA molecules. The activity has been demonstrated for eukaryotic and archaeal proteins, which are active when expressed in E. coli, a species that lacks this enzyme. At least one Eubacterium, Aquifex aeolicus, has an ortholog, as do all completed archaeal genomes.
Probab=43.97 E-value=52 Score=25.90 Aligned_cols=60 Identities=15% Similarity=0.264 Sum_probs=39.9
Q ss_pred HhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCC-----------------CCchHHHHHHHHHHcCc
Q psy12750 26 HAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYP-----------------RESKIREAYEMLKKQQV 88 (93)
Q Consensus 26 h~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~-----------------~~~~i~~~Y~~Lk~~G~ 88 (93)
--.+-+++|+++|...+..... .-+.++..++....++.+ +-|.+.++-+.|++.|+
T Consensus 270 ~G~l~d~~fl~~m~~~~~~~~~------~~~~~~~~lL~~~~~E~~~~p~~y~~~~i~~~~k~~~p~~~~~~~~L~~~Gy 343 (374)
T TIGR00308 270 AGPLHDKEFIEEVLRIAEEKEY------GTRKRVLKMLSLIKNELSDPPGYYSPHHIASVLKLSVPPLKDVVAGLKSLGF 343 (374)
T ss_pred cCccCCHHHHHHHHHhhhhccc------cchHHHHHHHHHHHhccCCCCeEEeHHHHHHhcCCCCCCHHHHHHHHHHCCC
Confidence 3345578999998877654321 124566666666665542 12568999999999998
Q ss_pred ccc
Q psy12750 89 VQA 91 (93)
Q Consensus 89 ~f~ 91 (93)
.-+
T Consensus 344 ~as 346 (374)
T TIGR00308 344 EAS 346 (374)
T ss_pred eEE
Confidence 654
No 79
>cd08784 Death_DRs Death Domain of Death Receptors. Death domain (DD) found in death receptor proteins. Death receptors are members of the tumor necrosis factor (TNF) receptor superfamily, characterized by having a cytoplasmic DD. Known members of the family are Fas (CD95/APO-1), TNF-receptor 1 (TNFR1/TNFRSF1A/p55/CD120a), TNF-related apoptosis-inducing ligand receptor 1 (TRAIL-R1 /DR4), and receptor 2 (TRAIL-R2/DR5/APO-2/KILLER), as well as Death Receptor 3 (DR3/APO-3/TRAMP/WSL-1/LARD). They are involved in apoptosis signaling pathways. 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=43.56 E-value=74 Score=19.29 Aligned_cols=34 Identities=24% Similarity=0.395 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHhCCCCchHHHHHHHHHHcCc
Q psy12750 55 VRTEIIELLYLWTLEYPRESKIREAYEMLKKQQV 88 (93)
Q Consensus 55 Vk~kil~liq~Wa~~f~~~~~i~~~Y~~Lk~~G~ 88 (93)
.++++.+|+..|...-....-+..+...|..-|.
T Consensus 38 ~~eq~~~mL~~W~~k~G~~At~~~L~~aL~~~~~ 71 (79)
T cd08784 38 HRDRVYELLRIWRNKEGRKATLNTLIKALKDLDQ 71 (79)
T ss_pred hHHHHHHHHHHHHhccCcCcHHHHHHHHHHHccc
Confidence 7999999999999987766668888888887764
No 80
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=42.85 E-value=70 Score=19.91 Aligned_cols=39 Identities=8% Similarity=0.231 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHHhCC------------CC--chHHHHHHHHHHcCccccc
Q psy12750 53 DAVRTEIIELLYLWTLEYP------------RE--SKIREAYEMLKKQQVVQAW 92 (93)
Q Consensus 53 ~~Vk~kil~liq~Wa~~f~------------~~--~~i~~~Y~~Lk~~G~~f~~ 92 (93)
..++++|+.+|++ ...-. +. ..++++-+.|-.+|++++-
T Consensus 46 ~~~~~~Vl~~i~~-~~~~~~Gv~v~~I~~~l~~~~~~v~~al~~L~~eG~IYsT 98 (102)
T PF08784_consen 46 SPLQDKVLNFIKQ-QPNSEEGVHVDEIAQQLGMSENEVRKALDFLSNEGHIYST 98 (102)
T ss_dssp -HHHHHHHHHHHC-----TTTEEHHHHHHHSTS-HHHHHHHHHHHHHTTSEEES
T ss_pred CHHHHHHHHHHHh-cCCCCCcccHHHHHHHhCcCHHHHHHHHHHHHhCCeEecc
Confidence 4678888888888 22211 11 2599999999999998764
No 81
>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=42.25 E-value=75 Score=18.97 Aligned_cols=61 Identities=13% Similarity=0.023 Sum_probs=43.5
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhC
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEY 70 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f 70 (93)
++.+...|+..+-.+.++. +.-...+.+...++.+.+++++ .++.|+...+..+...+...
T Consensus 20 ~~~~~~~a~~~l~~l~~~~-~~~~~~~~~~~~i~~l~~~l~~------~~~~v~~~a~~~L~~l~~~~ 80 (120)
T cd00020 20 DENVQREAAWALSNLSAGN-NDNIQAVVEAGGLPALVQLLKS------EDEEVVKAALWALRNLAAGP 80 (120)
T ss_pred CHHHHHHHHHHHHHHhcCC-HHHHHHHHHCCChHHHHHHHhC------CCHHHHHHHHHHHHHHccCc
Confidence 3466677777777777663 3333444556888888899875 36789999999988887654
No 82
>PF09336 Vps4_C: Vps4 C terminal oligomerisation domain; InterPro: IPR015415 This domain is found at the C-terminal of ATPase proteins involved in vacuolar sorting. It forms an alpha helix structure and is required for oligomerisation []. ; PDB: 1XWI_A 3EIH_C 2QPA_C 3EIE_A 2RKO_A 2QP9_X 3MHV_C 3CF3_C 3CF1_A 3CF2_A ....
Probab=42.02 E-value=32 Score=20.25 Aligned_cols=34 Identities=24% Similarity=0.266 Sum_probs=24.9
Q ss_pred hhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCC
Q psy12750 28 EVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYP 71 (93)
Q Consensus 28 evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~ 71 (93)
-|..++|.+.|.+ +.+.|...=|.-...|+..|.
T Consensus 29 ~it~~DF~~Al~~----------~kpSVs~~dl~~ye~w~~~FG 62 (62)
T PF09336_consen 29 PITMEDFEEALKK----------VKPSVSQEDLKKYEEWTKEFG 62 (62)
T ss_dssp HBCHHHHHHHHHT----------CGGSS-HHHHHHHHHHHHHTS
T ss_pred CCCHHHHHHHHHH----------cCCCCCHHHHHHHHHHHHHcC
Confidence 5777889888864 334567777888999999883
No 83
>TIGR02093 P_ylase glycogen/starch/alpha-glucan phosphorylases. This family consists of phosphorylases. Members use phosphate to break alpha 1,4 linkages between pairs of glucose residues at the end of long glucose polymers, releasing alpha-D-glucose 1-phosphate. The nomenclature convention is to preface the name according to the natural substrate, as in glycogen phosphorylase, starch phosphorylase, maltodextrin phosphorylase, etc. Name differences among these substrates reflect differences in patterns of branching with alpha 1,6 linkages. Members include allosterically regulated and unregulated forms. A related family, TIGR02094, contains examples known to act well on particularly small alpha 1,4 glucans, as may be found after import from exogenous sources.
Probab=41.03 E-value=1.5e+02 Score=26.05 Aligned_cols=79 Identities=16% Similarity=0.250 Sum_probs=49.7
Q ss_pred HHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHh----hCCCCCCCCC-------cHHHHHHHHHHHH-HHHH-----
Q psy12750 6 LVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKL----ISPKYLGNLT-------PDAVRTEIIELLY-LWTL----- 68 (93)
Q Consensus 6 v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl----~~~k~~~~~~-------~~~Vk~kil~liq-~Wa~----- 68 (93)
|-|-.|.+.-+-.-|+-...|.+|...........+ ...++||-.+ ++.+.+-+-+.|- .|..
T Consensus 405 v~Ma~LAi~~S~~vNGVS~lH~eilk~~~~~df~~l~P~kf~n~TNGVt~rrWl~~~np~L~~Li~~~ig~~W~~d~~~l 484 (794)
T TIGR02093 405 VRMANLAIVGSHSVNGVAALHTELLKEDLLKDFYELYPEKFNNKTNGITPRRWLRLANPGLSALLTETIGDDWLTDLDLL 484 (794)
T ss_pred EehHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhCCCccCCcCCCCCccchhhhcCHHHHHHHHHhcCchhhhcHHHH
Confidence 344556666666779999999999998776666655 3455676544 5556555555543 4543
Q ss_pred ----hCCCCchHHHHHHHHH
Q psy12750 69 ----EYPRESKIREAYEMLK 84 (93)
Q Consensus 69 ----~f~~~~~i~~~Y~~Lk 84 (93)
.+.++|.|.+-+...|
T Consensus 485 ~~l~~~~~D~~f~~~l~~vK 504 (794)
T TIGR02093 485 KKLEPYADDSEFLEEFRQVK 504 (794)
T ss_pred HHHHhcCCcHHHHHHHHHHH
Confidence 3556666555554444
No 84
>KOG3036|consensus
Probab=38.79 E-value=84 Score=24.30 Aligned_cols=36 Identities=6% Similarity=0.081 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhC
Q psy12750 8 ILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLIS 43 (93)
Q Consensus 8 l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~ 43 (93)
+-||.++-+++||....+|.-+-+.+..-=..+++.
T Consensus 143 LtsLGVIgaLvk~dd~eVi~fLl~TeIVPlCLrime 178 (293)
T KOG3036|consen 143 LTSLGVIGALVKNDDQEVIRFLLTTEIVPLCLRIME 178 (293)
T ss_pred HHHHHHHHHHHhcCcHHHHHHHHHhhhHHHHHHHHh
Confidence 568999999999999999888888777777667775
No 85
>COG5209 RCD1 Uncharacterized protein involved in cell differentiation/sexual development [General function prediction only]
Probab=38.19 E-value=70 Score=24.63 Aligned_cols=37 Identities=5% Similarity=0.032 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCC
Q psy12750 8 ILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISP 44 (93)
Q Consensus 8 l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~ 44 (93)
+-||.++-+++||....+|..+-+.+..-=+.|++..
T Consensus 164 ltsLGVIgaLvkNdsq~vi~fLltTeivPLcLrIme~ 200 (315)
T COG5209 164 LTSLGVIGALVKNDSQYVIKFLLTTEIVPLCLRIMEL 200 (315)
T ss_pred ehHHHHHHHHHhCCCHHHHHHHHhhhHHHHHHHHHHh
Confidence 5689999999999999999999888888777778753
No 86
>cd08313 Death_TNFR1 Death domain of Tumor Necrosis Factor Receptor 1. Death Domain (DD) found in tumor necrosis factor receptor-1 (TNFR-1). TNFR-1 has many names including TNFRSF1A, CD120a, p55, p60, and TNFR60. It activates two major intracellular signaling pathways that lead to the activation of the transcription factor NF-kB and the induction of cell death. Upon binding of its ligand TNF, TNFR-1 trimerizes which leads to the recruitment of an adaptor protein named TNFR-associated death domain protein (TRADD) through a DD/DD interaction. Mutations in the TNFRSF1A gene causes TNFR-associated periodic syndrome (TRAPS), a rare disorder characterized recurrent fever, myalgia, abdominal pain, conjunctivitis and skin eruptions. 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 a
Probab=38.18 E-value=90 Score=19.36 Aligned_cols=35 Identities=17% Similarity=0.414 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHhCCC-CchHHHHHHHHHHcCc
Q psy12750 54 AVRTEIIELLYLWTLEYPR-ESKIREAYEMLKKQQV 88 (93)
Q Consensus 54 ~Vk~kil~liq~Wa~~f~~-~~~i~~~Y~~Lk~~G~ 88 (93)
..+++..+|++.|...-+. ...+..+...|+.-|.
T Consensus 37 ~~~Eq~yqmL~~W~~~~g~~~At~~~L~~aLr~~~l 72 (80)
T cd08313 37 RCRDAQYQMLKVWKERGPRPYATLQHLLSVLRDMEL 72 (80)
T ss_pred ChHHHHHHHHHHHHHhcCCCcchHHHHHHHHHHcCc
Confidence 7899999999999998875 6778888888877653
No 87
>cd08324 CARD_NOD1_CARD4 Caspase activation and recruitment domain similar to that found in NOD1. Caspase activation and recruitment domain (CARD) found in human NOD1 (CARD4) and similar proteins. NOD1 is a member of the Nod-like receptor (NLR) family, which plays a central role in the innate immune response. NLRs typically contain an N-terminal effector domain, a central nucleotide-binding domain and a C-terminal ligand-binding region of several leucine-rich repeats (LRRs). In NOD1, as well as NOD2, the N-terminal effector domain is a CARD. Nod1-CARD has been shown to interact with the CARD domain of the downstream effector RICK (RIP2, CARDIAK), a serine/threonine kinase. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form hom
Probab=37.93 E-value=56 Score=20.88 Aligned_cols=34 Identities=21% Similarity=0.217 Sum_probs=22.2
Q ss_pred CcHHHHHHHHHHHHHHHHhCCCC-----chHHHHHHHHH
Q psy12750 51 TPDAVRTEIIELLYLWTLEYPRE-----SKIREAYEMLK 84 (93)
Q Consensus 51 ~~~~Vk~kil~liq~Wa~~f~~~-----~~i~~~Y~~Lk 84 (93)
|+++=-.++++++++|+..-++- -+..++|-.|+
T Consensus 43 T~qdkmRkLld~v~akG~~~k~~F~~iL~e~~~~y~~~~ 81 (85)
T cd08324 43 TQPDKVRKILDLVQSKGEEVSEYFLYLLQQLADAYVDLR 81 (85)
T ss_pred CCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHhhhhhh
Confidence 45555578999999999653321 34667776664
No 88
>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=37.01 E-value=1.1e+02 Score=19.40 Aligned_cols=42 Identities=12% Similarity=0.214 Sum_probs=28.6
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCC
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPK 45 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k 45 (93)
...|+.-|+.+||-+++.|+..+-.. +...-++.+..+++..
T Consensus 24 ~~~Ir~dsl~~L~~lL~~~p~~~~~~-~~~kil~~f~~ll~~~ 65 (102)
T PF12333_consen 24 SPDIREDSLKFLDLLLEHAPDELCSG-GWVKILPNFLDLLGWS 65 (102)
T ss_pred CHHHHHhHHHHHHHHHHHCChHhHhh-hHHHHHHHHHHHHCCC
Confidence 46789999999999999999872111 1223455555676654
No 89
>cd08315 Death_TRAILR_DR4_DR5 Death domain of Tumor necrosis factor-Related Apoptosis-Inducing Ligand Receptors. Death Domain (DD) found in Tumor necrosis factor-Related Apoptosis-Inducing Ligand (TRAIL) Receptors. In mammals, this family includes TRAILR1 (also called DR4 or TNFRSF10A) and TRAILR2 (also called DR5, TNFRSF10B, or KILLER). They function as receptors for the cytokine TRAIL and are involved in apoptosis signaling pathways. TRAIL preferentially induces apoptosis in cancer cells while exhibiting little toxicity in normal cells. 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=36.41 E-value=1.1e+02 Score=19.34 Aligned_cols=33 Identities=15% Similarity=0.399 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHhCCCCchHHHHHHHHHHcCc
Q psy12750 56 RTEIIELLYLWTLEYPRESKIREAYEMLKKQQV 88 (93)
Q Consensus 56 k~kil~liq~Wa~~f~~~~~i~~~Y~~Lk~~G~ 88 (93)
++++.+|+..|...-.....+..+...|++-|.
T Consensus 47 ~eq~~qmL~~W~~~~G~~At~~~L~~aL~~~~~ 79 (96)
T cd08315 47 REQLYQMLLTWVNKTGRKASVNTLLDALEAIGL 79 (96)
T ss_pred HHHHHHHHHHHHHhhCCCcHHHHHHHHHHHccc
Confidence 899999999999988765557777776666553
No 90
>KOG3835|consensus
Probab=36.18 E-value=1.3e+02 Score=24.65 Aligned_cols=53 Identities=19% Similarity=0.311 Sum_probs=36.3
Q ss_pred HHHHHHHHhccCHHHHhh--hccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHh
Q psy12750 11 IWVLEACMQHCGPQFHAE--VGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLE 69 (93)
Q Consensus 11 L~LLd~cvkNCG~~fh~e--vas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~ 69 (93)
|+--|+-++.+|+.+++- .+.++|++-|. |+..-. .+--| .|+-.-+..|+..
T Consensus 24 lsYyd~FIqQGGDDvqQlceagEeEFLEIMa-LVGMa~----KPLHV-RRlQkALrew~tn 78 (495)
T KOG3835|consen 24 LSYYDVFIQQGGDDVQQLCEAGEEEFLEIMA-LVGMAP----KPLHV-RRLQKALREWSTN 78 (495)
T ss_pred HHHHHHHHHhcchHHHHHHHhhHHHHHHHHH-HhccCC----cchhH-HHHHHHHHHHhcC
Confidence 456699999999999874 45689999853 443320 13445 5666777899863
No 91
>KOG1663|consensus
Probab=35.84 E-value=62 Score=24.37 Aligned_cols=75 Identities=23% Similarity=0.167 Sum_probs=51.3
Q ss_pred HHHHHHHHHHhccCHHHHhhhccH--HHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCc----------hH
Q psy12750 9 LTIWVLEACMQHCGPQFHAEVGKF--RFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRES----------KI 76 (93)
Q Consensus 9 ~aL~LLd~cvkNCG~~fh~evas~--~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~----------~i 76 (93)
....|.++..++|++..+..++-. .|++.+++++++|. --+|.--.=.-.-.||.+.+.+. .+
T Consensus 37 ~l~el~e~t~~~~~~~~~m~v~~d~g~fl~~li~~~~ak~-----~lelGvfTGySaL~~Alalp~dGrv~a~eid~~~~ 111 (237)
T KOG1663|consen 37 LLKELREATLTYPQPGSEMLVGPDKGQFLQMLIRLLNAKR-----TLELGVFTGYSALAVALALPEDGRVVAIEIDADAY 111 (237)
T ss_pred HHHHHHHHHhhcCCcccceecChHHHHHHHHHHHHhCCce-----EEEEecccCHHHHHHHHhcCCCceEEEEecChHHH
Confidence 445788999999988888888865 78999999999873 12222222233457888887652 14
Q ss_pred HHHHHHHHHcCc
Q psy12750 77 REAYEMLKKQQV 88 (93)
Q Consensus 77 ~~~Y~~Lk~~G~ 88 (93)
.-.+...|..|+
T Consensus 112 ~~~~~~~k~agv 123 (237)
T KOG1663|consen 112 EIGLELVKLAGV 123 (237)
T ss_pred HHhHHHHHhccc
Confidence 444666666665
No 92
>KOG1268|consensus
Probab=35.40 E-value=19 Score=30.42 Aligned_cols=20 Identities=30% Similarity=0.664 Sum_probs=18.7
Q ss_pred ccCHHHHhhhccHHHHHHHH
Q psy12750 20 HCGPQFHAEVGKFRFLNELI 39 (93)
Q Consensus 20 NCG~~fh~evas~~Fl~~l~ 39 (93)
-||..+|+.+|+|..+++|.
T Consensus 362 acgtSyhs~~A~R~ilEEL~ 381 (670)
T KOG1268|consen 362 ACGTSYHSALATRPILEELS 381 (670)
T ss_pred EecchHHHHHHHHHHHHHHh
Confidence 59999999999999999986
No 93
>PF04124 Dor1: Dor1-like family ; InterPro: IPR007255 Dor1 is involved in vesicle targeting to the yeast Golgi apparatus and complexes with a number of other trafficking proteins, which include Sec34 and Sec35 [].
Probab=35.36 E-value=1.3e+02 Score=23.01 Aligned_cols=27 Identities=7% Similarity=0.317 Sum_probs=16.4
Q ss_pred HHHHHHHhccCHHHHhhhccHHHHHHHHH
Q psy12750 12 WVLEACMQHCGPQFHAEVGKFRFLNELIK 40 (93)
Q Consensus 12 ~LLd~cvkNCG~~fh~evas~~Fl~~l~k 40 (93)
+|+|+|++|+ .++..+-=..|...|.+
T Consensus 111 ~Lm~~ci~~g--~y~eALel~~~~~~L~~ 137 (338)
T PF04124_consen 111 QLMDTCIRNG--NYSEALELSAHVRRLQS 137 (338)
T ss_pred HHHHHHHhcc--cHhhHHHHHHHHHHHHH
Confidence 7899999999 34444433444444443
No 94
>PRK09552 mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase; Reviewed
Probab=35.36 E-value=1.2e+02 Score=21.19 Aligned_cols=22 Identities=9% Similarity=0.057 Sum_probs=17.6
Q ss_pred CCCCchHHHHHHHHHHcCcccc
Q psy12750 70 YPRESKIREAYEMLKKQQVVQA 91 (93)
Q Consensus 70 f~~~~~i~~~Y~~Lk~~G~~f~ 91 (93)
.+=.|++.++.+.|+++|+.+.
T Consensus 73 ~~l~pG~~e~l~~l~~~g~~~~ 94 (219)
T PRK09552 73 AEIREGFHEFVQFVKENNIPFY 94 (219)
T ss_pred CCcCcCHHHHHHHHHHcCCeEE
Confidence 3445889999999999998753
No 95
>PF14726 RTTN_N: Rotatin, an armadillo repeat protein, centriole functioning
Probab=34.96 E-value=1.3e+02 Score=19.44 Aligned_cols=49 Identities=22% Similarity=0.278 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHhcc-CHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHH
Q psy12750 7 VILTIWVLEACMQHC-GPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLY 64 (93)
Q Consensus 7 ~l~aL~LLd~cvkNC-G~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq 64 (93)
+-.+|.++-.+++.= |...-.+++..+|+.++.+.+ ++..+..|-+++.
T Consensus 47 ~~~VL~Ll~~L~~~~~a~~~l~~iG~~~fL~klr~~~---------~~~~~~~id~il~ 96 (98)
T PF14726_consen 47 KEEVLALLLRLLKSPYAAQILRDIGAVRFLSKLRPNV---------EPNLQAEIDEILD 96 (98)
T ss_pred HHHHHHHHHHHHhCcHHHHHHHHccHHHHHHHHHhcC---------CHHHHHHHHHHHh
Confidence 345788888888887 888999999999999988544 3445666655553
No 96
>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=34.87 E-value=1.2e+02 Score=19.29 Aligned_cols=37 Identities=14% Similarity=0.165 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhh
Q psy12750 6 LVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLI 42 (93)
Q Consensus 6 v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~ 42 (93)
++...+.++-.-+.|+...|..+-.-..++.++...+
T Consensus 71 ~~~rv~~~l~~Wv~~~~~dF~~~~~l~~~l~~f~~~~ 107 (127)
T smart00229 71 VKNRVLNILRHWVENYWQDFEDDPKLILRLLEFLDLV 107 (127)
T ss_pred HHHHHHHHHHHHHHHCCcccccCHHHHHHHHHHHHHH
Confidence 4555556666666666665655544444444444433
No 97
>smart00509 TFS2N Domain in the N-terminus of transcription elongation factor S-II (and elsewhere).
Probab=34.64 E-value=65 Score=19.46 Aligned_cols=20 Identities=15% Similarity=0.272 Sum_probs=17.5
Q ss_pred CcHHHHHHHHHHHHHHHHhC
Q psy12750 51 TPDAVRTEIIELLYLWTLEY 70 (93)
Q Consensus 51 ~~~~Vk~kil~liq~Wa~~f 70 (93)
++++|+....+|+..|-..+
T Consensus 54 ~~~~I~~~A~~Li~~WK~~v 73 (75)
T smart00509 54 KNEEIRKLAKKLIKSWKKLV 73 (75)
T ss_pred CcHHHHHHHHHHHHHHHHHh
Confidence 57899999999999998754
No 98
>cd08356 Glo_EDI_BRP_like_17 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping.
Probab=33.45 E-value=34 Score=21.23 Aligned_cols=18 Identities=17% Similarity=0.301 Sum_probs=15.3
Q ss_pred chHHHHHHHHHHcCcccc
Q psy12750 74 SKIREAYEMLKKQQVVQA 91 (93)
Q Consensus 74 ~~i~~~Y~~Lk~~G~~f~ 91 (93)
+.+.++|+.|+.+|+.+.
T Consensus 64 ~did~~~~~l~~~G~~~~ 81 (113)
T cd08356 64 DDLEAYYEHIKALGLPKK 81 (113)
T ss_pred CCHHHHHHHHHHcCCccc
Confidence 469999999999998653
No 99
>COG5573 Predicted nucleic-acid-binding protein, contains PIN domain [General function prediction only]
Probab=32.50 E-value=70 Score=22.23 Aligned_cols=61 Identities=21% Similarity=0.183 Sum_probs=43.7
Q ss_pred chHHHHHHHH---------HHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCC
Q psy12750 2 FPLRLVILTI---------WVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYP 71 (93)
Q Consensus 2 ~~~~v~l~aL---------~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~ 71 (93)
+.+|+.+||+ ...+.+..+.|.. .|.+-..++|..-.+..|+- .-..-|.+++..|.++++
T Consensus 8 lDsNI~iYa~~~~~~~~kr~~a~~L~~a~~~~---~VVs~QVl~Et~~vl~RK~~------~s~~~i~~lie~~~~~~~ 77 (142)
T COG5573 8 LDSNILIYALDNNAGEKKRDAAEVLEQALGHT---YVVSVQVLNETCYVLKRKYG------ASEQLIQTLIEAFRRQCR 77 (142)
T ss_pred hccchhhhhhcccchhhHHHHHHHHHHhcCce---EEEehHHHHHHHHHHHHhcC------CcHHHHHHHHHHHHhhce
Confidence 4567777777 4667788888863 78888888886655555531 124678899999999985
No 100
>PHA00670 hypothetical protein
Probab=32.50 E-value=1.7e+02 Score=24.29 Aligned_cols=61 Identities=13% Similarity=0.233 Sum_probs=45.0
Q ss_pred hhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCC------CchHHHHHHHHHHcCc
Q psy12750 27 AEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPR------ESKIREAYEMLKKQQV 88 (93)
Q Consensus 27 ~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~------~~~i~~~Y~~Lk~~G~ 88 (93)
..| ++-|..+|-.++.....+.-|..+|..+.-|+.+.-+--+.. .|.|.-+|..|.+.|.
T Consensus 353 ~rI-~~af~~dlf~ml~~~~~~~vTAtEV~~r~~E~~~~LGpv~~rl~~ElL~Pli~r~~~il~r~g~ 419 (540)
T PHA00670 353 QTI-NRIYYVDLFQMLANKDSPAMTATEVQERYEEKLLMLGPVLERLENEFLSPLIQRTFNIMVRANK 419 (540)
T ss_pred HHH-HHHHHHhHHHHhccCCcCCCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 344 677777776777655444457789999999998877765532 2779999999999885
No 101
>KOG2071|consensus
Probab=32.31 E-value=26 Score=29.57 Aligned_cols=61 Identities=15% Similarity=0.329 Sum_probs=40.1
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhC
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEY 70 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f 70 (93)
++..-|.++-++|+.+||-|.+-- ...++........-. ..+++..|.++..++.+|+..-
T Consensus 53 pp~~kL~~~y~~dsi~knvg~py~-~~fs~~l~a~f~~~~------~~vd~r~r~~l~~~~~tw~~~~ 113 (579)
T KOG2071|consen 53 PPSQKLPVMYLLDSIVKNVGSPYT-TAFSRNLVATFICAF------TKVDERTRTSLFKLRATWDLDP 113 (579)
T ss_pred CcccccchhhhhHHHHhhcCCcch-hhhhhhHHHHHHHHH------hhccccccchhHhhHHhhccCC
Confidence 345568889999999999999842 222333222222111 1256778999999999999444
No 102
>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat. Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.
Probab=31.26 E-value=45 Score=15.28 Aligned_cols=14 Identities=7% Similarity=0.430 Sum_probs=10.6
Q ss_pred hHHHHHHHHHHcCc
Q psy12750 75 KIREAYEMLKKQQV 88 (93)
Q Consensus 75 ~i~~~Y~~Lk~~G~ 88 (93)
+..++|+++++.|+
T Consensus 18 ~a~~~~~~M~~~g~ 31 (31)
T PF01535_consen 18 EALEVFDEMRERGI 31 (31)
T ss_pred HHHHHHHHHhHCcC
Confidence 47788888888774
No 103
>KOG3120|consensus
Probab=31.20 E-value=99 Score=23.49 Aligned_cols=46 Identities=7% Similarity=0.109 Sum_probs=33.0
Q ss_pred HHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHcCc
Q psy12750 32 FRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRESKIREAYEMLKKQQV 88 (93)
Q Consensus 32 ~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~~i~~~Y~~Lk~~G~ 88 (93)
-+|++++.+.+... +.+.+++|+.+. +.+-.|.|.++.+.+++.|-
T Consensus 56 ne~M~rv~k~Lheq---gv~~~~ik~~~r--------~iP~~Pgmv~lik~~ak~g~ 101 (256)
T KOG3120|consen 56 NELMDRVFKELHEQ---GVRIAEIKQVLR--------SIPIVPGMVRLIKSAAKLGC 101 (256)
T ss_pred HHHHHHHHHHHHHc---CCCHHHHHHHHh--------cCCCCccHHHHHHHHHhCCC
Confidence 36777766677654 235667776653 45767899999999999995
No 104
>PF02671 PAH: Paired amphipathic helix repeat; InterPro: IPR003822 This family contains the paired amphipathic helix (PAH) repeat. The family contains the eukaryotic Sin3 proteins, which have at least three PAH domains (PAH1, PAH2, and PAH3). Sin3 proteins are components of a co-repressor complex that silences transcription, playing important roles in the transition between proliferation and differentiation. Sin3 proteins are recruited to the DNA by various DNA-binding transcription factors such as the Mad family of repressors, Mnt/Rox, PLZF, MeCP2, p53, REST/NRSF, MNFbeta, Sp1, TGIF and Ume6 []. Sin3 acts as a scaffold protein that in turn recruits histone-binding proteins RbAp46/RbAp48 and histone deacetylases HDAC1/HDAC2, which deacetylate the core histones resulting in a repressed state of the chromatin []. The PAH domains are protein-protein interaction domains through which Sin3 fulfils its role as a scaffold. The PAH2 domain of Sin3 can interact with a wide range of unrelated and structurally diverse transcription factors that bind using different interaction motifs. For example, the Sin3 PAH2 domain can interact with the unrelated Mad and HBP1 factors using alternative interaction motifs that involve binding in opposite helical orientations [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1S5Q_B 2L9S_B 1G1E_B 1S5R_B 2CR7_A 2CZY_A 2LD7_B 2RMR_A 2RMS_A 1PD7_A ....
Probab=30.84 E-value=87 Score=16.80 Aligned_cols=31 Identities=26% Similarity=0.233 Sum_probs=18.3
Q ss_pred HHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHH
Q psy12750 32 FRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLW 66 (93)
Q Consensus 32 ~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~W 66 (93)
++|++-|...-+.+ .+..+|..++..|++.+
T Consensus 5 ~~FL~il~~y~~~~----~~~~~v~~~v~~Ll~~h 35 (47)
T PF02671_consen 5 NEFLKILNDYKKGR----ISRSEVIEEVSELLRGH 35 (47)
T ss_dssp HHHHHHHHHHHCTC----SCHHHHHHHHHHHTTT-
T ss_pred HHHHHHHHHHHhcC----CCHHHHHHHHHHHHccC
Confidence 46777776555432 24567777777765544
No 105
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=30.63 E-value=60 Score=26.74 Aligned_cols=32 Identities=22% Similarity=0.307 Sum_probs=23.0
Q ss_pred HHHHHHHHhCCCC-chHHHHHHHHHHcCccccc
Q psy12750 61 ELLYLWTLEYPRE-SKIREAYEMLKKQQVVQAW 92 (93)
Q Consensus 61 ~liq~Wa~~f~~~-~~i~~~Y~~Lk~~G~~f~~ 92 (93)
.++..-...||+. ..+.+-|+.|+.+||.|+.
T Consensus 219 ~l~~~~~~~~P~ql~el~~gy~~m~~~gy~~~~ 251 (569)
T PRK04778 219 ELLKELQTELPDQLQELKAGYRELVEEGYHLDH 251 (569)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHcCCCCCC
Confidence 4444445555543 3599999999999999974
No 106
>KOG3489|consensus
Probab=30.47 E-value=24 Score=22.59 Aligned_cols=12 Identities=33% Similarity=0.913 Sum_probs=9.7
Q ss_pred HHHHHhccCHHH
Q psy12750 14 LEACMQHCGPQF 25 (93)
Q Consensus 14 Ld~cvkNCG~~f 25 (93)
-++|..||-.+|
T Consensus 54 ~e~ClsnCV~Rf 65 (86)
T KOG3489|consen 54 EETCLSNCVNRF 65 (86)
T ss_pred HHHHHHHHHHHH
Confidence 478999998666
No 107
>PF08158 NUC130_3NT: NUC130/3NT domain; InterPro: IPR012977 This N-terminal domain is found in a novel nucleolar protein family defined by NUC130/133 [].
Probab=30.18 E-value=1.1e+02 Score=17.54 Aligned_cols=29 Identities=21% Similarity=0.344 Sum_probs=20.8
Q ss_pred cHHHHHHHHHhhCCCCCCCCCcHHHHHHHHH
Q psy12750 31 KFRFLNELIKLISPKYLGNLTPDAVRTEIIE 61 (93)
Q Consensus 31 s~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~ 61 (93)
.++|-++|..++...+. .-++++|.++..
T Consensus 13 ~~~Fp~~L~~lL~~~~~--~L~p~lR~~lv~ 41 (52)
T PF08158_consen 13 TKDFPQELIDLLRNHHT--VLDPDLRMKLVK 41 (52)
T ss_pred HHHHHHHHHHHHHhccc--cCCHHHHHHHHH
Confidence 46899999999887643 356777777654
No 108
>PF12765 Cohesin_HEAT: HEAT repeat associated with sister chromatid cohesion
Probab=30.08 E-value=94 Score=16.65 Aligned_cols=26 Identities=23% Similarity=0.401 Sum_probs=17.0
Q ss_pred HHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHH
Q psy12750 32 FRFLNELIKLISPKYLGNLTPDAVRTEIIELL 63 (93)
Q Consensus 32 ~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~li 63 (93)
..+.+.+.+-+.+ +++.||+-++++|
T Consensus 17 ~~v~~~i~~rl~D------~s~~VR~aav~ll 42 (42)
T PF12765_consen 17 SDVQSAIIRRLSD------SSPSVREAAVDLL 42 (42)
T ss_pred HHHHHHHHHHhcC------CChHHHHHHHHHC
Confidence 3555556665554 3678999888764
No 109
>KOG2999|consensus
Probab=30.06 E-value=1.6e+02 Score=25.34 Aligned_cols=64 Identities=16% Similarity=0.181 Sum_probs=52.3
Q ss_pred hHHHHHHHHHHHHHHHhccCHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCC
Q psy12750 3 PLRLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRE 73 (93)
Q Consensus 3 ~~~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~ 73 (93)
..++-..||.+||..+-| ....+.-|++.--++.|.+.++. ++..+....+.++++.-..-+++
T Consensus 184 ~a~~~~~AL~~LE~~vl~-s~~~~~~v~eev~i~~li~hlq~------~n~~i~~~aial~nal~~~a~~~ 247 (713)
T KOG2999|consen 184 DANTLLAALQMLESLVLG-SDTLRQLVAEEVPIETLIRHLQV------SNQRIQTCAIALLNALFRKAPDD 247 (713)
T ss_pred cccchHHHHHHHHHHHhC-ChHHHHHHHhcCcHHHHHHHHHh------cchHHHHHHHHHHHHHHhhCChH
Confidence 356788999999999875 45688899999999999999976 46788888999999887766654
No 110
>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=29.88 E-value=92 Score=18.69 Aligned_cols=20 Identities=15% Similarity=0.268 Sum_probs=17.0
Q ss_pred CcHHHHHHHHHHHHHHHHhC
Q psy12750 51 TPDAVRTEIIELLYLWTLEY 70 (93)
Q Consensus 51 ~~~~Vk~kil~liq~Wa~~f 70 (93)
.+++|++...+|+..|...+
T Consensus 56 ~~~~i~~~A~~Lv~~Wk~~v 75 (76)
T cd00183 56 SNEKIRKLAKALIKSWKKLV 75 (76)
T ss_pred CcHHHHHHHHHHHHHHHHhc
Confidence 45899999999999998643
No 111
>TIGR03044 PS_II_psb27 photosystem II protein Psb27. Members of this family are the Psb27 protein of the cyanobacterial photosynthetic supracomplex, photosystem II. Although most protein components of both cyanobacterial and chloroplast versions of photosystem II are closely related and described together by single model families, this family is strictly bacterial. Some uncharacterized proteins with highly divergent sequences, from Arabidopsis, score between trusted and noise cutoffs for this model but are not at this time assigned as functionally equivalent photosystem II proteins.
Probab=29.62 E-value=1.9e+02 Score=19.94 Aligned_cols=52 Identities=13% Similarity=0.155 Sum_probs=35.2
Q ss_pred HHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCc------hHHHHHHHHH
Q psy12750 32 FRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRES------KIREAYEMLK 84 (93)
Q Consensus 32 ~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~------~i~~~Y~~Lk 84 (93)
.++++.|...+.-... +....+......++|..|.--++.+| .|...|.-|-
T Consensus 42 ~~Vi~tlr~~i~lpkd-~p~~~~a~~~ar~~indyvsrYRr~~~v~g~~SFttm~TALN 99 (135)
T TIGR03044 42 LAVIQTLREAIDLPDD-DPNKSEAQAEARQLINDYISRYRRRPRVNGLSSFTTMQTALN 99 (135)
T ss_pred HHHHHHHHHHHcCCCC-CccHHHHHHHHHHHHHHHHHHhcCCCCcCCcccHHHHHHHHH
Confidence 4666777666653211 23457889999999999999987654 4666666553
No 112
>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=29.03 E-value=1.5e+02 Score=19.69 Aligned_cols=30 Identities=20% Similarity=0.495 Sum_probs=18.2
Q ss_pred HHHHHHHHHHhccCHHHHhhhccHHHHHHHH
Q psy12750 9 LTIWVLEACMQHCGPQFHAEVGKFRFLNELI 39 (93)
Q Consensus 9 ~aL~LLd~cvkNCG~~fh~evas~~Fl~~l~ 39 (93)
..+.++=++...||..+-.. .+++.++++.
T Consensus 138 ~~ve~l~~lL~~~G~~l~~~-~~~~~~~~~l 167 (200)
T smart00543 138 FSVECLLSLLPTCGKDLERE-KSPKLLDEIL 167 (200)
T ss_pred HHHHHHHHHHHHhhHHHcCc-ccHHHHHHHH
Confidence 45666667778888888642 3344455543
No 113
>KOG2501|consensus
Probab=28.64 E-value=39 Score=23.84 Aligned_cols=19 Identities=21% Similarity=0.263 Sum_probs=17.0
Q ss_pred chHHHHHHHHHHcCccccc
Q psy12750 74 SKIREAYEMLKKQQVVQAW 92 (93)
Q Consensus 74 ~~i~~~Y~~Lk~~G~~f~~ 92 (93)
|..++.|+.++..|..||-
T Consensus 53 P~Lk~fYe~l~~~~~~fEV 71 (157)
T KOG2501|consen 53 PILKDFYEELKDNAAPFEV 71 (157)
T ss_pred chHHHHHHHHHhcCCceEE
Confidence 6799999999999988874
No 114
>PLN00139 hypothetical protein; Provisional
Probab=28.12 E-value=55 Score=25.15 Aligned_cols=29 Identities=17% Similarity=0.231 Sum_probs=20.1
Q ss_pred HHHHHhCCCCchHHHHHHHHHHcCcccccC
Q psy12750 64 YLWTLEYPRESKIREAYEMLKKQQVVQAWV 93 (93)
Q Consensus 64 q~Wa~~f~~~~~i~~~Y~~Lk~~G~~f~~~ 93 (93)
.+|..+|..+. -.++=..++..|+.++|.
T Consensus 189 ~sWq~~F~t~d-~~eve~~~~~~g~~~eW~ 217 (320)
T PLN00139 189 RGWEDAFGTSD-KAEAERRAKALGMDMEWL 217 (320)
T ss_pred chHHHHhCCCC-HHHHHHHHHHcCCeEEEc
Confidence 47999997532 233344577789999993
No 115
>KOG3675|consensus
Probab=27.84 E-value=73 Score=25.72 Aligned_cols=28 Identities=11% Similarity=0.338 Sum_probs=23.6
Q ss_pred HHHHHHHHHHhCCCCchHHHHHHHHHHcC
Q psy12750 59 IIELLYLWTLEYPRESKIREAYEMLKKQQ 87 (93)
Q Consensus 59 il~liq~Wa~~f~~~~~i~~~Y~~Lk~~G 87 (93)
.-.+||+|.+-|+++ .+.|+|..|+...
T Consensus 387 ~aG~IqSF~Er~pe~-eledlltqla~~d 414 (417)
T KOG3675|consen 387 AAGLIQSFSERFPED-ELEDLLTQLATAD 414 (417)
T ss_pred hhHHHHHHHHhCchh-HHHHHHHHHhhhh
Confidence 347999999999986 8999999988654
No 116
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=27.42 E-value=1.1e+02 Score=20.60 Aligned_cols=29 Identities=28% Similarity=0.308 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHhCCCCchHHHHHHHHHHcCc
Q psy12750 56 RTEIIELLYLWTLEYPRESKIREAYEMLKKQQV 88 (93)
Q Consensus 56 k~kil~liq~Wa~~f~~~~~i~~~Y~~Lk~~G~ 88 (93)
|.+|++++++=... +...++|+.|+.+|.
T Consensus 23 R~~vl~~L~~~~~~----~sAeei~~~l~~~~p 51 (145)
T COG0735 23 RLAVLELLLEADGH----LSAEELYEELREEGP 51 (145)
T ss_pred HHHHHHHHHhcCCC----CCHHHHHHHHHHhCC
Confidence 66777776542211 445555555555443
No 117
>PF07793 DUF1631: Protein of unknown function (DUF1631); InterPro: IPR012434 The members of this family are sequences derived from a group of hypothetical proteins expressed by certain bacterial species. The region concerned is approximately 440 amino acid residues in length.
Probab=27.42 E-value=3.1e+02 Score=23.08 Aligned_cols=52 Identities=19% Similarity=0.115 Sum_probs=37.5
Q ss_pred HHHHHHHHHhhCCCCCCCC-CcHHHHHHHHHHHHHHHHhCCCCch-HHHHHHHH
Q psy12750 32 FRFLNELIKLISPKYLGNL-TPDAVRTEIIELLYLWTLEYPRESK-IREAYEML 83 (93)
Q Consensus 32 ~~Fl~~l~kl~~~k~~~~~-~~~~Vk~kil~liq~Wa~~f~~~~~-i~~~Y~~L 83 (93)
|.++|.|......-..++. ....+..+|-++++.=...|.+++. |.+++..+
T Consensus 404 R~LLn~la~~~~~~~~~~~~~~~~l~~~i~~~V~~i~~~f~~d~~vf~~~l~el 457 (729)
T PF07793_consen 404 RRLLNRLAQAGLGWDEEDDPADDPLYQKIEEVVDRILQEFEGDPAVFEELLQEL 457 (729)
T ss_pred HHHHHHHHHHhcCCCccCcchhhHHHHHHHHHHHHHHHhccCCHHHHHHHHHHH
Confidence 7888888877654322122 3468999999999999999998865 56666655
No 118
>PF11140 DUF2913: Protein of unknown function (DUF2913); InterPro: IPR021316 This family of proteins with unknown function appear to be restricted to Gammaproteobacteria.
Probab=27.26 E-value=2.2e+02 Score=20.40 Aligned_cols=40 Identities=18% Similarity=0.164 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHhccCHHHHhhhccHHHHHH-HHHhhCCC
Q psy12750 5 RLVILTIWVLEACMQHCGPQFHAEVGKFRFLNE-LIKLISPK 45 (93)
Q Consensus 5 ~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~-l~kl~~~k 45 (93)
+++..||.-|..-+++.+ .|+...+...|+-. |..-+..+
T Consensus 8 ~l~~~ALl~L~~~~~~~~-~~~s~~~~n~fL~~WL~~alK~k 48 (207)
T PF11140_consen 8 HLAWCALLHLYFAHSDGK-RFVSPAQRNHFLVRWLKPALKQK 48 (207)
T ss_pred HHHHHHHHHHHHHHhccc-CCCCHHHHHHHHHHHHHHHHcCc
Confidence 556667777777666554 67788888888777 55555443
No 119
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=27.15 E-value=62 Score=21.99 Aligned_cols=23 Identities=17% Similarity=0.476 Sum_probs=19.8
Q ss_pred CCcHHHHHHHHHHHHHHHHhCCC
Q psy12750 50 LTPDAVRTEIIELLYLWTLEYPR 72 (93)
Q Consensus 50 ~~~~~Vk~kil~liq~Wa~~f~~ 72 (93)
.++.+++++++..+..|+..+..
T Consensus 91 i~~ee~k~~i~~~l~~w~~~~~~ 113 (126)
T COG3355 91 IDPEEIKKKILKDLDEWYDKMKQ 113 (126)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHH
Confidence 45689999999999999988753
No 120
>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=26.61 E-value=2.9e+02 Score=21.04 Aligned_cols=58 Identities=28% Similarity=0.343 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHHHhccCHHHHhhhccHH--HHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHH
Q psy12750 6 LVILTIWVLEACMQHCGPQFHAEVGKFR--FLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTL 68 (93)
Q Consensus 6 v~l~aL~LLd~cvkNCG~~fh~evas~~--Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~ 68 (93)
+-++|++.+-.+ +-...|...+-..+ |+++|+.++++.. ..+..++.-++..+.+-+.
T Consensus 238 iRllAi~~l~~~--~~~~~~~~~~l~~dp~l~~eL~eLi~~~~---~v~~~i~~~Al~~L~ai~~ 297 (329)
T PF06012_consen 238 IRLLAIANLVYI--HPESQFSSKLLEQDPELVNELVELISPEE---KVPMDIQTAALRALEAISH 297 (329)
T ss_pred HHHHHHHHHHhh--CCCHHHHHHHHhcChHHHHHHHHHhCCCC---CCCHHHHHHHHHHHHHHHh
Confidence 345556555444 34556666665554 9999999999863 4788999988888887665
No 121
>PF10073 DUF2312: Uncharacterized protein conserved in bacteria (DUF2312); InterPro: IPR018753 This entry is represented by Azospirillum phage Cd, Gp10. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Members of this family of hypothetical bacterial proteins have no known function.
Probab=26.55 E-value=57 Score=20.27 Aligned_cols=16 Identities=19% Similarity=0.285 Sum_probs=14.2
Q ss_pred hHHHHHHHHHHcCccc
Q psy12750 75 KIREAYEMLKKQQVVQ 90 (93)
Q Consensus 75 ~i~~~Y~~Lk~~G~~f 90 (93)
.++++|.+.|..|+..
T Consensus 26 dikdVyaEAK~~GfD~ 41 (74)
T PF10073_consen 26 DIKDVYAEAKGNGFDT 41 (74)
T ss_pred HHHHHHHHHHhCCCCH
Confidence 5999999999999864
No 122
>PF00897 Orbi_VP7: Orbivirus inner capsid protein VP7; InterPro: IPR001803 Bluetongue virus is a representative of the Orbivirus genus of the Reoviridae []. Orbiviruses infect mammalian hosts through insect vectors, causing economically-important diseases of domesticated animals []. They possess a segmented, double-stranded RNA genome within a capsid that comprises four major polypeptides, designated VP2, VP3, VP5 and VP7. On entering a target cell, an outer layer, formed from VP2 and VP5, is removed, leaving an intact core within the cell []. The core, which is 70nm across, contains 780 copies of VP7, which together form 260 trimeric 'bristly' capsomeres clothing an inner scaffold constructed from VP3 []. The 3D structure of VP7 reveals two domains, one a beta-sandwich, the other a bundle of alpha-helices, and a short C-terminal arm, which is thought to unite trimers during capsid formation []. A concentration of methionine residues at the core of the molecule could provide plasticity, relieving structural mismatches during assembly []. The 3D structure of baculovirus-expressed core protein VP7 of African horse sickness virus 4 (AHSV-4) has been determined to 2.3A resolution []. During crystallisation, the two-domain protein is cleaved, leaving only the top domain, in a manner reminiscent of BTV VP7; this suggests that connections between top and bottom domains are relatively weak for these two distinct orbiviruses []. The top domains of both BTV and AHSV VP7 are trimeric and structurally very similar. Electron density maps indicate an extra density feature along their molecular 3-fold axes, probably the result of an unidentified ion []. The characteristics of the molecular surface indicate the possibility of attachment to the cell via attachment of an Arg-Gly-Asp (RGD) motif in the top domain of VP7 to a cellular integrin for both of these orbiviruses [].; GO: 0005198 structural molecule activity, 0019028 viral capsid; PDB: 2BTV_D 1AHS_A 1BVP_6.
Probab=25.69 E-value=23 Score=28.06 Aligned_cols=29 Identities=24% Similarity=0.395 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHhccCHHHHhhhccHHH
Q psy12750 6 LVILTIWVLEACMQHCGPQFHAEVGKFRF 34 (93)
Q Consensus 6 v~l~aL~LLd~cvkNCG~~fh~evas~~F 34 (93)
..-+||++||.|+.+..++.|++-..-+-
T Consensus 4 i~ARALsvle~~at~~DpR~~~d~~~~e~ 32 (350)
T PF00897_consen 4 IAARALSVLEACATLQDPRSHRDPNVMEI 32 (350)
T ss_dssp HHHHHHHHHHHHTT-SSSSSSS-HHHHHH
T ss_pred HHHHHHHHHHHHHhccCcccccCchHHHH
Confidence 45689999999999999999887765543
No 123
>PRK04338 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional
Probab=25.48 E-value=2e+02 Score=22.62 Aligned_cols=63 Identities=17% Similarity=0.295 Sum_probs=41.8
Q ss_pred CHHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHh--C---------------C-CCchHHHHHHHH
Q psy12750 22 GPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLE--Y---------------P-RESKIREAYEML 83 (93)
Q Consensus 22 G~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~--f---------------~-~~~~i~~~Y~~L 83 (93)
|+-.--.+-+++|++++.+.+... . ....++..++....++ + + +-|.+..+.+.|
T Consensus 275 GPlW~G~l~d~~fl~~~~~~~~~~-~------~~~~~~~~ll~~~~~E~~~~~p~~y~~~~i~~~~k~~~p~~~~~~~~L 347 (382)
T PRK04338 275 GPLWLGPLHDKEFVEEMLEEAAKE-L------GTSKKALKLLKTIEEESKLDTPTFYDLHELAKKLKVSAPPMDEILEAL 347 (382)
T ss_pred cccccCccCCHHHHHHHHHHhhhh-c------cchHHHHHHHHHHHhccCCCCCcEEcHHHHHhhcCCCCCCHHHHHHHH
Confidence 444455677899999988777421 1 1245666666666554 2 1 226799999999
Q ss_pred HHcCcccc
Q psy12750 84 KKQQVVQA 91 (93)
Q Consensus 84 k~~G~~f~ 91 (93)
++.||.-+
T Consensus 348 ~~~Gy~as 355 (382)
T PRK04338 348 REAGFEAS 355 (382)
T ss_pred HHCCCeEE
Confidence 99999754
No 124
>PF08388 GIIM: Group II intron, maturase-specific domain; InterPro: IPR013597 This region is found mainly in various bacterial and archaeal species, but a few members of this family are expressed by fungal and chlamydomonal species. It has been implicated in the binding of intron RNA during reverse transcription and splicing [].
Probab=25.40 E-value=1.5e+02 Score=17.26 Aligned_cols=40 Identities=13% Similarity=0.205 Sum_probs=29.5
Q ss_pred HHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCC
Q psy12750 32 FRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPR 72 (93)
Q Consensus 32 ~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~ 72 (93)
+.|.+.+..++..+.. ..+.+++-+++=..|.-|+.=|..
T Consensus 2 k~~~~kik~~~~~~~~-~~~~~~~i~~LN~~lrGW~nYy~~ 41 (80)
T PF08388_consen 2 KRFRRKIKEITRRRNR-GKSLEELIKKLNPILRGWANYYRI 41 (80)
T ss_pred HHHHHHHHHHHhCCCC-CCCHHHHHHHHHHHHHHHHHhhcc
Confidence 4677888888833211 235678889999999999998864
No 125
>cd08357 Glo_EDI_BRP_like_18 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The proteins of this family share three conserved metal binding amino acids with the type I extradiol dioxygenases, which shows no domain swapping.
Probab=25.29 E-value=61 Score=19.66 Aligned_cols=18 Identities=17% Similarity=0.038 Sum_probs=15.9
Q ss_pred chHHHHHHHHHHcCcccc
Q psy12750 74 SKIREAYEMLKKQQVVQA 91 (93)
Q Consensus 74 ~~i~~~Y~~Lk~~G~~f~ 91 (93)
+.+.++|+.|++.|+.+.
T Consensus 76 ~dv~~~~~~l~~~g~~~~ 93 (125)
T cd08357 76 EEFDALAERLEAAGVEFL 93 (125)
T ss_pred HHHHHHHHHHHHCCCcEe
Confidence 569999999999999765
No 126
>PF12550 GCR1_C: Transcriptional activator of glycolytic enzymes; InterPro: IPR022210 This domain family is found in eukaryotes, and is approximately 80 amino acids in length. This family is activates the transcription of glycolytic enzymes.
Probab=25.26 E-value=97 Score=18.82 Aligned_cols=16 Identities=13% Similarity=0.229 Sum_probs=7.6
Q ss_pred HHHHHHHHHhCCCCch
Q psy12750 60 IELLYLWTLEYPRESK 75 (93)
Q Consensus 60 l~liq~Wa~~f~~~~~ 75 (93)
.++.+.|...+.+.|.
T Consensus 12 ~dlw~Ew~~g~~g~ps 27 (81)
T PF12550_consen 12 YDLWREWFTGLNGQPS 27 (81)
T ss_pred HHHHHHHhcCCCCCCC
Confidence 3445555555444443
No 127
>KOG0151|consensus
Probab=25.07 E-value=1e+02 Score=27.13 Aligned_cols=60 Identities=8% Similarity=0.265 Sum_probs=36.3
Q ss_pred HHHHHHHHhccCHHHHhhhccHH-HHHHHHHhhCCCC------CCCCCcHHHHHHHHHHHHHHHHhC
Q psy12750 11 IWVLEACMQHCGPQFHAEVGKFR-FLNELIKLISPKY------LGNLTPDAVRTEIIELLYLWTLEY 70 (93)
Q Consensus 11 L~LLd~cvkNCG~~fh~evas~~-Fl~~l~kl~~~k~------~~~~~~~~Vk~kil~liq~Wa~~f 70 (93)
|-|+--..-||-.++-..-+=|. |--.|-+|+.+-| .|.-..+..|+|++..|+.|++-+
T Consensus 489 LyLvsDIL~N~sarv~nas~YR~~FEa~L~~Ifd~l~~~yr~I~gRIkaE~fkqRV~kVirvWedW~ 555 (877)
T KOG0151|consen 489 LYLVSDILHNSSARVANASAYRKSFEATLEDIFDDLNDLYRSIGGRIKAEAFKQRVMKVIRVWEDWA 555 (877)
T ss_pred HHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHH
Confidence 45566677888877543333332 3222444444321 122345789999999999999954
No 128
>cd07233 Glyoxalase_I Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione. Glyoxalase I (also known as lactoylglutathione lyase; EC 4.4.1.5) is part of the glyoxalase system, a two-step system for detoxifying methylglyoxal, a side product of glycolysis. This system is responsible for the conversion of reactive, acyclic alpha-oxoaldehydes into the corresponding alpha-hydroxyacids and involves 2 enzymes, glyoxalase I and II. Glyoxalase I catalyses an intramolecular redox reaction of the hemithioacetal (formed from methylglyoxal and glutathione) to form the thioester, S-D-lactoylglutathione. This reaction involves the transfer of two hydrogen atoms from C1 to C2 of the methylglyoxal, and proceeds via an ene-diol intermediate. Glyoxalase I has a requirement for bound metal ions for catalysis. Eukaryotic glyoxalase I prefers the divalent cation zinc as cofactor, whereas Escherichia coil and other prokaryotic gly
Probab=24.70 E-value=61 Score=19.53 Aligned_cols=18 Identities=22% Similarity=0.134 Sum_probs=15.7
Q ss_pred hHHHHHHHHHHcCccccc
Q psy12750 75 KIREAYEMLKKQQVVQAW 92 (93)
Q Consensus 75 ~i~~~Y~~Lk~~G~~f~~ 92 (93)
.+.++|+.|++.|+.+.+
T Consensus 80 did~~~~~l~~~G~~~~~ 97 (121)
T cd07233 80 DVYAACERLEEMGVEVTK 97 (121)
T ss_pred CHHHHHHHHHHCCCEEee
Confidence 499999999999998754
No 129
>PF08494 DEAD_assoc: DEAD/H associated; InterPro: IPR013701 This domain is found in ATP-dependent helicases as well as a number of hypothetical proteins together with the helicase conserved C-terminal domain (IPR011545 from INTERPRO) and the IPR001650 from INTERPRO domain. ; GO: 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides
Probab=24.69 E-value=2.3e+02 Score=19.78 Aligned_cols=49 Identities=20% Similarity=0.207 Sum_probs=31.9
Q ss_pred hhCCCCCCCCCcHH-HHHHHHHHHHHHHHhCCCCchHHHHHHHHHHcCccc
Q psy12750 41 LISPKYLGNLTPDA-VRTEIIELLYLWTLEYPRESKIREAYEMLKKQQVVQ 90 (93)
Q Consensus 41 l~~~k~~~~~~~~~-Vk~kil~liq~Wa~~f~~~~~i~~~Y~~Lk~~G~~f 90 (93)
++.+.|.|.+.+.. .+-+.-.|++. ...+++.|-+.++|++.-.+-++.
T Consensus 110 li~r~~~g~~~~~~~~~~s~~~L~~~-~~~~~d~~l~~Ea~rE~l~d~lDi 159 (187)
T PF08494_consen 110 LIPRNYPGKRKSAWQQQISADLLLDV-VRAYPDFPLLKEALREILEDYLDI 159 (187)
T ss_pred CCcCCCCCCcCcHHHHhhhHHHHHHH-HHhCCCCcHHHHHHHHHHHHhhCH
Confidence 44455556555543 33344445555 789999999999999887665543
No 130
>PF02953 zf-Tim10_DDP: Tim10/DDP family zinc finger; InterPro: IPR004217 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a putative zinc binding domain with four conserved cysteine residues. Members of this family include subunits 8, 9, 10 and 13 of the mitochondrial inner membrane translocase complex, which are involved in mitochondrial protein import [, ]. Defects in TIM8 are the cause of 2 human syndromes: Mohr-Tranebjaerg syndrome (MTS) [MIM:304700]; also known as dystonia-deafness syndrome (DDS) or X-linked progressive deafness type 1 (DFN-1). It is a recessive neurodegenerative syndrome characterised by postlingual progressive sensorineural deafness as the first presenting symptom in early childhood, followed by progressive dystonia, spasticity, dysphagia, mental deterioration, paranoia and cortical blindness. Jensen syndrome [MIM:311150]; also known as opticoacoustic nerve atrophy with dementia. This X-linked disease is characterised by deafness, blindness and muscle weakness. The small alpha helical proteins Tim8 and Tim13 assemble into a hexameric complex which can bind Tim23 as its substrate and chaperone the hydrophobic Tim23 across the aqueous membrane space []. More information on zinc fingers can be found at Protein of the Month: Zinc Fingers [].; GO: 0006626 protein targeting to mitochondrion, 0045039 protein import into mitochondrial inner membrane, 0042719 mitochondrial intermembrane space protein transporter complex; PDB: 2BSK_B 3CJH_A 3DXR_A.
Probab=24.63 E-value=41 Score=19.45 Aligned_cols=11 Identities=27% Similarity=1.056 Sum_probs=8.3
Q ss_pred HHHHhccCHHH
Q psy12750 15 EACMQHCGPQF 25 (93)
Q Consensus 15 d~cvkNCG~~f 25 (93)
++|+.||-.+|
T Consensus 42 ~~Ci~~C~~ky 52 (66)
T PF02953_consen 42 ESCIDNCVDKY 52 (66)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 56888887766
No 131
>TIGR01873 cas_CT1978 CRISPR-associated endoribonuclease Cas2, E. coli subfamily. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model represents a minor branch of the Cas2 family of CRISPR-associated endonuclease, whereas most Cas2 proteins are modeled instead by TIGR01573. This form of Cas2 is characteristic for the Ecoli subtype of CRISPR/Cas locus.
Probab=24.53 E-value=77 Score=20.18 Aligned_cols=41 Identities=22% Similarity=0.267 Sum_probs=28.1
Q ss_pred hccCHHHHhhhccHHHHHH-HHHhhCCCCCCCCCcHHHHHHHHHHHHHH
Q psy12750 19 QHCGPQFHAEVGKFRFLNE-LIKLISPKYLGNLTPDAVRTEIIELLYLW 66 (93)
Q Consensus 19 kNCG~~fh~evas~~Fl~~-l~kl~~~k~~~~~~~~~Vk~kil~liq~W 66 (93)
.||-+++ |-|+.. |..+-..-|.| ..+..|++++-+.+.+|
T Consensus 7 ~~vP~~l------RG~Lt~wllEv~~GVyVg-~~s~rVRe~lW~~v~~~ 48 (87)
T TIGR01873 7 ENVPPRL------RGRLALWLLEPRAGVYVG-GVSASVRERIWDYLAQH 48 (87)
T ss_pred ccCChhH------hchhhhheeecCCCcEEc-CCCHHHHHHHHHHHHHh
Confidence 4666666 445544 44444444655 57899999999999999
No 132
>cd08353 Glo_EDI_BRP_like_7 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The structures of this family demonstrate domain swapping, which is shared by glyoxalase I and antibiotic resistance proteins.
Probab=24.21 E-value=62 Score=20.48 Aligned_cols=17 Identities=18% Similarity=0.151 Sum_probs=15.1
Q ss_pred hHHHHHHHHHHcCcccc
Q psy12750 75 KIREAYEMLKKQQVVQA 91 (93)
Q Consensus 75 ~i~~~Y~~Lk~~G~~f~ 91 (93)
.+.++|+.|+++|+.+.
T Consensus 97 d~d~~~~~l~~~G~~~~ 113 (142)
T cd08353 97 DIDARVARLRKHGAELV 113 (142)
T ss_pred CHHHHHHHHHHCCCcee
Confidence 48999999999999864
No 133
>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=23.98 E-value=85 Score=25.93 Aligned_cols=36 Identities=17% Similarity=0.351 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHhCCCC-chHHHHHHHHHHcCccccc
Q psy12750 57 TEIIELLYLWTLEYPRE-SKIREAYEMLKKQQVVQAW 92 (93)
Q Consensus 57 ~kil~liq~Wa~~f~~~-~~i~~~Y~~Lk~~G~~f~~ 92 (93)
++|=.++..-...||+. ..+.+.|..|+.+||.|+.
T Consensus 211 e~IP~l~~~l~~~~P~ql~eL~~gy~~m~~~gy~l~~ 247 (560)
T PF06160_consen 211 EDIPKLYKELQKEFPDQLEELKEGYREMEEEGYYLEH 247 (560)
T ss_pred HHhHHHHHHHHHHhHHHHHHHHHHHHHHHHCCCCCCC
Confidence 44445555556666653 4599999999999999874
No 134
>smart00775 LNS2 LNS2 domain. This domain is found in Saccharomyces cerevisiae protein SMP2, proteins with an N-terminal lipin domain and phosphatidylinositol transfer proteins. SMP2 is involved in plasmid maintenance and respiration. Lipin proteins are involved in adipose tissue development and insulin resistance.
Probab=23.95 E-value=61 Score=22.06 Aligned_cols=17 Identities=6% Similarity=0.141 Sum_probs=14.7
Q ss_pred chHHHHHHHHHHcCccc
Q psy12750 74 SKIREAYEMLKKQQVVQ 90 (93)
Q Consensus 74 ~~i~~~Y~~Lk~~G~~f 90 (93)
|.+.++|+.|+++|+.+
T Consensus 30 ~~~~~a~~~l~~~G~~i 46 (157)
T smart00775 30 PGVAKLYRDIQNNGYKI 46 (157)
T ss_pred HHHHHHHHHHHHcCCeE
Confidence 67899999999999875
No 135
>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif). This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.
Probab=23.87 E-value=84 Score=14.41 Aligned_cols=16 Identities=6% Similarity=0.175 Sum_probs=12.9
Q ss_pred hHHHHHHHHHHcCccc
Q psy12750 75 KIREAYEMLKKQQVVQ 90 (93)
Q Consensus 75 ~i~~~Y~~Lk~~G~~f 90 (93)
+..++|+.|+++|+..
T Consensus 18 ~a~~~~~~M~~~g~~p 33 (35)
T TIGR00756 18 EALELFKEMLERGIEP 33 (35)
T ss_pred HHHHHHHHHHHcCCCC
Confidence 5788899999988754
No 136
>PF02262 Cbl_N: CBL proto-oncogene N-terminal domain 1; InterPro: IPR003153 Cbl (Casitas B-lineage lymphoma) is an adaptor protein that functions as a negative regulator of many signalling pathways that start from receptors at the cell surface. The N-terminal region of Cbl contains a Cbl-type phosphotyrosine-binding (Cbl-PTB) domain, which is composed of three evolutionarily conserved domains: an N-terminal four-helix bundle (4H) domain, an EF hand-like calcium-binding domain, and a divergent SH2-like domain. The calcium-bound EF-hand wedges between the 4H and SH2 domains, and roughly determines their relative orientation. The Cbl-PTB domain has also been named Cbl N-terminal (Cbl-N) or tyrosine kinase binding (TKB) domain [, ]. The N-terminal 4H domain contains four long alpha-helices. The C and D helices in this domain pack against the adjacent EF-hand-like domain, and a highly conserved loop connecting the A and B helices contacts the SH2-like domain. The EF-hand motif is similar to classical EF-hand proteins. The SH2-like domain retains the general helix-sheet-helix architecture of the SH2 fold, but lacks the secondary beta-sheet, comprising beta-strands D', E and F, and also a prominent BG loop []. This entry represents the N-terminal four-helical bundle domain.; GO: 0004871 signal transducer activity, 0007166 cell surface receptor linked signaling pathway, 0005634 nucleus; PDB: 3PLF_B 2Y1M_A 2CBL_A 3BUX_B 3BUN_B 3BUM_B 3OB1_B 3BUW_B 1B47_C 3BUO_D ....
Probab=23.85 E-value=81 Score=21.66 Aligned_cols=33 Identities=12% Similarity=0.119 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHhccCHHHHhhhccHHHHHH
Q psy12750 5 RLVILTIWVLEACMQHCGPQFHAEVGKFRFLNE 37 (93)
Q Consensus 5 ~v~l~aL~LLd~cvkNCG~~fh~evas~~Fl~~ 37 (93)
+..-.+..++|.+++.|+.+=-.-=.|..|+-+
T Consensus 8 r~~~k~~klldkl~~lC~~prLnLknSPP~l~d 40 (130)
T PF02262_consen 8 RTLDKAVKLLDKLVKLCQDPRLNLKNSPPYLLD 40 (130)
T ss_dssp HHHHHHHHHHHHHHHHHT-GGG--TSSSS-HHH
T ss_pred HHHHHHHHHHHHHHHHhCCCcccCCCCCCcHHH
Confidence 456678899999999999874333345555544
No 137
>PF06135 DUF965: Bacterial protein of unknown function (DUF965); InterPro: IPR009309 This family consists of several hypothetical bacterial proteins. The function of the family is unknown.
Probab=23.80 E-value=67 Score=20.25 Aligned_cols=14 Identities=14% Similarity=0.430 Sum_probs=12.6
Q ss_pred HHHHHHHHHHcCcc
Q psy12750 76 IREAYEMLKKQQVV 89 (93)
Q Consensus 76 i~~~Y~~Lk~~G~~ 89 (93)
+..+|..|+.+||.
T Consensus 21 L~~Vy~AL~EKGYn 34 (79)
T PF06135_consen 21 LKQVYAALEEKGYN 34 (79)
T ss_pred HHHHHHHHHHcCCC
Confidence 78999999999985
No 138
>PF12181 MogR_DNAbind: DNA binding domain of the motility gene repressor (MogR); InterPro: IPR021009 This domain family is found in bacteria, and is approximately 150 amino acids in length. MogR is involved in the transcriptional repressor of flagellar motility genes, such as flaA, during extracellular growth at 37 degrees Celsius and during intracellular infection. It binds directly to gene promoter region and probably prevents RNA polymerase binding. At low temperatures, MogR repression activity is modulated by the DegU response regulator in an unknown mechanism. MogR is required for full virulence []. MogR binds AT rich flagellar gene promoter regions upstream of the flagellar gene. These regions follow the pattern 5'-TTTTNNNNNAAAA-3'. This domain is the DNA binding domain of MogR []. ; PDB: 3FDQ_B.
Probab=23.72 E-value=69 Score=22.29 Aligned_cols=19 Identities=26% Similarity=0.389 Sum_probs=15.6
Q ss_pred chHHHHHHHHHHcCccccc
Q psy12750 74 SKIREAYEMLKKQQVVQAW 92 (93)
Q Consensus 74 ~~i~~~Y~~Lk~~G~~f~~ 92 (93)
++.+.+|..||++-+.||-
T Consensus 105 SQLQNTYYKLKk~~i~fEn 123 (148)
T PF12181_consen 105 SQLQNTYYKLKKEEIPFEN 123 (148)
T ss_dssp HHHHHHHHHHHTTSS-SS-
T ss_pred HHHHHHHHHHHhhhcchhh
Confidence 4699999999999999984
No 139
>PF12994 DUF3878: Domain of unknown function, E. rectale Gene description (DUF3878); InterPro: IPR024538 This entry represents proteins of unknown function found primarily in Firmicutes. The Eubacterium rectale gene appears to be upregulated in the presence of Bacteroides thetaiotaomicron compared to growth in pure culture [].
Probab=23.65 E-value=3.6e+02 Score=21.05 Aligned_cols=77 Identities=25% Similarity=0.242 Sum_probs=51.7
Q ss_pred HHHHHHHHHHHhccCHHHH-hhh------ccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCc------
Q psy12750 8 ILTIWVLEACMQHCGPQFH-AEV------GKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRES------ 74 (93)
Q Consensus 8 l~aL~LLd~cvkNCG~~fh-~ev------as~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~------ 74 (93)
.-|+.+.+.+..-||++-- .-+ -++.--.-|.+++..+ .|.+|-+.|.+.|+.=+..++...
T Consensus 169 ~eai~~M~elA~ea~D~~~~~~L~~Yrk~p~k~~~~~la~mL~~~-----kh~~~~~~l~e~l~~As~~Yp~R~fg~~~~ 243 (299)
T PF12994_consen 169 EEAIDVMEELAREAGDKSYLKMLRLYRKHPSKRMARKLARMLHRK-----KHQKVYDLLIEKLQEASSPYPRRDFGEDID 243 (299)
T ss_pred HHHHHHHHHHHHHhCcHHHHHHHHHHHhCCcHHHHHHHHHHhhhh-----hhhHHHHHHHHHHHHHhccCCcccccHHHH
Confidence 3577777777777776322 222 2333334466666654 588999999999999888887531
Q ss_pred -----hHHHHHHHHHHcCcc
Q psy12750 75 -----KIREAYEMLKKQQVV 89 (93)
Q Consensus 75 -----~i~~~Y~~Lk~~G~~ 89 (93)
..+.+=++|+.+|+.
T Consensus 244 ~~~q~~~~~~~~~L~e~Gf~ 263 (299)
T PF12994_consen 244 ERIQKKRKQAENELKEQGFE 263 (299)
T ss_pred HHHHHHHHHHHHHHHhcCCc
Confidence 256777889999974
No 140
>KOG4841|consensus
Probab=23.51 E-value=67 Score=20.78 Aligned_cols=17 Identities=29% Similarity=0.321 Sum_probs=14.2
Q ss_pred chHHHHHHHHHHcCccc
Q psy12750 74 SKIREAYEMLKKQQVVQ 90 (93)
Q Consensus 74 ~~i~~~Y~~Lk~~G~~f 90 (93)
++|+++-+.|+++|..+
T Consensus 79 ~~IkEAr~~L~rkg~ri 95 (95)
T KOG4841|consen 79 SQIKEARADLARKGLRI 95 (95)
T ss_pred HHHHHHHHHHHHccCCC
Confidence 35999999999999754
No 141
>PF12552 DUF3741: Protein of unknown function (DUF3741); InterPro: IPR022212 This domain family is found in eukaryotes, and is approximately 50 amino acids in length.
Probab=23.30 E-value=1.2e+02 Score=16.98 Aligned_cols=13 Identities=31% Similarity=0.475 Sum_probs=9.2
Q ss_pred ccHHHHHHHHHhhC
Q psy12750 30 GKFRFLNELIKLIS 43 (93)
Q Consensus 30 as~~Fl~~l~kl~~ 43 (93)
.|++|++.|. +++
T Consensus 19 ~SKEf~DaLe-iL~ 31 (46)
T PF12552_consen 19 QSKEFLDALE-ILS 31 (46)
T ss_pred chHHHHHHHH-HHH
Confidence 3689999885 443
No 142
>COG4902 Uncharacterized protein conserved in archaea [Function unknown]
Probab=23.00 E-value=67 Score=22.96 Aligned_cols=15 Identities=27% Similarity=0.450 Sum_probs=13.6
Q ss_pred chHHHHHHHHHHcCc
Q psy12750 74 SKIREAYEMLKKQQV 88 (93)
Q Consensus 74 ~~i~~~Y~~Lk~~G~ 88 (93)
|+++++|++|..+|-
T Consensus 118 pelqeLYn~Lve~Gs 132 (189)
T COG4902 118 PELQELYNQLVEQGS 132 (189)
T ss_pred HHHHHHHHHHHHccc
Confidence 789999999999984
No 143
>KOG1793|consensus
Probab=22.97 E-value=2e+02 Score=23.47 Aligned_cols=56 Identities=21% Similarity=0.317 Sum_probs=34.5
Q ss_pred HHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHcCc
Q psy12750 24 QFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPRESKIREAYEMLKKQQV 88 (93)
Q Consensus 24 ~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~~f~~~~~i~~~Y~~Lk~~G~ 88 (93)
.++-++....||+.|..-+.|--.|..+.-+++..+|.+++. |+ |.. |+.||..|+
T Consensus 203 ~L~et~LDngvL~~lk~WLePLPD~SLPal~Ir~~ll~iL~d----lp----i~~-~E~Lk~SGl 258 (417)
T KOG1793|consen 203 ALQETFLDNGVLDSLKEWLEPLPDGSLPALNIRKSLLDILND----LP----IDK-REHLKESGL 258 (417)
T ss_pred hHHHHHHhhhHHHHHHHHhccCCCCCCcchHHHHHHHHHHhc----CC----cch-HHHHHhcCC
Confidence 445555566677777666666555555666777777777653 22 111 678888775
No 144
>cd07266 HPCD_N_class_II N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases. This subfamily contains the N-terminal, non-catalytic, domain of HPCD. HPCD catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate. The aromatic ring of 4-hydroxyphenylacetate is opened by this dioxygenase to yield the 3,4-diol product, 2-hydroxy-5-carboxymethylmuconate semialdehyde. HPCD is a homotetramer and each monomer contains two structurally homologous barrel-shaped domains at the N- and C-terminus. The active-site metal is located in the C-terminal barrel and plays an essential role in the catalytic mechanism. Most extradiol dioxygenases contain Fe(II) in their active site, but HPCD can be activated by either Mn(II) or Fe(II). These enzymes belong to the type I class II family of extradiol dioxygenases. The class III 3,4-dihydroxyphenylacetate 2,3-dioxygenases belong to a differ
Probab=22.83 E-value=71 Score=19.46 Aligned_cols=19 Identities=11% Similarity=0.387 Sum_probs=15.9
Q ss_pred chHHHHHHHHHHcCccccc
Q psy12750 74 SKIREAYEMLKKQQVVQAW 92 (93)
Q Consensus 74 ~~i~~~Y~~Lk~~G~~f~~ 92 (93)
+.+..+|+.|++.|+.+.+
T Consensus 72 ~dv~~~~~~l~~~g~~~~~ 90 (121)
T cd07266 72 EDLDKAEAFFQELGLPTEW 90 (121)
T ss_pred HHHHHHHHHHHHcCCCccc
Confidence 4689999999999998753
No 145
>COG3705 HisZ ATP phosphoribosyltransferase involved in histidine biosynthesis [Amino acid transport and metabolism]
Probab=22.69 E-value=1.1e+02 Score=24.50 Aligned_cols=47 Identities=17% Similarity=0.266 Sum_probs=31.9
Q ss_pred HHHHHHHHhccC-HHHHhhhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHH
Q psy12750 11 IWVLEACMQHCG-PQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLY 64 (93)
Q Consensus 11 L~LLd~cvkNCG-~~fh~evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq 64 (93)
+.+.-.|+++-| ..||.+++.-.|.+.+..-+. .+..++.++...|+
T Consensus 138 i~la~~~L~~~gl~~~~l~LG~~gif~all~~~~-------l~~~~~~~L~~a~~ 185 (390)
T COG3705 138 IALALAALKALGLADLKLELGHAGIFRALLAAAG-------LPGGWRARLRRAFG 185 (390)
T ss_pred HHHHHHHHHHcCCcCeEEEeccHHHHHHHHHHcC-------CChhHHHHHHHHHh
Confidence 445556777777 899999999999888765553 24455555555544
No 146
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=22.45 E-value=1.2e+02 Score=18.82 Aligned_cols=18 Identities=11% Similarity=0.102 Sum_probs=14.3
Q ss_pred hHHHHHHHHHHcCccccc
Q psy12750 75 KIREAYEMLKKQQVVQAW 92 (93)
Q Consensus 75 ~i~~~Y~~Lk~~G~~f~~ 92 (93)
.|-+.-+.||..|++++-
T Consensus 35 aVwK~Iq~Lr~~G~~I~s 52 (79)
T COG1654 35 AVWKHIQQLREEGVDIES 52 (79)
T ss_pred HHHHHHHHHHHhCCceEe
Confidence 477888889999988764
No 147
>COG3880 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]
Probab=22.30 E-value=1.3e+02 Score=21.65 Aligned_cols=68 Identities=24% Similarity=0.338 Sum_probs=42.0
Q ss_pred hccCHHHHhhhccHHH---------HHHHHHhhC---CCC---CCCC-----CcHHHHHHHHHHHHHHHHhCCCC-----
Q psy12750 19 QHCGPQFHAEVGKFRF---------LNELIKLIS---PKY---LGNL-----TPDAVRTEIIELLYLWTLEYPRE----- 73 (93)
Q Consensus 19 kNCG~~fh~evas~~F---------l~~l~kl~~---~k~---~~~~-----~~~~Vk~kil~liq~Wa~~f~~~----- 73 (93)
.|||-.|..-+-+..| -+.+..++. .-+ .|.. ....++.+|..|=...++....+
T Consensus 78 ~~C~~Tfk~f~~~g~fGCaeCY~tf~~~i~pi~~rvq~g~~~H~GK~P~~~~~~i~~~~~I~~L~e~Lq~~i~~EefEeA 157 (176)
T COG3880 78 HNCGMTFKEFIQSGLFGCAECYKTFESQISPIITRVQGGYVEHVGKVPKRIGRKINPKRKIIALKEALQDLIEREEFEEA 157 (176)
T ss_pred ccccccHHHHHHhcccchHHHHHHHHHHhhHHHHHhhCCceeecCcCcccccccccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5899999777766665 233433332 211 1211 22578999998877777655432
Q ss_pred chHHHHHHHHHHc
Q psy12750 74 SKIREAYEMLKKQ 86 (93)
Q Consensus 74 ~~i~~~Y~~Lk~~ 86 (93)
..++|--+.||++
T Consensus 158 A~iRDqIr~Lk~k 170 (176)
T COG3880 158 AVIRDQIRALKAK 170 (176)
T ss_pred HHHHHHHHHHHhh
Confidence 3488888888865
No 148
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=21.95 E-value=93 Score=20.22 Aligned_cols=44 Identities=16% Similarity=0.203 Sum_probs=30.0
Q ss_pred HhccCHHHHhhhccHHHHHH-HHHhhCCCCCCCCCcHHHHHHHHHHHHHHHH
Q psy12750 18 MQHCGPQFHAEVGKFRFLNE-LIKLISPKYLGNLTPDAVRTEIIELLYLWTL 68 (93)
Q Consensus 18 vkNCG~~fh~evas~~Fl~~-l~kl~~~k~~~~~~~~~Vk~kil~liq~Wa~ 68 (93)
..||-+++ |-|+.. |..+-..-|.| ..+..|++++-+.+.+|..
T Consensus 8 ~~~vP~~l------RG~Lt~wllEv~~GVyVg-~~S~rVRd~lW~~v~~~~~ 52 (97)
T PRK11558 8 TENVPPRL------RGRLAVWLLEVRAGVYVG-DVSRRIREMIWQQVTQLAE 52 (97)
T ss_pred eccCChhH------hhhhhhheEecCCCcEEc-CCCHHHHHHHHHHHHHhCC
Confidence 34666666 455554 44444444665 5789999999999999984
No 149
>PF07709 SRR: Seven Residue Repeat; InterPro: IPR011714 This repeat is found in some Plasmodium and Theileria proteins.
Probab=21.89 E-value=54 Score=13.67 Aligned_cols=10 Identities=50% Similarity=0.893 Sum_probs=6.7
Q ss_pred hHHHHHHHHH
Q psy12750 75 KIREAYEMLK 84 (93)
Q Consensus 75 ~i~~~Y~~Lk 84 (93)
++.++|+.|+
T Consensus 5 ~V~~aY~~l~ 14 (14)
T PF07709_consen 5 KVKNAYEQLS 14 (14)
T ss_pred HHHHHHHhcC
Confidence 4677787763
No 150
>PRK12292 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=21.73 E-value=1.5e+02 Score=23.11 Aligned_cols=30 Identities=23% Similarity=0.568 Sum_probs=17.6
Q ss_pred HHHHHHHHHhccC-HHHHhhhccHHHHHHHH
Q psy12750 10 TIWVLEACMQHCG-PQFHAEVGKFRFLNELI 39 (93)
Q Consensus 10 aL~LLd~cvkNCG-~~fh~evas~~Fl~~l~ 39 (93)
.|.++..+.+..| +.|...|+...+++.+.
T Consensus 140 vi~l~~~~l~~lgl~~~~i~i~~~~i~~~il 170 (391)
T PRK12292 140 VILLLLEALKALGLPNFTLDLGHVGLFRALL 170 (391)
T ss_pred HHHHHHHHHHHcCCCCeEEEeccHHHHHHHH
Confidence 4455555566666 35666677766665543
No 151
>cd06257 DnaJ DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s, an important chaperonine family. Hsp40 proteins are characterized by the presence of a J domain, which mediates the interaction with Hsp70. They may contain other domains as well, and the architectures provide a means of classification.
Probab=21.48 E-value=1.5e+02 Score=15.73 Aligned_cols=34 Identities=21% Similarity=0.392 Sum_probs=23.4
Q ss_pred CcHHHHHHHHHHHHHHHHhCCCC--------chHHHHHHHHH
Q psy12750 51 TPDAVRTEIIELLYLWTLEYPRE--------SKIREAYEMLK 84 (93)
Q Consensus 51 ~~~~Vk~kil~liq~Wa~~f~~~--------~~i~~~Y~~Lk 84 (93)
+..+||..-..++..|--.-.+. ..+.++|+.|+
T Consensus 13 ~~~~ik~~y~~l~~~~HPD~~~~~~~~~~~~~~l~~Ay~~L~ 54 (55)
T cd06257 13 SDEEIKKAYRKLALKYHPDKNPDDPEAEEKFKEINEAYEVLS 54 (55)
T ss_pred CHHHHHHHHHHHHHHHCcCCCCCcHHHHHHHHHHHHHHHHhc
Confidence 56788888888888887544332 13778888775
No 152
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A.
Probab=21.47 E-value=1.8e+02 Score=16.68 Aligned_cols=31 Identities=26% Similarity=0.296 Sum_probs=22.2
Q ss_pred hhccHHHHHHHHHhhCCCCCCCCCcHHHHHHHHHHHH
Q psy12750 28 EVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLY 64 (93)
Q Consensus 28 evas~~Fl~~l~kl~~~k~~~~~~~~~Vk~kil~liq 64 (93)
++.+.+..+.|..++++ .++.||..+..-+.
T Consensus 26 ~~~~~~~~~~L~~~l~d------~~~~vr~~a~~aL~ 56 (88)
T PF13646_consen 26 ELGDPEAIPALIELLKD------EDPMVRRAAARALG 56 (88)
T ss_dssp CCTHHHHHHHHHHHHTS------SSHHHHHHHHHHHH
T ss_pred HcCCHhHHHHHHHHHcC------CCHHHHHHHHHHHH
Confidence 44556888888888865 36788888776654
No 153
>KOG2636|consensus
Probab=21.15 E-value=97 Score=25.66 Aligned_cols=33 Identities=39% Similarity=0.543 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHh----------------CCCCch---HHHHHHHHHHcCc
Q psy12750 56 RTEIIELLYLWTLE----------------YPRESK---IREAYEMLKKQQV 88 (93)
Q Consensus 56 k~kil~liq~Wa~~----------------f~~~~~---i~~~Y~~Lk~~G~ 88 (93)
-++|-+.++-|..- |.++.+ =+.+|+.||+||.
T Consensus 445 IT~I~eA~~LW~k~k~q~~~~kw~~~~eeE~ED~eGNV~~kKtYeDLKrQGL 496 (497)
T KOG2636|consen 445 ITKIEEALELWKKMKEQSQSEKWPPDLEEEYEDEEGNVMNKKTYEDLKRQGL 496 (497)
T ss_pred cccHHHHHHHHHHHHHhhhhccCCchhHhhhhccccCcccHHhHHHHHHccC
Confidence 37788888888752 222222 3789999999996
No 154
>PF14776 UNC-79: Cation-channel complex subunit UNC-79
Probab=21.02 E-value=1.3e+02 Score=25.29 Aligned_cols=40 Identities=18% Similarity=0.358 Sum_probs=31.4
Q ss_pred CCCcHHHHHHHHHHHHHHHHhCCCC--chHHHHHHHHHHcCc
Q psy12750 49 NLTPDAVRTEIIELLYLWTLEYPRE--SKIREAYEMLKKQQV 88 (93)
Q Consensus 49 ~~~~~~Vk~kil~liq~Wa~~f~~~--~~i~~~Y~~Lk~~G~ 88 (93)
+.++.++-.++++++-.|-..+... ..+.++-+.||.+-+
T Consensus 395 ~~~~~e~lgrl~s~lf~Wf~~Ta~l~~d~~g~~lE~LKse~v 436 (525)
T PF14776_consen 395 EEAPPEILGRLLSMLFHWFHTTAYLPDDQVGSSLEKLKSEFV 436 (525)
T ss_pred CCCCHHHHHHHHHHHHHHHHHhhhccCccHHHHHHHHhHHHH
Confidence 3478899999999999998876543 357888888887643
No 155
>PTZ00100 DnaJ chaperone protein; Provisional
Probab=20.91 E-value=1.6e+02 Score=19.59 Aligned_cols=35 Identities=17% Similarity=0.227 Sum_probs=25.6
Q ss_pred CCcHHHHHHHHHHHHHHHHhCCCCc----hHHHHHHHHH
Q psy12750 50 LTPDAVRTEIIELLYLWTLEYPRES----KIREAYEMLK 84 (93)
Q Consensus 50 ~~~~~Vk~kil~liq~Wa~~f~~~~----~i~~~Y~~Lk 84 (93)
.+..+||++-..|...|--+-.+++ .|.++|+.|.
T Consensus 77 As~~eIkkaYRrLa~~~HPDkgGs~~~~~kIneAyevL~ 115 (116)
T PTZ00100 77 ASKERIREAHKQLMLRNHPDNGGSTYIASKVNEAKDLLL 115 (116)
T ss_pred CCHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHh
Confidence 3667899888888888866544433 4889998875
No 156
>PF12834 Phage_int_SAM_2: Phage integrase, N-terminal; InterPro: IPR024457 Phage integrase proteins cleave DNA substrates by a series of staggered cuts, during which the protein becomes covalently linked to the DNA through a catalytic tyrosine residue at the carboxy end of the alignment [, ]. This entry represents the N-terminal predicted alpha-helical domain found in a family of putative prophage DNA-binding integrases.
Probab=20.86 E-value=2.3e+02 Score=17.71 Aligned_cols=54 Identities=11% Similarity=0.221 Sum_probs=29.0
Q ss_pred HHHHhccCHHHHhhhccHH-HHHHHHHhhCCCCCCCCCcHHHHHH-HHHHHHHHHHh
Q psy12750 15 EACMQHCGPQFHAEVGKFR-FLNELIKLISPKYLGNLTPDAVRTE-IIELLYLWTLE 69 (93)
Q Consensus 15 d~cvkNCG~~fh~evas~~-Fl~~l~kl~~~k~~~~~~~~~Vk~k-il~liq~Wa~~ 69 (93)
..+.+++|..| ...+.+. .+..+.+-+........++..+|.| |-.+++.|...
T Consensus 9 ~~lar~~~gS~-~T~~~R~~~~~~~~~~L~~~g~~i~~~~~lk~kHI~~lv~~w~~~ 64 (91)
T PF12834_consen 9 KTLARQAGGSF-KTQADRMRILKRFARFLRELGFQIRSIRNLKPKHIEALVQHWKAQ 64 (91)
T ss_pred HHHHHhCCCCH-HHHHHHHHHHHHHHHHHHHCCCCcCCHHHhhHHHHHHHHHHHHHc
Confidence 35667788777 4444432 2333332222211223456677776 55688999874
No 157
>PRK05932 RNA polymerase factor sigma-54; Reviewed
Probab=20.69 E-value=99 Score=25.05 Aligned_cols=39 Identities=23% Similarity=0.159 Sum_probs=27.0
Q ss_pred CCcHHHHHHHHHHHHHHHHhCCCCch-HHHHHHHHHHcCcccc
Q psy12750 50 LTPDAVRTEIIELLYLWTLEYPRESK-IREAYEMLKKQQVVQA 91 (93)
Q Consensus 50 ~~~~~Vk~kil~liq~Wa~~f~~~~~-i~~~Y~~Lk~~G~~f~ 91 (93)
.+...||.+|.++|+.....- |. =.+.-+.|+.+||..+
T Consensus 394 ~S~~~Ik~~Ik~lI~~Ed~~~---PlSD~~I~~~L~~~Gi~Ia 433 (455)
T PRK05932 394 ASSTAIRALIKKLIAAENPKK---PLSDSKIAELLKEQGIDVA 433 (455)
T ss_pred ccHHHHHHHHHHHHHhcCCCC---CCCHHHHHHHHHHcCCCee
Confidence 356789999999988765332 21 2456678999999765
No 158
>cd04300 GT1_Glycogen_Phosphorylase This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of oligosaccharides into glucose-1-phosphate units. They are important allosteric enzymes in carbohydrate metabolism. The allosteric control mechanisms of yeast and mammalian members of this family are different from that of bacterial members. The members of this family belong to the GT-B structural superfamily of glycoslytransferases, which have characteristic N- and C-terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homology. The large cleft that separates the two domains includes the catalytic center and permits a high degree of flexibility.
Probab=20.48 E-value=5.1e+02 Score=22.93 Aligned_cols=54 Identities=15% Similarity=0.162 Sum_probs=34.0
Q ss_pred HHHHHHHHHhccCHHHHhhhccHHHHHHHHHh----hCCCCCCCCC-------cHHHHHHHHHHH
Q psy12750 10 TIWVLEACMQHCGPQFHAEVGKFRFLNELIKL----ISPKYLGNLT-------PDAVRTEIIELL 63 (93)
Q Consensus 10 aL~LLd~cvkNCG~~fh~evas~~Fl~~l~kl----~~~k~~~~~~-------~~~Vk~kil~li 63 (93)
.|.+.=+---|+-...|.+|+.+....+...+ ...++||-.+ ++++.+-+-+.|
T Consensus 412 ~LAi~~S~~vNGVS~lH~ei~k~~~~~df~~l~P~kf~n~TNGVt~rrWl~~~np~L~~Li~~~i 476 (797)
T cd04300 412 HLAIVGSHSVNGVAALHSELLKETVFKDFYELYPEKFNNKTNGITPRRWLLQANPGLSALITETI 476 (797)
T ss_pred HHHHhcCcchhhhHHHHHHHHHHhhHHHHHhhCCCccCCcCCCCCcchhhhhcCHHHHHHHHHhc
Confidence 33344444458889999999999966666655 3455666544 455555554433
No 159
>COG4472 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.36 E-value=82 Score=20.11 Aligned_cols=14 Identities=14% Similarity=0.401 Sum_probs=12.4
Q ss_pred HHHHHHHHHHcCcc
Q psy12750 76 IREAYEMLKKQQVV 89 (93)
Q Consensus 76 i~~~Y~~Lk~~G~~ 89 (93)
+.++|+.|..+|+.
T Consensus 24 L~~VY~sL~ekGYN 37 (88)
T COG4472 24 LNDVYNSLEEKGYN 37 (88)
T ss_pred HHHHHHHHHHcCCC
Confidence 68899999999984
No 160
>PF09277 Erythro-docking: Erythronolide synthase, docking; InterPro: IPR015357 Docking domains are found in prokaryotic erythronolide synthase. They adopt a structure consisting of a bundle of four alpha-helices, and mediate homodimerisation of the protein, stabilising the resulting complex []. ; PDB: 1PZQ_A.
Probab=20.23 E-value=1.6e+02 Score=17.32 Aligned_cols=21 Identities=19% Similarity=0.232 Sum_probs=18.0
Q ss_pred cHHHHHHHHHHHHHHHHhCCC
Q psy12750 52 PDAVRTEIIELLYLWTLEYPR 72 (93)
Q Consensus 52 ~~~Vk~kil~liq~Wa~~f~~ 72 (93)
|..|..|+-.|+..|.+.=..
T Consensus 28 H~~V~aRLeaLLR~Wq~~r~~ 48 (58)
T PF09277_consen 28 HARVTARLEALLRRWQDRRAP 48 (58)
T ss_dssp THHHHHHHHHHHHHHHHHHH-
T ss_pred ccHHHHHHHHHHHHHHhccCC
Confidence 899999999999999986543
No 161
>cd06454 KBL_like KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS), 8-amino-7-oxononanoate synthase (AONS), and 2-amino-3-ketobutyrate CoA ligase (KBL). SPT is responsible for the condensation of L-serine with palmitoyl-CoA to produce 3-ketodihydrospingosine, the reaction of the first step in sphingolipid biosynthesis. ALAS is involved in heme biosynthesis; it catalyzes the synthesis of 5-aminolevulinic acid from glycine and succinyl-coenzyme A. AONS catalyses the decarboxylative condensation of l-alanine and pimeloyl-CoA in the first committed step of biotin biosynthesis. KBL catalyzes the second reaction step of the metabolic degradation pathway for threonine converting 2-amino-3-ketobutyrate, to glycine and acetyl-CoA. The members of this CD are widely found in all three forms of life.
Probab=20.18 E-value=2.3e+02 Score=20.59 Aligned_cols=29 Identities=24% Similarity=0.173 Sum_probs=20.9
Q ss_pred hCCCCCCCCCcHHHHHHHHHHHHHHHHhC
Q psy12750 42 ISPKYLGNLTPDAVRTEIIELLYLWTLEY 70 (93)
Q Consensus 42 ~~~k~~~~~~~~~Vk~kil~liq~Wa~~f 70 (93)
+++.|.|-..|++|.+.+.+-++.|+..+
T Consensus 7 ~~~~~~~~~~~~~v~~a~~~~~~~~~~~~ 35 (349)
T cd06454 7 CSNDYLGLANHPEVIEAAKEALDKYGVGA 35 (349)
T ss_pred ccCCccccCCCHHHHHHHHHHHHHhCCCC
Confidence 34456666667888888888888887654
No 162
>PF08332 CaMKII_AD: Calcium/calmodulin dependent protein kinase II Association; InterPro: IPR013543 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 domain is found at the C terminus of the Calcium/calmodulin dependent protein kinases II (CaMKII). These proteins also have a Ser/Thr protein kinase domain (IPR000719 from INTERPRO) at their N terminus []. The function of the CaMKII association domain is the assembly of the single proteins into large (8 to 14 subunits) multimers [] and is a prominent kinase in the central nervous system that may function in long-term potentiation and neurotransmitter release. ; GO: 0004683 calmodulin-dependent protein kinase activity, 0005516 calmodulin binding, 0006468 protein phosphorylation; PDB: 2W2C_F 3H51_B 3SOA_A 2UX0_A 1HKX_M 2F86_B.
Probab=20.03 E-value=62 Score=21.79 Aligned_cols=25 Identities=20% Similarity=0.372 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHhCC-CCch-HHHHH
Q psy12750 56 RTEIIELLYLWTLEYP-RESK-IREAY 80 (93)
Q Consensus 56 k~kil~liq~Wa~~f~-~~~~-i~~~Y 80 (93)
++.|++|++.|-.+.. +|+. +.+.|
T Consensus 2 e~eI~~l~~~w~~ai~tgD~~~~~~ly 28 (128)
T PF08332_consen 2 EQEIAALFDRWNDAIQTGDPETYAKLY 28 (128)
T ss_dssp HHHHHHHHHHHHHHHHHT-HHHHHHHE
T ss_pred HHHHHHHHHHHHHHHHcCCHHHHhhhc
Confidence 4679999999999884 4443 44443
Done!