Query 014410
Match_columns 425
No_of_seqs 216 out of 727
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 04:51:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014410.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014410hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1087 Cytosolic sorting prot 100.0 2.9E-65 6.3E-70 528.6 34.5 416 1-423 1-441 (470)
2 KOG1086 Cytosolic sorting prot 100.0 1.6E-45 3.5E-50 369.0 16.2 267 3-273 10-305 (594)
3 cd03568 VHS_STAM VHS domain fa 100.0 6E-42 1.3E-46 307.1 17.0 136 3-139 2-137 (144)
4 cd03569 VHS_Hrs_Vps27p VHS dom 100.0 6.1E-42 1.3E-46 306.4 16.3 136 3-139 6-141 (142)
5 cd03565 VHS_Tom1 VHS domain fa 100.0 3.3E-41 7.1E-46 301.4 15.9 136 2-138 2-141 (141)
6 cd03567 VHS_GGA VHS domain fam 100.0 2.4E-40 5.2E-45 294.9 15.7 129 3-135 3-136 (139)
7 smart00288 VHS Domain present 100.0 1.9E-38 4.2E-43 280.8 15.5 131 3-134 2-133 (133)
8 cd03561 VHS VHS domain family; 100.0 3.8E-37 8.3E-42 272.3 15.3 131 2-132 1-133 (133)
9 PF00790 VHS: VHS domain; Int 100.0 1.1E-36 2.4E-41 271.5 16.1 132 2-134 6-140 (140)
10 KOG2199 Signal transducing ada 100.0 7.7E-35 1.7E-39 290.1 23.3 263 3-269 10-368 (462)
11 cd00197 VHS_ENTH_ANTH VHS, ENT 99.9 5.4E-25 1.2E-29 189.4 12.0 108 3-110 2-114 (115)
12 KOG1818 Membrane trafficking a 99.9 9.6E-22 2.1E-26 208.4 9.4 140 4-144 11-151 (634)
13 PF03127 GAT: GAT domain; Int 99.8 1E-19 2.2E-24 153.6 9.7 89 184-272 9-97 (100)
14 cd03572 ENTH_epsin_related ENT 98.0 6.6E-05 1.4E-09 65.9 11.3 106 1-108 1-116 (122)
15 PF01417 ENTH: ENTH domain; I 98.0 5E-05 1.1E-09 66.4 10.1 104 2-108 4-118 (125)
16 cd03562 CID CID (CTD-Interacti 97.8 0.00014 3E-09 62.4 8.6 94 18-113 17-110 (114)
17 cd03571 ENTH_epsin ENTH domain 97.7 0.00053 1.2E-08 60.3 11.0 103 2-107 2-114 (123)
18 smart00273 ENTH Epsin N-termin 97.6 0.00068 1.5E-08 59.4 11.3 76 2-77 3-79 (127)
19 cd03564 ANTH_AP180_CALM ANTH d 97.2 0.002 4.3E-08 55.8 9.1 77 3-79 2-78 (117)
20 KOG2056 Equilibrative nucleosi 97.0 0.0041 8.9E-08 63.1 10.3 106 2-108 22-135 (336)
21 smart00582 RPR domain present 95.8 0.028 6.1E-07 48.3 6.8 89 22-111 16-107 (121)
22 KOG0251 Clathrin assembly prot 94.2 0.13 2.9E-06 55.1 7.4 79 3-81 25-104 (491)
23 KOG2374 Uncharacterized conser 92.8 1.1 2.3E-05 47.9 11.2 136 4-143 10-155 (661)
24 PF13646 HEAT_2: HEAT repeats; 91.2 2.9 6.4E-05 32.9 9.9 84 5-106 4-87 (88)
25 PF07651 ANTH: ANTH domain; I 90.0 0.9 2E-05 44.6 7.0 76 3-79 5-81 (280)
26 KOG2057 Predicted equilibrativ 89.9 1.9 4.2E-05 43.9 9.1 101 5-107 27-139 (499)
27 PF12348 CLASP_N: CLASP N term 88.1 6.1 0.00013 37.1 11.1 77 36-113 129-208 (228)
28 KOG2160 Armadillo/beta-catenin 87.1 2.4 5.1E-05 43.6 7.9 84 20-108 105-193 (342)
29 PF12210 Hrs_helical: Hepatocy 85.0 3 6.6E-05 35.2 6.1 56 187-242 3-58 (96)
30 cd00020 ARM Armadillo/beta-cat 79.8 6.8 0.00015 31.9 6.6 68 38-107 49-116 (120)
31 PF12717 Cnd1: non-SMC mitotic 79.8 19 0.00041 33.1 10.1 87 20-112 7-93 (178)
32 PF04818 CTD_bind: RNA polymer 76.2 10 0.00022 28.9 6.1 53 57-111 3-59 (64)
33 PF13646 HEAT_2: HEAT repeats; 73.4 16 0.00035 28.5 6.9 55 40-107 1-56 (88)
34 PF08167 RIX1: rRNA processing 71.5 47 0.001 30.3 10.3 71 36-107 19-93 (165)
35 cd00020 ARM Armadillo/beta-cat 71.4 24 0.00052 28.6 7.7 70 39-110 8-77 (120)
36 PF12348 CLASP_N: CLASP N term 71.3 23 0.0005 33.2 8.5 97 14-113 16-125 (228)
37 PF11841 DUF3361: Domain of un 71.3 24 0.00051 32.6 8.2 70 38-109 58-129 (160)
38 smart00229 RasGEFN Guanine nuc 65.8 84 0.0018 26.7 10.5 102 3-106 11-123 (127)
39 KOG1924 RhoA GTPase effector D 63.9 52 0.0011 37.6 10.2 26 36-61 158-184 (1102)
40 KOG1293 Proteins containing ar 55.7 43 0.00094 37.3 7.9 89 38-130 461-549 (678)
41 PF06812 ImpA-rel_N: ImpA-rela 54.9 52 0.0011 25.0 6.2 58 18-75 1-59 (62)
42 KOG1077 Vesicle coat complex A 53.8 93 0.002 35.4 10.0 83 16-106 89-173 (938)
43 PF06160 EzrA: Septation ring 53.6 3.2E+02 0.0069 30.1 14.3 102 36-141 141-249 (560)
44 KOG2071 mRNA cleavage and poly 48.3 27 0.00059 38.3 5.0 76 33-110 35-110 (579)
45 KOG1820 Microtubule-associated 45.8 1.5E+02 0.0032 34.4 10.4 88 20-113 354-445 (815)
46 cd08306 Death_FADD Fas-associa 43.1 99 0.0021 25.2 6.5 70 61-135 4-74 (86)
47 PRK09687 putative lyase; Provi 42.9 1.8E+02 0.0039 28.9 9.6 26 36-61 190-215 (280)
48 cd08319 Death_RAIDD Death doma 42.7 97 0.0021 25.4 6.3 69 63-135 6-74 (83)
49 smart00509 TFS2N Domain in the 42.4 1.7E+02 0.0036 23.3 7.5 23 91-113 51-73 (75)
50 PF01602 Adaptin_N: Adaptin N 42.0 1.1E+02 0.0024 32.2 8.5 75 25-108 66-140 (526)
51 cd00183 TFIIS_I N-terminal dom 42.0 82 0.0018 25.0 5.7 27 87-113 49-75 (76)
52 KOG4715 SWI/SNF-related matrix 40.3 1.8E+02 0.004 29.9 9.0 30 239-268 279-308 (410)
53 KOG1105 Transcription elongati 40.2 1.4E+02 0.0029 30.5 8.1 26 89-114 54-79 (296)
54 PF11707 Npa1: Ribosome 60S bi 40.0 76 0.0017 32.2 6.6 65 22-92 46-112 (330)
55 PF01602 Adaptin_N: Adaptin N 39.5 98 0.0021 32.6 7.6 88 16-107 129-217 (526)
56 cd06224 REM Guanine nucleotide 38.9 2.3E+02 0.0049 23.6 10.3 85 3-92 3-101 (122)
57 cd08779 Death_PIDD Death Domai 38.1 1.2E+02 0.0025 24.8 6.2 67 65-134 8-74 (86)
58 KOG2911 Uncharacterized conser 36.6 2.5E+02 0.0054 30.0 9.6 99 188-319 289-388 (439)
59 PF06523 DUF1106: Protein of u 35.9 9.1 0.0002 30.8 -0.7 27 383-409 13-39 (91)
60 PF02985 HEAT: HEAT repeat; I 35.8 96 0.0021 20.0 4.4 30 40-69 2-31 (31)
61 PF05004 IFRD: Interferon-rela 35.8 2.4E+02 0.0051 28.6 9.3 76 37-115 85-163 (309)
62 PF00618 RasGEF_N: RasGEF N-te 35.1 1E+02 0.0023 25.2 5.6 72 3-76 8-94 (104)
63 smart00005 DEATH DEATH domain, 35.0 1.2E+02 0.0025 24.0 5.7 35 97-135 44-78 (88)
64 PF03670 UPF0184: Uncharacteri 33.7 1E+02 0.0023 25.4 5.1 53 185-239 25-77 (83)
65 smart00543 MIF4G Middle domain 33.6 1.3E+02 0.0028 27.0 6.5 69 22-91 100-171 (200)
66 COG1059 Thermostable 8-oxoguan 33.3 1.6E+02 0.0035 28.2 6.9 101 16-135 36-143 (210)
67 PLN03200 cellulose synthase-in 33.1 2.2E+02 0.0048 36.4 9.8 68 39-107 190-257 (2102)
68 PF13513 HEAT_EZ: HEAT-like re 31.8 82 0.0018 22.6 3.9 52 52-106 1-52 (55)
69 cd08777 Death_RIP1 Death Domai 31.6 1.7E+02 0.0037 23.9 6.2 70 62-134 5-75 (86)
70 PF10508 Proteasom_PSMB: Prote 31.5 3.6E+02 0.0078 29.1 10.3 91 18-110 51-147 (503)
71 KOG4535 HEAT and armadillo rep 31.0 45 0.00098 36.2 3.2 34 36-69 148-181 (728)
72 PF12333 Ipi1_N: Rix1 complex 30.7 3.2E+02 0.007 22.9 8.5 51 40-91 13-63 (102)
73 cd08317 Death_ank Death domain 30.4 1.8E+02 0.0039 23.4 6.1 65 66-134 11-75 (84)
74 PF00531 Death: Death domain; 30.3 2.3E+02 0.0049 21.9 6.6 49 81-134 23-71 (83)
75 PF11698 V-ATPase_H_C: V-ATPas 30.1 2.1E+02 0.0045 25.2 6.7 72 35-109 40-113 (119)
76 KOG3192 Mitochondrial J-type c 30.0 1.3E+02 0.0029 27.9 5.6 19 240-258 93-111 (168)
77 PF14726 RTTN_N: Rotatin, an a 29.9 2.7E+02 0.0059 23.6 7.2 69 35-107 27-96 (98)
78 PF02854 MIF4G: MIF4G domain; 29.8 3E+02 0.0065 24.5 8.2 86 22-107 107-204 (209)
79 PF07197 DUF1409: Protein of u 29.2 45 0.00098 25.1 2.1 31 61-91 6-37 (51)
80 PF14523 Syntaxin_2: Syntaxin- 29.1 3.2E+02 0.0068 22.3 7.8 80 186-267 3-92 (102)
81 PTZ00429 beta-adaptin; Provisi 28.6 3.3E+02 0.0072 31.2 9.8 75 22-106 466-541 (746)
82 KOG1077 Vesicle coat complex A 28.5 1.4E+02 0.0031 33.9 6.6 73 33-109 324-396 (938)
83 cd08805 Death_ank1 Death domai 28.5 2.2E+02 0.0047 23.4 6.2 68 62-134 7-75 (84)
84 KOG1242 Protein containing ada 28.3 3.4E+02 0.0073 30.1 9.3 104 27-139 227-346 (569)
85 PF07531 TAFH: NHR1 homology t 26.4 66 0.0014 27.3 2.8 31 80-110 7-37 (96)
86 PF06798 PrkA: PrkA serine pro 26.4 46 0.001 32.9 2.3 70 35-106 38-109 (254)
87 PF12783 Sec7_N: Guanine nucle 26.0 2.1E+02 0.0046 25.7 6.5 63 51-114 35-105 (168)
88 cd01670 Death Death Domain: a 25.9 2.2E+02 0.0048 21.9 5.7 34 98-135 37-70 (79)
89 PF14663 RasGEF_N_2: Rapamycin 25.8 2E+02 0.0043 24.7 5.9 52 36-88 6-57 (115)
90 PF10508 Proteasom_PSMB: Prote 25.2 8.4E+02 0.018 26.3 11.8 91 19-111 118-231 (503)
91 cd08318 Death_NMPP84 Death dom 25.1 2.7E+02 0.0058 22.6 6.2 68 63-135 11-78 (86)
92 PF12755 Vac14_Fab1_bd: Vacuol 24.9 4.1E+02 0.0089 22.2 7.9 64 36-102 25-88 (97)
93 PF03224 V-ATPase_H_N: V-ATPas 24.7 1E+02 0.0022 30.9 4.4 72 38-113 146-227 (312)
94 KOG0593 Predicted protein kina 24.5 1.3E+02 0.0028 31.2 5.0 67 36-108 45-113 (396)
95 KOG1511 Mevalonate kinase MVK/ 23.5 1.8E+02 0.004 30.4 5.9 45 216-260 259-309 (397)
96 KOG2075 Topoisomerase TOP1-int 23.0 5.8E+02 0.013 27.9 9.6 96 17-113 185-296 (521)
97 PF14555 UBA_4: UBA-like domai 22.3 1.8E+02 0.0038 20.4 4.1 24 240-263 13-37 (43)
98 PF11864 DUF3384: Domain of un 21.6 5.8E+02 0.013 27.2 9.7 92 19-110 8-116 (464)
99 PF08388 GIIM: Group II intron 21.5 2.3E+02 0.005 22.0 5.1 36 80-115 2-41 (80)
100 KOG1877 Putative transmembrane 21.4 2.4E+02 0.0051 32.6 6.8 94 4-100 17-115 (819)
101 smart00549 TAFH TAF homology. 21.4 1.1E+02 0.0024 25.7 3.3 30 80-109 6-35 (92)
102 TIGR01385 TFSII transcription 21.3 2.4E+02 0.0053 28.6 6.3 24 91-114 53-76 (299)
103 PF07899 Frigida: Frigida-like 20.9 8.6E+02 0.019 24.5 10.7 91 23-135 43-142 (290)
104 KOG2021 Nuclear mRNA export fa 20.8 7.1E+02 0.015 28.9 10.1 107 5-113 4-130 (980)
105 cd08804 Death_ank2 Death domai 20.7 3.5E+02 0.0075 22.0 6.0 67 63-133 8-74 (84)
106 PF13251 DUF4042: Domain of un 20.7 1.2E+02 0.0026 28.5 3.8 34 35-68 142-175 (182)
107 PF04961 FTCD_C: Formiminotran 20.4 3E+02 0.0065 25.7 6.4 53 197-251 32-85 (184)
108 PF08073 CHDNT: CHDNT (NUC034) 20.1 1.4E+02 0.0031 22.8 3.3 42 70-111 7-49 (55)
No 1
>KOG1087 consensus Cytosolic sorting protein GGA2/TOM1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=2.9e-65 Score=528.62 Aligned_cols=416 Identities=28% Similarity=0.387 Sum_probs=300.9
Q ss_pred ChhHHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhccc
Q 014410 1 MATELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDT 80 (425)
Q Consensus 1 ~a~~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~ 80 (425)
|+..+|+|||++.+.++||++||+|||+||.+.++++||+|+|+|||+++++++|++||+|||+||||||+.||.+|+++
T Consensus 1 ~v~~~IdkAT~~~l~~pDWa~NleIcD~IN~~~~~~~eAvralkKRi~~k~s~vq~lALtlLE~cvkNCG~~fh~~Va~k 80 (470)
T KOG1087|consen 1 SVGKLIDKATSESLAEPDWALNLEICDLINSTEGGPKEAVRALKKRLNSKNSKVQLLALTLLETCVKNCGYSFHLQVASK 80 (470)
T ss_pred ChHHHHHHhhcccccCccHHHHHHHHHHHhcCccCcHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence 67899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chHHHHHHHhhcC-CCHhHHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHcCCCCCCCCCCCCCCCCCC------cc
Q 014410 81 GILPILVKIVKKK-SDLPVRERIFLLLDATQTSLGGASGKFPQYYTAYYELVSAGVQFPQRPRTIPSSHPSS------DA 153 (425)
Q Consensus 81 ~FL~~L~klv~~k-~~~~Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~Gv~FP~~~~~~~~~~~t~------~~ 153 (425)
+||++|+++++++ .+.+||+|||.||++|+.+|++..++++.|+.+|++|+++||+||.++.+...+...+ .+
T Consensus 81 ~fL~emVk~~k~~~~~~~Vr~kiL~LI~~W~~af~~~~~~~~~~~~~y~~l~~~G~~FP~r~~~sl~~~~pp~~~~~~~~ 160 (470)
T KOG1087|consen 81 EFLNEMVKRPKNKPRDLKVREKILELIDTWQQAFCGPDGYLPDYYQIYDELRRKGVEFPQRDEESLAVLTPPAVLRPAPE 160 (470)
T ss_pred HHHHHHHhccccCCcchhHHHHHHHHHHHHHHHccCCCCcchhHHHHHHHHHHcCCcCCCCccccccccCCCCCCCCCCC
Confidence 9999999999998 8899999999999999999999888999999999999999999999988864321111 10
Q ss_pred c--ccccccccccC-CCCCCCccCCCCCCCCCCChHHHHHHHHHHHHHHHHHHhhCCCCCCCCcchHHHHHHHHHHHHHH
Q 014410 154 N--KKVTLNGELAS-SRNEGVTLAQQPEPQIVPESSIIQKASNALEVLKDVLDAVGTQNPEGAKDEFTLDLVEQCSFQKQ 230 (425)
Q Consensus 154 ~--~~~~~~~~~~S-~~~~~~~~A~~~e~q~~~~~~ele~~~~~~~LL~EML~~~~p~~~~~~d~Eli~EL~~~Cr~~q~ 230 (425)
. .+..+....++ ....... ......+.....++|++++++++||+|||.+++|++++..++|++.+|+++||.+|+
T Consensus 161 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~seLe~~~~~~~ll~emL~~v~p~~~e~~~~el~~~L~~qcr~~q~ 239 (470)
T KOG1087|consen 161 PQEQSGPPNEANASMKSMAGYP-TEATPEVSTLSLSELESVKGKADLLSEMLNAVDPSDEEAAKDELLVDLVEQCRSKQR 239 (470)
T ss_pred chhhcCCccccccccccccccc-hhhhhhhhhhhHHHHHHHHHHHHHHHHHHhccCCCCcchhHHHHHHHHHHHHHHHHH
Confidence 0 00000000000 0000000 000011112246799999999999999999999999999999999999999999999
Q ss_pred HHHHHhhccCcHHHHHHHHHhhHHHHHHHHHHHhhhhcCcc-------ccccccccCCC----CCcccCccCCCCCC---
Q 014410 231 RVMHLVMTSRDEKVVSQAIDLNEQLQNVLARHDVLLSERST-------STANHVNHQDG----HLSTRSTTTANHSA--- 296 (425)
Q Consensus 231 rI~~lI~~v~dEelL~~LL~~NDeL~~aL~rYe~l~~g~~~-------~~~~~~~~~~g----~~~~~~~~~~~~~~--- 296 (425)
|||+||.++.||++|+++|++||+|++||.+||++.+|... .+...+....+ ...+.....+..+.
T Consensus 240 rv~~Li~~~~DE~ll~~lL~lND~L~~vL~~ye~~~~g~s~~~~~~~e~~~~p~~~~~~~~~~~~s~~~~~~~~~~~ss~ 319 (470)
T KOG1087|consen 240 RVMHLIEETSDEELLCELLKLNDELQRVLERYERIASGSSVATTSKSETASDPVDQSSSLLDKDDSSIDLNDSLASRSSS 319 (470)
T ss_pred HHHHHHHHhccHHHHHHHHHHhHHHHHHHHHHHHHhcccccccccccccCCCccccCccccccCcCcccccccccccccc
Confidence 99999999999999999999999999999999999999211 11111111110 00000000011110
Q ss_pred CCCCCcchhhhHHHHHHHHHhhcccCCCCCCCcCCCCCCCCCCcccCCcccccccCCcccCCCCCCCCCCCCCCCCcccC
Q 014410 297 NHADHAEEEEEEEAEQLSRRMRKGKGCARPEDEEHLPERHPLGILGSSIPAARLNRPLIRPVQAEPPHETNAHPQPVTIP 376 (425)
Q Consensus 297 ~~~~~~~~~~~d~~~~~a~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 376 (425)
..+.-.++++.+.+ |++.+..+.. .........+...+|.+..++++....+..+..++.+..--..+.. +....+|
T Consensus 320 ~~~~~~~~~~~~~~-~l~~d~~~l~-~~~~~~l~~~~p~~~~~~~~~~~~~~~~~~~~~s~~s~~~~~~~~~-~~~~~~~ 396 (470)
T KOG1087|consen 320 TGISATPSSEQPSG-QLLGDLDKLS-DQTLLGLAPPPPNSPTASESSSISLLSLSSDNQSELSNSATNSPGS-SPQESFP 396 (470)
T ss_pred CCCcCCCccccccc-chhhhhcccc-chhccccCCCCCCCCCCCcccccccccccccccccCCcccccCCCc-cccccCC
Confidence 01111221222222 7777776651 1111222233444556777777777777666666543322221111 2456788
Q ss_pred CCCCchhHHHHHHHHhcCCcc-ccccccccccccccCCCCCCCCCCCC
Q 014410 377 PPPAKHVEREKFFQEKKVDAS-AAAGHMRGLSLHSRNASSSRSGSTDF 423 (425)
Q Consensus 377 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~ 423 (425)
|.|.. ++..||-.+..... ...+++.|.+.|+.-.+ .++||-.+
T Consensus 397 P~~~~--~~s~~~~p~~~~~~~~~p~~p~~~~~~~~~~~-~~~~s~p~ 441 (470)
T KOG1087|consen 397 PLPQI--QKSSTSPPQSDSLMIEQPLTPASKSSPRSSSS-ASTGSSPQ 441 (470)
T ss_pred CCccc--ccccccCCCcccccccCCCCcccCCccccccc-ccCCCCcc
Confidence 88888 88888888876553 67788999888888877 66666554
No 2
>KOG1086 consensus Cytosolic sorting protein/ADP-ribosylation factor effector GGA [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.6e-45 Score=368.97 Aligned_cols=267 Identities=21% Similarity=0.302 Sum_probs=238.2
Q ss_pred hHHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccch
Q 014410 3 TELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGI 82 (425)
Q Consensus 3 ~~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~F 82 (425)
+.+|.|||+..+.++||..|.-|||.||.++.|+.-|++.+..||++....++++||++||+||+|||++||.++++++|
T Consensus 10 e~wlnrATdp~~~eedw~ai~~fceqinkdp~gp~lAv~LlaHKiqSPqe~EAl~altvLe~cmkncGekfH~evgkfrF 89 (594)
T KOG1086|consen 10 EYWLNRATDPSNDEEDWKAIDGFCEQINKDPEGPLLAVRLLAHKIQSPQEWEALQALTVLEYCMKNCGEKFHEEVGKFRF 89 (594)
T ss_pred HHHHHhccCccchHHHHHHHHHHHHHHhcCCCCchhHHHHHHhhcCChhHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcC-----CCHhHHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHcCC--CCCCCCCCC-C--C------
Q 014410 83 LPILVKIVKKK-----SDLPVRERIFLLLDATQTSLGGASGKFPQYYTAYYELVSAGV--QFPQRPRTI-P--S------ 146 (425)
Q Consensus 83 L~~L~klv~~k-----~~~~Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~Gv--~FP~~~~~~-~--~------ 146 (425)
||+|+|++++| +...||.||++||..|+.+| +..++|+++|++||++|| ..|..+.+. + .
T Consensus 90 LNELIkvvsPKYlG~~tSekvKtkiIelLfsWtv~l----pe~~KikdaYqmLKkqgIik~DP~lp~d~~~~p~ppP~pk 165 (594)
T KOG1086|consen 90 LNELIKVVSPKYLGSRTSEKVKTKIIELLFSWTVSL----PEEPKIKDAYQMLKKQGIIKSDPKLPVDETPVPAPPPRPK 165 (594)
T ss_pred HHHHHHHhCchhcchhhhHHHHHHHHHHHhhheecC----cccchHHHHHHHHHhcCcccCCCCCCCCCccCCCCCCCCC
Confidence 99999999986 45679999999999999988 678999999999999998 567666652 1 1
Q ss_pred CCCCCcccccccccccccCCCCCCCccCCCC------CCC----CCC-ChHHHHHHHHHHHHHHHHHHhhCCCCCCCCcc
Q 014410 147 SHPSSDANKKVTLNGELASSRNEGVTLAQQP------EPQ----IVP-ESSIIQKASNALEVLKDVLDAVGTQNPEGAKD 215 (425)
Q Consensus 147 ~~~t~~~~~~~~~~~~~~S~~~~~~~~A~~~------e~q----~~~-~~~ele~~~~~~~LL~EML~~~~p~~~~~~d~ 215 (425)
.+.++++.++..+.++++|.+++|++.||+. +++ ++. +...++++.|++++|.||+..+..++...-|+
T Consensus 166 ssvFddEEksklL~rLLkSn~PeDLqaANkLIK~lVkeee~k~eKiskR~~aleev~n~vk~l~em~l~~s~eg~a~pd~ 245 (594)
T KOG1086|consen 166 SSVFDDEEKSKLLARLLKSNHPEDLQAANKLIKTLVKEEEHKLEKISKRVKALEEVNNNVKLLEEMLLDYSQEGNASPDN 245 (594)
T ss_pred ccccCcHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCcH
Confidence 2346778888889999999999999999864 222 221 34568899999999999999998877777788
Q ss_pred h-HHHHHHHHHHHHHHHHHHHhhc-cCcHHHHHHHHHhhHHHHHHHHHHHhhhhcCcccc
Q 014410 216 E-FTLDLVEQCSFQKQRVMHLVMT-SRDEKVVSQAIDLNEQLQNVLARHDVLLSERSTST 273 (425)
Q Consensus 216 E-li~EL~~~Cr~~q~rI~~lI~~-v~dEelL~~LL~~NDeL~~aL~rYe~l~~g~~~~~ 273 (425)
| +++++|++|.++|+.+++|++. .+|++.|+++|++||.|++++..|+..+.|+.+..
T Consensus 246 E~~lq~v~~~ce~lr~tlfrlaset~dnD~aL~eILqanD~ltrvi~~ykt~~~G~~~~g 305 (594)
T KOG1086|consen 246 ELLLQEVYNRCEQLRPTLFRLASETEDNDPALAEILQANDNLTRVINLYKTPKEGNVANG 305 (594)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcccccCcHHHHHHHhhhhhHHhhhhhcccccccccccc
Confidence 8 7899999999999999999995 57899999999999999999999999999987653
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=6e-42 Score=307.10 Aligned_cols=136 Identities=29% Similarity=0.442 Sum_probs=132.0
Q ss_pred hHHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccch
Q 014410 3 TELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGI 82 (425)
Q Consensus 3 ~~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~F 82 (425)
+++|+||||+.+.++||++||+|||+||+++.++++|+|+|+|||+|+||++|++||+|||+||||||.+||.+|++++|
T Consensus 2 e~~iekATse~l~~~dw~~il~icD~I~~~~~~~k~a~ral~KRl~~~n~~v~l~AL~LLe~~vkNCG~~fh~evask~F 81 (144)
T cd03568 2 DDLVEKATDEKLTSENWGLILDVCDKVKSDENGAKDCLKAIMKRLNHKDPNVQLRALTLLDACAENCGKRFHQEVASRDF 81 (144)
T ss_pred hHHHHHHcCccCCCcCHHHHHHHHHHHhcCCccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHCCHHHHHHHhhHHH
Confidence 57999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcCCCHhHHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHcCCCCCC
Q 014410 83 LPILVKIVKKKSDLPVRERIFLLLDATQTSLGGASGKFPQYYTAYYELVSAGVQFPQ 139 (425)
Q Consensus 83 L~~L~klv~~k~~~~Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~Gv~FP~ 139 (425)
+++|++++.+++++.|++||+++|+.|+..|.+. ++++.|.++|++|+++||.||.
T Consensus 82 l~eL~kl~~~~~~~~Vk~kil~li~~W~~~f~~~-~~l~~i~~~y~~L~~~G~~f~~ 137 (144)
T cd03568 82 TQELKKLINDRVHPTVKEKLREVVKQWADEFKND-PSLSLMSDLYKKLKNEGPDLVT 137 (144)
T ss_pred HHHHHHHhcccCCHHHHHHHHHHHHHHHHHhCCC-cccHHHHHHHHHHHHcCCCCCC
Confidence 9999999999899999999999999999999754 6899999999999999999994
No 4
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=100.00 E-value=6.1e-42 Score=306.44 Aligned_cols=136 Identities=34% Similarity=0.522 Sum_probs=132.4
Q ss_pred hHHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccch
Q 014410 3 TELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGI 82 (425)
Q Consensus 3 ~~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~F 82 (425)
+++|+||||+.+.++||+.|++|||+||.++.++++|+|+|+|||+|+|+++|++||+|||+||||||.+||.+|++++|
T Consensus 6 ~~~I~kATs~~l~~~dw~~ileicD~In~~~~~~k~a~ral~krl~~~n~~vql~AL~LLe~~vkNCG~~fh~evas~~f 85 (142)
T cd03569 6 DELIEKATSELLGEPDLASILEICDMIRSKDVQPKYAMRALKKRLLSKNPNVQLYALLLLESCVKNCGTHFHDEVASREF 85 (142)
T ss_pred HHHHHHHcCcccCccCHHHHHHHHHHHhCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHCCHHHHHHHhhHHH
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcCCCHhHHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHcCCCCCC
Q 014410 83 LPILVKIVKKKSDLPVRERIFLLLDATQTSLGGASGKFPQYYTAYYELVSAGVQFPQ 139 (425)
Q Consensus 83 L~~L~klv~~k~~~~Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~Gv~FP~ 139 (425)
+++|++++++++++.|++||+++|+.|+.+|++. ++|+.|.++|++|+++||.||+
T Consensus 86 l~~l~~l~~~~~~~~Vk~kil~li~~W~~~f~~~-~~l~~i~~~y~~L~~~G~~FP~ 141 (142)
T cd03569 86 MDELKDLIKTTKNEEVRQKILELIQAWALAFRNK-PQLKYVVDTYQILKAEGHKFPE 141 (142)
T ss_pred HHHHHHHHcccCCHHHHHHHHHHHHHHHHHhCCC-cccHHHHHHHHHHHHcCCCCCC
Confidence 9999999998899999999999999999999765 7999999999999999999996
No 5
>cd03565 VHS_Tom1 VHS domain family, Tom1 subfamily; The VHS domain is an essential part of Tom1 (Target of myb1 - retroviral oncogene) protein. The VHS domain has a superhelical structure similar to the structure of the ARM repeats and is present at the very N-termini of proteins. It is a right-handed superhelix of eight alpha helices. The VHS domain has been found in a number of proteins, some of which have been implicated in intracellular trafficking and sorting. The VHS domain of the Tom1 protein is essential for the negative regulation of Interleukin-1 and Tumor Necrosis Factor-induced signaling pathways.
Probab=100.00 E-value=3.3e-41 Score=301.40 Aligned_cols=136 Identities=30% Similarity=0.550 Sum_probs=128.9
Q ss_pred hhHHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHhcchhhhhHhhccc
Q 014410 2 ATELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLG-SKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDT 80 (425)
Q Consensus 2 a~~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~-~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~ 80 (425)
++.+|+||||+.+.++||++|++|||+||++.++|++|+|+|+|||+ ++|+++|++||+|||+||||||.+||.+|+++
T Consensus 2 ~~~~IekATse~l~~~dw~~ileicD~In~~~~~~k~a~ralkkRl~~~~n~~v~l~aL~LLe~~vkNCG~~fh~eiask 81 (141)
T cd03565 2 VGQLIEKATDGSLQSEDWGLNMEICDIINETEDGPKDAVRALKKRLNGNKNHKEVMLTLTVLETCVKNCGHRFHVLVAKK 81 (141)
T ss_pred HhHHHHHHcCcCCCCcCHHHHHHHHHHHhCCCCcHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHHccHHHHHHHHHH
Confidence 47899999999999999999999999999999999999999999998 47999999999999999999999999999999
Q ss_pred chHHH-HHHHhhcCC--CHhHHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHcCCCCC
Q 014410 81 GILPI-LVKIVKKKS--DLPVRERIFLLLDATQTSLGGASGKFPQYYTAYYELVSAGVQFP 138 (425)
Q Consensus 81 ~FL~~-L~klv~~k~--~~~Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~Gv~FP 138 (425)
+|+++ |++++.++. +..|++||+++|+.|+.+|++. ++|+.|.++|++|+++||.||
T Consensus 82 ~Fl~e~L~~~i~~~~~~~~~Vk~kil~li~~W~~~f~~~-~~l~~i~~~y~~L~~~G~~FP 141 (141)
T cd03565 82 DFIKDVLVKLINPKNNPPTIVQEKVLALIQAWADAFRGS-PDLTGVVEVYEELKKKGIEFP 141 (141)
T ss_pred HhhhHHHHHHHcccCCCcHHHHHHHHHHHHHHHHHhCCC-ccchHHHHHHHHHHHcCCCCC
Confidence 99999 999998653 4589999999999999999765 689999999999999999998
No 6
>cd03567 VHS_GGA VHS domain family, GGA subfamily; GGA (Golgi-localized, Gamma-ear-containing, Arf-binding) comprise a subfamily of ubiquitously expressed, monomeric, motif-binding cargo/clathrin adaptor proteins. The VHS domain has a superhelical structure similar to the structure of the ARM (Armadillo) repeats and is present at the N-termini of proteins. GGA proteins have a multidomain structure consisting of an N-terminal VHS domain linked by a short proline-rich linker to a GAT (GGA and TOM) domain, which is followed by a long flexible linker to the C-terminal appendage, GAE (gamma-adaptin ear) domain. The VHS domain of GGA proteins binds to the acidic-cluster dileucine (DxxLL) motif found on the cytoplasmic tails of cargo proteins trafficked between the trans-Golgi network and the endosomal system.
Probab=100.00 E-value=2.4e-40 Score=294.90 Aligned_cols=129 Identities=25% Similarity=0.361 Sum_probs=123.9
Q ss_pred hHHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccch
Q 014410 3 TELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGI 82 (425)
Q Consensus 3 ~~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~F 82 (425)
+++|+||||+.+.++||++|++|||+||.++.+|++|+++|+|||+|+|+++|++||+|||+||||||.+||.+|++++|
T Consensus 3 ~~~iekAT~~~l~~~dw~~ileicD~In~~~~~~k~a~rai~krl~~~n~~v~l~AL~LLe~~vkNCG~~fh~evas~~F 82 (139)
T cd03567 3 EAWLNKATNPSNREEDWEAIQAFCEQINKEPEGPQLAVRLLAHKIQSPQEKEALQALTVLEACMKNCGERFHSEVGKFRF 82 (139)
T ss_pred HHHHHHHcCccCCCCCHHHHHHHHHHHHcCCccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCHHHHHHHHhHHH
Confidence 67999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcC-----CCHhHHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHcCC
Q 014410 83 LPILVKIVKKK-----SDLPVRERIFLLLDATQTSLGGASGKFPQYYTAYYELVSAGV 135 (425)
Q Consensus 83 L~~L~klv~~k-----~~~~Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~Gv 135 (425)
+++|+++++++ ++..||+||++||+.|+.+|+ +.|.|.++|++||++||
T Consensus 83 l~el~kl~~~k~~~~~~~~~Vk~kil~li~~W~~~f~----~~p~~~~~Y~~Lk~~G~ 136 (139)
T cd03567 83 LNELIKLVSPKYLGSRTSEKVKTKIIELLYSWTLELP----HEPKIKEAYDMLKKQGI 136 (139)
T ss_pred HHHHHHHhccccCCCCCCHHHHHHHHHHHHHHHHHhc----ccchHHHHHHHHHHCCC
Confidence 99999999753 678899999999999999994 57889999999999997
No 7
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=100.00 E-value=1.9e-38 Score=280.82 Aligned_cols=131 Identities=34% Similarity=0.530 Sum_probs=126.2
Q ss_pred hHHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccch
Q 014410 3 TELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGI 82 (425)
Q Consensus 3 ~~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~F 82 (425)
+.+|++|||+.+.++||+.|++|||+||.++.++++|+|+|+|||+|+||++|++||+|||+||+|||.+||.+|++++|
T Consensus 2 ~~~i~kATs~~l~~~dw~~~l~icD~i~~~~~~~k~a~r~l~krl~~~n~~v~l~AL~lLe~~vkNcg~~f~~ev~s~~f 81 (133)
T smart00288 2 ERLIDKATSPSLLEEDWELILEICDLINSTPDGPKDAVRLLKKRLNNKNPHVALLALTLLDACVKNCGSKFHLEVASKEF 81 (133)
T ss_pred hhHHHHHcCcCCCCcCHHHHHHHHHHHhCCCccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHhHHH
Confidence 67999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcCCCHh-HHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHcC
Q 014410 83 LPILVKIVKKKSDLP-VRERIFLLLDATQTSLGGASGKFPQYYTAYYELVSAG 134 (425)
Q Consensus 83 L~~L~klv~~k~~~~-Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~G 134 (425)
+++|+++++++++.+ |++||+++|+.|+.+|++ +++++.|.++|++|+++|
T Consensus 82 l~~L~~l~~~~~~~~~Vk~kil~li~~W~~~f~~-~~~~~~i~~~y~~L~~~g 133 (133)
T smart00288 82 LNELVKLIKPKYPLPLVKKRILELIQEWADAFKN-DPDLSQIVDVYDLLKKKG 133 (133)
T ss_pred HHHHHHHHcCCCCcHHHHHHHHHHHHHHHHHHcC-CCCchHHHHHHHHHHHCc
Confidence 999999999876666 999999999999999976 579999999999999987
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=100.00 E-value=3.8e-37 Score=272.32 Aligned_cols=131 Identities=39% Similarity=0.556 Sum_probs=125.8
Q ss_pred hhHHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccc
Q 014410 2 ATELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTG 81 (425)
Q Consensus 2 a~~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~ 81 (425)
++++|++||++.+.++||++|++|||+||.++.++++|+|+|+|||+|+||++|++||+|||+||+|||.+||.+|++++
T Consensus 1 v~~~I~kATs~~~~~~D~~~il~icd~I~~~~~~~k~a~raL~krl~~~n~~vql~AL~lLd~~vkNcg~~f~~~i~s~~ 80 (133)
T cd03561 1 VTSLIERATSPSLEEPDWALNLELCDLINLKPNGPKEAARAIRKKIKYGNPHVQLLALTLLELLVKNCGKPFHLQVADKE 80 (133)
T ss_pred ChHHHHHHcCcccCCccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCChHHHHHHhhHH
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHhhc--CCCHhHHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHH
Q 014410 82 ILPILVKIVKK--KSDLPVRERIFLLLDATQTSLGGASGKFPQYYTAYYELVS 132 (425)
Q Consensus 82 FL~~L~klv~~--k~~~~Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~ 132 (425)
|+++|++++.+ ++++.||+||+++|+.|+.+|++..+++++|.++|+.||+
T Consensus 81 fl~~l~~l~~~~~~~~~~Vk~kil~ll~~W~~~f~~~~~~~~~~~~~y~~lk~ 133 (133)
T cd03561 81 FLLELVKIAKNSPKYDPKVREKALELILAWSESFGGHSEDLPGIEDAYKLLKR 133 (133)
T ss_pred HHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHhcCCCccchHHHHHHHHHhC
Confidence 99999999987 6889999999999999999998765789999999999973
No 9
>PF00790 VHS: VHS domain; InterPro: IPR002014 The VHS domain is a ~140 residues long domain, whose name is derived from its occurrence in VPS-27, Hrs and STAM. Based on regions surrounding the domain, VHS-proteins can be divided into 4 groups []: STAM/EAST/Hbp which all share the domain composition VHS-SH3-ITAM and carry one or two ubiquitin-interacting motifs Proteins with a FYVE domain (IPR000306 from INTERPRO) C-terminal to VHS which also carry one or two ubiquitin-interacting motifs GGA proteins with a domain composition VHS-GAT (GGA and Tom1) homology domain VHS domain alone or in combination with domains other than those listed above The VHS domain is always found at the N- terminus of proteins suggesting that such topology is important for function. The domain is considered to have a general membrane targeting/cargo recognition role in vesicular trafficking []. Resolution of the crystal structure of the VHS domain of Drosophila Hrs and human Tom1 revealed that it consists of eight helices arranged in a double-layer superhelix []. The existence of conserved patches of residues on the domain surface suggests that VHS domains may be involved in protein-protein recognition and docking. Overall, sequence similarity is low (approx 25%) amongst domain family members.; GO: 0006886 intracellular protein transport; PDB: 1X5B_A 2L0T_B 1DVP_A 3LDZ_C 3ZYQ_A 4AVX_A 3G2U_A 3G2W_A 1UJJ_A 3G2V_A ....
Probab=100.00 E-value=1.1e-36 Score=271.52 Aligned_cols=132 Identities=36% Similarity=0.560 Sum_probs=122.4
Q ss_pred hhHHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccc
Q 014410 2 ATELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTG 81 (425)
Q Consensus 2 a~~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~ 81 (425)
.+.+|++||++.+.++||+.|++|||.||.++.++++|+++|+|||+|+||++|++||+|||+||+|||.+||.+|++++
T Consensus 6 ~~~li~kATs~~~~~~Dw~~~l~icD~i~~~~~~~kea~~~l~krl~~~~~~vq~~aL~lld~lvkNcg~~f~~ev~~~~ 85 (140)
T PF00790_consen 6 ITELIEKATSESLPSPDWSLILEICDLINSSPDGAKEAARALRKRLKHGNPNVQLLALTLLDALVKNCGPRFHREVASKE 85 (140)
T ss_dssp HHHHHHHHT-TTSSS--HHHHHHHHHHHHTSTTHHHHHHHHHHHHHTTSSHHHHHHHHHHHHHHHHHSHHHHHHHHTSHH
T ss_pred HHHHHHHHhCcCCCCCCHHHHHHHHHHHHcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHcCCHHHHHHHhHHH
Confidence 36899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHhhcCCCHh---HHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHcC
Q 014410 82 ILPILVKIVKKKSDLP---VRERIFLLLDATQTSLGGASGKFPQYYTAYYELVSAG 134 (425)
Q Consensus 82 FL~~L~klv~~k~~~~---Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~G 134 (425)
|+++|+++++.+.... ||+|++++|+.|+..|++ .++|+.|.++|++||++|
T Consensus 86 fl~~l~~l~~~~~~~~~~~Vk~k~l~ll~~W~~~f~~-~~~~~~i~~~y~~Lk~~G 140 (140)
T PF00790_consen 86 FLDELVKLIKSKKTDPETPVKEKILELLQEWAEAFKS-DPELSLIQDTYKRLKRKG 140 (140)
T ss_dssp HHHHHHHHHHHTTTHHHSHHHHHHHHHHHHHHHHTTT-STTGHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHccCCCCchhHHHHHHHHHHHHHHHHHCC-CCCchHHHHHHHHHHHCc
Confidence 9999999999765544 999999999999999955 479999999999999998
No 10
>KOG2199 consensus Signal transducing adaptor protein STAM/STAM2 [Signal transduction mechanisms]
Probab=100.00 E-value=7.7e-35 Score=290.05 Aligned_cols=263 Identities=21% Similarity=0.251 Sum_probs=199.4
Q ss_pred hHHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccch
Q 014410 3 TELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGI 82 (425)
Q Consensus 3 ~~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~F 82 (425)
+.+|+|||++.++.+||++||++||+|+.+++++|+++++|.|||.+++|||+|+||+||++||+|||.+||++|++++|
T Consensus 10 e~~v~KAT~e~nT~enW~~IlDvCD~v~~~~~~~kd~lk~i~KRln~~dphV~L~AlTLlda~~~NCg~~~r~EVsSr~F 89 (462)
T KOG2199|consen 10 EQDVEKATDEKNTSENWSLILDVCDKVGSDPDGGKDCLKAIMKRLNHKDPHVVLQALTLLDACVANCGKRFRLEVSSRDF 89 (462)
T ss_pred HHHHHHhcCcccccccHHHHHHHHHhhcCCCcccHHHHHHHHHHhcCCCcchHHHHHHHHHHHHHhcchHHHHHHhhhhH
Confidence 56899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcCCCHhHHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHcCCCCCCCCCCCC----CC--CCCCccc--
Q 014410 83 LPILVKIVKKKSDLPVRERIFLLLDATQTSLGGASGKFPQYYTAYYELVSAGVQFPQRPRTIP----SS--HPSSDAN-- 154 (425)
Q Consensus 83 L~~L~klv~~k~~~~Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~Gv~FP~~~~~~~----~~--~~t~~~~-- 154 (425)
.++|.+|+.++.++.|++|+..++..|.+.|+. ++.+..|..+|+.||+.||.|+..+.-.. .. ....++.
T Consensus 90 ~~el~al~~~~~h~kV~~k~~~lv~eWsee~K~-Dp~lsLi~~l~~klk~~g~~f~~~~~k~~k~a~~~~~v~~k~EeEd 168 (462)
T KOG2199|consen 90 TTELRALIESKAHPKVCEKMRDLVKEWSEEFKK-DPSLSLISALYKKLKEEGITFLVAGSKPEKHAMSTNTVSSKQEEED 168 (462)
T ss_pred HHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcc-CcchhHHHHHHHHHHHcCCCcccCCCchhHHHhhcccccccccHHH
Confidence 999999999999999999999999999999965 47999999999999999999987654321 00 0000000
Q ss_pred -----------------------cccccc---------ccccCCC-CC------CCccC--CCC---CCC----------
Q 014410 155 -----------------------KKVTLN---------GELASSR-NE------GVTLA--QQP---EPQ---------- 180 (425)
Q Consensus 155 -----------------------~~~~~~---------~~~~S~~-~~------~~~~A--~~~---e~q---------- 180 (425)
....++ ..+.+.. .. |...+ +++ .+.
T Consensus 169 iaKAi~lSL~E~~~Q~k~a~~~tst~yPs~qk~nqapa~~l~s~~~~rkVRALYDFeAaE~nELsFkaGdIItVLd~s~~ 248 (462)
T KOG2199|consen 169 IAKAIELSLKEQEKQKKLAETETSTLYPSHQKQNQAPASQLNSQTVVRKVRALYDFEAAEDNELSFKAGDIITVLDDSDP 248 (462)
T ss_pred HHHHHHhhHHHHhhchhhccCCccccCccccccccCchhhccCCccchhhhhhhcccccCCCccceecCcEEEEcccCCc
Confidence 000111 0011100 00 11101 100 000
Q ss_pred ------------CCC-----------ChHHHH-----------HHHHHHHHHHHHHHhhCCCCCCCCcchHHHHHHHHHH
Q 014410 181 ------------IVP-----------ESSIIQ-----------KASNALEVLKDVLDAVGTQNPEGAKDEFTLDLVEQCS 226 (425)
Q Consensus 181 ------------~~~-----------~~~ele-----------~~~~~~~LL~EML~~~~p~~~~~~d~Eli~EL~~~Cr 226 (425)
.-| ..++++ .....++-|-++|.+.+|.++ ..|++.+.+|+..|-
T Consensus 249 ~WWKG~~~~~~GlFPsnfVT~~le~~~~ee~~~~~~~~E~~vfi~e~~iDrlL~~L~~~dPtd~-~~D~~~l~~le~~~~ 327 (462)
T KOG2199|consen 249 NWWKGENHRGIGLFPSNFVTADLEEPKIEEQEQKQKNKEAIVFIDEDKIDRLLQVLHEADPTDE-VQDDDDLLDLEAAVH 327 (462)
T ss_pred chhccccCCcccccchhhhhhhhcccchhhhhhhhcCcceeeeccHHHHHHHHHHHhhcCCCCc-cCCCHHHHHHHHHHH
Confidence 000 001111 012345557789999999764 567888999999999
Q ss_pred HHHHHHHHHhhccCcHHHHHHHHHhhHHHHHHHHHHHhhhhcC
Q 014410 227 FQKQRVMHLVMTSRDEKVVSQAIDLNEQLQNVLARHDVLLSER 269 (425)
Q Consensus 227 ~~q~rI~~lI~~v~dEelL~~LL~~NDeL~~aL~rYe~l~~g~ 269 (425)
.|++.|-++|+.++-. =.+|+++|..|..|+..|+.+..-.
T Consensus 328 ~mgPlid~~Le~idrk--~~eL~~Ln~~l~~Al~lY~kLm~~~ 368 (462)
T KOG2199|consen 328 QMGPLIDRKLEKIDRK--HEELSQLNVKLLDALRLYNKLMNEA 368 (462)
T ss_pred HhhhHHHHHHHHHHhh--HHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 9999999999877532 2467899999999999999877654
No 11
>cd00197 VHS_ENTH_ANTH VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It is located at the N-termini of proteins involved in intracellular membrane trafficking. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. VHS, ENTH and ANTH domains are structurally similar and are composed of a superhelix of eight alpha helices. ENTH adnd ANTH (E/ANTH) domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membra
Probab=99.92 E-value=5.4e-25 Score=189.40 Aligned_cols=108 Identities=32% Similarity=0.464 Sum_probs=101.1
Q ss_pred hHHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccch
Q 014410 3 TELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGI 82 (425)
Q Consensus 3 ~~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~F 82 (425)
+.+|++||++.+.+|||..+++|||.++....++++++++|+|||+++|+++++.||+|||+||||||.+||.+|+++.|
T Consensus 2 ~~~v~~AT~~~~~~p~~~~i~~i~d~~~~~~~~~~~~~~~l~kRl~~~~~~~~lkaL~lLe~lvkN~g~~f~~~i~~~~~ 81 (115)
T cd00197 2 EKTVEKATSNENMGPDWPLIMEICDLINETNVGPKEAVDAIKKRINNKNPHVVLKALTLLEYCVKNCGERFHQEVASNDF 81 (115)
T ss_pred hHHHHHHcCCCCCCCCHHHHHHHHHHHHCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHccHHHHHHHHHhHH
Confidence 57899999999999999999999999999989999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhh-----cCCCHhHHHHHHHHHHHHH
Q 014410 83 LPILVKIVK-----KKSDLPVRERIFLLLDATQ 110 (425)
Q Consensus 83 L~~L~klv~-----~k~~~~Vk~KiL~Ll~~W~ 110 (425)
+.+|.+... ...+..||+|+++|++.|+
T Consensus 82 ~~~l~~~~~~~~~~~~~~~~Vr~k~~~l~~~w~ 114 (115)
T cd00197 82 AVELLKFDKSKLLGDDVSTNVREKAIELVQLWA 114 (115)
T ss_pred HHHHHHhhccccccCCCChHHHHHHHHHHHHHh
Confidence 999987522 2357789999999999997
No 12
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=99.85 E-value=9.6e-22 Score=208.40 Aligned_cols=140 Identities=24% Similarity=0.436 Sum_probs=133.9
Q ss_pred HHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchH
Q 014410 4 ELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGIL 83 (425)
Q Consensus 4 ~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL 83 (425)
.+|++||++.+.+.||..|++|||+|+.....+|++++.|+||++|.||++++.+|.|+|.||||||..||.+|+++.||
T Consensus 11 ~l~~~at~~~~~~~~~e~~~e~~d~ir~~~~~~k~slr~~~~~i~h~np~~~~~~~~~~d~cvkn~G~gv~~ei~tre~m 90 (634)
T KOG1818|consen 11 RLIEKATSETLGSGDWEAILEISDMIRSGGVPPKPSLRGIKKRIDHENPNVQLFTLKLTDHCVKNCGHGVHCEIATREFM 90 (634)
T ss_pred hhhhhhhhhhhcCcchhhhhhHHHHHHhcCCCCchhHHHHHHHHhccCCCcccchhhhHHHHHhcCCcchhHHHHHHHHH
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhcC-CCHhHHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHcCCCCCCCCCCC
Q 014410 84 PILVKIVKKK-SDLPVRERIFLLLDATQTSLGGASGKFPQYYTAYYELVSAGVQFPQRPRTI 144 (425)
Q Consensus 84 ~~L~klv~~k-~~~~Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~Gv~FP~~~~~~ 144 (425)
+.|..++... .+..|+.|++.+++.|+.+|... +.+..+.++|+.|+..|+.||..+...
T Consensus 91 ~~~~~~l~~~~~~e~v~~~~l~~~q~wa~af~~~-~~~~~v~~t~~~lk~~g~~Fpe~~e~d 151 (634)
T KOG1818|consen 91 DLLKSLLESQRIHEEVKNKILELIQNWAAAFRNS-SKYSYVLDTYQKLKGGGHVFPELDEND 151 (634)
T ss_pred HHHHhhhccccccchHHHHHHHHHHHHHHHccCc-hHHHHHHHHHHHHhcCCccccccccch
Confidence 9999999864 88899999999999999999776 689999999999999999999987753
No 13
>PF03127 GAT: GAT domain; InterPro: IPR004152 The GAT domain is responsible for binding of GGA proteins to several members of the ARF family including ARF1 [] and ARF3. The GAT domain stabilises membrane bound ARF1 in its GTP bound state, by interfering with GAP proteins [].; GO: 0006886 intracellular protein transport, 0005622 intracellular; PDB: 1YD8_H 1WR6_C 1WRD_A 1O3X_A 1J2J_B 1NWM_X 1X79_A 1OXZ_A 1NAF_A.
Probab=99.81 E-value=1e-19 Score=153.63 Aligned_cols=89 Identities=22% Similarity=0.430 Sum_probs=81.2
Q ss_pred ChHHHHHHHHHHHHHHHHHHhhCCCCCCCCcchHHHHHHHHHHHHHHHHHHHhhccCcHHHHHHHHHhhHHHHHHHHHHH
Q 014410 184 ESSIIQKASNALEVLKDVLDAVGTQNPEGAKDEFTLDLVEQCSFQKQRVMHLVMTSRDEKVVSQAIDLNEQLQNVLARHD 263 (425)
Q Consensus 184 ~~~ele~~~~~~~LL~EML~~~~p~~~~~~d~Eli~EL~~~Cr~~q~rI~~lI~~v~dEelL~~LL~~NDeL~~aL~rYe 263 (425)
..++|+++++++.||+|||+.++|++....++++++|||.+||+||++|++||+.+.|+++|++||++||+|++||.+|+
T Consensus 9 ~~~~l~~v~~~~~lL~emL~~~~~~~~~~~~~el~~eL~~~ck~~r~~i~~li~~~~dee~l~~lL~~ND~L~~~l~~Y~ 88 (100)
T PF03127_consen 9 RRSELEKVKNNAKLLNEMLDNYDPGEESSSDNELIQELYESCKSMRPRIQRLIEEVEDEELLGELLQANDELNQALERYD 88 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTTTTTSTHHHHHHHHHHHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCCCCccchHHHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHHHHHHHHHHHH
Confidence 34689999999999999999999998777677999999999999999999999999988899999999999999999999
Q ss_pred hhhhcCccc
Q 014410 264 VLLSERSTS 272 (425)
Q Consensus 264 ~l~~g~~~~ 272 (425)
++.+|+...
T Consensus 89 ~l~~~~~~~ 97 (100)
T PF03127_consen 89 RLVKGQQRG 97 (100)
T ss_dssp HHHCCC---
T ss_pred HHHcCcccc
Confidence 999997653
No 14
>cd03572 ENTH_epsin_related ENTH domain, Epsin Related family; composed of hypothetical proteins containing an ENTH-like domain. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. ENTH and ANTH (E/ANTH) domains are structurally similar to the VHS domain and are composed of a superhelix of eight alpha helices. E/ANTH domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membranes. ENTH domains also function in the development of membrane curvature through lipid remodeling during the formation of clathrin-coated vesicles. E/ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the t
Probab=98.03 E-value=6.6e-05 Score=65.92 Aligned_cols=106 Identities=20% Similarity=0.225 Sum_probs=83.2
Q ss_pred ChhHHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhccc
Q 014410 1 MATELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDT 80 (425)
Q Consensus 1 ~a~~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~ 80 (425)
|--.+|.+||++.-..+--...-|||.+...+.....+++..|-|||++++++|-+-||.||+.|+.++...|.+.+-..
T Consensus 1 ~~~~ll~~ATsdd~~p~pgy~~~Eia~~t~~s~~~~~ei~d~L~kRL~~~~~hVK~K~Lrilk~l~~~G~~~f~~~~~~~ 80 (122)
T cd03572 1 MRRSLLSKATSDDDEPTPGYLYEEIAKLTRKSVGSCQELLEYLLKRLKRSSPHVKLKVLKIIKHLCEKGNSDFKRELQRN 80 (122)
T ss_pred CcHHHHHHHhcCCCCCCchHHHHHHHHHHHcCHHHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHHhhCCHHHHHHHHHh
Confidence 34568999999888777777788999999998889999999999999999999999999999999999998998877544
Q ss_pred chHHHHHHHhhcC--CC--------HhHHHHHHHHHHH
Q 014410 81 GILPILVKIVKKK--SD--------LPVRERIFLLLDA 108 (425)
Q Consensus 81 ~FL~~L~klv~~k--~~--------~~Vk~KiL~Ll~~ 108 (425)
...++.+..=+ .| ..||....+++..
T Consensus 81 --~~~Ik~~~~f~g~~Dp~~Gd~~~~~VR~~A~El~~~ 116 (122)
T cd03572 81 --SAQIRECANYKGPPDPLKGDSLNEKVREEAQELIKA 116 (122)
T ss_pred --HHHHHHHHHcCCCCCcccCcchhHHHHHHHHHHHHH
Confidence 23333333211 12 2377777777654
No 15
>PF01417 ENTH: ENTH domain; InterPro: IPR001026 The ENTH (Epsin N-terminal homology) domain is approximately 150 amino acids in length and is always found located at the N-termini of proteins. The domain forms a compact globular structure, composed of 9 alpha-helices connected by loops of varying length. The general topology is determined by three helical hairpins that are stacked consecutively with a right hand twist []. An N-terminal helix folds back, forming a deep basic groove that forms the binding pocket for the Ins(1,4,5)P3 ligand []. The ligand is coordinated by residues from surrounding alpha-helices and all three phosphates are multiply coordinated. The coordination of Ins(1,4,5)P3 suggests that ENTH is specific for particular head groups. Proteins containing this domain have been found to bind PtdIns(4,5)P2 and PtdIns(1,4,5)P3 suggesting that the domain may be a membrane interacting module. The main function of proteins containing this domain appears to be to act as accessory clathrin adaptors in endocytosis, Epsin is able to recruit and promote clathrin polymerisation on a lipid monolayer, but may have additional roles in signalling and actin regulation []. Epsin causes a strong degree of membrane curvature and tubulation, even fragmentation of membranes with a high PtdIns(4,5)P2 content. Epsin binding to membranes facilitates their deformation by insertion of the N-terminal helix into the outer leaflet of the bilayer, pushing the head groups apart. This would reduce the energy needed to curve the membrane into a vesicle, making it easier for the clathrin cage to fix and stabilise the curved membrane. This points to a pioneering role for epsin in vesicle budding as it provides both a driving force and a link between membrane invagination and clathrin polymerisation. ; PDB: 1H0A_A 1EYH_A 1EDU_A 2QY7_B 1XGW_A 2V8S_E 1VDY_A 2DCP_A 1INZ_A 3ONL_B ....
Probab=98.00 E-value=5e-05 Score=66.41 Aligned_cols=104 Identities=23% Similarity=0.227 Sum_probs=75.8
Q ss_pred hhHHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHHhcchhhhhHhhc
Q 014410 2 ATELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRL---GSKNTNVQLYAVMLLEMLMNNIGDHIHKLVI 78 (425)
Q Consensus 2 a~~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL---~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIa 78 (425)
++.+|.+||+..--.+.-....+||..-... ......+..|.||| ..+++++.+-||.||+.|++||...|-..+-
T Consensus 4 ~e~~v~eAT~~d~~gp~~~~l~eIa~~t~~~-~~~~~I~~~l~kRL~~~~~k~wr~~~KaL~ll~yLl~nG~~~~~~~~~ 82 (125)
T PF01417_consen 4 LELKVREATSNDPWGPPGKLLAEIAQLTYNS-KDCQEIMDVLWKRLSKSDGKNWRHVYKALTLLEYLLKNGSERFVDELR 82 (125)
T ss_dssp HHHHHHHHTSSSSSS--HHHHHHHHHHTTSC-HHHHHHHHHHHHHHHSSTSSGHHHHHHHHHHHHHHHHHS-HHHHHHHH
T ss_pred HHHHHHHHcCCCCCCcCHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHHHHCCHHHHHHHH
Confidence 4678999999776666666777777766555 78999999999999 7889999999999999999999999988883
Q ss_pred ccchHHHHHHHhhcC------CCH--hHHHHHHHHHHH
Q 014410 79 DTGILPILVKIVKKK------SDL--PVRERIFLLLDA 108 (425)
Q Consensus 79 s~~FL~~L~klv~~k------~~~--~Vk~KiL~Ll~~ 108 (425)
+-...+..+..=+ .+. .||+++-+++..
T Consensus 83 --~~~~~I~~l~~f~~~d~~g~d~~~~VR~~A~~i~~l 118 (125)
T PF01417_consen 83 --DHIDIIRELQDFQYVDPKGKDQGQNVREKAKEILEL 118 (125)
T ss_dssp --HTHHHHHGGGG---BBTTSTBHHHHHHHHHHHHHHH
T ss_pred --HHHHHHhhcceeeccCCCCccHHHHHHHHHHHHHHH
Confidence 3344444443211 121 388888777653
No 16
>cd03562 CID CID (CTD-Interacting Domain) domain family; CID is present in several RNA-processing factors such as Pcf11 and Nrd1. Pcf11 is a conserved and essential subunit of the yeast cleavage factor IA, which is required for polyadenylation-dependent 3'-RNA processing and transcription termination. Nrd1 is implicated in polyadenylation-independent 3'-RNA processing. CID binds tightly to the carboxy-terminal domain (CTD) of RNA polymerase (Pol) II. During transcription, Pol II synthesizes eukaryotic messenger RNA. Transcription is coupled to RNA processing through the CTD, which consists of up to 52 repeats of the sequence Tyr 1-Ser 2-Pro 3-Thr 4-Ser 5-Pro 6-Ser 7. CID contains eight alpha-helices in a right-handed superhelical arrangement, which closely resembles that of the VHS domains and ARM (Armadillo) repeat proteins, except for its two amino-terminal helices.
Probab=97.76 E-value=0.00014 Score=62.37 Aligned_cols=94 Identities=18% Similarity=0.359 Sum_probs=73.2
Q ss_pred ChHHHHHHHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHhhcCCCHh
Q 014410 18 DWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIVKKKSDLP 97 (425)
Q Consensus 18 Dw~~ileICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv~~k~~~~ 97 (425)
.-..|-.+...+......+++.+.+|.++|+...|...|.+|-|+|.+++|||.+....+.. .|.+.+..... +.++.
T Consensus 17 S~~~I~~lt~~a~~~~~~a~~iv~~i~~~i~~~~~~~KL~~LYL~dsIvkn~~~~~~~~~~~-~~~~~f~~~~~-~~~~~ 94 (114)
T cd03562 17 SQPSIQTLTKLAIENRKHAKEIVEIIEKHIKKCPPEQKLPLLYLLDSIVKNVGRKYKEFFSE-FLVPLFLDAYE-KVDEK 94 (114)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHHHcccchHHHHHH-HHHHHHHHHHH-hCCHH
Confidence 34455666666666556799999999999999999999999999999999999987765543 22344433333 67899
Q ss_pred HHHHHHHHHHHHHHhh
Q 014410 98 VRERIFLLLDATQTSL 113 (425)
Q Consensus 98 Vk~KiL~Ll~~W~~~~ 113 (425)
+|+|+..|+..|.+.+
T Consensus 95 ~r~kl~rl~~iW~~~~ 110 (114)
T cd03562 95 TRKKLERLLNIWEERF 110 (114)
T ss_pred HHHHHHHHHHHccCCC
Confidence 9999999999998654
No 17
>cd03571 ENTH_epsin ENTH domain, Epsin family; The epsin (Eps15 interactor) N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. ENTH and ANTH (E/ANTH) domains are structurally similar to the VHS domain and are composed of a superhelix of eight alpha helices. E/ANTH domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membranes. ENTH domains also function in the development of membrane curvature through lipid remodeling during the formation of clathrin-coated vesicles. E/ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the trans-Golgi network, which suggests that E/ANTH domains are univ
Probab=97.67 E-value=0.00053 Score=60.32 Aligned_cols=103 Identities=23% Similarity=0.195 Sum_probs=77.5
Q ss_pred hhHHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHhcchhhhhHhhcc
Q 014410 2 ATELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLG--SKNTNVQLYAVMLLEMLMNNIGDHIHKLVID 79 (425)
Q Consensus 2 a~~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~--~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas 79 (425)
++.+|..||+...-+|.-..+-+||+.-.. .....+.+..|.|||. .++.+..+-||+|||.|++|+...|-.++.+
T Consensus 2 ~e~~vreATs~d~wGp~~~~m~eIa~~t~~-~~~~~~Im~~l~kRL~~~~k~WR~vyKaL~lleyLl~nGse~vv~~~r~ 80 (123)
T cd03571 2 AELKVREATSNDPWGPSGTLMAEIARATYN-YVEFQEIMSMLWKRLNDKGKNWRHVYKALTLLEYLLKNGSERVVDDARE 80 (123)
T ss_pred HHHHHHHHcCCCCCCCCHHHHHHHHHHhCC-HHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence 467899999988888888888888887544 4668899999999995 4589999999999999999999988877743
Q ss_pred cchHHHHHHHhh-----cC---CCHhHHHHHHHHHH
Q 014410 80 TGILPILVKIVK-----KK---SDLPVRERIFLLLD 107 (425)
Q Consensus 80 ~~FL~~L~klv~-----~k---~~~~Vk~KiL~Ll~ 107 (425)
.- ..|..+-. .. .-..||+|+-.++.
T Consensus 81 ~~--~~i~~L~~F~~~d~~g~d~G~~VR~ka~~i~~ 114 (123)
T cd03571 81 NL--YIIRTLKDFQYIDENGKDQGINVREKAKEILE 114 (123)
T ss_pred hH--HHHHhhccceeeCCCCCchhHHHHHHHHHHHH
Confidence 32 22333211 11 12358988887775
No 18
>smart00273 ENTH Epsin N-terminal homology (ENTH) domain.
Probab=97.64 E-value=0.00068 Score=59.35 Aligned_cols=76 Identities=18% Similarity=0.141 Sum_probs=67.4
Q ss_pred hhHHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHhcchhhhhHhh
Q 014410 2 ATELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSK-NTNVQLYAVMLLEMLMNNIGDHIHKLV 77 (425)
Q Consensus 2 a~~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~~~-n~~vql~AL~LLe~~VkNCG~~Fh~eI 77 (425)
++..|.+||+.....+.-..+-+|+......+....+.+.+|.+||... |+.+++-||.||+.|++|+.+.|-.++
T Consensus 3 ~e~~V~kAT~~~~~~p~~k~~~~I~~~t~~~~~~~~~i~~~l~~Rl~~~~~w~~v~KsL~llh~ll~~G~~~~~~~~ 79 (127)
T smart00273 3 LEVKVRKATNNDEWGPKGKHLREIIQGTHNEKSSFAEIMAVLWRRLNDTKNWRVVYKALILLHYLLRNGSPRVILEA 79 (127)
T ss_pred HHHHHHHhcCCCCCCcCHHHHHHHHHHHccCHhhHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHhcCCHHHHHHH
Confidence 4568999999999999999999999998877788999999999999655 999999999999999999988775554
No 19
>cd03564 ANTH_AP180_CALM ANTH domain family; composed of adaptor protein 180 (AP180), clathrin assembly lymphoid myeloid leukemia protein (CALM) and similar proteins. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. AP180 and CALM play important roles in clathrin-mediated endocytosis. AP180 is a brain-specific clathrin-binding protein which stimulates clathrin assembly during the recycling of synaptic vesicles. The ANTH domain is structurally similar to the VHS domain and is composed of a superhelix of eight alpha helices. ANTH domains bind both inositol phospholipids and proteins, and contribute to the nucleation and formation of clathrin coats on membranes. ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the trans-Golgi network, which suggests that the ANTH domain is a universal component of the machine
Probab=97.24 E-value=0.002 Score=55.77 Aligned_cols=77 Identities=21% Similarity=0.150 Sum_probs=69.1
Q ss_pred hHHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcc
Q 014410 3 TELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVID 79 (425)
Q Consensus 3 ~~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas 79 (425)
+..|.|||+.....|+-..+-+|......+.....+.+.+|.+|+..+|+.+++-||.||..|++++.+.|..++..
T Consensus 2 ~~aV~kAT~~~~~~pk~k~v~~ii~~t~~~~~~~~~~~~~l~~Rl~~~~w~v~~K~LillH~llr~G~~~~~~~~~~ 78 (117)
T cd03564 2 EKAVKKATSHDEAPPKDKHVRKIIAGTSSSPASIPSFASALSRRLLDRNWVVVLKALILLHRLLREGHPSFLQELLS 78 (117)
T ss_pred chHHHhhcCCCCCCCChHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence 35789999999999999899999888877788999999999999988999999999999999999998887776654
No 20
>KOG2056 consensus Equilibrative nucleoside transporter protein [Nucleotide transport and metabolism]
Probab=97.04 E-value=0.0041 Score=63.14 Aligned_cols=106 Identities=24% Similarity=0.151 Sum_probs=78.0
Q ss_pred hhHHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHhcchhhhhHhhcc
Q 014410 2 ATELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLG--SKNTNVQLYAVMLLEMLMNNIGDHIHKLVID 79 (425)
Q Consensus 2 a~~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~--~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas 79 (425)
|+..|-.||+.-.-+|.-+++.+|++.--. .....+.+-.|.|||+ .+|...++-||+|||.||+|+.++|-.++-.
T Consensus 22 ~e~kVrdAT~nd~wGPs~~lm~eIA~~ty~-~~e~~eIm~vi~kRl~d~gknWR~VyKaLtlleyLl~~GSErv~~~~re 100 (336)
T KOG2056|consen 22 AELKVRDATSNDPWGPSGTLMAEIAQATYN-FVEYQEIMDVLWKRLNDSGKNWRHVYKALTLLEYLLKNGSERVVDETRE 100 (336)
T ss_pred HHHHHHhccccccCCCchHHHHHHHHHhcC-HHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHhcCcHHHHHHHHh
Confidence 456788999998889999999999986443 3568999999999994 7899999999999999999998877776644
Q ss_pred cchHHHHHHHhh----cC--CCHhHHHHHHHHHHH
Q 014410 80 TGILPILVKIVK----KK--SDLPVRERIFLLLDA 108 (425)
Q Consensus 80 ~~FL~~L~klv~----~k--~~~~Vk~KiL~Ll~~ 108 (425)
--++-++.+=+. .. .-..||+|+-+++..
T Consensus 101 n~~~I~tL~~Fq~iD~~G~dqG~nVRkkak~l~~L 135 (336)
T KOG2056|consen 101 NIYTIETLKDFQYIDEDGKDQGLNVRKKAKELLSL 135 (336)
T ss_pred hhHHHHHHhhceeeCCCCccchHHHHHHHHHHHHH
Confidence 333322222111 11 123589988887753
No 21
>smart00582 RPR domain present in proteins, which are involved in regulation of nuclear pre-mRNA.
Probab=95.83 E-value=0.028 Score=48.35 Aligned_cols=89 Identities=13% Similarity=0.208 Sum_probs=61.1
Q ss_pred HHHHHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHhhc---CCCHhH
Q 014410 22 NIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIVKK---KSDLPV 98 (425)
Q Consensus 22 ileICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv~~---k~~~~V 98 (425)
|-.+...+-.....+++.+..|.++++...+...+..|-|++.+++||+.+.-..+ ...|...+..++.. ..++.+
T Consensus 16 I~~lt~~~~~~~~~a~~Iv~~i~~~~~~~~~~~kL~~LYlindIl~n~~~~~~~~f-~~~~~~~~~~~~~~~~~~~~~~~ 94 (121)
T smart00582 16 IQTLTKWAIEHASHAKEIVELWEKYIKKAPPPRKLPLLYLLDSIVQNSKRKYGSEF-GDELGPVFQDALRDVLGAANDET 94 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccceehhHHhHHHHHHHHhhccHHHH-HHHHHHHHHHHHHHHHHhCCHHH
Confidence 33333333333345789999999999877777888899999999999977642222 12344444333332 345789
Q ss_pred HHHHHHHHHHHHH
Q 014410 99 RERIFLLLDATQT 111 (425)
Q Consensus 99 k~KiL~Ll~~W~~ 111 (425)
++|+..++..|.+
T Consensus 95 ~~ki~kll~iW~~ 107 (121)
T smart00582 95 KKKIRRLLNIWEE 107 (121)
T ss_pred HHHHHHHHHHHhc
Confidence 9999999999986
No 22
>KOG0251 consensus Clathrin assembly protein AP180 and related proteins, contain ENTH domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=94.16 E-value=0.13 Score=55.12 Aligned_cols=79 Identities=19% Similarity=0.168 Sum_probs=72.3
Q ss_pred hHHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHhcchhhhhHhhcccc
Q 014410 3 TELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSK-NTNVQLYAVMLLEMLMNNIGDHIHKLVIDTG 81 (425)
Q Consensus 3 ~~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~~~-n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~ 81 (425)
+..|-|||+.....++-..+-.|--.++..+.....++.+|-.||++. |+-|++-||.|+--+++.+-+.|..++....
T Consensus 25 ~~AV~KATsh~~~ppk~k~l~~Il~~ts~~~~~i~~~v~aLs~Rl~~TrnW~VAlKsLIliH~ll~~G~~~f~~~l~~~~ 104 (491)
T KOG0251|consen 25 EKAVVKATSHDDMPPKDKYLDEILSATSSSPASIPSCVHALSERLNKTRNWTVALKALILIHRLLKEGDPSFEQELLSRN 104 (491)
T ss_pred HHHHHhhccCCCCCccHHHHHHHHHHhcCCcccHHHHHHHHHHHhCCCcceeehHHHHHHHHHHHhcCcHHHHHHHHhcc
Confidence 456899999999999999999999999999889999999999999655 9999999999999999999999999887765
No 23
>KOG2374 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.85 E-value=1.1 Score=47.94 Aligned_cols=136 Identities=13% Similarity=0.209 Sum_probs=102.1
Q ss_pred HHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcc--cc
Q 014410 4 ELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVID--TG 81 (425)
Q Consensus 4 ~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas--~~ 81 (425)
.+|+++|...-.+-|--..-+|--+++.+.+...-+.+.|.--+.+....+-+++|-+.+.|.-.. +-|...|.+ .+
T Consensus 10 ~lIeelT~sg~~~~~p~~~k~lkkiv~~sdee~~~~~~~L~~~~~~~h~~vR~l~lqii~elF~rs-~~FR~lii~n~~e 88 (661)
T KOG2374|consen 10 GLIEELTKSGAQEVDPRLLKALKKIVRYSDEEVRLSSQTLMELMRHNHSQVRYLTLQIIDELFMRS-KLFRTLIIENLDE 88 (661)
T ss_pred HHHHHHhhcCCcccChHHHHHHHHHHhccHHHHHHHHHHHHHHHhhcCchHHHHHHHHHHHHHHhh-HHHHHHHHhCHHH
Confidence 589999999999888888888888888888889999999999998888889999999999987665 556555543 13
Q ss_pred hHHHHHHHhhcC---CCH----hHHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHc-CCCCCCCCCC
Q 014410 82 ILPILVKIVKKK---SDL----PVRERIFLLLDATQTSLGGASGKFPQYYTAYYELVSA-GVQFPQRPRT 143 (425)
Q Consensus 82 FL~~L~klv~~k---~~~----~Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~-Gv~FP~~~~~ 143 (425)
||.-+...=... .++ .+|.+.++.|..|...|+. .|..+.-.|..||.. -+.||.....
T Consensus 89 fLeL~~gt~p~~PLP~p~~~a~~Lr~~ai~~~e~Wnekfg~---~yk~l~lg~~~Lk~tkkvdf~d~~a~ 155 (661)
T KOG2374|consen 89 FLELSIGTRPNLPLPAPPAVATTLRSKAIEFLEKWNEKFGF---HYKELRLGFDYLKNTKKVDFPDLQAN 155 (661)
T ss_pred HHHHhhcCCCCCCCCCChHHHHHHHHHHHHHHHHHHHHHhH---HHHHHHHHHHHHhccccccCcchhhH
Confidence 443333221111 112 2788999999999999965 577888888999864 5889876543
No 24
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A.
Probab=91.25 E-value=2.9 Score=32.88 Aligned_cols=84 Identities=23% Similarity=0.220 Sum_probs=64.3
Q ss_pred HHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHH
Q 014410 5 LVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILP 84 (425)
Q Consensus 5 lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~ 84 (425)
|++...+ ++||..-...|..+..- +..+++..|.+-+++.++.++..|+.-|..+ ++.+.+.
T Consensus 4 L~~~l~~----~~~~~vr~~a~~~L~~~--~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~i------------~~~~~~~ 65 (88)
T PF13646_consen 4 LLQLLQN----DPDPQVRAEAARALGEL--GDPEAIPALIELLKDEDPMVRRAAARALGRI------------GDPEAIP 65 (88)
T ss_dssp HHHHHHT----SSSHHHHHHHHHHHHCC--THHHHHHHHHHHHTSSSHHHHHHHHHHHHCC------------HHHHTHH
T ss_pred HHHHHhc----CCCHHHHHHHHHHHHHc--CCHhHHHHHHHHHcCCCHHHHHHHHHHHHHh------------CCHHHHH
Confidence 4444444 78888888888888843 5679999999999999999999998887643 4577888
Q ss_pred HHHHHhhcCCCHhHHHHHHHHH
Q 014410 85 ILVKIVKKKSDLPVRERIFLLL 106 (425)
Q Consensus 85 ~L~klv~~k~~~~Vk~KiL~Ll 106 (425)
.|.+++.+..+..||..+..-|
T Consensus 66 ~L~~~l~~~~~~~vr~~a~~aL 87 (88)
T PF13646_consen 66 ALIKLLQDDDDEVVREAAAEAL 87 (88)
T ss_dssp HHHHHHTC-SSHHHHHHHHHHH
T ss_pred HHHHHHcCCCcHHHHHHHHhhc
Confidence 9999888766667787665543
No 25
>PF07651 ANTH: ANTH domain; InterPro: IPR011417 AP180 is an endocytotic accessory protein that has been implicated in the formation of clathrin-coated pits. The domain is involved in phosphatidylinositol 4,5-bisphosphate binding and is a universal adaptor for nucleation of clathrin coats [, ].; GO: 0005543 phospholipid binding; PDB: 1HX8_A 3ZYM_A 1HFA_A 1HG2_A 3ZYL_B 3ZYK_A 1HG5_A 1HF8_A.
Probab=89.96 E-value=0.9 Score=44.62 Aligned_cols=76 Identities=22% Similarity=0.143 Sum_probs=58.8
Q ss_pred hHHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHhcchhhhhHhhcc
Q 014410 3 TELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSK-NTNVQLYAVMLLEMLMNNIGDHIHKLVID 79 (425)
Q Consensus 3 ~~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~~~-n~~vql~AL~LLe~~VkNCG~~Fh~eIas 79 (425)
+..|-|||+....-|+---+-.|.-.... +.....++.+|.+|+... |+.|++-+|.|+..|+.-+.+.|-.++..
T Consensus 5 ~~av~KAT~~~~~ppk~Khv~~il~~t~~-~~~~~~~~~~l~~Rl~~~~~w~V~~K~Lil~H~llr~G~~~~~~~~~~ 81 (280)
T PF07651_consen 5 EKAVIKATSHDEAPPKEKHVREILSATSS-PESVAFLFWALSRRLPLTRNWIVALKALILLHRLLRDGHPSFLQELLR 81 (280)
T ss_dssp HHHHHHHT-SSS---HHHHHHHHHHHCST-TS-HHHHHHHHHHHCTSS-SHHHHHHHHHHHHHHHHHS-CHHHHHHHH
T ss_pred HHHHHHHcCCCCCCCCHHHHHHHHHHhcC-CccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHcCchHHHHHHHH
Confidence 35689999998888888888777766666 677899999999999765 99999999999999999987777766654
No 26
>KOG2057 consensus Predicted equilibrative nucleoside transporter protein [Nucleotide transport and metabolism]
Probab=89.88 E-value=1.9 Score=43.90 Aligned_cols=101 Identities=14% Similarity=0.092 Sum_probs=62.2
Q ss_pred HHHHHhCCCCCCcChHHHHHHHHHHhcC-CccHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHHHhcchhhhhHhhccc
Q 014410 5 LVNSATSEKLADVDWTKNIEICELVARD-QRHAKDVIKAIKKRLG---SKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDT 80 (425)
Q Consensus 5 lIekATse~l~~~Dw~~ileICD~In~~-~~~akeAvraIrKRL~---~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~ 80 (425)
-|..||++.--.+-=.++-+||+.-... -+.--+....|-.|+- ..+.+.++-+|.||+.|++|+.++|-.+--
T Consensus 27 ~VREATNdDPWGPsG~lMgeIaeaTfmry~EdFpelmnmL~qRMLedNK~~WRRVYKSLiLLaYLikNGSER~VqeAR-- 104 (499)
T KOG2057|consen 27 DVREATNDDPWGPSGPLMGEIAEATFMRYMEDFPELMNMLFQRMLEDNKDAWRRVYKSLILLAYLIKNGSERFVQEAR-- 104 (499)
T ss_pred HHHhhccCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcccHHHHHHHH--
Confidence 3455555333333334566777665542 1234455666666662 445788999999999999999999877653
Q ss_pred chHHHHHHHhhcC--------CCHhHHHHHHHHHH
Q 014410 81 GILPILVKIVKKK--------SDLPVRERIFLLLD 107 (425)
Q Consensus 81 ~FL~~L~klv~~k--------~~~~Vk~KiL~Ll~ 107 (425)
+-.=+|+.|-.-+ .-..+|.|+.++|.
T Consensus 105 Eh~YdLR~LEnYhfiDEhGKDQGINIR~kVKeilE 139 (499)
T KOG2057|consen 105 EHAYDLRRLENYHFIDEHGKDQGINIRHKVKEILE 139 (499)
T ss_pred HHHHHHHhhhhccchhhhCccccccHHHHHHHHHH
Confidence 3333444443322 23458999988884
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=88.12 E-value=6.1 Score=37.15 Aligned_cols=77 Identities=23% Similarity=0.274 Sum_probs=52.1
Q ss_pred HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcch---hhhhHhhcccchHHHHHHHhhcCCCHhHHHHHHHHHHHHHHh
Q 014410 36 AKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIG---DHIHKLVIDTGILPILVKIVKKKSDLPVRERIFLLLDATQTS 112 (425)
Q Consensus 36 akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG---~~Fh~eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll~~W~~~ 112 (425)
++-....|..-++++|+.+-..++..|..++.++| ..+.....-..+...|.+++.+ .++.||+-...++..+...
T Consensus 129 ~~~~~~~l~~~~~~Kn~~vR~~~~~~l~~~l~~~~~~~~~l~~~~~~~~l~~~l~~~l~D-~~~~VR~~Ar~~~~~l~~~ 207 (228)
T PF12348_consen 129 PKILLEILSQGLKSKNPQVREECAEWLAIILEKWGSDSSVLQKSAFLKQLVKALVKLLSD-ADPEVREAARECLWALYSH 207 (228)
T ss_dssp -HHHHHHHHHHTT-S-HHHHHHHHHHHHHHHTT-----GGG--HHHHHHHHHHHHHHHTS-S-HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHccchHhhhcccchHHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHHHH
Confidence 44447888888899999999999999999999999 4443332224455666666665 4688999999988777666
Q ss_pred h
Q 014410 113 L 113 (425)
Q Consensus 113 ~ 113 (425)
|
T Consensus 208 ~ 208 (228)
T PF12348_consen 208 F 208 (228)
T ss_dssp H
T ss_pred C
Confidence 6
No 28
>KOG2160 consensus Armadillo/beta-catenin-like repeat-containing protein [Posttranslational modification, protein turnover, chaperones]
Probab=87.12 E-value=2.4 Score=43.62 Aligned_cols=84 Identities=17% Similarity=0.248 Sum_probs=65.5
Q ss_pred HHHHHHHHHHhcCC-----ccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHhhcCC
Q 014410 20 TKNIEICELVARDQ-----RHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIVKKKS 94 (425)
Q Consensus 20 ~~ileICD~In~~~-----~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv~~k~ 94 (425)
.-++++|+-|..-. .|. ..++. .|++.++.+-.+|..++-+|++|- ++.+.+|....|+..|.++++...
T Consensus 105 d~Le~lve~iDnAndl~~~ggl---~~ll~-~l~~~~~~lR~~Aa~Vigt~~qNN-P~~Qe~v~E~~~L~~Ll~~ls~~~ 179 (342)
T KOG2160|consen 105 DNLEELVEDIDNANDLISLGGL---VPLLG-YLENSDAELRELAARVIGTAVQNN-PKSQEQVIELGALSKLLKILSSDD 179 (342)
T ss_pred HHHHHHHHhhhhHHhHhhccCH---HHHHH-HhcCCcHHHHHHHHHHHHHHHhcC-HHHHHHHHHcccHHHHHHHHccCC
Confidence 34566676555422 233 23333 889999999999999999999998 888999999999999999999767
Q ss_pred CHhHHHHHHHHHHH
Q 014410 95 DLPVRERIFLLLDA 108 (425)
Q Consensus 95 ~~~Vk~KiL~Ll~~ 108 (425)
+..||.|+|.-|-+
T Consensus 180 ~~~~r~kaL~Aiss 193 (342)
T KOG2160|consen 180 PNTVRTKALFAISS 193 (342)
T ss_pred CchHHHHHHHHHHH
Confidence 77799999876644
No 29
>PF12210 Hrs_helical: Hepatocyte growth factor-regulated tyrosine kinase substrate; InterPro: IPR024641 This domain comprises the helical region of hepatocyte growth factor-regulated tyrosine kinase substrate (HRS). It is approximately 100 amino acids in length. Hrs, together with signal transducing adaptor molecule (STAM), forms the ESCRT-0 complex, which sorts ubiquitinated cell surface receptors to lysosomes for degradation []. ; PDB: 3F1I_H.
Probab=85.00 E-value=3 Score=35.15 Aligned_cols=56 Identities=7% Similarity=0.192 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHHHHHHhhCCCCCCCCcchHHHHHHHHHHHHHHHHHHHhhccCcH
Q 014410 187 IIQKASNALEVLKDVLDAVGTQNPEGAKDEFTLDLVEQCSFQKQRVMHLVMTSRDE 242 (425)
Q Consensus 187 ele~~~~~~~LL~EML~~~~p~~~~~~d~Eli~EL~~~Cr~~q~rI~~lI~~v~dE 242 (425)
.+..+++.++++.+=+......+.++..|..++.||.+.-.|.+++++||+..++.
T Consensus 3 f~~~l~~~v~if~nRmksns~RGrsIanDsaVqsLF~~lt~mH~~LL~~i~~~ee~ 58 (96)
T PF12210_consen 3 FCNTLRSSVEIFVNRMKSNSSRGRSIANDSAVQSLFQTLTAMHPQLLKYIQEQEEK 58 (96)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTT--GGG-HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhHhcCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46678899999877665544445568889999999999999999999999876543
No 30
>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=79.82 E-value=6.8 Score=31.92 Aligned_cols=68 Identities=21% Similarity=0.243 Sum_probs=54.9
Q ss_pred HHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHhhcCCCHhHHHHHHHHHH
Q 014410 38 DVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIVKKKSDLPVRERIFLLLD 107 (425)
Q Consensus 38 eAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll~ 107 (425)
.++..|.+-|.+.++.++..|+..|-.+..++.. ....+....++..|.+++... +..|++.++.+|.
T Consensus 49 ~~i~~l~~~l~~~~~~v~~~a~~~L~~l~~~~~~-~~~~~~~~g~l~~l~~~l~~~-~~~~~~~a~~~l~ 116 (120)
T cd00020 49 GGLPALVQLLKSEDEEVVKAALWALRNLAAGPED-NKLIVLEAGGVPKLVNLLDSS-NEDIQKNATGALS 116 (120)
T ss_pred CChHHHHHHHhCCCHHHHHHHHHHHHHHccCcHH-HHHHHHHCCChHHHHHHHhcC-CHHHHHHHHHHHH
Confidence 6677888889999999999999999999998753 334445567899999998865 6788888877764
No 31
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=79.76 E-value=19 Score=33.12 Aligned_cols=87 Identities=13% Similarity=0.149 Sum_probs=69.2
Q ss_pred HHHHHHHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHhhcCCCHhHH
Q 014410 20 TKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIVKKKSDLPVR 99 (425)
Q Consensus 20 ~~ileICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv~~k~~~~Vk 99 (425)
..++-+||+.-.-+.-...-+..|.+.|.++++.|-..||.+|-.|+.+.-.++.. .++..+.+++.+ .++.|+
T Consensus 7 n~i~~l~DL~~r~~~~ve~~~~~l~~~L~D~~~~VR~~al~~Ls~Li~~d~ik~k~-----~l~~~~l~~l~D-~~~~Ir 80 (178)
T PF12717_consen 7 NAIIALGDLCIRYPNLVEPYLPNLYKCLRDEDPLVRKTALLVLSHLILEDMIKVKG-----QLFSRILKLLVD-ENPEIR 80 (178)
T ss_pred HHHHHHHHHHHhCcHHHHhHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCceeehh-----hhhHHHHHHHcC-CCHHHH
Confidence 35677899999888777888999999999999999999999999999987555443 234556666655 477899
Q ss_pred HHHHHHHHHHHHh
Q 014410 100 ERIFLLLDATQTS 112 (425)
Q Consensus 100 ~KiL~Ll~~W~~~ 112 (425)
.-...++..+...
T Consensus 81 ~~A~~~~~e~~~~ 93 (178)
T PF12717_consen 81 SLARSFFSELLKK 93 (178)
T ss_pred HHHHHHHHHHHHh
Confidence 9999888877543
No 32
>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=76.20 E-value=10 Score=28.93 Aligned_cols=53 Identities=19% Similarity=0.208 Sum_probs=33.5
Q ss_pred HHHHHHHHHHhcchhh----hhHhhcccchHHHHHHHhhcCCCHhHHHHHHHHHHHHHH
Q 014410 57 YAVMLLEMLMNNIGDH----IHKLVIDTGILPILVKIVKKKSDLPVRERIFLLLDATQT 111 (425)
Q Consensus 57 ~AL~LLe~~VkNCG~~----Fh~eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll~~W~~ 111 (425)
.-|-|++..++||..+ |-..+ ..+|..+..-+....++++++|+..+|.-|.+
T Consensus 3 ~~lYl~ndI~q~sk~k~~~~f~~~F--~~~l~~~~~~~~~~~~~~~~~kv~rll~iW~~ 59 (64)
T PF04818_consen 3 ALLYLANDILQNSKRKNPDEFAPAF--SPVLPDAFAHAYKNVDPEVRKKVQRLLNIWEE 59 (64)
T ss_dssp HHHHHHHHHHHHHHHHTTHCHHHHH--HCCHHHHHHHHCCCS-HHHHHHHHHHHHHHHH
T ss_pred ceeehHHHHHHHhhhcChHHHHHHH--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhhC
Confidence 3567899999999643 22222 12333333333333488999999999999975
No 33
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A.
Probab=73.36 E-value=16 Score=28.55 Aligned_cols=55 Identities=25% Similarity=0.283 Sum_probs=43.5
Q ss_pred HHHHHHHh-CCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHhhcCCCHhHHHHHHHHHH
Q 014410 40 IKAIKKRL-GSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIVKKKSDLPVRERIFLLLD 107 (425)
Q Consensus 40 vraIrKRL-~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll~ 107 (425)
+..|.+.| +++++.+...|+.+|. ++.+.+.++.|..++++ .++.||..+...|.
T Consensus 1 i~~L~~~l~~~~~~~vr~~a~~~L~------------~~~~~~~~~~L~~~l~d-~~~~vr~~a~~aL~ 56 (88)
T PF13646_consen 1 IPALLQLLQNDPDPQVRAEAARALG------------ELGDPEAIPALIELLKD-EDPMVRRAAARALG 56 (88)
T ss_dssp HHHHHHHHHTSSSHHHHHHHHHHHH------------CCTHHHHHHHHHHHHTS-SSHHHHHHHHHHHH
T ss_pred CHHHHHHHhcCCCHHHHHHHHHHHH------------HcCCHhHHHHHHHHHcC-CCHHHHHHHHHHHH
Confidence 35678888 8999999999888877 34456889999999965 67889998877664
No 34
>PF08167 RIX1: rRNA processing/ribosome biogenesis
Probab=71.46 E-value=47 Score=30.30 Aligned_cols=71 Identities=20% Similarity=0.204 Sum_probs=52.5
Q ss_pred HHHHHHHHHHHh----CCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHhhcCCCHhHHHHHHHHHH
Q 014410 36 AKDVIKAIKKRL----GSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIVKKKSDLPVRERIFLLLD 107 (425)
Q Consensus 36 akeAvraIrKRL----~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll~ 107 (425)
.+.++..++.|| +++++..-+.++.|+...+.+||...-.+-+ ..|+..|.+++.+..++.+++-++..+.
T Consensus 19 ~~~~l~~l~~ri~~LL~s~~~~~rw~G~~Ll~~~~~~~~~e~l~~~~-~~W~~~Ll~~L~~~~~~~~~~~ai~~L~ 93 (165)
T PF08167_consen 19 SKSALHKLVTRINSLLQSKSAYSRWAGLCLLKVTVEQCSWEILLSHG-SQWLRALLSILEKPDPPSVLEAAIITLT 93 (165)
T ss_pred CHHHHHHHHHHHHHHhCCCChhhHHHHHHHHHHHHHHhhHHHHHHHH-HHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence 455666666555 6888999999999999999999654432222 5899999999998766677776655554
No 35
>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=71.40 E-value=24 Score=28.58 Aligned_cols=70 Identities=27% Similarity=0.285 Sum_probs=55.2
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHhhcCCCHhHHHHHHHHHHHHH
Q 014410 39 VIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIVKKKSDLPVRERIFLLLDATQ 110 (425)
Q Consensus 39 AvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll~~W~ 110 (425)
++..|.+-|++.++.+...|+..|..+.++. +.....+.+..++..|.+++... ++.|+..++..+..+.
T Consensus 8 ~i~~l~~~l~~~~~~~~~~a~~~l~~l~~~~-~~~~~~~~~~~~i~~l~~~l~~~-~~~v~~~a~~~L~~l~ 77 (120)
T cd00020 8 GLPALVSLLSSSDENVQREAAWALSNLSAGN-NDNIQAVVEAGGLPALVQLLKSE-DEEVVKAALWALRNLA 77 (120)
T ss_pred ChHHHHHHHHcCCHHHHHHHHHHHHHHhcCC-HHHHHHHHHCCChHHHHHHHhCC-CHHHHHHHHHHHHHHc
Confidence 5777888888889999999999999988875 33344455678999999999874 7789998888886654
No 36
>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=71.32 E-value=23 Score=33.23 Aligned_cols=97 Identities=27% Similarity=0.364 Sum_probs=60.8
Q ss_pred CCCcChHHHHHHH----HHHhcC--CccHHHH---H----HHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhccc
Q 014410 14 LADVDWTKNIEIC----ELVARD--QRHAKDV---I----KAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDT 80 (425)
Q Consensus 14 l~~~Dw~~ileIC----D~In~~--~~~akeA---v----raIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~ 80 (425)
..+.||..-.+-- .+++.. ....... + ..|.+.+.+.+..++..|+.++..|..++|..|...+ .
T Consensus 16 ~~~~~W~~r~~al~~L~~l~~~~~~~~~~~~~~~~l~~~~~~i~~~l~d~Rs~v~~~A~~~l~~l~~~l~~~~~~~~--~ 93 (228)
T PF12348_consen 16 ESESDWEERVEALQKLRSLIKGNAPEDFPPDFVECLRQLLDAIIKQLSDLRSKVSKTACQLLSDLARQLGSHFEPYA--D 93 (228)
T ss_dssp HT-SSHHHHHHHHHHHHHHHHH-B-----HHHHHHHH---HHHHH-S-HH---HHHHHHHHHHHHHHHHGGGGHHHH--H
T ss_pred CCccCHHHHHHHHHHHHHHHHcCCccccHHHHHHHHHHhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhHhHHHHH--H
Confidence 3578999755544 344444 2223333 3 3666888888899999999999999999999987763 4
Q ss_pred chHHHHHHHhhcCCCHhHHHHHHHHHHHHHHhh
Q 014410 81 GILPILVKIVKKKSDLPVRERIFLLLDATQTSL 113 (425)
Q Consensus 81 ~FL~~L~klv~~k~~~~Vk~KiL~Ll~~W~~~~ 113 (425)
.++..|.+.+..+ ...|++.+...|..+-...
T Consensus 94 ~~l~~Ll~~~~~~-~~~i~~~a~~~L~~i~~~~ 125 (228)
T PF12348_consen 94 ILLPPLLKKLGDS-KKFIREAANNALDAIIESC 125 (228)
T ss_dssp HHHHHHHHGGG----HHHHHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHHccc-cHHHHHHHHHHHHHHHHHC
Confidence 6777777777764 3468888888888765544
No 37
>PF11841 DUF3361: Domain of unknown function (DUF3361)
Probab=71.26 E-value=24 Score=32.64 Aligned_cols=70 Identities=19% Similarity=0.279 Sum_probs=54.5
Q ss_pred HHHHHHHHHhC--CCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHhhcCCCHhHHHHHHHHHHHH
Q 014410 38 DVIKAIKKRLG--SKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIVKKKSDLPVRERIFLLLDAT 109 (425)
Q Consensus 38 eAvraIrKRL~--~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll~~W 109 (425)
.-++-|...+. ..+++++.+||.+||.+|.|. ...+..|..+==++.|...+.. ++..++...+.||-+-
T Consensus 58 ~FI~Kia~~Vn~~~~d~~i~q~sLaILEs~Vl~S-~~ly~~V~~evt~~~Li~hLq~-~~~~iq~naiaLinAL 129 (160)
T PF11841_consen 58 SFIKKIASYVNSSAMDASILQRSLAILESIVLNS-PKLYQLVEQEVTLESLIRHLQV-SNQEIQTNAIALINAL 129 (160)
T ss_pred HHHHHHHHHHccccccchHHHHHHHHHHHHHhCC-HHHHHHHhccCCHHHHHHHHHc-CCHHHHHHHHHHHHHH
Confidence 34444555553 236899999999999999986 6667778877777899988887 7888999999999763
No 38
>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=65.85 E-value=84 Score=26.73 Aligned_cols=102 Identities=12% Similarity=0.011 Sum_probs=61.9
Q ss_pred hHHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhCCCCH-----------HHHHHHHHHHHHHHhcchh
Q 014410 3 TELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNT-----------NVQLYAVMLLEMLMNNIGD 71 (425)
Q Consensus 3 ~~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~~~n~-----------~vql~AL~LLe~~VkNCG~ 71 (425)
+.||+..|+.... .|-..+-.+.=.. ..-..+.+.+..|..|.....+ .++.+.+.+|-.-|.|+..
T Consensus 11 ~~Li~~L~~~~~~-~d~~f~~~Fllty-r~F~tp~~ll~~L~~rf~~~~~~~~~~~~~~~~~~~~rv~~~l~~Wv~~~~~ 88 (127)
T smart00229 11 EKLIEHLTEAFDK-ADPFFVETFLLTY-RSFITTQELLQLLLYRYNAIPPESWVERKVNPLRVKNRVLNILRHWVENYWQ 88 (127)
T ss_pred HHHHHHHcCCCcC-CCHHHHHHHHHHh-hhhCCHHHHHHHHHHHhCCCCcHHHHHHHhhHHHHHHHHHHHHHHHHHHCCc
Confidence 5789999987653 3322222222111 2334688888888888865433 3777888889999999987
Q ss_pred hhhHhhcccchHHHHHHHhhcCCCHhHHHHHHHHH
Q 014410 72 HIHKLVIDTGILPILVKIVKKKSDLPVRERIFLLL 106 (425)
Q Consensus 72 ~Fh~eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll 106 (425)
.|.....-..++.++...+.....+...+++..++
T Consensus 89 dF~~~~~l~~~l~~f~~~~~~~~~~~~~~~l~~~~ 123 (127)
T smart00229 89 DFEDDPKLILRLLEFLDLVDQEKGPGLVTSLQELL 123 (127)
T ss_pred ccccCHHHHHHHHHHHHHHhhCcCCCHHHHHHHHH
Confidence 77776544455555555544332334455555554
No 39
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=63.90 E-value=52 Score=37.60 Aligned_cols=26 Identities=12% Similarity=0.151 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHhC-CCCHHHHHHHHHH
Q 014410 36 AKDVIKAIKKRLG-SKNTNVQLYAVML 61 (425)
Q Consensus 36 akeAvraIrKRL~-~~n~~vql~AL~L 61 (425)
--+|+..||--|. ++-..++-++...
T Consensus 158 l~~CleslRVsL~~npVSwvn~Fgveg 184 (1102)
T KOG1924|consen 158 LLECLESLRVSLTSNPVSWVNKFGVEG 184 (1102)
T ss_pred HHHHHHHHhhhhcCCccHHHHHhhhhh
Confidence 4455555655552 3334444444433
No 40
>KOG1293 consensus Proteins containing armadillo/beta-catenin-like repeat [General function prediction only]
Probab=55.66 E-value=43 Score=37.31 Aligned_cols=89 Identities=15% Similarity=0.226 Sum_probs=69.0
Q ss_pred HHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHhhcCCCHhHHHHHHHHHHHHHHhhcCCC
Q 014410 38 DVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIVKKKSDLPVRERIFLLLDATQTSLGGAS 117 (425)
Q Consensus 38 eAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll~~W~~~~~~~~ 117 (425)
-.+..|-+.+....+++--.++-+|.-+|-||...|..+.-++=|.+-|..++.+ .++.|++.++.|++..... -.
T Consensus 461 ngId~l~s~~~~~~~n~r~~~~~~Lr~l~f~~de~~k~~~~~ki~a~~i~~l~nd-~d~~Vqeq~fqllRNl~c~---~~ 536 (678)
T KOG1293|consen 461 NGIDILESMLTDPDFNSRANSLWVLRHLMFNCDEEEKFQLLAKIPANLILDLIND-PDWAVQEQCFQLLRNLTCN---SR 536 (678)
T ss_pred CcHHHHHHHhcCCCchHHHHHHHHHHHHHhcchHHHHHHHHHHhhHHHHHHHHhC-CCHHHHHHHHHHHHHhhcC---cH
Confidence 3477788888899999989999999999999999999999888788888888876 4789999999999876422 11
Q ss_pred CCcchHHHHHHHH
Q 014410 118 GKFPQYYTAYYEL 130 (425)
Q Consensus 118 ~~~~~i~~~Y~~L 130 (425)
.....+.+.|.+.
T Consensus 537 ~svdfll~~~~~~ 549 (678)
T KOG1293|consen 537 KSVDFLLEKFKDV 549 (678)
T ss_pred HHHHHHHHhhhHH
Confidence 1333455555553
No 41
>PF06812 ImpA-rel_N: ImpA-related N-terminal; InterPro: IPR010657 This entry represents a conserved region located towards the N-terminal end of ImpA and related proteins. ImpA is an inner membrane protein, which has been suggested to be involved with proteins that are exported and associated with colony variations in Actinobacillus actinomycetemcomitans []. Note that many members are hypothetical proteins.
Probab=54.93 E-value=52 Score=25.05 Aligned_cols=58 Identities=19% Similarity=0.207 Sum_probs=45.1
Q ss_pred ChHHHHHHHHHHh-cCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhH
Q 014410 18 DWTKNIEICELVA-RDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHK 75 (425)
Q Consensus 18 Dw~~ileICD~In-~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~ 75 (425)
||..+.+.|..+- ...-.-+-|+-.+.-.+......--..+|.+|..|+.+.....|-
T Consensus 1 DW~~v~~~~~~lL~~~sKDlrv~~~l~~a~~~~~g~~gl~~gl~ll~~ll~~~W~~l~P 59 (62)
T PF06812_consen 1 DWDKVEELALELLSEQSKDLRVAVWLTEALLRLEGLAGLAEGLELLADLLENYWDSLHP 59 (62)
T ss_pred CHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHccChhHHHHHHHHHHHHHHHCCcccCC
Confidence 8999999997666 555567778888888886666666667999999999988777663
No 42
>KOG1077 consensus Vesicle coat complex AP-2, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=53.79 E-value=93 Score=35.35 Aligned_cols=83 Identities=23% Similarity=0.227 Sum_probs=61.5
Q ss_pred CcChHHHHHHHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHhhcCCC
Q 014410 16 DVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIVKKKSD 95 (425)
Q Consensus 16 ~~Dw~~ileICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv~~k~~ 95 (425)
++..-+-|-|.=++|.+.+--+.++..||+-|.++|+..+.+||. ||-|-|.+=-. ..|-+.+-||+.....
T Consensus 89 sEKqIGYl~is~L~n~n~dl~klvin~iknDL~srn~~fv~LAL~----~I~niG~re~~----ea~~~DI~KlLvS~~~ 160 (938)
T KOG1077|consen 89 SEKQIGYLFISLLLNENSDLMKLVINSIKNDLSSRNPTFVCLALH----CIANIGSREMA----EAFADDIPKLLVSGSS 160 (938)
T ss_pred cHHHHhHHHHHHHHhcchHHHHHHHHHHHhhhhcCCcHHHHHHHH----HHHhhccHhHH----HHhhhhhHHHHhCCcc
Confidence 444455667788899988889999999999999999999999996 78888865222 3566777788875433
Q ss_pred -HhHHHHH-HHHH
Q 014410 96 -LPVRERI-FLLL 106 (425)
Q Consensus 96 -~~Vk~Ki-L~Ll 106 (425)
.-||+|. |.++
T Consensus 161 ~~~vkqkaALclL 173 (938)
T KOG1077|consen 161 MDYVKQKAALCLL 173 (938)
T ss_pred hHHHHHHHHHHHH
Confidence 3477765 3444
No 43
>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=53.62 E-value=3.2e+02 Score=30.07 Aligned_cols=102 Identities=18% Similarity=0.215 Sum_probs=54.4
Q ss_pred HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhh---cccchH--HHHHHHhhcCCC--HhHHHHHHHHHHH
Q 014410 36 AKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLV---IDTGIL--PILVKIVKKKSD--LPVRERIFLLLDA 108 (425)
Q Consensus 36 akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eI---as~~FL--~~L~klv~~k~~--~~Vk~KiL~Ll~~ 108 (425)
.++--+.+||.|...+ ..=-.|+.-|+..+++-...|..-. .+-+|+ .++..-+...+. ...-++|=.++..
T Consensus 141 l~~~y~~lrk~ll~~~-~~~G~a~~~Le~~L~~ie~~F~~f~~lt~~GD~~~A~eil~~l~~~~~~l~~~~e~IP~l~~~ 219 (560)
T PF06160_consen 141 LKEKYRELRKELLAHS-FSYGPAIEELEKQLENIEEEFSEFEELTENGDYLEAREILEKLKEETDELEEIMEDIPKLYKE 219 (560)
T ss_pred HHHHHHHHHHHHHHhh-hhhchhHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 3444444555552211 2223467778888888777665422 222344 222222221111 0133344444554
Q ss_pred HHHhhcCCCCCcchHHHHHHHHHHcCCCCCCCC
Q 014410 109 TQTSLGGASGKFPQYYTAYYELVSAGVQFPQRP 141 (425)
Q Consensus 109 W~~~~~~~~~~~~~i~~~Y~~Lk~~Gv~FP~~~ 141 (425)
-...| +..+..+...|+.|+.+||.|+..+
T Consensus 220 l~~~~---P~ql~eL~~gy~~m~~~gy~l~~~~ 249 (560)
T PF06160_consen 220 LQKEF---PDQLEELKEGYREMEEEGYYLEHLD 249 (560)
T ss_pred HHHHh---HHHHHHHHHHHHHHHHCCCCCCCCC
Confidence 45445 2367778999999999999998754
No 44
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=48.34 E-value=27 Score=38.33 Aligned_cols=76 Identities=18% Similarity=0.298 Sum_probs=58.3
Q ss_pred CccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHhhcCCCHhHHHHHHHHHHHHH
Q 014410 33 QRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIVKKKSDLPVRERIFLLLDATQ 110 (425)
Q Consensus 33 ~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll~~W~ 110 (425)
.-.++..|-+|-++|..--|..-|.++-+||..+||-|...-..+ ++.+.......+ .+++...|.++..++..|.
T Consensus 35 ~~~a~~iv~~iE~hi~kcpp~~kL~~~y~~dsi~knvg~py~~~f-s~~l~a~f~~~~-~~vd~r~r~~l~~~~~tw~ 110 (579)
T KOG2071|consen 35 LPFAKSIVSAIEAHIAKCPPSQKLPVMYLLDSIVKNVGSPYTTAF-SRNLVATFICAF-TKVDERTRTSLFKLRATWD 110 (579)
T ss_pred ccccHHHHHHHHHHHhhCCcccccchhhhhHHHHhhcCCcchhhh-hhhHHHHHHHHH-hhccccccchhHhhHHhhc
Confidence 345889999999999999999999999999999999999843333 233332222222 2478889999999999998
No 45
>KOG1820 consensus Microtubule-associated protein [Cytoskeleton]
Probab=45.83 E-value=1.5e+02 Score=34.38 Aligned_cols=88 Identities=17% Similarity=0.257 Sum_probs=63.8
Q ss_pred HHHHHHHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHH----HHhhcCCC
Q 014410 20 TKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILV----KIVKKKSD 95 (425)
Q Consensus 20 ~~ileICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~----klv~~k~~ 95 (425)
+.+..+||.|-. ....-...++|---++++||..-..++.+|+-|+++-|.. ...++-++.++ +.+.+ ++
T Consensus 354 d~l~~~~d~~~n-s~~l~~~~~~I~e~lk~knp~~k~~~~~~l~r~~~~~~~~----~~~~~t~~~l~p~~~~~~~D-~~ 427 (815)
T KOG1820|consen 354 DALLKALDAILN-STPLSKMSEAILEALKGKNPQIKGECLLLLDRKLRKLGPK----TVEKETVKTLVPHLIKHIND-TD 427 (815)
T ss_pred HHHHHHHHHHHh-cccHHHHHHHHHHHhcCCChhhHHHHHHHHHHHHhhcCCc----CcchhhHHHHhHHHhhhccC-Cc
Confidence 345677777766 3557788899999999999999999999999999999852 22233333443 33333 57
Q ss_pred HhHHHHHHHHHHHHHHhh
Q 014410 96 LPVRERIFLLLDATQTSL 113 (425)
Q Consensus 96 ~~Vk~KiL~Ll~~W~~~~ 113 (425)
..||.-.++.+-+-..-+
T Consensus 428 ~~VR~Aa~e~~~~v~k~~ 445 (815)
T KOG1820|consen 428 KDVRKAALEAVAAVMKVH 445 (815)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 789998888887666555
No 46
>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=43.10 E-value=99 Score=25.24 Aligned_cols=70 Identities=14% Similarity=0.134 Sum_probs=41.5
Q ss_pred HHHHHHhcchhhhhHhhcccchHH-HHHHHhhcCCCHhHHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHcCC
Q 014410 61 LLEMLMNNIGDHIHKLVIDTGILP-ILVKIVKKKSDLPVRERIFLLLDATQTSLGGASGKFPQYYTAYYELVSAGV 135 (425)
Q Consensus 61 LLe~~VkNCG~~Fh~eIas~~FL~-~L~klv~~k~~~~Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~Gv 135 (425)
..+.+.+|-|..+....-.=.|-+ .|..+-... ...+++++.++|..|....+. -.-+..+..-|+.-|.
T Consensus 4 ~f~~i~~~lG~~Wk~laR~LGlse~~Id~i~~~~-~~~~~eq~~~mL~~W~~~~g~----~At~~~L~~aL~~~~l 74 (86)
T cd08306 4 AFDVICENVGRDWRKLARKLGLSETKIESIEEAH-PRNLREQVRQSLREWKKIKKK----EAKVADLIKALRDCQL 74 (86)
T ss_pred HHHHHHHHHhhhHHHHHHHcCCCHHHHHHHHHHC-CCCHHHHHHHHHHHHHHhHCc----chHHHHHHHHHHHcCc
Confidence 345666676766555443335653 333333333 335999999999999986642 2334555666665543
No 47
>PRK09687 putative lyase; Provisional
Probab=42.94 E-value=1.8e+02 Score=28.91 Aligned_cols=26 Identities=23% Similarity=0.321 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHhCCCCHHHHHHHHHH
Q 014410 36 AKDVIKAIKKRLGSKNTNVQLYAVML 61 (425)
Q Consensus 36 akeAvraIrKRL~~~n~~vql~AL~L 61 (425)
...++.+|.+.|...|+.|...|+.-
T Consensus 190 ~~~~~~~L~~~L~D~~~~VR~~A~~a 215 (280)
T PRK09687 190 NPDIREAFVAMLQDKNEEIRIEAIIG 215 (280)
T ss_pred CHHHHHHHHHHhcCCChHHHHHHHHH
Confidence 34555566666666666655555433
No 48
>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=42.66 E-value=97 Score=25.37 Aligned_cols=69 Identities=16% Similarity=0.180 Sum_probs=40.9
Q ss_pred HHHHhcchhhhhHhhcccchHHHHHHHhhcCCCHhHHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHcCC
Q 014410 63 EMLMNNIGDHIHKLVIDTGILPILVKIVKKKSDLPVRERIFLLLDATQTSLGGASGKFPQYYTAYYELVSAGV 135 (425)
Q Consensus 63 e~~VkNCG~~Fh~eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~Gv 135 (425)
..+..|-|...-..--.=.|-+.=+..++....-.+.++|.++|..|....+. -.-+-.+..-|+.-|+
T Consensus 6 ~~la~~LG~~W~~Lar~Lgls~~~I~~i~~~~p~~l~eQv~~mL~~W~~r~G~----~ATv~~L~~aL~~~~~ 74 (83)
T cd08319 6 NQLAQRLGPEWEQVLLDLGLSQTDIYRCKENHPHNVQSQIVEALVKWRQRFGK----KATVQSLIQSLKAVEV 74 (83)
T ss_pred HHHHHHHhhhHHHHHHHcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHhcCC----CCcHHHHHHHHHHcCC
Confidence 34445555544443222344433333333333346999999999999987743 3346677777877775
No 49
>smart00509 TFS2N Domain in the N-terminus of transcription elongation factor S-II (and elsewhere).
Probab=42.36 E-value=1.7e+02 Score=23.33 Aligned_cols=23 Identities=13% Similarity=0.180 Sum_probs=19.0
Q ss_pred hcCCCHhHHHHHHHHHHHHHHhh
Q 014410 91 KKKSDLPVRERIFLLLDATQTSL 113 (425)
Q Consensus 91 ~~k~~~~Vk~KiL~Ll~~W~~~~ 113 (425)
++..+++|+.....|+..|...+
T Consensus 51 rkh~~~~I~~~A~~Li~~WK~~v 73 (75)
T smart00509 51 RKHKNEEIRKLAKKLIKSWKKLV 73 (75)
T ss_pred HcCCcHHHHHHHHHHHHHHHHHh
Confidence 33468899999999999998755
No 50
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=42.04 E-value=1.1e+02 Score=32.17 Aligned_cols=75 Identities=19% Similarity=0.226 Sum_probs=51.0
Q ss_pred HHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHhhcCCCHhHHHHHHH
Q 014410 25 ICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIVKKKSDLPVRERIFL 104 (425)
Q Consensus 25 ICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv~~k~~~~Vk~KiL~ 104 (425)
+.-....+++-..-++..|+|=|.++|+.++.+||..|-.+. .. +++ ..++..+.+++.. .++-||++++.
T Consensus 66 l~~~~~~~~~~~~l~~n~l~kdl~~~n~~~~~lAL~~l~~i~---~~----~~~-~~l~~~v~~ll~~-~~~~VRk~A~~ 136 (526)
T PF01602_consen 66 LSLYLHEDPELLILIINSLQKDLNSPNPYIRGLALRTLSNIR---TP----EMA-EPLIPDVIKLLSD-PSPYVRKKAAL 136 (526)
T ss_dssp HHHHTTTSHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHH----SH----HHH-HHHHHHHHHHHHS-SSHHHHHHHHH
T ss_pred HHHHhhcchhHHHHHHHHHHHhhcCCCHHHHHHHHhhhhhhc---cc----chh-hHHHHHHHHHhcC-CchHHHHHHHH
Confidence 344445555667889999999999999999999998876653 11 111 3455666666664 35678888776
Q ss_pred HHHH
Q 014410 105 LLDA 108 (425)
Q Consensus 105 Ll~~ 108 (425)
.+..
T Consensus 137 ~l~~ 140 (526)
T PF01602_consen 137 ALLK 140 (526)
T ss_dssp HHHH
T ss_pred HHHH
Confidence 5543
No 51
>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=42.03 E-value=82 Score=25.04 Aligned_cols=27 Identities=19% Similarity=0.241 Sum_probs=20.5
Q ss_pred HHHhhcCCCHhHHHHHHHHHHHHHHhh
Q 014410 87 VKIVKKKSDLPVRERIFLLLDATQTSL 113 (425)
Q Consensus 87 ~klv~~k~~~~Vk~KiL~Ll~~W~~~~ 113 (425)
+.-+.+..++.|+..+..|+..|...+
T Consensus 49 V~~Lrkh~~~~i~~~A~~Lv~~Wk~~v 75 (76)
T cd00183 49 VNSLRKHSNEKIRKLAKALIKSWKKLV 75 (76)
T ss_pred HHHHHcCCcHHHHHHHHHHHHHHHHhc
Confidence 333445566899999999999998643
No 52
>KOG4715 consensus SWI/SNF-related matrix-associated actin-dependent regulator of chromatin [Chromatin structure and dynamics]
Probab=40.34 E-value=1.8e+02 Score=29.85 Aligned_cols=30 Identities=17% Similarity=0.141 Sum_probs=18.7
Q ss_pred cCcHHHHHHHHHhhHHHHHHHHHHHhhhhc
Q 014410 239 SRDEKVVSQAIDLNEQLQNVLARHDVLLSE 268 (425)
Q Consensus 239 v~dEelL~~LL~~NDeL~~aL~rYe~l~~g 268 (425)
++-|.+..++-++-+.+-..++.|+.-...
T Consensus 279 vd~eK~~~~i~q~eeq~rkr~eE~~k~a~~ 308 (410)
T KOG4715|consen 279 VDMEKMAAEIAQAEEQARKRQEEREKEAAE 308 (410)
T ss_pred ccHHHHHHHHHHHHHHHHHhHhHHHhhHhh
Confidence 456666666666666666666666654433
No 53
>KOG1105 consensus Transcription elongation factor TFIIS/Cofactor of enhancer-binding protein Sp1 [Transcription]
Probab=40.18 E-value=1.4e+02 Score=30.45 Aligned_cols=26 Identities=19% Similarity=0.221 Sum_probs=21.8
Q ss_pred HhhcCCCHhHHHHHHHHHHHHHHhhc
Q 014410 89 IVKKKSDLPVRERIFLLLDATQTSLG 114 (425)
Q Consensus 89 lv~~k~~~~Vk~KiL~Ll~~W~~~~~ 114 (425)
++++..++.|+.++..||..|...+.
T Consensus 54 ~~Kk~~n~ev~~~ak~Lik~Wkk~~~ 79 (296)
T KOG1105|consen 54 VLKKHKNEEVRSLAKKLIKSWKKLVD 79 (296)
T ss_pred HHHhCCCHHHHHHHHHHHHHHHHHhh
Confidence 44556889999999999999998773
No 54
>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=40.02 E-value=76 Score=32.22 Aligned_cols=65 Identities=15% Similarity=0.255 Sum_probs=51.2
Q ss_pred HHHHHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHh-cchhhhhHhhcccchH-HHHHHHhhc
Q 014410 22 NIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMN-NIGDHIHKLVIDTGIL-PILVKIVKK 92 (425)
Q Consensus 22 ileICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~Vk-NCG~~Fh~eIas~~FL-~~L~klv~~ 92 (425)
...||..|-... .+.|-+-|.+..+..+.-||.||-.+|. +.|.....-+..++|- ..|.+++..
T Consensus 46 g~~l~~~iL~~~------~k~lyr~L~~~~~~~~~~~LrLL~~iv~f~~g~~a~~v~~~fd~~~~~l~kll~~ 112 (330)
T PF11707_consen 46 GLELIRSILQNH------LKLLYRSLSSSKPSLTNPALRLLTAIVSFDGGALAREVLRSFDFSLKSLPKLLTP 112 (330)
T ss_pred HHHHHHHHHHHH------HHHHHHHhCcCcHHHHHHHHHHHHHHHccCCHHHHHHHHHhcCCchhhHHHHhcc
Confidence 455565554432 7788888888888899999999999999 9988877777888888 678888864
No 55
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=39.50 E-value=98 Score=32.63 Aligned_cols=88 Identities=20% Similarity=0.278 Sum_probs=56.4
Q ss_pred CcChHHHHHHHHHHhcCCccHHH-HHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHhhcCC
Q 014410 16 DVDWTKNIEICELVARDQRHAKD-VIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIVKKKS 94 (425)
Q Consensus 16 ~~Dw~~ileICD~In~~~~~ake-AvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv~~k~ 94 (425)
---...++-++.+.+..++-... .+..|.+-|..+++.++..|+.++..| +.-...+. . .-..+...|.+++ ...
T Consensus 129 ~VRk~A~~~l~~i~~~~p~~~~~~~~~~l~~lL~d~~~~V~~~a~~~l~~i-~~~~~~~~-~-~~~~~~~~L~~~l-~~~ 204 (526)
T PF01602_consen 129 YVRKKAALALLKIYRKDPDLVEDELIPKLKQLLSDKDPSVVSAALSLLSEI-KCNDDSYK-S-LIPKLIRILCQLL-SDP 204 (526)
T ss_dssp HHHHHHHHHHHHHHHHCHCCHHGGHHHHHHHHTTHSSHHHHHHHHHHHHHH-HCTHHHHT-T-HHHHHHHHHHHHH-TCC
T ss_pred HHHHHHHHHHHHHhccCHHHHHHHHHHHHhhhccCCcchhHHHHHHHHHHH-ccCcchhh-h-hHHHHHHHhhhcc-ccc
Confidence 33455678888999888887776 599999999999999999999999999 22222211 0 0112223333333 224
Q ss_pred CHhHHHHHHHHHH
Q 014410 95 DLPVRERIFLLLD 107 (425)
Q Consensus 95 ~~~Vk~KiL~Ll~ 107 (425)
++-++-+++.++.
T Consensus 205 ~~~~q~~il~~l~ 217 (526)
T PF01602_consen 205 DPWLQIKILRLLR 217 (526)
T ss_dssp SHHHHHHHHHHHT
T ss_pred chHHHHHHHHHHH
Confidence 4556666666664
No 56
>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=38.93 E-value=2.3e+02 Score=23.56 Aligned_cols=85 Identities=14% Similarity=0.128 Sum_probs=55.9
Q ss_pred hHHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhCCCC--------------HHHHHHHHHHHHHHHhc
Q 014410 3 TELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKN--------------TNVQLYAVMLLEMLMNN 68 (425)
Q Consensus 3 ~~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~~~n--------------~~vql~AL~LLe~~VkN 68 (425)
.+||+++|+... ..|-..+-.+.-.. ..-..+.+.+..|..|..... ..++.+.+.+|-.-|.|
T Consensus 3 ~~Li~~L~~~~~-~~d~~f~~~FllTy-rsF~s~~~ll~~L~~rf~~~~~~~~~~~~~~~~~~~~~~~~v~~~l~~Wv~~ 80 (122)
T cd06224 3 EALIEHLTSTFD-MPDPSFVSTFLLTY-RSFTTPTELLEKLIERYEIAPPENLEYNDWDKKKSKPIRLRVLNVLRTWVEN 80 (122)
T ss_pred HHHHHHHcCCCc-cccHHHHHHHHHHh-hhhCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 579999999876 22322222222222 233457888899988886432 34788889999999999
Q ss_pred chhhhhHhhcccchHHHHHHHhhc
Q 014410 69 IGDHIHKLVIDTGILPILVKIVKK 92 (425)
Q Consensus 69 CG~~Fh~eIas~~FL~~L~klv~~ 92 (425)
|...|+ .+..++..|...+..
T Consensus 81 ~~~df~---~d~~l~~~l~~F~~~ 101 (122)
T cd06224 81 YPYDFF---DDEELLELLEEFLNR 101 (122)
T ss_pred CCCccc---ccHHHHHHHHHHHHH
Confidence 998886 455556666655543
No 57
>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=38.07 E-value=1.2e+02 Score=24.85 Aligned_cols=67 Identities=15% Similarity=0.123 Sum_probs=36.8
Q ss_pred HHhcchhhhhHhhcccchHHHHHHHhhcCCCHhHHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHcC
Q 014410 65 LMNNIGDHIHKLVIDTGILPILVKIVKKKSDLPVRERIFLLLDATQTSLGGASGKFPQYYTAYYELVSAG 134 (425)
Q Consensus 65 ~VkNCG~~Fh~eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~G 134 (425)
+..|-|.......-.=.|-+.=+..+...+...+++++..+|..|....++. -..+..+.+-|+.-|
T Consensus 8 ia~~LG~~Wk~lar~LGlse~~Id~Ie~~~~~dl~eq~~~mL~~W~~~~~~~---~atv~~L~~AL~~~g 74 (86)
T cd08779 8 IAGRLGLDWQAIGLHLGLSYRELQRIKYNNRDDLDEQIFDMLFSWAQRQAGD---PDAVGKLVTALEESG 74 (86)
T ss_pred HHHHHhHHHHHHHHHcCCCHHHHHHHHHHCccCHHHHHHHHHHHHHHhcCCC---chHHHHHHHHHHHcC
Confidence 3344455443222222333333333333333459999999999999876442 123556666676655
No 58
>KOG2911 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.63 E-value=2.5e+02 Score=30.01 Aligned_cols=99 Identities=18% Similarity=0.295 Sum_probs=55.6
Q ss_pred HHHHHHHHHHHHHHHHhhCCCCCCCCcchHHHHHHHHHHHHHHHHHHHhhccC-cHHHHHHHHHhhHHHHHHHHHHHhhh
Q 014410 188 IQKASNALEVLKDVLDAVGTQNPEGAKDEFTLDLVEQCSFQKQRVMHLVMTSR-DEKVVSQAIDLNEQLQNVLARHDVLL 266 (425)
Q Consensus 188 le~~~~~~~LL~EML~~~~p~~~~~~d~Eli~EL~~~Cr~~q~rI~~lI~~v~-dEelL~~LL~~NDeL~~aL~rYe~l~ 266 (425)
++.....+.-|..||+.++. +.+|..+-+-|..--..=+.|+.+...++ =|++| |+++..+.+|+...
T Consensus 289 ~er~~~~l~~l~~vl~~Id~----s~~nkvvl~AyksGs~alK~il~~~~s~ekVed~L-------dev~et~d~~~EV~ 357 (439)
T KOG2911|consen 289 LERKVSSLNNLETVLSQIDN----SQTNKVVLQAYKSGSEALKAILAQGGSTEKVEDVL-------DEVNETLDRQEEVE 357 (439)
T ss_pred HHHHHHHHHHHHHHHHHHHh----hcccHHHHHHHHHhHHHHHHHHhccCChhhHHHHH-------HHHHHHHhhHHHHH
Confidence 44444455556677777753 33556666666665555556665532222 23333 67888888888654
Q ss_pred hcCccccccccccCCCCCcccCccCCCCCCCCCCCcchhhhHHHHHHHHHhhc
Q 014410 267 SERSTSTANHVNHQDGHLSTRSTTTANHSANHADHAEEEEEEEAEQLSRRMRK 319 (425)
Q Consensus 267 ~g~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~a~r~~~ 319 (425)
..=...+. ++++.+|+|=|.|+.+|..-..+
T Consensus 358 ~~la~~~~----------------------~~~d~~de~lEkEL~~L~~D~~k 388 (439)
T KOG2911|consen 358 DALASYNV----------------------NNIDFEDEDLEKELEDLEADEKK 388 (439)
T ss_pred HHHhcCCC----------------------CCCccchHHHHHHHHHHHhcccc
Confidence 43111111 12245667777889888865544
No 59
>PF06523 DUF1106: Protein of unknown function (DUF1106); InterPro: IPR009490 This family consists of several hypothetical bacterial proteins found in Escherichia coli and Citrobacter rodentium. The function of this family is unknown.
Probab=35.93 E-value=9.1 Score=30.81 Aligned_cols=27 Identities=26% Similarity=0.567 Sum_probs=23.1
Q ss_pred hHHHHHHHHhcCCcccccccccccccc
Q 014410 383 VEREKFFQEKKVDASAAAGHMRGLSLH 409 (425)
Q Consensus 383 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 409 (425)
++|.+||+|..-+-|-+-|..||+-|.
T Consensus 13 g~rrryfeq~e~sfsiicgrlrgiv~t 39 (91)
T PF06523_consen 13 GQRRRYFEQGEHSFSIICGRLRGIVLT 39 (91)
T ss_pred cceeehhhccCeeEEEEeeceeeEEEE
Confidence 579999999877779999999997664
No 60
>PF02985 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT repeat is a tandemly repeated, 37-47 amino acid long module occurring in a number of cytoplasmic proteins, including the four name-giving proteins huntingtin, elongation factor 3 (EF3), the 65 Kd alpha regulatory subunit of protein phosphatase 2A (PP2A) and the yeast PI3-kinase TOR1 []. Arrays of HEAT repeats consists of 3 to 36 units forming a rod-like helical structure and appear to function as protein-protein interaction surfaces. It has been noted that many HEAT repeat-containing proteins are involved in intracellular transport processes. In the crystal structure of PP2A PR65/A [], the HEAT repeats consist of pairs of antiparallel alpha helices [].; GO: 0005515 protein binding; PDB: 3FGA_A 2PF4_C 2IAE_A 2BKU_D 3EA5_B 3ND2_A 2BPT_A 2NYL_A 2NPP_D 2PKG_B ....
Probab=35.80 E-value=96 Score=19.97 Aligned_cols=30 Identities=13% Similarity=0.150 Sum_probs=24.8
Q ss_pred HHHHHHHhCCCCHHHHHHHHHHHHHHHhcc
Q 014410 40 IKAIKKRLGSKNTNVQLYAVMLLEMLMNNI 69 (425)
Q Consensus 40 vraIrKRL~~~n~~vql~AL~LLe~~VkNC 69 (425)
+-.|.+-+++.++.|-..|..-|-.+++.|
T Consensus 2 lp~l~~~l~D~~~~VR~~a~~~l~~i~~~~ 31 (31)
T PF02985_consen 2 LPILLQLLNDPSPEVRQAAAECLGAIAEHC 31 (31)
T ss_dssp HHHHHHHHT-SSHHHHHHHHHHHHHHHHTS
T ss_pred HHHHHHHcCCCCHHHHHHHHHHHHHHHhhC
Confidence 346778889999999999999999988876
No 61
>PF05004 IFRD: Interferon-related developmental regulator (IFRD); InterPro: IPR007701 Interferon-related developmental regulator (IFRD1) is the human homologue of the Rattus norvegicus early response protein PC4 and its murine homologue TIS7 []. The exact function of IFRD1 is unknown but it has been shown that PC4 is necessary for muscle differentiation and that it might have a role in signal transduction. This entry also contains IFRD2 and its murine equivalent SKMc15, which are highly expressed soon after gastrulation and in the hepatic primordium, suggesting an involvement in early hematopoiesis [].
Probab=35.76 E-value=2.4e+02 Score=28.57 Aligned_cols=76 Identities=24% Similarity=0.354 Sum_probs=50.2
Q ss_pred HHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcch--hhhhHhhcccchHHHHHHHhhcCC-CHhHHHHHHHHHHHHHHhh
Q 014410 37 KDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIG--DHIHKLVIDTGILPILVKIVKKKS-DLPVRERIFLLLDATQTSL 113 (425)
Q Consensus 37 keAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG--~~Fh~eIas~~FL~~L~klv~~k~-~~~Vk~KiL~Ll~~W~~~~ 113 (425)
-..+.++.|-|+.+...++.+|+.++-.+.-..| ..-+..+ +.+...|.+++.+.. .+.+|..|+..| ++...+
T Consensus 85 ~tL~~~~~k~lkkg~~~E~~lA~~~l~Ll~ltlg~g~~~~ei~--~~~~~~L~~~l~d~s~~~~~R~~~~~aL-ai~~fv 161 (309)
T PF05004_consen 85 ETLLDALLKSLKKGKSEEQALAARALALLALTLGAGEDSEEIF--EELKPVLKRILTDSSASPKARAACLEAL-AICTFV 161 (309)
T ss_pred HHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhcCCCccHHHHH--HHHHHHHHHHHhCCccchHHHHHHHHHH-HHHHHh
Confidence 3456777788888888999999999999888855 4333222 356677888888653 455767666544 233344
Q ss_pred cC
Q 014410 114 GG 115 (425)
Q Consensus 114 ~~ 115 (425)
++
T Consensus 162 ~~ 163 (309)
T PF05004_consen 162 GG 163 (309)
T ss_pred hc
Confidence 44
No 62
>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=35.05 E-value=1e+02 Score=25.18 Aligned_cols=72 Identities=17% Similarity=0.228 Sum_probs=44.5
Q ss_pred hHHHHHHhCCCCCCcChHHHHHHHHHHhcCCccHHHHHHHHHHHhCCCCH---------------HHHHHHHHHHHHHHh
Q 014410 3 TELVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNT---------------NVQLYAVMLLEMLMN 67 (425)
Q Consensus 3 ~~lIekATse~l~~~Dw~~ileICD~In~~~~~akeAvraIrKRL~~~n~---------------~vql~AL~LLe~~Vk 67 (425)
+.||+++|+..... |- ..++..=+-=..-..+.+.+..|..|.....+ .++++.+.+|-.-|+
T Consensus 8 ~~Li~~L~~~~~~~-d~-~f~~~FllTyr~F~tp~~Ll~~L~~ry~~~~~~~~~~~~~~~~~~~~~i~~rv~~~l~~Wi~ 85 (104)
T PF00618_consen 8 EKLIERLTSSFNSD-DE-EFVDTFLLTYRSFTTPEELLDKLIQRYNIPPPNGLSQDESWDQDSQEPIRLRVLNVLKYWIE 85 (104)
T ss_dssp HHHHHHHCHC-SS--HH-HHHHHHHHHHHHCS-HHHHHHHHHHHHT---SSS-HHHHT-HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhcccccC-CH-HHHHHHHHHhHhhCCHHHHHHHHHHHhcccCCccccccchhhhhhhHHHHHHHHHHHHHHHH
Confidence 67999999873332 22 22222222223445799999999999942211 267788888888888
Q ss_pred cchhhhhHh
Q 014410 68 NIGDHIHKL 76 (425)
Q Consensus 68 NCG~~Fh~e 76 (425)
++...|+..
T Consensus 86 ~~~~df~~~ 94 (104)
T PF00618_consen 86 NYPDDFRDD 94 (104)
T ss_dssp HHCCCCHH-
T ss_pred HChHhhCCC
Confidence 887777664
No 63
>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=34.99 E-value=1.2e+02 Score=24.04 Aligned_cols=35 Identities=20% Similarity=0.072 Sum_probs=25.9
Q ss_pred hHHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHcCC
Q 014410 97 PVRERIFLLLDATQTSLGGASGKFPQYYTAYYELVSAGV 135 (425)
Q Consensus 97 ~Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~Gv 135 (425)
.+++++.+||..|....+. ...+..++..|+..|.
T Consensus 44 ~~~~~~~~lL~~W~~~~g~----~at~~~L~~aL~~~~~ 78 (88)
T smart00005 44 DLAEQSVQLLRLWEQREGK----NATLGTLLEALRKMGR 78 (88)
T ss_pred CHHHHHHHHHHHHHHccch----hhHHHHHHHHHHHcCh
Confidence 5889999999999876632 2456677777777664
No 64
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=33.66 E-value=1e+02 Score=25.45 Aligned_cols=53 Identities=13% Similarity=0.130 Sum_probs=39.8
Q ss_pred hHHHHHHHHHHHHHHHHHHhhCCCCCCCCcchHHHHHHHHHHHHHHHHHHHhhcc
Q 014410 185 SSIIQKASNALEVLKDVLDAVGTQNPEGAKDEFTLDLVEQCSFQKQRVMHLVMTS 239 (425)
Q Consensus 185 ~~ele~~~~~~~LL~EML~~~~p~~~~~~d~Eli~EL~~~Cr~~q~rI~~lI~~v 239 (425)
..++..+.+.++-|+-.|+.+-..+ ..=...+++|.+.+|++|..+.......
T Consensus 25 ~~E~~~ins~LD~Lns~LD~LE~rn--D~l~~~L~~LLesnrq~R~e~~~~~~~~ 77 (83)
T PF03670_consen 25 EEEYAAINSMLDQLNSCLDHLEQRN--DHLHAQLQELLESNRQIRLEFQEQLSKA 77 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh--hHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 4578888899999999998885432 2223457899999999999988766544
No 65
>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=33.59 E-value=1.3e+02 Score=27.03 Aligned_cols=69 Identities=14% Similarity=0.145 Sum_probs=43.8
Q ss_pred HHHHHHHHhcCCccHHHHHHHHHHHhCCCCH---HHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHhh
Q 014410 22 NIEICELVARDQRHAKDVIKAIKKRLGSKNT---NVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIVK 91 (425)
Q Consensus 22 ileICD~In~~~~~akeAvraIrKRL~~~n~---~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv~ 91 (425)
+.=||++.+.+-.........|+.-+...+. ......+.++=+++..||..+... ..+..++.+...+.
T Consensus 100 i~fl~eL~~~~~i~~~~i~~~l~~ll~~~~~~~~~~~~~~ve~l~~lL~~~G~~l~~~-~~~~~~~~~l~~l~ 171 (200)
T smart00543 100 VRFLGELYNFQVLTSKIILELLKELLNDLTKLDPPRSDFSVECLLSLLPTCGKDLERE-KSPKLLDEILERLQ 171 (200)
T ss_pred HHHHHHHHHcccCcHHHHHHHHHHHHhccCCCCCCCcHHHHHHHHHHHHHhhHHHcCc-ccHHHHHHHHHHHH
Confidence 3447888888877777777766666654332 234567778888888999988842 23444544444443
No 66
>COG1059 Thermostable 8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]
Probab=33.28 E-value=1.6e+02 Score=28.19 Aligned_cols=101 Identities=18% Similarity=0.145 Sum_probs=57.8
Q ss_pred CcChHHHHHHHHH-HhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhc-----ccchHHHHHHH
Q 014410 16 DVDWTKNIEICEL-VARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVI-----DTGILPILVKI 89 (425)
Q Consensus 16 ~~Dw~~ileICD~-In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIa-----s~~FL~~L~kl 89 (425)
.++|=.-+-+|=+ .|++..++-.|.+.|.+-+-+.+ ..=|.-..++||.+|+..=+ .++++..+..+
T Consensus 36 ~e~lf~ELsFCILTANsSA~~~~~~q~~lG~gfly~~-------~eEL~e~Lk~~g~Rf~n~raeyIVeaR~~~~~lk~~ 108 (210)
T COG1059 36 KEDLFKELSFCILTANSSATMGLRAQNELGDGFLYLS-------EEELREKLKEVGYRFYNVRAEYIVEAREKFDDLKII 108 (210)
T ss_pred HHHHHHHHHHHhccccchHHHHHHHHHHhccccccCC-------HHHHHHHHHHhcchhcccchHHHHHHHHHHHHHHHH
Confidence 4556555555533 23344444444444444444443 34455666889999996533 46677778888
Q ss_pred hhcCCCHhH-HHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHcCC
Q 014410 90 VKKKSDLPV-RERIFLLLDATQTSLGGASGKFPQYYTAYYELVSAGV 135 (425)
Q Consensus 90 v~~k~~~~V-k~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~Gv 135 (425)
++...++.| |+.+++-|. | =+++++-+.|++-|+
T Consensus 109 v~~~~~~~vaRE~Lv~nik-------G-----iGyKEASHFLRNVG~ 143 (210)
T COG1059 109 VKADENEKVARELLVENIK-------G-----IGYKEASHFLRNVGF 143 (210)
T ss_pred HhcCcchHHHHHHHHHHcc-------c-----ccHHHHHHHHHhcCh
Confidence 875556665 333333221 1 136777788888877
No 67
>PLN03200 cellulose synthase-interactive protein; Provisional
Probab=33.12 E-value=2.2e+02 Score=36.44 Aligned_cols=68 Identities=26% Similarity=0.318 Sum_probs=56.8
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHhhcCCCHhHHHHHHHHHH
Q 014410 39 VIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIVKKKSDLPVRERIFLLLD 107 (425)
Q Consensus 39 AvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll~ 107 (425)
++..|.+-|+++++..|..|..+|-.++.+++. ....|.+...+..|++++...+++.||+.+...|.
T Consensus 190 aVp~LV~LLsS~d~~lQ~eAa~aLa~Lass~ee-~~~aVIeaGaVP~LV~LL~sg~~~~VRE~AA~AL~ 257 (2102)
T PLN03200 190 GVDILVKLLSSGNSDAQANAASLLARLMMAFES-SISKVLDAGAVKQLLKLLGQGNEVSVRAEAAGALE 257 (2102)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHHHHHHHcCChH-HHHHHHHCCCHHHHHHHHccCCChHHHHHHHHHHH
Confidence 677788888999999999999999899999876 45556678899999999987777789998876663
No 68
>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=31.75 E-value=82 Score=22.64 Aligned_cols=52 Identities=21% Similarity=0.288 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHhhcCCCHhHHHHHHHHH
Q 014410 52 TNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIVKKKSDLPVRERIFLLL 106 (425)
Q Consensus 52 ~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll 106 (425)
|.+...|+..|-.+..+|+..+...+ .+.+..|..++.+. +..||......|
T Consensus 1 p~vR~~A~~aLg~l~~~~~~~~~~~~--~~~~~~L~~~L~d~-~~~VR~~A~~aL 52 (55)
T PF13513_consen 1 PRVRRAAAWALGRLAEGCPELLQPYL--PELLPALIPLLQDD-DDSVRAAAAWAL 52 (55)
T ss_dssp HHHHHHHHHHHHCTTTTTHHHHHHHH--HHHHHHHHHHTTSS-SHHHHHHHHHHH
T ss_pred CHHHHHHHHHHhhHhcccHHHHHHHH--HHHHHHHHHHHcCC-CHHHHHHHHHHH
Confidence 45666777777777788877666533 46777777777664 448988775443
No 69
>cd08777 Death_RIP1 Death Domain of Receptor-Interacting Protein 1. Death domain (DD) found in Receptor-Interacting Protein 1 (RIP1) and related proteins. RIP kinases serve as essential sensors of cellular stress. Vertebrates contain several types containing a homologous N-terminal kinase domain and varying C-terminal domains. RIP1 harbors a C-terminal DD, which binds death receptors (DRs) including TNF receptor 1, Fas, TNF-related apoptosis-inducing ligand receptor 1 (TRAILR1), and TRAILR2. It also interacts with other DD-containing adaptor proteins such as TRADD and FADD. RIP1 plays a crucial role in determining a cell's fate, between survival or death, following exposure to stress signals. It is important in the signaling of NF-kappaB and MAPKs, and it links DR-associated signaling to reactive oxygen species (ROS) production. Abnormal RIP1 function may result in ROS accumulation affecting inflammatory responses, innate immunity, stress responses, and cell survival. In general, DDs ar
Probab=31.57 E-value=1.7e+02 Score=23.93 Aligned_cols=70 Identities=13% Similarity=0.147 Sum_probs=42.4
Q ss_pred HHHHHhcchhhhhHhhcccchHHHHHHHhhcCCC-HhHHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHcC
Q 014410 62 LEMLMNNIGDHIHKLVIDTGILPILVKIVKKKSD-LPVRERIFLLLDATQTSLGGASGKFPQYYTAYYELVSAG 134 (425)
Q Consensus 62 Le~~VkNCG~~Fh~eIas~~FL~~L~klv~~k~~-~~Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~G 134 (425)
|+.+..|-|...-...-.=.|-+.=+..+...++ ..+++++.++|..|....+.. -..+..+..-|++-|
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 LDLLRENLGKKWKRCARKLGFTESEIEEIDHDYERDGLKEKVHQMLHKWKMKEGSK---GATVGKLAQALEGCI 75 (86)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHhcccCCHHHHHHHHHHHHHHccCCC---CcHHHHHHHHHHHcc
Confidence 4555677777665544444566444444443333 348999999999999866421 233556666665544
No 70
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=31.54 E-value=3.6e+02 Score=29.11 Aligned_cols=91 Identities=16% Similarity=0.306 Sum_probs=66.8
Q ss_pred ChHHHHHHHHHHhc--CCcc----HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHhh
Q 014410 18 DWTKNIEICELVAR--DQRH----AKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIVK 91 (425)
Q Consensus 18 Dw~~ileICD~In~--~~~~----akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv~ 91 (425)
+-..+..+|+.|.. +... .......|.+=|.|.++.|+.+++..|.-|+.+-+. ....+.+.+++..+..++.
T Consensus 51 ~~e~v~~~~~iL~~~l~~~~~~~l~~~~~~~L~~gL~h~~~~Vr~l~l~~l~~~~~~~~~-~~~~~~~~~l~~~i~~~L~ 129 (503)
T PF10508_consen 51 NREQVELICDILKRLLSALSPDSLLPQYQPFLQRGLTHPSPKVRRLALKQLGRIARHSEG-AAQLLVDNELLPLIIQCLR 129 (503)
T ss_pred ChHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhcCCHH-HHHHhcCccHHHHHHHHHc
Confidence 55556667777664 1111 455667778888999999999999999988877644 5666778888888888886
Q ss_pred cCCCHhHHHHHHHHHHHHH
Q 014410 92 KKSDLPVRERIFLLLDATQ 110 (425)
Q Consensus 92 ~k~~~~Vk~KiL~Ll~~W~ 110 (425)
. .+..|.+.+..+|..-.
T Consensus 130 ~-~d~~Va~~A~~~L~~l~ 147 (503)
T PF10508_consen 130 D-PDLSVAKAAIKALKKLA 147 (503)
T ss_pred C-CcHHHHHHHHHHHHHHh
Confidence 5 46678888888776543
No 71
>KOG4535 consensus HEAT and armadillo repeat-containing protein [General function prediction only]
Probab=30.99 E-value=45 Score=36.24 Aligned_cols=34 Identities=24% Similarity=0.339 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcc
Q 014410 36 AKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNI 69 (425)
Q Consensus 36 akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNC 69 (425)
-.+.+..|||.|+|++++|..-||+||+++|.-.
T Consensus 148 ~~~~~~~ik~~i~~~d~~v~vs~l~~~~~~v~t~ 181 (728)
T KOG4535|consen 148 LTKVWNQIKPYIRHKDVNVRVSSLTLLGAIVSTH 181 (728)
T ss_pred HHHHHHHHHHHhhcCCCChhhHHHHHHHHHHhcC
Confidence 5688999999999999999999999999999754
No 72
>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=30.72 E-value=3.2e+02 Score=22.87 Aligned_cols=51 Identities=14% Similarity=0.238 Sum_probs=34.5
Q ss_pred HHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHhh
Q 014410 40 IKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIVK 91 (425)
Q Consensus 40 vraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv~ 91 (425)
+-.|+-=+.|=++.++.-|+.+||.|+..|+..+-..- -.+.++.+..++.
T Consensus 13 ~~~i~sAMTHi~~~Ir~dsl~~L~~lL~~~p~~~~~~~-~~kil~~f~~ll~ 63 (102)
T PF12333_consen 13 MLYISSAMTHISPDIREDSLKFLDLLLEHAPDELCSGG-WVKILPNFLDLLG 63 (102)
T ss_pred HHHHHHHHHhCCHHHHHhHHHHHHHHHHHCChHhHhhh-HHHHHHHHHHHHC
Confidence 44455556788999999999999999999988721111 1234444555554
No 73
>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=30.36 E-value=1.8e+02 Score=23.36 Aligned_cols=65 Identities=14% Similarity=0.123 Sum_probs=35.1
Q ss_pred HhcchhhhhHhhcccchHHHHHHHhhcCCCHhHHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHcC
Q 014410 66 MNNIGDHIHKLVIDTGILPILVKIVKKKSDLPVRERIFLLLDATQTSLGGASGKFPQYYTAYYELVSAG 134 (425)
Q Consensus 66 VkNCG~~Fh~eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~G 134 (425)
.++-|.........=.|-..=+..+.......+.+++..+|..|+...+. -..+..+...|++-|
T Consensus 11 a~~lG~dW~~LAr~Lg~~~~dI~~i~~~~~~~~~eq~~~mL~~W~~r~g~----~at~~~L~~AL~~i~ 75 (84)
T cd08317 11 SNLLGSDWPQLARELGVSETDIDLIKAENPNSLAQQAQAMLKLWLEREGK----KATGNSLEKALKKIG 75 (84)
T ss_pred HHHHhhHHHHHHHHcCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHhcCC----cchHHHHHHHHHHcC
Confidence 34444444333333344432223333223334789999999999987643 233456666666555
No 74
>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=30.27 E-value=2.3e+02 Score=21.86 Aligned_cols=49 Identities=14% Similarity=0.172 Sum_probs=29.0
Q ss_pred chHHHHHHHhhcCCCHhHHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHcC
Q 014410 81 GILPILVKIVKKKSDLPVRERIFLLLDATQTSLGGASGKFPQYYTAYYELVSAG 134 (425)
Q Consensus 81 ~FL~~L~klv~~k~~~~Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~G 134 (425)
.|-+.-+..+...... +.+++.++|..|....+. -..+..++.-|+.-|
T Consensus 23 g~~~~~i~~i~~~~~~-~~~~~~~~L~~W~~~~~~----~at~~~L~~aL~~~~ 71 (83)
T PF00531_consen 23 GLSESEIENIEEENPD-LREQTYEMLQRWRQREGP----NATVDQLIQALRDIG 71 (83)
T ss_dssp TS-HHHHHHHHHHSTS-HHHHHHHHHHHHHHHHGS----TSSHHHHHHHHHHTT
T ss_pred CcCHHHHHHHHHhCCC-hHHHHHHHHHHHHHhcCC----CCcHHHHHHHHHHCC
Confidence 4543333333333333 899999999999988432 233556666666554
No 75
>PF11698 V-ATPase_H_C: V-ATPase subunit H; InterPro: IPR011987 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents the C-terminal domain of subunit H (also known as Vma13p) found in the V1 complex of V-ATPases. This subunit has a regulatory function, being responsible for activating ATPase activity and coupling ATPase activity to proton flow []. The yeast enzyme contains five motifs similar to the HEAT or Armadillo repeats seen in the importins, and can be divided into two distinct domains: a large N-terminal domain consisting of stacked alpha helices, and a smaller C-terminal alpha-helical domain with a similar superhelical topology to an armadillo repeat []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=30.05 E-value=2.1e+02 Score=25.22 Aligned_cols=72 Identities=15% Similarity=0.209 Sum_probs=41.6
Q ss_pred cHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHHhcchhhhhHhhc-ccchHHHHHHHhhcCCCHhHHHHHHHHHHHH
Q 014410 35 HAKDVIKAIKKRL-GSKNTNVQLYAVMLLEMLMNNIGDHIHKLVI-DTGILPILVKIVKKKSDLPVRERIFLLLDAT 109 (425)
Q Consensus 35 ~akeAvraIrKRL-~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIa-s~~FL~~L~klv~~k~~~~Vk~KiL~Ll~~W 109 (425)
+--+.+|.|.+-| .+.++.+.--|..=|-.+|+.... -+.|. .-..-..+..++. ..|++||...|..++.+
T Consensus 40 ~~~~llk~L~~lL~~s~d~~~laVac~Dig~~vr~~p~--gr~ii~~lg~K~~vM~Lm~-h~d~eVr~eAL~avQkl 113 (119)
T PF11698_consen 40 NNFELLKKLIKLLDKSDDPTTLAVACHDIGEFVRHYPN--GRNIIEKLGAKERVMELMN-HEDPEVRYEALLAVQKL 113 (119)
T ss_dssp GGGHHHHHHHHHH-SHHHHHHHHHHHHHHHHHHHH-GG--GHHHHHHHSHHHHHHHHTS--SSHHHHHHHHHHHHHH
T ss_pred cccHHHHHHHHHHccCCCcceeehhhcchHHHHHHChh--HHHHHHhcChHHHHHHHhc-CCCHHHHHHHHHHHHHH
Confidence 3445677777777 445565555566666677777622 22222 2222233344444 36889999999988765
No 76
>KOG3192 consensus Mitochondrial J-type chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=30.02 E-value=1.3e+02 Score=27.86 Aligned_cols=19 Identities=11% Similarity=0.406 Sum_probs=13.2
Q ss_pred CcHHHHHHHHHhhHHHHHH
Q 014410 240 RDEKVVSQAIDLNEQLQNV 258 (425)
Q Consensus 240 ~dEelL~~LL~~NDeL~~a 258 (425)
+|.++|.++|+++|+|.+.
T Consensus 93 tDpe~Lmevle~~E~IS~~ 111 (168)
T KOG3192|consen 93 TDPEFLMEVLEYHEAISEM 111 (168)
T ss_pred cCHHHHHHHHHHHHHHHhc
Confidence 4777777777777776643
No 77
>PF14726 RTTN_N: Rotatin, an armadillo repeat protein, centriole functioning
Probab=29.88 E-value=2.7e+02 Score=23.57 Aligned_cols=69 Identities=14% Similarity=0.120 Sum_probs=53.8
Q ss_pred cHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcc-hhhhhHhhcccchHHHHHHHhhcCCCHhHHHHHHHHHH
Q 014410 35 HAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNI-GDHIHKLVIDTGILPILVKIVKKKSDLPVRERIFLLLD 107 (425)
Q Consensus 35 ~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNC-G~~Fh~eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll~ 107 (425)
.++.-.+.|-.=+++..+-.+-.+|.||-.+++.- |...-..++..+|+..|++. .++..+.+|-++++
T Consensus 27 ~~~~Ll~~LleWFnf~~~~~~~~VL~Ll~~L~~~~~a~~~l~~iG~~~fL~klr~~----~~~~~~~~id~il~ 96 (98)
T PF14726_consen 27 KERLLLKQLLEWFNFPPVPMKEEVLALLLRLLKSPYAAQILRDIGAVRFLSKLRPN----VEPNLQAEIDEILD 96 (98)
T ss_pred cHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHhCcHHHHHHHHccHHHHHHHHHhc----CCHHHHHHHHHHHh
Confidence 36677777777778888778889999999999998 77888899999998888854 34556666666654
No 78
>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=29.77 E-value=3e+02 Score=24.50 Aligned_cols=86 Identities=14% Similarity=0.090 Sum_probs=49.7
Q ss_pred HHHHHHHHhcCCccHHHHHHHHHHHhCCCCH----HHHHHHHHHHHHHHhcchhhhhHhhcccc----hHHHHHHHhhc-
Q 014410 22 NIEICELVARDQRHAKDVIKAIKKRLGSKNT----NVQLYAVMLLEMLMNNIGDHIHKLVIDTG----ILPILVKIVKK- 92 (425)
Q Consensus 22 ileICD~In~~~~~akeAvraIrKRL~~~n~----~vql~AL~LLe~~VkNCG~~Fh~eIas~~----FL~~L~klv~~- 92 (425)
+.=||++.+..-...+.....|+.=|..... ......+.++=.++++||..+...=..+. |+..+...+..
T Consensus 107 ~~fl~eL~~~~vv~~~~i~~~l~~ll~~~~~~~~~~~~~~~ie~~~~lL~~~G~~l~~~~~~~~~l~~~~~~~~~~~~~~ 186 (209)
T PF02854_consen 107 IRFLAELFNFGVVSEKIIFDILRELLSDGTDECQPPPDEENIECLCTLLKTCGKKLENSEESPKALDEIFERLQKYANSK 186 (209)
T ss_dssp HHHHHHHHHTTSSCHHHHHHHHHHHHHHTSHHCCHHTCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHC
T ss_pred hhHHHhhHhhccccchhHHHHHHHHHhcccccccCCCcHhHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHHHhh
Confidence 3447888888766666555555555544433 34455667777778889998882222233 44444444443
Q ss_pred ---CCCHhHHHHHHHHHH
Q 014410 93 ---KSDLPVRERIFLLLD 107 (425)
Q Consensus 93 ---k~~~~Vk~KiL~Ll~ 107 (425)
..++.++-.+..+++
T Consensus 187 ~~~~~~~r~~~~l~~l~~ 204 (209)
T PF02854_consen 187 KDPNLSSRIRFMLEDLIE 204 (209)
T ss_dssp HSSSSSHHHHHHHHHHHH
T ss_pred cccCCCHHHHHHHHHHHH
Confidence 244556665555553
No 79
>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=29.21 E-value=45 Score=25.06 Aligned_cols=31 Identities=23% Similarity=0.248 Sum_probs=17.4
Q ss_pred HHHHHHhcchhh-hhHhhcccchHHHHHHHhh
Q 014410 61 LLEMLMNNIGDH-IHKLVIDTGILPILVKIVK 91 (425)
Q Consensus 61 LLe~~VkNCG~~-Fh~eIas~~FL~~L~klv~ 91 (425)
=||.+|.|||.- ...+=+...+-+++.+++.
T Consensus 6 sld~lv~~cg~IrarleE~qa~i~~e~~~l~~ 37 (51)
T PF07197_consen 6 SLDLLVVDCGSIRARLEEIQAQIPDELAKLAT 37 (51)
T ss_pred hHHHHHhccchHHHHHHHHHHHhhHHHHHhcC
Confidence 378999999972 1222223344455555554
No 80
>PF14523 Syntaxin_2: Syntaxin-like protein; PDB: 2DNX_A.
Probab=29.12 E-value=3.2e+02 Score=22.26 Aligned_cols=80 Identities=16% Similarity=0.245 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhCCCCCCCCc--chHHHHHHHHHHHHHHHHHHHhhcc--------CcHHHHHHHHHhhHHH
Q 014410 186 SIIQKASNALEVLKDVLDAVGTQNPEGAK--DEFTLDLVEQCSFQKQRVMHLVMTS--------RDEKVVSQAIDLNEQL 255 (425)
Q Consensus 186 ~ele~~~~~~~LL~EML~~~~p~~~~~~d--~Eli~EL~~~Cr~~q~rI~~lI~~v--------~dEelL~~LL~~NDeL 255 (425)
..|..+.+++..|..++..+.. +.... -+-+.++...|..+-..+-+.|... .+-..-...=.+..++
T Consensus 3 ~~l~~in~~v~~l~k~~~~lGt--~~Ds~~lR~~i~~~~~~~~~l~k~~~~~l~~l~~~~~~~~~~~~~k~~~~KL~~df 80 (102)
T PF14523_consen 3 SNLFKINQNVSQLEKLVNQLGT--PRDSQELREKIHQLIQKTNQLIKEISELLKKLNSLSSDRSNDRQQKLQREKLSRDF 80 (102)
T ss_dssp HHHHHHHHHHHHHHHHHHHH-S--SS--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSH----HHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHhCC--ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHH
Confidence 4577888999999999988852 21111 1224555666665555555444421 1222334445567778
Q ss_pred HHHHHHHHhhhh
Q 014410 256 QNVLARHDVLLS 267 (425)
Q Consensus 256 ~~aL~rYe~l~~ 267 (425)
..+|..|+...+
T Consensus 81 ~~~l~~fq~~q~ 92 (102)
T PF14523_consen 81 KEALQEFQKAQR 92 (102)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 888888876543
No 81
>PTZ00429 beta-adaptin; Provisional
Probab=28.60 E-value=3.3e+02 Score=31.23 Aligned_cols=75 Identities=19% Similarity=0.263 Sum_probs=44.1
Q ss_pred HHHHHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHH-HHhhcCCCHhHHH
Q 014410 22 NIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILV-KIVKKKSDLPVRE 100 (425)
Q Consensus 22 ileICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~-klv~~k~~~~Vk~ 100 (425)
+-|+|+.|.. +.+.++.+-+++...++.||+..|+..--|.-++.... +..+..+. .+.....++.||+
T Consensus 466 LGEy~~~I~~----a~~~L~~~i~~f~~E~~~VqlqlLta~vKlfl~~p~~~------~~~l~~vL~~~t~~~~d~DVRD 535 (746)
T PTZ00429 466 LGEYCDFIEN----GKDIIQRFIDTIMEHEQRVQLAILSAAVKMFLRDPQGM------EPQLNRVLETVTTHSDDPDVRD 535 (746)
T ss_pred HHhhHhhHhh----HHHHHHHHHhhhccCCHHHHHHHHHHHHHHHhcCcHHH------HHHHHHHHHHHHhcCCChhHHH
Confidence 4566666632 44566555566666778888888877665555553322 22333333 3334457778888
Q ss_pred HHHHHH
Q 014410 101 RIFLLL 106 (425)
Q Consensus 101 KiL~Ll 106 (425)
|.+.+.
T Consensus 536 RA~~Y~ 541 (746)
T PTZ00429 536 RAFAYW 541 (746)
T ss_pred HHHHHH
Confidence 886443
No 82
>KOG1077 consensus Vesicle coat complex AP-2, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=28.47 E-value=1.4e+02 Score=33.92 Aligned_cols=73 Identities=16% Similarity=0.229 Sum_probs=50.3
Q ss_pred CccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHhhcCCCHhHHHHHHHHHHHH
Q 014410 33 QRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIVKKKSDLPVRERIFLLLDAT 109 (425)
Q Consensus 33 ~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll~~W 109 (425)
++.-.-|+.+|.+-|.++-.+.-++||.-+-.| |...|-...-++. .+.+...++...|..||+|++.|+.+.
T Consensus 324 ~~ll~~~~~~Lg~fls~rE~NiRYLaLEsm~~L---~ss~~s~davK~h-~d~Ii~sLkterDvSirrravDLLY~m 396 (938)
T KOG1077|consen 324 PELLSRAVNQLGQFLSHRETNIRYLALESMCKL---ASSEFSIDAVKKH-QDTIINSLKTERDVSIRRRAVDLLYAM 396 (938)
T ss_pred HHHHHHHHHHHHHHhhcccccchhhhHHHHHHH---HhccchHHHHHHH-HHHHHHHhccccchHHHHHHHHHHHHH
Confidence 344677888999999999999999988654443 3334444444434 666677776556777888888887543
No 83
>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=28.45 E-value=2.2e+02 Score=23.42 Aligned_cols=68 Identities=15% Similarity=0.111 Sum_probs=44.7
Q ss_pred HHHHHhcchhhhhHhhcccchHH-HHHHHhhcCCCHhHHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHcC
Q 014410 62 LEMLMNNIGDHIHKLVIDTGILP-ILVKIVKKKSDLPVRERIFLLLDATQTSLGGASGKFPQYYTAYYELVSAG 134 (425)
Q Consensus 62 Le~~VkNCG~~Fh~eIas~~FL~-~L~klv~~k~~~~Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~G 134 (425)
++.+.+|-|.........-.|-+ .+..|-.. +.-.+.+++..+|..|....+ ....+..++.-|++-|
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-NPNSLLEQSTALLNLWVDREG----ENAKMSPLYPALYSID 75 (84)
T ss_pred HHHHHHHhcchHHHHHHHcCCCHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhcC----ccchHHHHHHHHHHCC
Confidence 45556777777766665556664 44444433 333599999999999998764 3345667777777655
No 84
>KOG1242 consensus Protein containing adaptin N-terminal region [Translation, ribosomal structure and biogenesis]
Probab=28.34 E-value=3.4e+02 Score=30.14 Aligned_cols=104 Identities=15% Similarity=0.169 Sum_probs=67.0
Q ss_pred HHHhcCCccHHHHHHHHHHHhC-CC---------------CHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHh
Q 014410 27 ELVARDQRHAKDVIKAIKKRLG-SK---------------NTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIV 90 (425)
Q Consensus 27 D~In~~~~~akeAvraIrKRL~-~~---------------n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv 90 (425)
|.++.-...+.+|+++|...+. ++ .++.-.-+|.+|. ||-=| .+++...+-.+.+-.|..++
T Consensus 227 d~~~~Vr~Aa~~a~kai~~~~~~~aVK~llpsll~~l~~~kWrtK~aslellg-~m~~~-ap~qLs~~lp~iiP~lsevl 304 (569)
T KOG1242|consen 227 DKINKVREAAVEAAKAIMRCLSAYAVKLLLPSLLGSLLEAKWRTKMASLELLG-AMADC-APKQLSLCLPDLIPVLSEVL 304 (569)
T ss_pred ccchhhhHHHHHHHHHHHHhcCcchhhHhhhhhHHHHHHHhhhhHHHHHHHHH-HHHHh-chHHHHHHHhHhhHHHHHHH
Confidence 4444445578899999988773 22 2345566788888 55556 45666666566666666666
Q ss_pred hcCCCHhHHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHcCCCCCC
Q 014410 91 KKKSDLPVRERIFLLLDATQTSLGGASGKFPQYYTAYYELVSAGVQFPQ 139 (425)
Q Consensus 91 ~~k~~~~Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~Gv~FP~ 139 (425)
.+ ++++||+--.+.|.....-. +-+.|...+..|- .++..|.
T Consensus 305 ~D-T~~evr~a~~~~l~~~~svi-----dN~dI~~~ip~Ll-d~l~dp~ 346 (569)
T KOG1242|consen 305 WD-TKPEVRKAGIETLLKFGSVI-----DNPDIQKIIPTLL-DALADPS 346 (569)
T ss_pred cc-CCHHHHHHHHHHHHHHHHhh-----ccHHHHHHHHHHH-HHhcCcc
Confidence 55 68899999999988776655 3334665555553 3444555
No 85
>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=26.42 E-value=66 Score=27.32 Aligned_cols=31 Identities=19% Similarity=0.262 Sum_probs=24.5
Q ss_pred cchHHHHHHHhhcCCCHhHHHHHHHHHHHHH
Q 014410 80 TGILPILVKIVKKKSDLPVRERIFLLLDATQ 110 (425)
Q Consensus 80 ~~FL~~L~klv~~k~~~~Vk~KiL~Ll~~W~ 110 (425)
+.||..|+++.+++..++|.+++..||+..-
T Consensus 7 k~FL~tLi~las~~~spev~~~Vr~LV~~L~ 37 (96)
T PF07531_consen 7 KNFLNTLIQLASDKQSPEVGENVRELVQNLV 37 (96)
T ss_dssp HHHHHHHHHHHCCSC-CCHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCChHHHHHHHHHHHHHH
Confidence 5799999999998777778888888876543
No 86
>PF06798 PrkA: PrkA serine protein kinase C-terminal domain; InterPro: IPR010650 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This entry is found at the C terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length. PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.
Probab=26.38 E-value=46 Score=32.88 Aligned_cols=70 Identities=21% Similarity=0.221 Sum_probs=49.8
Q ss_pred cHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchh--hhhHhhcccchHHHHHHHhhcCCCHhHHHHHHHHH
Q 014410 35 HAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGD--HIHKLVIDTGILPILVKIVKKKSDLPVRERIFLLL 106 (425)
Q Consensus 35 ~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~--~Fh~eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll 106 (425)
.+++++++|-.-|..-.....+.++.||..|...|.. .|..+. ..+|++-|. .+...++..|.+-|..-+
T Consensus 38 S~R~~~~~ls~a~~~~~~~~~i~p~~vl~~L~~~l~~~~~i~~e~-~~~y~~~l~-~v~~~Y~~~v~~EV~~A~ 109 (254)
T PF06798_consen 38 SPRFVIKILSNALSSDSEEDCINPLDVLNELEEGLKDHPSISEEE-RERYLEFLK-SVRKEYDERVEKEVQEAF 109 (254)
T ss_pred CHhHHHHHHHHHHHhCcccceecHHHHHHHHHHHhhcccccCHHH-HHHHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence 4999999999999775566778899999999999977 444444 456777555 666655555555554443
No 87
>PF12783 Sec7_N: Guanine nucleotide exchange factor in Golgi transport N-terminal
Probab=26.05 E-value=2.1e+02 Score=25.65 Aligned_cols=63 Identities=17% Similarity=0.335 Sum_probs=0.0
Q ss_pred CHHHHHHHHHHHHHHHhcchhhhh--------HhhcccchHHHHHHHhhcCCCHhHHHHHHHHHHHHHHhhc
Q 014410 51 NTNVQLYAVMLLEMLMNNIGDHIH--------KLVIDTGILPILVKIVKKKSDLPVRERIFLLLDATQTSLG 114 (425)
Q Consensus 51 n~~vql~AL~LLe~~VkNCG~~Fh--------~eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll~~W~~~~~ 114 (425)
+......+|.+|+.++.|+|..|. ..+.+.+++..|.+.+.... +.|-.+.+.++..--..|+
T Consensus 35 ~~~~k~l~LeLl~~iL~~~~~~f~~~~~~~~l~~~lk~~l~~~Ll~~~~~~~-~~i~~~slri~~~l~~~~~ 105 (168)
T PF12783_consen 35 DERSKLLSLELLESILENHGSVFRSSEEHPSLINLLKDDLCPALLKNLSSSD-FPIFSRSLRIFLTLLSRFR 105 (168)
T ss_pred hHHHHHHHHHHHHHHHHhCHHHHhCCcchHHHHHHHHHHHHHHHHHHHhhhh-hHHHHHHHHHHHHHHHHHH
No 88
>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=25.93 E-value=2.2e+02 Score=21.87 Aligned_cols=34 Identities=24% Similarity=0.152 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHcCC
Q 014410 98 VRERIFLLLDATQTSLGGASGKFPQYYTAYYELVSAGV 135 (425)
Q Consensus 98 Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~Gv 135 (425)
+.+++.++|..|....+. -..+..++..|++-|.
T Consensus 37 ~~~~~~~mL~~W~~~~~~----~at~~~L~~aL~~~~~ 70 (79)
T cd01670 37 VREQAYQLLLKWEEREGD----NATVGNLIEALREIGR 70 (79)
T ss_pred HHHHHHHHHHHHHhccCc----CcHHHHHHHHHHHcCH
Confidence 889999999999987742 3456777777777664
No 89
>PF14663 RasGEF_N_2: Rapamycin-insensitive companion of mTOR RasGEF_N domain
Probab=25.82 E-value=2e+02 Score=24.73 Aligned_cols=52 Identities=19% Similarity=0.069 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHH
Q 014410 36 AKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVK 88 (425)
Q Consensus 36 akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~k 88 (425)
..=+++.|.+.|...++.|...|+.+|+-+...- .....-+..+..++.|.+
T Consensus 6 ~~w~i~lLv~QL~D~~~~V~~~A~~iL~e~c~~~-~~le~~v~~~p~l~~L~~ 57 (115)
T PF14663_consen 6 EDWGIELLVTQLYDPSPEVVAAALEILEEACEDK-EYLEYLVSLRPSLDHLGD 57 (115)
T ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhch-hhHHHHHHcCcHHHHHHH
Confidence 3457889999999999999999999887644332 444444555555555554
No 90
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=25.21 E-value=8.4e+02 Score=26.27 Aligned_cols=91 Identities=22% Similarity=0.213 Sum_probs=50.5
Q ss_pred hHHHHHHHHHHhcCCcc-HHHHHHHHHHHhCCCC----------------------HHHHHHHHHHHHHHHhcchhhhhH
Q 014410 19 WTKNIEICELVARDQRH-AKDVIKAIKKRLGSKN----------------------TNVQLYAVMLLEMLMNNIGDHIHK 75 (425)
Q Consensus 19 w~~ileICD~In~~~~~-akeAvraIrKRL~~~n----------------------~~vql~AL~LLe~~VkNCG~~Fh~ 75 (425)
-+.+.-|+..+...... ++.|+++|++=.++.. ..+.++.+.++-.+.+.....|.
T Consensus 118 ~~l~~~i~~~L~~~d~~Va~~A~~~L~~l~~~~~~~~~l~~~~~~~~L~~l~~~~~~~vR~Rv~el~v~i~~~S~~~~~- 196 (503)
T PF10508_consen 118 NELLPLIIQCLRDPDLSVAKAAIKALKKLASHPEGLEQLFDSNLLSKLKSLMSQSSDIVRCRVYELLVEIASHSPEAAE- 196 (503)
T ss_pred ccHHHHHHHHHcCCcHHHHHHHHHHHHHHhCCchhHHHHhCcchHHHHHHHHhccCHHHHHHHHHHHHHHHhcCHHHHH-
Confidence 33455666777655433 5666666655544433 33333333333333333222222
Q ss_pred hhcccchHHHHHHHhhcCCCHhHHHHHHHHHHHHHH
Q 014410 76 LVIDTGILPILVKIVKKKSDLPVRERIFLLLDATQT 111 (425)
Q Consensus 76 eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll~~W~~ 111 (425)
.+.+..|++.+.+.+.+ .|.-|+--++++|..-+.
T Consensus 197 ~~~~sgll~~ll~eL~~-dDiLvqlnalell~~La~ 231 (503)
T PF10508_consen 197 AVVNSGLLDLLLKELDS-DDILVQLNALELLSELAE 231 (503)
T ss_pred HHHhccHHHHHHHHhcC-ccHHHHHHHHHHHHHHHc
Confidence 22334677777777776 677899999999876554
No 91
>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=25.15 E-value=2.7e+02 Score=22.63 Aligned_cols=68 Identities=18% Similarity=0.173 Sum_probs=41.2
Q ss_pred HHHHhcchhhhhHhhcccchHHHHHHHhhcCCCHhHHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHcCC
Q 014410 63 EMLMNNIGDHIHKLVIDTGILPILVKIVKKKSDLPVRERIFLLLDATQTSLGGASGKFPQYYTAYYELVSAGV 135 (425)
Q Consensus 63 e~~VkNCG~~Fh~eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~Gv 135 (425)
+.+..|-|..+....-.=.|-+.=+.-+... ++.+++++..+|..|....+. -.-+..+.+-|+.-|.
T Consensus 11 ~~ia~~iG~~Wk~Lar~LGls~~dI~~i~~~-~~~~~eq~~~mL~~W~~r~g~----~AT~~~L~~aL~~~~~ 78 (86)
T cd08318 11 TVFANKLGEDWKTLAPHLEMKDKEIRAIESD-SEDIKMQAKQLLVAWQDREGS----QATPETLITALNAAGL 78 (86)
T ss_pred HHHHHHHhhhHHHHHHHcCCCHHHHHHHHhc-CCCHHHHHHHHHHHHHHhcCc----cccHHHHHHHHHHcCc
Confidence 3344666666665444445553333334332 235899999999999987643 2335566667766664
No 92
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=24.92 E-value=4.1e+02 Score=22.15 Aligned_cols=64 Identities=19% Similarity=0.265 Sum_probs=47.7
Q ss_pred HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHhhcCCCHhHHHHH
Q 014410 36 AKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIVKKKSDLPVRERI 102 (425)
Q Consensus 36 akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv~~k~~~~Vk~Ki 102 (425)
-.+-++-|-+-+...+++|-++|..-|=.++|.++..+-..+ .+..+.|.+++.+ .++.||.-+
T Consensus 25 l~~Il~pVL~~~~D~d~rVRy~AcEaL~ni~k~~~~~~l~~f--~~IF~~L~kl~~D-~d~~Vr~~a 88 (97)
T PF12755_consen 25 LDEILPPVLKCFDDQDSRVRYYACEALYNISKVARGEILPYF--NEIFDALCKLSAD-PDENVRSAA 88 (97)
T ss_pred HHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHcC-CchhHHHHH
Confidence 456677777888899999999999999999999987664422 2455666666665 467788755
No 93
>PF03224 V-ATPase_H_N: V-ATPase subunit H; InterPro: IPR004908 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents subunit H (also known as Vma13p) found in the V1 complex of V-ATPases. This subunit has a regulatory function, being responsible for activating ATPase activity and coupling ATPase activity to proton flow []. The yeast enzyme contains five motifs similar to the HEAT or Armadillo repeats seen in the importins, and can be divided into two distinct domains: a large N-terminal domain consisting of stacked alpha helices, and a smaller C-terminal alpha-helical domain with a similar superhelical topology to an armadillo repeat []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=24.74 E-value=1e+02 Score=30.87 Aligned_cols=72 Identities=17% Similarity=0.250 Sum_probs=45.1
Q ss_pred HHHHHHHHHh----CCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHh------hcCCCHhHHHHHHHHHH
Q 014410 38 DVIKAIKKRL----GSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIV------KKKSDLPVRERIFLLLD 107 (425)
Q Consensus 38 eAvraIrKRL----~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv------~~k~~~~Vk~KiL~Ll~ 107 (425)
+++..+-.-| .+.+...|..|+.+|..+.++ +.+...|-+.+++..|..++ +...+.++.-.++-+
T Consensus 146 ~~l~~ll~~L~~~l~~~~~~~~~~av~~L~~LL~~--~~~R~~f~~~~~v~~l~~iL~~~~~~~~~~~~Ql~Y~~ll~-- 221 (312)
T PF03224_consen 146 EALPKLLQWLSSQLSSSDSELQYIAVQCLQNLLRS--KEYRQVFWKSNGVSPLFDILRKQATNSNSSGIQLQYQALLC-- 221 (312)
T ss_dssp HHHHHHHHHHH-TT-HHHH---HHHHHHHHHHHTS--HHHHHHHHTHHHHHHHHHHHH---------HHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHhhcCCCcchHHHHHHHHHHHhCc--chhHHHHHhcCcHHHHHHHHHhhcccCCCCchhHHHHHHHH--
Confidence 4444444444 345566778899999999977 56777777789999999988 334455555555543
Q ss_pred HHHHhh
Q 014410 108 ATQTSL 113 (425)
Q Consensus 108 ~W~~~~ 113 (425)
-|.-+|
T Consensus 222 lWlLSF 227 (312)
T PF03224_consen 222 LWLLSF 227 (312)
T ss_dssp HHHHTT
T ss_pred HHHHhc
Confidence 498888
No 94
>KOG0593 consensus Predicted protein kinase KKIAMRE [General function prediction only]
Probab=24.49 E-value=1.3e+02 Score=31.19 Aligned_cols=67 Identities=24% Similarity=0.268 Sum_probs=49.6
Q ss_pred HHHHHHHHH--HHhCCCCHHHHHHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHhhcCCCHhHHHHHHHHHHH
Q 014410 36 AKDVIKAIK--KRLGSKNTNVQLYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIVKKKSDLPVRERIFLLLDA 108 (425)
Q Consensus 36 akeAvraIr--KRL~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll~~ 108 (425)
-|.|+|-|| |.|+|.| -+.|+|.|=++---..-.|+++...|++|.+.-..-....|++.+.++|.+
T Consensus 45 kKIAlREIrmLKqLkH~N------LVnLiEVFrrkrklhLVFE~~dhTvL~eLe~~p~G~~~~~vk~~l~Q~l~a 113 (396)
T KOG0593|consen 45 KKIALREIRMLKQLKHEN------LVNLIEVFRRKRKLHLVFEYCDHTVLHELERYPNGVPSELVKKYLYQLLKA 113 (396)
T ss_pred HHHHHHHHHHHHhcccch------HHHHHHHHHhcceeEEEeeecchHHHHHHHhccCCCCHHHHHHHHHHHHHH
Confidence 467788776 5667776 357899998886555557889999999998876654445588888888875
No 95
>KOG1511 consensus Mevalonate kinase MVK/ERG12 [Lipid transport and metabolism]
Probab=23.51 E-value=1.8e+02 Score=30.38 Aligned_cols=45 Identities=16% Similarity=0.244 Sum_probs=35.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhc------cCcHHHHHHHHHhhHHHHHHHH
Q 014410 216 EFTLDLVEQCSFQKQRVMHLVMT------SRDEKVVSQAIDLNEQLQNVLA 260 (425)
Q Consensus 216 Eli~EL~~~Cr~~q~rI~~lI~~------v~dEelL~~LL~~NDeL~~aL~ 260 (425)
|+|..+++.|..+-.....+++. ..+|+-|.+|+.+|-+|..+|-
T Consensus 259 evi~~i~~aid~is~ea~~il~~e~~~~~~~~Eq~L~eLi~iNq~LL~alG 309 (397)
T KOG1511|consen 259 EVIKAIFDAIDEISLEAVWILQRENDEFSSPKEQKLEELIRINQDLLDALG 309 (397)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcccccCCCcHHHHHHHHHHHhHHHHHHhC
Confidence 56788888888888888887773 2357789999999999988773
No 96
>KOG2075 consensus Topoisomerase TOP1-interacting protein BTBD1 [Function unknown]
Probab=22.98 E-value=5.8e+02 Score=27.86 Aligned_cols=96 Identities=13% Similarity=0.171 Sum_probs=62.1
Q ss_pred cChHHHHHHHHHHhcCCcc--HHHHHHHHHHHhCCCCHHHHHHH-------HHHHHHHHhcchhhhhHhhcccchH----
Q 014410 17 VDWTKNIEICELVARDQRH--AKDVIKAIKKRLGSKNTNVQLYA-------VMLLEMLMNNIGDHIHKLVIDTGIL---- 83 (425)
Q Consensus 17 ~Dw~~ileICD~In~~~~~--akeAvraIrKRL~~~n~~vql~A-------L~LLe~~VkNCG~~Fh~eIas~~FL---- 83 (425)
.+-+.+|.+|+..+.--.+ .++||+.|+|+|.-.|.=.-+.+ =.|+-.|++.-...|-..+....|.
T Consensus 185 ~~~dtvi~tl~~AkKY~VpaLer~CVkflr~~l~~~naf~~L~q~A~lf~ep~Li~~c~e~id~~~~~al~~EGf~did~ 264 (521)
T KOG2075|consen 185 LAADTVITTLYAAKKYLVPALERQCVKFLRKNLMADNAFLELFQRAKLFDEPSLISICLEVIDKSFEDALTPEGFCDIDS 264 (521)
T ss_pred hhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhcCHHHHHHHHHHhhhHHHhhhCccceeehhh
Confidence 3445577788887775444 68999999999987775444444 1566777777777777766665553
Q ss_pred --HHHHHHhhcCCCHhH-HHHHHHHHHHHHHhh
Q 014410 84 --PILVKIVKKKSDLPV-RERIFLLLDATQTSL 113 (425)
Q Consensus 84 --~~L~klv~~k~~~~V-k~KiL~Ll~~W~~~~ 113 (425)
+.+..++...+ .++ .-++++.+..|...-
T Consensus 265 ~~dt~~evl~r~~-l~~~e~~lfeA~lkw~~~e 296 (521)
T KOG2075|consen 265 TRDTYEEVLRRDT-LEAREFRLFEAALKWAEAE 296 (521)
T ss_pred HHHHHHHHHhhcc-cchhHHHHHHHHHhhccCc
Confidence 45555555432 223 346777777887544
No 97
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=22.31 E-value=1.8e+02 Score=20.41 Aligned_cols=24 Identities=25% Similarity=0.279 Sum_probs=18.9
Q ss_pred CcHHHHHHHHHhhH-HHHHHHHHHH
Q 014410 240 RDEKVVSQAIDLNE-QLQNVLARHD 263 (425)
Q Consensus 240 ~dEelL~~LL~~ND-eL~~aL~rYe 263 (425)
.+++.--.+|+.|+ +|..|+..|=
T Consensus 13 ~~~~~A~~~L~~~~wdle~Av~~y~ 37 (43)
T PF14555_consen 13 ADEDVAIQYLEANNWDLEAAVNAYF 37 (43)
T ss_dssp SSHHHHHHHHHHTTT-HHHHHHHHH
T ss_pred cCHHHHHHHHHHcCCCHHHHHHHHH
Confidence 37788888888888 9999999984
No 98
>PF11864 DUF3384: Domain of unknown function (DUF3384); InterPro: IPR024584 This entry represents the N-terminal domain of tuberin which is functionally uncharacterised.
Probab=21.62 E-value=5.8e+02 Score=27.16 Aligned_cols=92 Identities=16% Similarity=0.142 Sum_probs=54.3
Q ss_pred hHHHHHHHHHHhcCCccHHHHHHHHHHHh-CCCC-HHHHHHHHHHHHHHHhcchh-------hhhHhhccc-------ch
Q 014410 19 WTKNIEICELVARDQRHAKDVIKAIKKRL-GSKN-TNVQLYAVMLLEMLMNNIGD-------HIHKLVIDT-------GI 82 (425)
Q Consensus 19 w~~ileICD~In~~~~~akeAvraIrKRL-~~~n-~~vql~AL~LLe~~VkNCG~-------~Fh~eIas~-------~F 82 (425)
...+-++|+.|..-+-.+-+++=...|-| ...+ ......++.||.+|++-.+. .|...|... .+
T Consensus 8 ~~a~~~l~~~i~~~~~~~i~~iW~~~~DLi~~~~p~e~R~~~~~ll~~~i~~~~~~~~~~R~~fF~~I~~~~~~~d~~~~ 87 (464)
T PF11864_consen 8 IKAAEELCESIQKYPLSSIEEIWYAAKDLIDPNQPSEARRAALELLIACIKRQDSSSGLMRAEFFRDISDPSNDDDFDLR 87 (464)
T ss_pred HHHHHHHHHHHHhCCchHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHhcCCCchhHHHH
Confidence 45678899999987655444444444444 4444 45667799999999999866 455555432 23
Q ss_pred HHHHHHHhhcCCCHh-HHHHHHHHHHHHH
Q 014410 83 LPILVKIVKKKSDLP-VRERIFLLLDATQ 110 (425)
Q Consensus 83 L~~L~klv~~k~~~~-Vk~KiL~Ll~~W~ 110 (425)
++.|+.|-....|.. .-..+..+|-.|-
T Consensus 88 l~aL~~LT~~Grdi~~~~~~i~~~L~~wl 116 (464)
T PF11864_consen 88 LEALIALTDNGRDIDFFEYEIGPFLLSWL 116 (464)
T ss_pred HHHHHHHHcCCcCchhcccchHHHHHHHH
Confidence 444445544433332 2344555555554
No 99
>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=21.48 E-value=2.3e+02 Score=21.95 Aligned_cols=36 Identities=6% Similarity=-0.025 Sum_probs=25.5
Q ss_pred cchHHHHHHHh-hcCC---CHhHHHHHHHHHHHHHHhhcC
Q 014410 80 TGILPILVKIV-KKKS---DLPVRERIFLLLDATQTSLGG 115 (425)
Q Consensus 80 ~~FL~~L~klv-~~k~---~~~Vk~KiL~Ll~~W~~~~~~ 115 (425)
+.|.+.|..++ .... -..+-+++-.+|..|..+|+.
T Consensus 2 k~~~~kik~~~~~~~~~~~~~~~i~~LN~~lrGW~nYy~~ 41 (80)
T PF08388_consen 2 KRFRRKIKEITRRRNRGKSLEELIKKLNPILRGWANYYRI 41 (80)
T ss_pred HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHhhcc
Confidence 35778888888 4422 234666777789999999953
No 100
>KOG1877 consensus Putative transmembrane protein cmp44E [General function prediction only]
Probab=21.39 E-value=2.4e+02 Score=32.65 Aligned_cols=94 Identities=11% Similarity=0.121 Sum_probs=65.5
Q ss_pred HHHHHHhCCCC-CCcChHHHHHHHHHHhcCCccHHHHHHHHHHHh----CCCCHHHHHHHHHHHHHHHhcchhhhhHhhc
Q 014410 4 ELVNSATSEKL-ADVDWTKNIEICELVARDQRHAKDVIKAIKKRL----GSKNTNVQLYAVMLLEMLMNNIGDHIHKLVI 78 (425)
Q Consensus 4 ~lIekATse~l-~~~Dw~~ileICD~In~~~~~akeAvraIrKRL----~~~n~~vql~AL~LLe~~VkNCG~~Fh~eIa 78 (425)
.||++.--..- .+++-.-+--+|....+.+..-.-....|-+|. .+++.+.+.-|+.+++.|+.-|-+.. .+-
T Consensus 17 kLV~~iFPr~~e~gpn~s~m~kL~~YAasnp~KL~KI~~yL~~R~~kdl~~~r~~~v~Iamea~~kLL~~C~eq~--n~F 94 (819)
T KOG1877|consen 17 KLVDNIFPRSPEDGPNKSKMEKLTFYAASNPSKLPKIGTYLEERCYKDLRRERFGSVKIAMEAYDKLLQACKEQI--NLF 94 (819)
T ss_pred HHHHHhCCCCCCCCcccccHHHHHHHHhhChhhhhHHHHHHHHHHHHHHHhccCcchhhHHHHHHHHHHHHhhhh--HHH
Confidence 35555543222 245566677799999999876433455555554 57788888889999999999997766 444
Q ss_pred ccchHHHHHHHhhcCCCHhHHH
Q 014410 79 DTGILPILVKIVKKKSDLPVRE 100 (425)
Q Consensus 79 s~~FL~~L~klv~~k~~~~Vk~ 100 (425)
...||.-+.+++..+ .++++-
T Consensus 95 ~ssfL~mv~~LLes~-~~~~~i 115 (819)
T KOG1877|consen 95 VSSFLRMVQKLLESN-NDEMQI 115 (819)
T ss_pred HHHHHHHHHHHHhcC-CCceee
Confidence 568999999999876 444433
No 101
>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=21.35 E-value=1.1e+02 Score=25.71 Aligned_cols=30 Identities=23% Similarity=0.270 Sum_probs=23.0
Q ss_pred cchHHHHHHHhhcCCCHhHHHHHHHHHHHH
Q 014410 80 TGILPILVKIVKKKSDLPVRERIFLLLDAT 109 (425)
Q Consensus 80 ~~FL~~L~klv~~k~~~~Vk~KiL~Ll~~W 109 (425)
++|+..|+++.++...++|-+++.+||+..
T Consensus 6 k~FL~tLi~ls~~~~qpe~~~~Vr~LV~~L 35 (92)
T smart00549 6 KRFLTTLIQLSNDISQPEVAERVRTLVLGL 35 (92)
T ss_pred HHHHHHHHHHhcCCCcchHHHHHHHHHHHH
Confidence 689999999999755477777777777654
No 102
>TIGR01385 TFSII transcription elongation factor S-II. This model represents eukaryotic transcription elongation factor S-II. This protein allows stalled RNA transcription complexes to perform a cleavage of the nascent RNA and restart at the newly generated 3-prime end.
Probab=21.31 E-value=2.4e+02 Score=28.59 Aligned_cols=24 Identities=4% Similarity=0.106 Sum_probs=20.0
Q ss_pred hcCCCHhHHHHHHHHHHHHHHhhc
Q 014410 91 KKKSDLPVRERIFLLLDATQTSLG 114 (425)
Q Consensus 91 ~~k~~~~Vk~KiL~Ll~~W~~~~~ 114 (425)
.+..++.|+..+..||..|...+.
T Consensus 53 rkh~~~~I~~lAk~li~~WK~~v~ 76 (299)
T TIGR01385 53 RKHPNEDISKLAKKIIKSWKKVVD 76 (299)
T ss_pred HcCCcHHHHHHHHHHHHHHHHHHh
Confidence 345678899999999999998773
No 103
>PF07899 Frigida: Frigida-like protein; InterPro: IPR012474 This family is composed of plant proteins that are similar to FRIGIDA protein expressed by Arabidopsis thaliana (Mouse-ear cress) (Q9FDW0 from SWISSPROT). This protein is probably nuclear and is required for the regulation of flowering time in the late-flowering phenotype. It is known to increase RNA levels of flowering locus C. Allelic variation at the FRIGIDA locus is a major determinant of natural variation in flowering time [].
Probab=20.95 E-value=8.6e+02 Score=24.47 Aligned_cols=91 Identities=20% Similarity=0.134 Sum_probs=54.3
Q ss_pred HHHHHHHhcCCccHHHHHHHHHHHhCCC-------CHHHH-HHHHHHHHHHHhcchhhhhHhhcccchHHHHHHHhhcCC
Q 014410 23 IEICELVARDQRHAKDVIKAIKKRLGSK-------NTNVQ-LYAVMLLEMLMNNIGDHIHKLVIDTGILPILVKIVKKKS 94 (425)
Q Consensus 23 leICD~In~~~~~akeAvraIrKRL~~~-------n~~vq-l~AL~LLe~~VkNCG~~Fh~eIas~~FL~~L~klv~~k~ 94 (425)
-||-..++..++-++-++.+|..-+..+ ....+ ...+.|||.++. +.+..
T Consensus 43 ~Ev~~AL~~A~DPAkLVLdai~~f~~~~~~~~~~~~~~~~r~~cilLLE~L~~----------------------~~~~i 100 (290)
T PF07899_consen 43 EEVPAALRCAPDPAKLVLDAIEGFYPPGSKNKKDSKLVDVRRACILLLEQLMR----------------------ISPEI 100 (290)
T ss_pred HHHHHHHHcCCChHHHHHHHHHcccCCccccccCcchhhHHHHHHHHHHHHhh----------------------cCCCC
Confidence 4455556666667777777777766322 22222 224456666655 33456
Q ss_pred CHhHHHHHHHHHHHHHHhh-cCCCCCcchHHHHHHHHHHcCC
Q 014410 95 DLPVRERIFLLLDATQTSL-GGASGKFPQYYTAYYELVSAGV 135 (425)
Q Consensus 95 ~~~Vk~KiL~Ll~~W~~~~-~~~~~~~~~i~~~Y~~Lk~~Gv 135 (425)
.+.||++...+-..|...+ +.....-....-....|-.-|+
T Consensus 101 s~~vke~A~~lA~~WK~~l~~~~~~~~lea~gFL~lla~fgi 142 (290)
T PF07899_consen 101 SPEVKEEAKKLAEEWKSKLDGVNNENSLEALGFLQLLAAFGI 142 (290)
T ss_pred CHHHHHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHcCC
Confidence 7889999999999999988 3332222233334444445565
No 104
>KOG2021 consensus Nuclear mRNA export factor receptor LOS1/Exportin-t (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport; Translation, ribosomal structure and biogenesis]
Probab=20.81 E-value=7.1e+02 Score=28.93 Aligned_cols=107 Identities=15% Similarity=0.111 Sum_probs=68.0
Q ss_pred HHHHHhCCCCCC-cC---hHHHHHHHHHHhcCCccHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhcc---hhhhhHhh
Q 014410 5 LVNSATSEKLAD-VD---WTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNNI---GDHIHKLV 77 (425)
Q Consensus 5 lIekATse~l~~-~D---w~~ileICD~In~~~~~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkNC---G~~Fh~eI 77 (425)
.||+|....+.. -| -...+++|..|+.++++.+.++.++-.+- .++.++++.|..|.-.|+-. -.....++
T Consensus 4 diEqav~a~ndp~vdsa~KqqA~~y~~qiKsSp~aw~Icie~l~~~t--s~d~vkf~clqtL~e~vrekyne~nl~elql 81 (980)
T KOG2021|consen 4 DIEQAVNAVNDPRVDSATKQQAIEYLNQIKSSPNAWEICIELLINET--SNDLVKFYCLQTLIELVREKYNEANLNELQL 81 (980)
T ss_pred HHHHHHHhhCCCcccHHHHHHHHHHHHhhcCCccHHHHHHHHHHhhc--ccchhhhhhHHHHHHHHHHhhccCCHHHHHH
Confidence 355555444432 23 23578999999999999999999988876 88999999999888887633 22334444
Q ss_pred cccchHHHHHHHh-hcC-C--CHhHHHHHHHHH---------HHHHHhh
Q 014410 78 IDTGILPILVKIV-KKK-S--DLPVRERIFLLL---------DATQTSL 113 (425)
Q Consensus 78 as~~FL~~L~klv-~~k-~--~~~Vk~KiL~Ll---------~~W~~~~ 113 (425)
..+....-+.-.+ .++ + ++=|+.|+-+++ ..|...|
T Consensus 82 vR~sv~swlk~qvl~ne~~~~p~fi~Nk~aqvlttLf~~eYp~~WnsfF 130 (980)
T KOG2021|consen 82 VRFSVTSWLKFQVLGNEQTKLPDFIMNKIAQVLTTLFMLEYPDCWNSFF 130 (980)
T ss_pred HHHHHHHHHHHHHhCcccCCCChHHHHHHHHHHHHHHHHHhhhhhHHHH
Confidence 4443333333222 221 1 222788776654 4587766
No 105
>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=20.70 E-value=3.5e+02 Score=21.96 Aligned_cols=67 Identities=9% Similarity=0.067 Sum_probs=38.8
Q ss_pred HHHHhcchhhhhHhhcccchHHHHHHHhhcCCCHhHHHHHHHHHHHHHHhhcCCCCCcchHHHHHHHHHHc
Q 014410 63 EMLMNNIGDHIHKLVIDTGILPILVKIVKKKSDLPVRERIFLLLDATQTSLGGASGKFPQYYTAYYELVSA 133 (425)
Q Consensus 63 e~~VkNCG~~Fh~eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll~~W~~~~~~~~~~~~~i~~~Y~~Lk~~ 133 (425)
+.+.+|-|..+....-.=.|-+.=+..+.......+++.+..+|..|+...+. -..+..++..|++-
T Consensus 8 ~~ia~~LG~dWk~LAr~Lg~se~dI~~i~~~~~~~~~eq~~~mL~~W~~r~g~----~At~~~L~~aL~~i 74 (84)
T cd08804 8 AVIADHLGFSWTELARELDFTEEQIHQIRIENPNSLQDQSHALLKYWLERDGK----HATDTNLMKCLTKI 74 (84)
T ss_pred HHHHHHHhhhHHHHHHHcCCCHHHHHHHHHHCcccHHHHHHHHHHHHHHccCC----CchHHHHHHHHHHc
Confidence 34446666665544444456644444444333345899999999999986632 12234455555543
No 106
>PF13251 DUF4042: Domain of unknown function (DUF4042)
Probab=20.70 E-value=1.2e+02 Score=28.45 Aligned_cols=34 Identities=21% Similarity=0.340 Sum_probs=30.9
Q ss_pred cHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhc
Q 014410 35 HAKDVIKAIKKRLGSKNTNVQLYAVMLLEMLMNN 68 (425)
Q Consensus 35 ~akeAvraIrKRL~~~n~~vql~AL~LLe~~VkN 68 (425)
-..+.++.|+.++.|++++++..+|+++.+++..
T Consensus 142 ll~~~v~~v~~~l~~~d~~v~v~~l~~~~~l~s~ 175 (182)
T PF13251_consen 142 LLTEVVTQVRPLLRHRDPNVRVAALSCLGALLSV 175 (182)
T ss_pred HHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcC
Confidence 4789999999999999999999999999998754
No 107
>PF04961 FTCD_C: Formiminotransferase-cyclodeaminase; InterPro: IPR007044 Enzymes containing the cyclodeaminase domain function in channeling one-carbon units to the folate pool. In most cases, this domain catalyses the cyclisation of formimidoyltetrahydrofolate to methenyltetrahydrofolate as shown in reaction (1). In the methylotrophic bacterium Methylobacterium extorquens, however, it catalyses the interconversion of formyltetrahydrofolate and methylenetetrahydrofolate [],as shown in reaction (2) (1) 5-formimidoyltetrahydrofolate = 5,10-methenyltetrahydrofolate + NH(3) (2) 10- formyltetrahydrofolate = 5,10-methenyltetrahydrofolate + H(2)O In prokaryotes, this domain mostly occurs on its own, while in eukaryotes it is fused to a glutamate formiminotransferase domain (which catalyses the previous step in the pathway) to form the bifunctional enzyme formiminotransferase-cyclodeaminase []. The eukaryotic enzyme is a circular tetramer of homodimers [], while the prokaryotic enzyme is a dimer [, ]. The crystal structure of the cyclodeaminase enzyme (Q9X1P6 from SWISSPROT) from Thermaotogoa maritima has been studied []. It is a homodimer, where each monomer is composed of six alpha helices arranged in an up and down helical bundle, forming a novel fold. The location of the active site is not known, but sequence alignments revealed two clusters of conserved residues located in a deep pocket within the dimmer interface. This pocket was large enough to accommodate the reaction product and it was postulated that this is the active site.; GO: 0003824 catalytic activity, 0044237 cellular metabolic process; PDB: 2PFD_C 1O5H_B.
Probab=20.36 E-value=3e+02 Score=25.72 Aligned_cols=53 Identities=9% Similarity=0.162 Sum_probs=36.8
Q ss_pred HHHHHHHhhCCCCCCCC-cchHHHHHHHHHHHHHHHHHHHhhccCcHHHHHHHHHh
Q 014410 197 VLKDVLDAVGTQNPEGA-KDEFTLDLVEQCSFQKQRVMHLVMTSRDEKVVSQAIDL 251 (425)
Q Consensus 197 LL~EML~~~~p~~~~~~-d~Eli~EL~~~Cr~~q~rI~~lI~~v~dEelL~~LL~~ 251 (425)
-|..|.-.+..+++... -.+.+.++.++|..+|.+++.|+. .|.+....++.+
T Consensus 32 aL~~Mv~~lT~gkk~~~~~~~~~~~~~~~~~~~~~~ll~l~d--~D~~af~~~~~a 85 (184)
T PF04961_consen 32 ALGSMVANLTLGKKKYEDVEEELKEIIEKLEELREELLDLAD--EDAEAFNAVMAA 85 (184)
T ss_dssp HHHHHHHHCTTTSTTSGGGHHHHHHHHHHHHHHHHHHHCHHH--HHHHHHHHHHCC
T ss_pred HHHHHHHHHhCCCccchhHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHH
Confidence 36678888877664433 346789999999999999998874 344444444444
No 108
>PF08073 CHDNT: CHDNT (NUC034) domain; InterPro: IPR012958 The CHD N-terminal domain is found in PHD/RING fingers and chromo domain-associated helicases [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=20.05 E-value=1.4e+02 Score=22.76 Aligned_cols=42 Identities=12% Similarity=0.170 Sum_probs=31.2
Q ss_pred hhhhhHhhcccchHHHHHHHhhcCCCHhHHHHHHHHHHH-HHH
Q 014410 70 GDHIHKLVIDTGILPILVKIVKKKSDLPVRERIFLLLDA-TQT 111 (425)
Q Consensus 70 G~~Fh~eIas~~FL~~L~klv~~k~~~~Vk~KiL~Ll~~-W~~ 111 (425)
+..|+....=+-|-+.++-++....+.-...|++-||++ |++
T Consensus 7 ~ed~~~lt~yK~Fsq~vRP~l~~~NPk~~~sKl~~l~~AKwrE 49 (55)
T PF08073_consen 7 EEDFQNLTNYKAFSQHVRPLLAKANPKAPMSKLMMLLQAKWRE 49 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCcHHHHHHHHHHHHHH
Confidence 345666666677888888888776555578899999986 876
Done!