Query 041149
Match_columns 389
No_of_seqs 168 out of 718
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 04:15:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041149.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041149hhsearch_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 4.8E-57 1E-61 460.6 28.7 268 37-310 1-277 (470)
2 KOG1086 Cytosolic sorting prot 100.0 1.6E-48 3.6E-53 384.6 22.1 276 35-323 6-313 (594)
3 cd03569 VHS_Hrs_Vps27p VHS dom 100.0 2.8E-42 6.1E-47 304.0 16.4 138 35-173 2-141 (142)
4 cd03568 VHS_STAM VHS domain fa 100.0 3.2E-42 6.9E-47 304.3 16.7 135 38-173 1-137 (144)
5 cd03565 VHS_Tom1 VHS domain fa 100.0 7.9E-42 1.7E-46 300.9 15.6 136 37-172 1-141 (141)
6 cd03567 VHS_GGA VHS domain fam 100.0 2.5E-40 5.5E-45 290.3 15.1 131 37-170 1-137 (139)
7 smart00288 VHS Domain present 100.0 1.4E-38 3.1E-43 277.6 15.2 131 38-168 1-133 (133)
8 PF00790 VHS: VHS domain; Int 100.0 4.8E-38 1E-42 276.3 14.1 135 34-168 2-140 (140)
9 KOG2199 Signal transducing ada 100.0 2.8E-36 6E-41 295.8 25.1 145 31-176 2-148 (462)
10 cd03561 VHS VHS domain family; 100.0 2.1E-36 4.5E-41 263.8 14.9 129 38-166 1-133 (133)
11 cd00197 VHS_ENTH_ANTH VHS, ENT 99.9 3.6E-25 7.8E-30 187.8 12.7 110 38-147 1-115 (115)
12 KOG1818 Membrane trafficking a 99.9 1.5E-23 3.3E-28 218.7 10.5 145 33-177 4-150 (634)
13 PF03127 GAT: GAT domain; Int 99.8 1.1E-19 2.3E-24 151.2 11.5 90 224-314 6-97 (100)
14 PF01417 ENTH: ENTH domain; I 98.1 3.1E-05 6.8E-10 66.7 10.1 108 36-144 2-118 (125)
15 cd03572 ENTH_epsin_related ENT 97.9 6.2E-05 1.3E-09 65.0 9.5 104 40-143 4-115 (122)
16 cd03562 CID CID (CTD-Interacti 97.8 0.00011 2.3E-09 62.1 8.9 106 38-148 4-109 (114)
17 smart00273 ENTH Epsin N-termin 97.7 0.00059 1.3E-08 58.8 11.6 109 36-144 1-116 (127)
18 cd03571 ENTH_epsin ENTH domain 97.6 0.00073 1.6E-08 58.5 11.4 108 37-145 1-116 (123)
19 cd03564 ANTH_AP180_CALM ANTH d 97.2 0.0017 3.8E-08 55.3 8.4 76 38-113 1-77 (117)
20 KOG2056 Equilibrative nucleosi 97.2 0.0024 5.2E-08 63.7 9.9 119 29-148 13-139 (336)
21 smart00582 RPR domain present 96.7 0.0059 1.3E-07 51.8 7.0 79 70-148 28-108 (121)
22 KOG0251 Clathrin assembly prot 95.6 1.6 3.6E-05 46.2 19.8 81 36-116 22-104 (491)
23 PF07651 ANTH: ANTH domain; I 92.4 0.43 9.4E-06 46.2 7.4 78 36-114 2-81 (280)
24 KOG2057 Predicted equilibrativ 89.3 1.7 3.7E-05 43.5 8.1 122 21-143 7-139 (499)
25 KOG2374 Uncharacterized conser 87.5 4.9 0.00011 42.4 10.4 141 36-178 6-156 (661)
26 PF12210 Hrs_helical: Hepatocy 86.5 4.3 9.4E-05 33.6 7.6 70 231-303 4-75 (96)
27 PF13646 HEAT_2: HEAT repeats; 84.6 11 0.00023 29.1 9.0 78 51-142 10-87 (88)
28 cd00020 ARM Armadillo/beta-cat 81.7 3.8 8.3E-05 33.0 5.6 69 74-144 49-117 (120)
29 PF12348 CLASP_N: CLASP N term 80.6 18 0.00039 33.4 10.4 74 72-147 129-206 (228)
30 PF12717 Cnd1: non-SMC mitotic 79.8 28 0.0006 31.5 11.1 87 56-148 7-93 (178)
31 PF12348 CLASP_N: CLASP N term 77.6 13 0.00029 34.3 8.6 96 50-148 16-124 (228)
32 PF11841 DUF3361: Domain of un 74.3 17 0.00038 32.9 7.9 72 75-148 59-132 (160)
33 KOG2160 Armadillo/beta-catenin 74.2 12 0.00025 38.0 7.4 65 82-147 132-196 (342)
34 cd00020 ARM Armadillo/beta-cat 72.7 15 0.00032 29.5 6.6 72 75-148 8-79 (120)
35 KOG1077 Vesicle coat complex A 69.2 21 0.00045 39.6 8.3 82 53-142 90-173 (938)
36 KOG2071 mRNA cleavage and poly 67.4 9.7 0.00021 41.0 5.4 77 70-148 36-112 (579)
37 smart00229 RasGEFN Guanine nuc 66.3 77 0.0017 26.5 11.6 105 36-143 8-124 (127)
38 PF13646 HEAT_2: HEAT repeats; 65.5 35 0.00076 26.1 7.2 55 77-144 2-57 (88)
39 PF04818 CTD_bind: RNA polymer 64.1 6.2 0.00013 29.6 2.4 54 93-148 3-60 (64)
40 PF08167 RIX1: rRNA processing 59.4 58 0.0013 29.2 8.3 69 72-142 19-92 (165)
41 cd06224 REM Guanine nucleotide 58.3 1E+02 0.0022 25.3 11.1 71 38-110 2-86 (122)
42 KOG1293 Proteins containing ar 48.1 81 0.0018 34.7 8.4 88 75-165 462-550 (678)
43 PF01602 Adaptin_N: Adaptin N 47.1 44 0.00096 34.7 6.3 102 42-148 119-222 (526)
44 PF03670 UPF0184: Uncharacteri 45.9 44 0.00095 27.1 4.6 51 229-279 26-76 (83)
45 PF07197 DUF1409: Protein of u 45.1 12 0.00027 27.5 1.2 29 98-127 7-38 (51)
46 PF06812 ImpA-rel_N: ImpA-rela 44.1 1.1E+02 0.0024 22.7 6.5 56 54-109 1-57 (62)
47 COG1059 Thermostable 8-oxoguan 43.3 82 0.0018 29.6 6.5 101 51-169 35-143 (210)
48 PF02985 HEAT: HEAT repeat; I 43.2 67 0.0014 20.3 4.4 30 76-105 2-31 (31)
49 PF08045 CDC14: Cell division 43.0 95 0.0021 30.3 7.4 73 72-147 131-207 (257)
50 PF05004 IFRD: Interferon-rela 42.5 2.3E+02 0.005 28.2 10.3 103 38-142 45-155 (309)
51 PF02854 MIF4G: MIF4G domain; 42.4 92 0.002 27.5 6.9 87 57-143 106-204 (209)
52 KOG1077 Vesicle coat complex A 40.9 80 0.0017 35.3 7.0 74 70-148 325-399 (938)
53 PF12783 Sec7_N: Guanine nucle 40.6 1.8E+02 0.0039 25.7 8.4 81 75-162 74-156 (168)
54 PF10508 Proteasom_PSMB: Prote 40.1 1.5E+02 0.0032 31.6 8.9 93 54-148 51-149 (503)
55 cd08306 Death_FADD Fas-associa 40.1 27 0.00059 28.0 2.7 68 97-168 4-73 (86)
56 PF12333 Ipi1_N: Rix1 complex 39.8 2.1E+02 0.0046 23.5 8.9 52 76-127 13-64 (102)
57 PF11698 V-ATPase_H_C: V-ATPas 38.3 1.1E+02 0.0024 26.4 6.2 72 72-145 41-113 (119)
58 PF01602 Adaptin_N: Adaptin N 38.3 1.6E+02 0.0035 30.5 8.9 27 117-145 153-179 (526)
59 PF12243 CTK3: CTD kinase subu 38.0 2.5E+02 0.0054 24.8 8.6 71 96-167 66-138 (139)
60 PF14555 UBA_4: UBA-like domai 37.5 72 0.0016 22.0 4.2 33 273-305 4-37 (43)
61 PF06160 EzrA: Septation ring 37.5 4.4E+02 0.0095 28.5 12.2 81 92-176 160-250 (560)
62 PF00618 RasGEF_N: RasGEF N-te 37.4 60 0.0013 26.2 4.4 72 37-110 6-92 (104)
63 smart00549 TAFH TAF homology. 37.3 62 0.0013 26.7 4.3 33 115-148 6-38 (92)
64 KOG1062 Vesicle coat complex A 35.8 3E+02 0.0066 31.2 10.5 127 4-148 126-264 (866)
65 PF07531 TAFH: NHR1 homology t 34.9 61 0.0013 27.0 4.0 33 115-148 7-39 (96)
66 smart00543 MIF4G Middle domain 34.4 2.4E+02 0.0051 24.9 8.2 71 57-127 99-176 (200)
67 PF10508 Proteasom_PSMB: Prote 34.2 3.6E+02 0.0078 28.6 10.8 94 53-148 116-232 (503)
68 PF14523 Syntaxin_2: Syntaxin- 33.8 2.5E+02 0.0054 22.5 9.9 83 229-311 3-94 (102)
69 PF04961 FTCD_C: Formiminotran 32.6 1.6E+02 0.0035 27.0 6.9 51 240-293 32-85 (184)
70 KOG0168 Putative ubiquitin fus 32.3 2.6E+02 0.0056 32.1 9.3 86 22-107 147-249 (1051)
71 PF07106 TBPIP: Tat binding pr 30.8 3.9E+02 0.0084 23.8 10.6 54 225-279 82-138 (169)
72 KOG1820 Microtubule-associated 30.5 3.2E+02 0.0069 31.2 9.9 92 54-148 352-444 (815)
73 PF14726 RTTN_N: Rotatin, an a 30.1 1.7E+02 0.0036 24.3 5.9 68 71-143 27-96 (98)
74 PF09090 MIF4G_like_2: MIF4G l 29.7 5E+02 0.011 24.8 10.3 108 53-170 9-124 (253)
75 PHA02986 hypothetical protein; 28.9 1.5E+02 0.0033 25.8 5.5 48 96-143 6-58 (141)
76 PRK09687 putative lyase; Provi 28.8 5.3E+02 0.011 25.1 10.2 70 72-142 190-277 (280)
77 PTZ00429 beta-adaptin; Provisi 28.6 3.2E+02 0.0069 30.9 9.5 36 71-106 253-288 (746)
78 KOG4535 HEAT and armadillo rep 27.7 55 0.0012 35.0 3.1 52 54-105 123-181 (728)
79 cd08779 Death_PIDD Death Domai 27.5 1.2E+02 0.0026 24.3 4.5 67 99-168 6-74 (86)
80 COG5387 Chaperone required for 27.5 66 0.0014 31.2 3.4 71 32-107 128-203 (264)
81 KOG0151 Predicted splicing reg 27.2 3.2E+02 0.0069 30.7 8.7 119 37-161 435-569 (877)
82 COG5369 Uncharacterized conser 26.9 1.9E+02 0.004 31.6 6.8 110 36-148 430-546 (743)
83 cd08777 Death_RIP1 Death Domai 25.2 85 0.0018 25.3 3.2 68 98-168 5-75 (86)
84 PF12755 Vac14_Fab1_bd: Vacuol 24.8 3.9E+02 0.0084 21.9 7.9 63 73-138 26-88 (97)
85 KOG2075 Topoisomerase TOP1-int 24.5 3.8E+02 0.0081 28.7 8.5 109 38-148 171-295 (521)
86 KOG3192 Mitochondrial J-type c 24.1 1.7E+02 0.0036 26.7 5.1 16 283-298 94-109 (168)
87 KOG0946 ER-Golgi vesicle-tethe 23.5 4.1E+02 0.009 30.3 8.9 73 74-148 122-196 (970)
88 PRK04778 septation ring format 23.3 8.1E+02 0.018 26.4 11.3 24 152-175 230-253 (569)
89 PF07462 MSP1_C: Merozoite sur 23.2 1.5E+02 0.0032 32.1 5.3 18 293-310 243-260 (574)
90 PF11707 Npa1: Ribosome 60S bi 22.0 1.6E+02 0.0036 29.3 5.3 66 56-127 44-112 (330)
91 smart00005 DEATH DEATH domain, 21.3 2E+02 0.0043 22.3 4.7 68 98-169 8-78 (88)
92 PTZ00429 beta-adaptin; Provisi 21.0 6E+02 0.013 28.7 9.9 53 57-109 160-214 (746)
93 cd08324 CARD_NOD1_CARD4 Caspas 21.0 1.1E+02 0.0024 24.9 3.0 25 124-148 37-61 (85)
94 KOG4523 Uncharacterized conser 20.7 1.8E+02 0.0038 25.6 4.4 53 58-110 14-66 (157)
95 KOG3219 Transcription initiati 20.7 2E+02 0.0044 26.9 5.2 37 133-171 148-185 (195)
96 PF13251 DUF4042: Domain of un 20.5 1.3E+02 0.0027 27.9 3.8 33 72-104 143-175 (182)
97 COG5064 SRP1 Karyopherin (impo 20.4 3.4E+02 0.0074 28.1 7.0 90 38-143 221-310 (526)
No 1
>KOG1087 consensus Cytosolic sorting protein GGA2/TOM1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=4.8e-57 Score=460.64 Aligned_cols=268 Identities=34% Similarity=0.491 Sum_probs=223.3
Q ss_pred hHHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchh-hhccH
Q 041149 37 PESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFS-EVASE 115 (389)
Q Consensus 37 ~~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~-evas~ 115 (389)
++..+|+|||++.+.+|||+.||+|||+||.+..+++||+|+|+|||++++++||++||+|||+||||||+.|| +||++
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 46889999999999999999999999999999999999999999999999999999999999999999999999 99999
Q ss_pred HHHHHHHHhhcCCCCChhHHHHHHHHHHHHhcC--CCCCCchHHHHHHHHHhhCCCCCCCCCCCCCCCCCCcccccCCCC
Q 041149 116 KVLDEMVRMIENPQMDPGNRSRALQLIRAWGES--EDLAYLPVYRQTYMSLKERSVPPPVEDGNLPPTQYSLESYINQEP 193 (389)
Q Consensus 116 ~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~--~~~~~l~~i~~~Y~~Lk~~Gv~FP~~~~~~~~~~~~~~s~~~~~~ 193 (389)
+||++|++++++...+..||+|||.||+.|+++ +...+++.|..+|++|+++||.||..+.+..++++++.+....++
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 999999999987558889999999999999999 547889999999999999999999999988877655433322111
Q ss_pred CCCCCCCCCCCC----CCCCCCCccccccCCCCChhHHHHHHHHHHhHHHHHHHHHhhCCCCCCC--chhHHHHHHHHHH
Q 041149 194 LSPSESYPIPET----GLHGADRTSFAYNYGSLSVDEKKEFLVVTRNSLDLLSSILNTETEPKPI--KEDLTVSMLEKCK 267 (389)
Q Consensus 194 ~~p~~~~~~~~~----~~~~p~d~~~~ani~~~~~ek~~~eLe~vk~n~~LL~emL~~~~~~~~~--~ddli~EL~~~Cr 267 (389)
... .+++.... ....+. +..........+.++|++|++++.||+|||.++.++... ++|++++|+++||
T Consensus 161 ~~~-~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~seLe~~~~~~~ll~emL~~v~p~~~e~~~~el~~~L~~qcr 235 (470)
T KOG1087|consen 161 PQE-QSGPPNEANASMKSMAGY----PTEATPEVSTLSLSELESVKGKADLLSEMLNAVDPSDEEAAKDELLVDLVEQCR 235 (470)
T ss_pred chh-hcCCcccccccccccccc----chhhhhhhhhhhHHHHHHHHHHHHHHHHHHhccCCCCcchhHHHHHHHHHHHHH
Confidence 000 01110000 000000 000011122346789999999999999999999887654 5689999999999
Q ss_pred HHhHHHHHHhhhcCCCHHHHHHHHHhhHHHHHHHHHHHHHHHh
Q 041149 268 ESQPVIQRIIESTTDDEAMLFEALNLHDELQLVISRYEELEAA 310 (389)
Q Consensus 268 ~mq~rI~rli~~~~~dEe~L~eLL~~NDeL~~vl~rYe~~~~~ 310 (389)
.+|+||++||++ ..||++|.++|++||+|++||.+|+++..|
T Consensus 236 ~~q~rv~~Li~~-~~DE~ll~~lL~lND~L~~vL~~ye~~~~g 277 (470)
T KOG1087|consen 236 SKQRRVMHLIEE-TSDEELLCELLKLNDELQRVLERYERIASG 277 (470)
T ss_pred HHHHHHHHHHHH-hccHHHHHHHHHHhHHHHHHHHHHHHHhcc
Confidence 999999999997 459999999999999999999999999988
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-48 Score=384.58 Aligned_cols=276 Identities=20% Similarity=0.323 Sum_probs=231.0
Q ss_pred CChHHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchh-hhc
Q 041149 35 PTPESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFS-EVA 113 (389)
Q Consensus 35 ~s~~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~-eva 113 (389)
.-+++.||.|||++.+.++||.+|..|||.||.++.||..|++.+..||+++..+++++||++||+||+|||.+|| +|+
T Consensus 6 ~~sle~wlnrATdp~~~eedw~ai~~fceqinkdp~gp~lAv~LlaHKiqSPqe~EAl~altvLe~cmkncGekfH~evg 85 (594)
T KOG1086|consen 6 VESLEYWLNRATDPSNDEEDWKAIDGFCEQINKDPEGPLLAVRLLAHKIQSPQEWEALQALTVLEYCMKNCGEKFHEEVG 85 (594)
T ss_pred cccHHHHHHhccCccchHHHHHHHHHHHHHHhcCCCCchhHHHHHHhhcCChhHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence 4679999999999999999999999999999999999999999999999999999999999999999999999999 899
Q ss_pred cHHHHHHHHHhhcC----CCCChhHHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhhCCCC--CCCCCCCCCCCCCCccc
Q 041149 114 SEKVLDEMVRMIEN----PQMDPGNRSRALQLIRAWGESEDLAYLPVYRQTYMSLKERSVP--PPVEDGNLPPTQYSLES 187 (389)
Q Consensus 114 s~~Fl~eL~kl~~~----~~~~~~Vk~kiL~Li~~Wa~~~~~~~l~~i~~~Y~~Lk~~Gv~--FP~~~~~~~~~~~~~~s 187 (389)
+++|||+|+|++++ ..+...||.||++|++.|+.+ .+...+|+++|++||++||. -|....+..+.
T Consensus 86 kfrFLNELIkvvsPKYlG~~tSekvKtkiIelLfsWtv~--lpe~~KikdaYqmLKkqgIik~DP~lp~d~~~~------ 157 (594)
T KOG1086|consen 86 KFRFLNELIKVVSPKYLGSRTSEKVKTKIIELLFSWTVS--LPEEPKIKDAYQMLKKQGIIKSDPKLPVDETPV------ 157 (594)
T ss_pred HHHHHHHHHHHhCchhcchhhhHHHHHHHHHHHhhheec--CcccchHHHHHHHHHhcCcccCCCCCCCCCccC------
Confidence 99999999999986 356779999999999999998 23347899999999999983 23222221111
Q ss_pred ccCCCCCCCCCCCCCCCCCC-----------CCCCCcccccc--CCCCC---------hhHHHHHHHHHHhHHHHHHHHH
Q 041149 188 YINQEPLSPSESYPIPETGL-----------HGADRTSFAYN--YGSLS---------VDEKKEFLVVTRNSLDLLSSIL 245 (389)
Q Consensus 188 ~~~~~~~~p~~~~~~~~~~~-----------~~p~d~~~~an--i~~~~---------~ek~~~eLe~vk~n~~LL~emL 245 (389)
|+.+|++++++|++++ .+|+|++ ++| |+++. ..+|...|+.|+||+++|.+|+
T Consensus 158 ----p~ppP~pkssvFddEEksklL~rLLkSn~PeDLq-aANkLIK~lVkeee~k~eKiskR~~aleev~n~vk~l~em~ 232 (594)
T KOG1086|consen 158 ----PAPPPRPKSSVFDDEEKSKLLARLLKSNHPEDLQ-AANKLIKTLVKEEEHKLEKISKRVKALEEVNNNVKLLEEML 232 (594)
T ss_pred ----CCCCCCCCccccCcHHHHHHHHHHHhcCChHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1234567889998865 3799998 566 54442 3456778999999999999999
Q ss_pred hhCCCCC-CC-chh-HHHHHHHHHHHHhHHHHHHhhhcCCCHHHHHHHHHhhHHHHHHHHHHHHHHHhhhcCCCCCCCCC
Q 041149 246 NTETEPK-PI-KED-LTVSMLEKCKESQPVIQRIIESTTDDEAMLFEALNLHDELQLVISRYEELEAAVQSGEPAPGKSD 322 (389)
Q Consensus 246 ~~~~~~~-~~-~dd-li~EL~~~Cr~mq~rI~rli~~~~~dEe~L~eLL~~NDeL~~vl~rYe~~~~~~~~~~~~~~~s~ 322 (389)
..+..+. .. ++| +++++|++|.++|+.+++|++++.+|++.|+++|++||.|++++..|+..+.|..---++...++
T Consensus 233 l~~s~eg~a~pd~E~~lq~v~~~ce~lr~tlfrlaset~dnD~aL~eILqanD~ltrvi~~ykt~~~G~~~~g~a~t~sl 312 (594)
T KOG1086|consen 233 LDYSQEGNASPDNELLLQEVYNRCEQLRPTLFRLASETEDNDPALAEILQANDNLTRVINLYKTPKEGNVANGSARTQSL 312 (594)
T ss_pred HhhccCCCCCCcHHHHHHHHHHHHHHHHHHHHHhhcccccCcHHHHHHHhhhhhHHhhhhhcccccccccccccceeccC
Confidence 9886543 33 445 79999999999999999999999999999999999999999999999999998653333333333
Q ss_pred C
Q 041149 323 T 323 (389)
Q Consensus 323 ~ 323 (389)
-
T Consensus 313 p 313 (594)
T KOG1086|consen 313 P 313 (594)
T ss_pred C
Confidence 3
No 3
>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=2.8e-42 Score=304.04 Aligned_cols=138 Identities=30% Similarity=0.475 Sum_probs=134.2
Q ss_pred CChHHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchh-hhc
Q 041149 35 PTPESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFS-EVA 113 (389)
Q Consensus 35 ~s~~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~-eva 113 (389)
.++|+++|++||++.+.++||+.|++|||+||+++.+|++|+|+|+|||+++||++|++||+|||+||||||..|| +|+
T Consensus 2 ~~~~~~~I~kATs~~l~~~dw~~ileicD~In~~~~~~k~a~ral~krl~~~n~~vql~AL~LLe~~vkNCG~~fh~eva 81 (142)
T cd03569 2 VSEFDELIEKATSELLGEPDLASILEICDMIRSKDVQPKYAMRALKKRLLSKNPNVQLYALLLLESCVKNCGTHFHDEVA 81 (142)
T ss_pred cchHHHHHHHHcCcccCccCHHHHHHHHHHHhCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHCCHHHHHHHh
Confidence 5789999999999999999999999999999999999999999999999999999999999999999999999998 999
Q ss_pred cHHHHHHHHHhhcCCCCChhHHHHHHHHHHHHhcC-CCCCCchHHHHHHHHHhhCCCCCCC
Q 041149 114 SEKVLDEMVRMIENPQMDPGNRSRALQLIRAWGES-EDLAYLPVYRQTYMSLKERSVPPPV 173 (389)
Q Consensus 114 s~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~-~~~~~l~~i~~~Y~~Lk~~Gv~FP~ 173 (389)
+++|+++|++++++ .++..||+|+|++|+.|+.+ +++++|+.|.++|++|+++||.||+
T Consensus 82 s~~fl~~l~~l~~~-~~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~L~~~G~~FP~ 141 (142)
T cd03569 82 SREFMDELKDLIKT-TKNEEVRQKILELIQAWALAFRNKPQLKYVVDTYQILKAEGHKFPE 141 (142)
T ss_pred hHHHHHHHHHHHcc-cCCHHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHcCCCCCC
Confidence 99999999999986 88899999999999999999 8889999999999999999999996
No 4
>cd03568 VHS_STAM VHS domain family, STAM subfamily; members include STAM (Signal Transducing Adaptor Molecule), EAST (EGFR-associated protein with SH3 and TAM domains) and Hbp (Hrs-binding protein). Collectively, they are referred to as STAM. All STAMs have at their N-termini a VHS domain, which is involved in cytokine-mediated intracellular signal transduction and has a superhelical structure similar to the structure of ARM (Armadillo) repeats, followed by a SH3 (Src homology 3) domain, a well-established protein-protein interaction domain. At the C-termini of most vertebrate STAMS, an ITAM (Immunoreceptor Tyrosine-based Activation) motif is present, which mediates the binding of HRS (hepatocyte growth factor-regulated tyrosine kinase substrate) in endocytic and exocytic machineries.
Probab=100.00 E-value=3.2e-42 Score=304.27 Aligned_cols=135 Identities=29% Similarity=0.520 Sum_probs=131.1
Q ss_pred HHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchh-hhccHH
Q 041149 38 ESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFS-EVASEK 116 (389)
Q Consensus 38 ~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~-evas~~ 116 (389)
|+++|++|||+.+.++||++|++|||.||+++.+|++|+|+|+|||+|+||++|++||+|||+||||||..|| ||++++
T Consensus 1 ~e~~iekATse~l~~~dw~~il~icD~I~~~~~~~k~a~ral~KRl~~~n~~v~l~AL~LLe~~vkNCG~~fh~evask~ 80 (144)
T cd03568 1 FDDLVEKATDEKLTSENWGLILDVCDKVKSDENGAKDCLKAIMKRLNHKDPNVQLRALTLLDACAENCGKRFHQEVASRD 80 (144)
T ss_pred ChHHHHHHcCccCCCcCHHHHHHHHHHHhcCCccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHCCHHHHHHHhhHH
Confidence 5789999999999999999999999999999999999999999999999999999999999999999999998 999999
Q ss_pred HHHHHHHhhcCCCCChhHHHHHHHHHHHHhcC-CCCCCchHHHHHHHHHhhCCCCCCC
Q 041149 117 VLDEMVRMIENPQMDPGNRSRALQLIRAWGES-EDLAYLPVYRQTYMSLKERSVPPPV 173 (389)
Q Consensus 117 Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~-~~~~~l~~i~~~Y~~Lk~~Gv~FP~ 173 (389)
|+++|+++++++ ++..||+|||++|+.|+.+ +++++|+.|.++|++|+++|+.||.
T Consensus 81 Fl~eL~kl~~~~-~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~L~~~G~~f~~ 137 (144)
T cd03568 81 FTQELKKLINDR-VHPTVKEKLREVVKQWADEFKNDPSLSLMSDLYKKLKNEGPDLVT 137 (144)
T ss_pred HHHHHHHHhccc-CCHHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHcCCCCCC
Confidence 999999999875 8999999999999999999 8889999999999999999999994
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=7.9e-42 Score=300.88 Aligned_cols=136 Identities=30% Similarity=0.582 Sum_probs=129.5
Q ss_pred hHHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcC-CCHHHHHHHHHHHHHHHhcCCcchh-hhcc
Q 041149 37 PESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISG-KSVVSQRLSLDLLEACAMNCEKVFS-EVAS 114 (389)
Q Consensus 37 ~~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~-~n~~vql~AL~LLe~cVkNCG~~F~-evas 114 (389)
|++++|++|||+.+.++||++|++|||+||+++++|++|+|+|+|||++ +|+++|++||+|||+||||||.+|| |||+
T Consensus 1 ~~~~~IekATse~l~~~dw~~ileicD~In~~~~~~k~a~ralkkRl~~~~n~~v~l~aL~LLe~~vkNCG~~fh~eias 80 (141)
T cd03565 1 PVGQLIEKATDGSLQSEDWGLNMEICDIINETEDGPKDAVRALKKRLNGNKNHKEVMLTLTVLETCVKNCGHRFHVLVAK 80 (141)
T ss_pred CHhHHHHHHcCcCCCCcCHHHHHHHHHHHhCCCCcHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHHccHHHHHHHHH
Confidence 5789999999999999999999999999999999999999999999995 7999999999999999999999998 9999
Q ss_pred HHHHHH-HHHhhcCCC-CChhHHHHHHHHHHHHhcC-CCCCCchHHHHHHHHHhhCCCCCC
Q 041149 115 EKVLDE-MVRMIENPQ-MDPGNRSRALQLIRAWGES-EDLAYLPVYRQTYMSLKERSVPPP 172 (389)
Q Consensus 115 ~~Fl~e-L~kl~~~~~-~~~~Vk~kiL~Li~~Wa~~-~~~~~l~~i~~~Y~~Lk~~Gv~FP 172 (389)
++|+++ |++++.+.. ++..||+||+++|+.|+.+ +++++|+.|.++|++|+++||.||
T Consensus 81 k~Fl~e~L~~~i~~~~~~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~L~~~G~~FP 141 (141)
T cd03565 81 KDFIKDVLVKLINPKNNPPTIVQEKVLALIQAWADAFRGSPDLTGVVEVYEELKKKGIEFP 141 (141)
T ss_pred HHhhhHHHHHHHcccCCCcHHHHHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHcCCCCC
Confidence 999999 999997533 5679999999999999999 888999999999999999999998
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=2.5e-40 Score=290.30 Aligned_cols=131 Identities=22% Similarity=0.409 Sum_probs=123.7
Q ss_pred hHHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchh-hhccH
Q 041149 37 PESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFS-EVASE 115 (389)
Q Consensus 37 ~~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~-evas~ 115 (389)
+++.+|++|||+.+.++||++|++|||+||+++.+|++|+++|+|||+|+||++|++||+|||+||||||+.|| +|+++
T Consensus 1 ~~~~~iekAT~~~l~~~dw~~ileicD~In~~~~~~k~a~rai~krl~~~n~~v~l~AL~LLe~~vkNCG~~fh~evas~ 80 (139)
T cd03567 1 SLEAWLNKATNPSNREEDWEAIQAFCEQINKEPEGPQLAVRLLAHKIQSPQEKEALQALTVLEACMKNCGERFHSEVGKF 80 (139)
T ss_pred CHHHHHHHHcCccCCCCCHHHHHHHHHHHHcCCccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCHHHHHHHHhH
Confidence 48999999999999999999999999999999999999999999999999999999999999999999999998 99999
Q ss_pred HHHHHHHHhhcC----CCCChhHHHHHHHHHHHHhcC-CCCCCchHHHHHHHHHhhCCCC
Q 041149 116 KVLDEMVRMIEN----PQMDPGNRSRALQLIRAWGES-EDLAYLPVYRQTYMSLKERSVP 170 (389)
Q Consensus 116 ~Fl~eL~kl~~~----~~~~~~Vk~kiL~Li~~Wa~~-~~~~~l~~i~~~Y~~Lk~~Gv~ 170 (389)
+|+++|++++++ +.++..||+|||+||+.|+.+ ++ .+.|.++|++||++|+.
T Consensus 81 ~Fl~el~kl~~~k~~~~~~~~~Vk~kil~li~~W~~~f~~---~p~~~~~Y~~Lk~~G~i 137 (139)
T cd03567 81 RFLNELIKLVSPKYLGSRTSEKVKTKIIELLYSWTLELPH---EPKIKEAYDMLKKQGII 137 (139)
T ss_pred HHHHHHHHHhccccCCCCCCHHHHHHHHHHHHHHHHHhcc---cchHHHHHHHHHHCCCc
Confidence 999999999974 357899999999999999998 54 36689999999999963
No 7
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=100.00 E-value=1.4e-38 Score=277.58 Aligned_cols=131 Identities=33% Similarity=0.559 Sum_probs=126.2
Q ss_pred HHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchh-hhccHH
Q 041149 38 ESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFS-EVASEK 116 (389)
Q Consensus 38 ~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~-evas~~ 116 (389)
|+.+|++|||+.+.++||+.|++|||+||+++++|++|+|+|+|||+++||++|++||+|||+||+|||..|| +|++++
T Consensus 1 ~~~~i~kATs~~l~~~dw~~~l~icD~i~~~~~~~k~a~r~l~krl~~~n~~v~l~AL~lLe~~vkNcg~~f~~ev~s~~ 80 (133)
T smart00288 1 VERLIDKATSPSLLEEDWELILEICDLINSTPDGPKDAVRLLKKRLNNKNPHVALLALTLLDACVKNCGSKFHLEVASKE 80 (133)
T ss_pred ChhHHHHHcCcCCCCcCHHHHHHHHHHHhCCCccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHhHH
Confidence 5789999999999999999999999999999999999999999999999999999999999999999999998 999999
Q ss_pred HHHHHHHhhcCCCCChhHHHHHHHHHHHHhcC-CCCCCchHHHHHHHHHhhCC
Q 041149 117 VLDEMVRMIENPQMDPGNRSRALQLIRAWGES-EDLAYLPVYRQTYMSLKERS 168 (389)
Q Consensus 117 Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~-~~~~~l~~i~~~Y~~Lk~~G 168 (389)
|+++|+++++++...+.|++||+++|+.|+.+ ++.++++.|.++|++|+++|
T Consensus 81 fl~~L~~l~~~~~~~~~Vk~kil~li~~W~~~f~~~~~~~~i~~~y~~L~~~g 133 (133)
T smart00288 81 FLNELVKLIKPKYPLPLVKKRILELIQEWADAFKNDPDLSQIVDVYDLLKKKG 133 (133)
T ss_pred HHHHHHHHHcCCCCcHHHHHHHHHHHHHHHHHHcCCCCchHHHHHHHHHHHCc
Confidence 99999999998666666999999999999999 88999999999999999998
No 8
>PF00790 VHS: VHS domain; InterPro: IPR002014 The VHS domain is a ~140 residues long domain, whose name is derived from its occurrence in VPS-27, Hrs and STAM. Based on regions surrounding the domain, VHS-proteins can be divided into 4 groups []: STAM/EAST/Hbp which all share the domain composition VHS-SH3-ITAM and carry one or two ubiquitin-interacting motifs Proteins with a FYVE domain (IPR000306 from INTERPRO) C-terminal to VHS which also carry one or two ubiquitin-interacting motifs GGA proteins with a domain composition VHS-GAT (GGA and Tom1) homology domain VHS domain alone or in combination with domains other than those listed above The VHS domain is always found at the N- terminus of proteins suggesting that such topology is important for function. The domain is considered to have a general membrane targeting/cargo recognition role in vesicular trafficking []. Resolution of the crystal structure of the VHS domain of Drosophila Hrs and human Tom1 revealed that it consists of eight helices arranged in a double-layer superhelix []. The existence of conserved patches of residues on the domain surface suggests that VHS domains may be involved in protein-protein recognition and docking. Overall, sequence similarity is low (approx 25%) amongst domain family members.; GO: 0006886 intracellular protein transport; PDB: 1X5B_A 2L0T_B 1DVP_A 3LDZ_C 3ZYQ_A 4AVX_A 3G2U_A 3G2W_A 1UJJ_A 3G2V_A ....
Probab=100.00 E-value=4.8e-38 Score=276.31 Aligned_cols=135 Identities=33% Similarity=0.608 Sum_probs=127.0
Q ss_pred CCChHHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchh-hh
Q 041149 34 APTPESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFS-EV 112 (389)
Q Consensus 34 ~~s~~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~-ev 112 (389)
++++++.+|++||++.+.++||+.|++|||.||+++.+|++|+++|+|||+|+||++|++||+|||+||+|||..|| +|
T Consensus 2 ~~~~~~~li~kATs~~~~~~Dw~~~l~icD~i~~~~~~~kea~~~l~krl~~~~~~vq~~aL~lld~lvkNcg~~f~~ev 81 (140)
T PF00790_consen 2 PSSSITELIEKATSESLPSPDWSLILEICDLINSSPDGAKEAARALRKRLKHGNPNVQLLALTLLDALVKNCGPRFHREV 81 (140)
T ss_dssp CCSHHHHHHHHHT-TTSSS--HHHHHHHHHHHHTSTTHHHHHHHHHHHHHTTSSHHHHHHHHHHHHHHHHHSHHHHHHHH
T ss_pred CCChHHHHHHHHhCcCCCCCCHHHHHHHHHHHHcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999998 99
Q ss_pred ccHHHHHHHHHhhcCCCCChh--HHHHHHHHHHHHhcC-CCCCCchHHHHHHHHHhhCC
Q 041149 113 ASEKVLDEMVRMIENPQMDPG--NRSRALQLIRAWGES-EDLAYLPVYRQTYMSLKERS 168 (389)
Q Consensus 113 as~~Fl~eL~kl~~~~~~~~~--Vk~kiL~Li~~Wa~~-~~~~~l~~i~~~Y~~Lk~~G 168 (389)
++++|+++|++++..+..... ||+|++++|+.|+.+ ++.++++.|.++|++||++|
T Consensus 82 ~~~~fl~~l~~l~~~~~~~~~~~Vk~k~l~ll~~W~~~f~~~~~~~~i~~~y~~Lk~~G 140 (140)
T PF00790_consen 82 ASKEFLDELVKLIKSKKTDPETPVKEKILELLQEWAEAFKSDPELSLIQDTYKRLKRKG 140 (140)
T ss_dssp TSHHHHHHHHHHHHHTTTHHHSHHHHHHHHHHHHHHHHTTTSTTGHHHHHHHHHHHHTT
T ss_pred hHHHHHHHHHHHHccCCCCchhHHHHHHHHHHHHHHHHHCCCCCchHHHHHHHHHHHCc
Confidence 999999999999987666665 999999999999999 88999999999999999998
No 9
>KOG2199 consensus Signal transducing adaptor protein STAM/STAM2 [Signal transduction mechanisms]
Probab=100.00 E-value=2.8e-36 Score=295.75 Aligned_cols=145 Identities=28% Similarity=0.465 Sum_probs=140.4
Q ss_pred hcCCCChHHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchh
Q 041149 31 MLQAPTPESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFS 110 (389)
Q Consensus 31 ~f~~~s~~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~ 110 (389)
||+..++|+.+|++||++.++.+||++||+|||+|+++++++|+++++|+|||.+++|||+|+||+||++||+|||.+||
T Consensus 2 ~~~~~n~~e~~v~KAT~e~nT~enW~~IlDvCD~v~~~~~~~kd~lk~i~KRln~~dphV~L~AlTLlda~~~NCg~~~r 81 (462)
T KOG2199|consen 2 LFGSANPFEQDVEKATDEKNTSENWSLILDVCDKVGSDPDGGKDCLKAIMKRLNHKDPHVVLQALTLLDACVANCGKRFR 81 (462)
T ss_pred CCCCcchHHHHHHHhcCcccccccHHHHHHHHHhhcCCCcccHHHHHHHHHHhcCCCcchHHHHHHHHHHHHHhcchHHH
Confidence 67778999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred -hhccHHHHHHHHHhhcCCCCChhHHHHHHHHHHHHhcC-CCCCCchHHHHHHHHHhhCCCCCCCCCC
Q 041149 111 -EVASEKVLDEMVRMIENPQMDPGNRSRALQLIRAWGES-EDLAYLPVYRQTYMSLKERSVPPPVEDG 176 (389)
Q Consensus 111 -evas~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~-~~~~~l~~i~~~Y~~Lk~~Gv~FP~~~~ 176 (389)
||+++.|.++|.+|+.+ ++++.|++|+..++..|++. ++++.|+.|.++|..||+.||.|+....
T Consensus 82 ~EVsSr~F~~el~al~~~-~~h~kV~~k~~~lv~eWsee~K~Dp~lsLi~~l~~klk~~g~~f~~~~~ 148 (462)
T KOG2199|consen 82 LEVSSRDFTTELRALIES-KAHPKVCEKMRDLVKEWSEEFKKDPSLSLISALYKKLKEEGITFLVAGS 148 (462)
T ss_pred HHHhhhhHHHHHHHHHhh-cccHHHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHcCCCcccCCC
Confidence 99999999999999987 88999999999999999999 9999999999999999999999997654
No 10
>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=2.1e-36 Score=263.84 Aligned_cols=129 Identities=39% Similarity=0.608 Sum_probs=123.1
Q ss_pred HHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchh-hhccHH
Q 041149 38 ESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFS-EVASEK 116 (389)
Q Consensus 38 ~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~-evas~~ 116 (389)
++.+|++||++.+.++||++|++|||+||+++.+|++|+|+|+|||+++||++|++||+|||+||+|||++|| +|++++
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 4789999999999999999999999999999999999999999999999999999999999999999999998 899999
Q ss_pred HHHHHHHhhcCC-CCChhHHHHHHHHHHHHhcC-CCC-CCchHHHHHHHHHhh
Q 041149 117 VLDEMVRMIENP-QMDPGNRSRALQLIRAWGES-EDL-AYLPVYRQTYMSLKE 166 (389)
Q Consensus 117 Fl~eL~kl~~~~-~~~~~Vk~kiL~Li~~Wa~~-~~~-~~l~~i~~~Y~~Lk~ 166 (389)
|+++|++++.++ .++..||+|++++|+.|+.+ +.. +++++|.++|++||+
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 999999999875 78899999999999999999 554 889999999999984
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=99.93 E-value=3.6e-25 Score=187.84 Aligned_cols=110 Identities=34% Similarity=0.551 Sum_probs=101.9
Q ss_pred HHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchh-hhccHH
Q 041149 38 ESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFS-EVASEK 116 (389)
Q Consensus 38 ~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~-evas~~ 116 (389)
|+++|++||++.+.+|||..|++|||.++..+.++++++++|+|||+++|+++++.||+|||+||||||.+|| +|+++.
T Consensus 1 ~~~~v~~AT~~~~~~p~~~~i~~i~d~~~~~~~~~~~~~~~l~kRl~~~~~~~~lkaL~lLe~lvkN~g~~f~~~i~~~~ 80 (115)
T cd00197 1 FEKTVEKATSNENMGPDWPLIMEICDLINETNVGPKEAVDAIKKRINNKNPHVVLKALTLLEYCVKNCGERFHQEVASND 80 (115)
T ss_pred ChHHHHHHcCCCCCCCCHHHHHHHHHHHHCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHccHHHHHHHHHhH
Confidence 5789999999999999999999999999999899999999999999999999999999999999999999998 899999
Q ss_pred HHHHHHHhhcC----CCCChhHHHHHHHHHHHHhc
Q 041149 117 VLDEMVRMIEN----PQMDPGNRSRALQLIRAWGE 147 (389)
Q Consensus 117 Fl~eL~kl~~~----~~~~~~Vk~kiL~Li~~Wa~ 147 (389)
|+++|.+.... ...+..||+|+++|++.|+.
T Consensus 81 ~~~~l~~~~~~~~~~~~~~~~Vr~k~~~l~~~w~~ 115 (115)
T cd00197 81 FAVELLKFDKSKLLGDDVSTNVREKAIELVQLWAS 115 (115)
T ss_pred HHHHHHHhhccccccCCCChHHHHHHHHHHHHHhC
Confidence 99999885322 34578999999999999974
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=99.89 E-value=1.5e-23 Score=218.67 Aligned_cols=145 Identities=24% Similarity=0.418 Sum_probs=137.0
Q ss_pred CCCChHHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchh-h
Q 041149 33 QAPTPESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFS-E 111 (389)
Q Consensus 33 ~~~s~~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~-e 111 (389)
++++.|..+|++||++.+.+.||..|++|||+|++....||++++.|+||+.|.||++++.+|.|++.||||||..|| +
T Consensus 4 ~t~~~~~~l~~~at~~~~~~~~~e~~~e~~d~ir~~~~~~k~slr~~~~~i~h~np~~~~~~~~~~d~cvkn~G~gv~~e 83 (634)
T KOG1818|consen 4 QTSSAFKRLIEKATSETLGSGDWEAILEISDMIRSGGVPPKPSLRGIKKRIDHENPNVQLFTLKLTDHCVKNCGHGVHCE 83 (634)
T ss_pred ccchHHHhhhhhhhhhhhcCcchhhhhhHHHHHHhcCCCCchhHHHHHHHHhccCCCcccchhhhHHHHHhcCCcchhHH
Confidence 345779999999999999999999999999999999999999999999999999999999999999999999999887 9
Q ss_pred hccHHHHHHHHHhhcCCCCChhHHHHHHHHHHHHhcC-CCCCCchHHHHHHHHHhhCCCCCCCCCCC
Q 041149 112 VASEKVLDEMVRMIENPQMDPGNRSRALQLIRAWGES-EDLAYLPVYRQTYMSLKERSVPPPVEDGN 177 (389)
Q Consensus 112 vas~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~-~~~~~l~~i~~~Y~~Lk~~Gv~FP~~~~~ 177 (389)
|++++||+.|..++....++..|+.|+|++++.|+.+ .+.+.+..+.++|+.|+..|+.||..+..
T Consensus 84 i~tre~m~~~~~~l~~~~~~e~v~~~~l~~~q~wa~af~~~~~~~~v~~t~~~lk~~g~~Fpe~~e~ 150 (634)
T KOG1818|consen 84 IATREFMDLLKSLLESQRIHEEVKNKILELIQNWAAAFRNSSKYSYVLDTYQKLKGGGHVFPELDEN 150 (634)
T ss_pred HHHHHHHHHHHhhhccccccchHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHhcCCccccccccc
Confidence 9999999999999987668899999999999999999 77788999999999999999999987763
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=99.82 E-value=1.1e-19 Score=151.21 Aligned_cols=90 Identities=32% Similarity=0.509 Sum_probs=78.9
Q ss_pred hhHHHHHHHHHHhHHHHHHHHHhhCCCCCCCch--hHHHHHHHHHHHHhHHHHHHhhhcCCCHHHHHHHHHhhHHHHHHH
Q 041149 224 VDEKKEFLVVTRNSLDLLSSILNTETEPKPIKE--DLTVSMLEKCKESQPVIQRIIESTTDDEAMLFEALNLHDELQLVI 301 (389)
Q Consensus 224 ~ek~~~eLe~vk~n~~LL~emL~~~~~~~~~~d--dli~EL~~~Cr~mq~rI~rli~~~~~dEe~L~eLL~~NDeL~~vl 301 (389)
.+++.++|++|++|+.||++||+.+.|++...+ ++++|||++||+|||+|++||+.+.+ +++|++||++||+|++||
T Consensus 6 ~~k~~~~l~~v~~~~~lL~emL~~~~~~~~~~~~~el~~eL~~~ck~~r~~i~~li~~~~d-ee~l~~lL~~ND~L~~~l 84 (100)
T PF03127_consen 6 VSKRRSELEKVKNNAKLLNEMLDNYDPGEESSSDNELIQELYESCKSMRPRIQRLIEEVED-EELLGELLQANDELNQAL 84 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTTTTTSTHHHHHHHHHHHHHHHHHHHHHHHHHHTSTT-CHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCccchHHHHHHHHHHHHHHHHHHHHHhhcCc-HHHHHHHHHHHHHHHHHH
Confidence 456889999999999999999999999887643 58999999999999999999997554 559999999999999999
Q ss_pred HHHHHHHHhhhcC
Q 041149 302 SRYEELEAAVQSG 314 (389)
Q Consensus 302 ~rYe~~~~~~~~~ 314 (389)
.+|++++++...+
T Consensus 85 ~~Y~~l~~~~~~~ 97 (100)
T PF03127_consen 85 ERYDRLVKGQQRG 97 (100)
T ss_dssp HHHHHHHCCC---
T ss_pred HHHHHHHcCcccc
Confidence 9999999876543
No 14
>PF01417 ENTH: ENTH domain; InterPro: IPR001026 The ENTH (Epsin N-terminal homology) domain is approximately 150 amino acids in length and is always found located at the N-termini of proteins. The domain forms a compact globular structure, composed of 9 alpha-helices connected by loops of varying length. The general topology is determined by three helical hairpins that are stacked consecutively with a right hand twist []. An N-terminal helix folds back, forming a deep basic groove that forms the binding pocket for the Ins(1,4,5)P3 ligand []. The ligand is coordinated by residues from surrounding alpha-helices and all three phosphates are multiply coordinated. The coordination of Ins(1,4,5)P3 suggests that ENTH is specific for particular head groups. Proteins containing this domain have been found to bind PtdIns(4,5)P2 and PtdIns(1,4,5)P3 suggesting that the domain may be a membrane interacting module. The main function of proteins containing this domain appears to be to act as accessory clathrin adaptors in endocytosis, Epsin is able to recruit and promote clathrin polymerisation on a lipid monolayer, but may have additional roles in signalling and actin regulation []. Epsin causes a strong degree of membrane curvature and tubulation, even fragmentation of membranes with a high PtdIns(4,5)P2 content. Epsin binding to membranes facilitates their deformation by insertion of the N-terminal helix into the outer leaflet of the bilayer, pushing the head groups apart. This would reduce the energy needed to curve the membrane into a vesicle, making it easier for the clathrin cage to fix and stabilise the curved membrane. This points to a pioneering role for epsin in vesicle budding as it provides both a driving force and a link between membrane invagination and clathrin polymerisation. ; PDB: 1H0A_A 1EYH_A 1EDU_A 2QY7_B 1XGW_A 2V8S_E 1VDY_A 2DCP_A 1INZ_A 3ONL_B ....
Probab=98.07 E-value=3.1e-05 Score=66.65 Aligned_cols=108 Identities=21% Similarity=0.222 Sum_probs=76.9
Q ss_pred ChHHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHh---cCCCHHHHHHHHHHHHHHHhcCCcchh-h
Q 041149 36 TPESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKI---SGKSVVSQRLSLDLLEACAMNCEKVFS-E 111 (389)
Q Consensus 36 s~~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL---~~~n~~vql~AL~LLe~cVkNCG~~F~-e 111 (389)
|+++.+|.+||+.....+.-..+-+||..-... ......+..|.||| .+++.++.+-||.||+.|++||...|- +
T Consensus 2 s~~e~~v~eAT~~d~~gp~~~~l~eIa~~t~~~-~~~~~I~~~l~kRL~~~~~k~wr~~~KaL~ll~yLl~nG~~~~~~~ 80 (125)
T PF01417_consen 2 SELELKVREATSNDPWGPPGKLLAEIAQLTYNS-KDCQEIMDVLWKRLSKSDGKNWRHVYKALTLLEYLLKNGSERFVDE 80 (125)
T ss_dssp -HHHHHHHHHTSSSSSS--HHHHHHHHHHTTSC-HHHHHHHHHHHHHHHSSTSSGHHHHHHHHHHHHHHHHHS-HHHHHH
T ss_pred CHHHHHHHHHcCCCCCCcCHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHHHHCCHHHHHH
Confidence 688999999999987777777788888887665 68899999999999 778999999999999999999999884 5
Q ss_pred hc-cHHHHHHHHHh--hcCCCCC--hhHHHHHHHHHHH
Q 041149 112 VA-SEKVLDEMVRM--IENPQMD--PGNRSRALQLIRA 144 (389)
Q Consensus 112 va-s~~Fl~eL~kl--~~~~~~~--~~Vk~kiL~Li~~ 144 (389)
+- ....+..|... +.+...+ ..||+++-+++.-
T Consensus 81 ~~~~~~~I~~l~~f~~~d~~g~d~~~~VR~~A~~i~~l 118 (125)
T PF01417_consen 81 LRDHIDIIRELQDFQYVDPKGKDQGQNVREKAKEILEL 118 (125)
T ss_dssp HHHTHHHHHGGGG---BBTTSTBHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhhcceeeccCCCCccHHHHHHHHHHHHHHH
Confidence 52 11223333221 1111112 2588887777654
No 15
>cd03572 ENTH_epsin_related ENTH domain, Epsin Related family; composed of hypothetical proteins containing an ENTH-like domain. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. ENTH and ANTH (E/ANTH) domains are structurally similar to the VHS domain and are composed of a superhelix of eight alpha helices. E/ANTH domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membranes. ENTH domains also function in the development of membrane curvature through lipid remodeling during the formation of clathrin-coated vesicles. E/ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the t
Probab=97.95 E-value=6.2e-05 Score=64.97 Aligned_cols=104 Identities=16% Similarity=0.164 Sum_probs=79.2
Q ss_pred HHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchhhhccHH--H
Q 041149 40 KMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFSEVASEK--V 117 (389)
Q Consensus 40 ~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~evas~~--F 117 (389)
.+|.+||+.....+--...-|||.+...+.....+.+..|-|||++++++|-+-+|.||+.|+.++...|...+.+. .
T Consensus 4 ~ll~~ATsdd~~p~pgy~~~Eia~~t~~s~~~~~ei~d~L~kRL~~~~~hVK~K~Lrilk~l~~~G~~~f~~~~~~~~~~ 83 (122)
T cd03572 4 SLLSKATSDDDEPTPGYLYEEIAKLTRKSVGSCQELLEYLLKRLKRSSPHVKLKVLKIIKHLCEKGNSDFKRELQRNSAQ 83 (122)
T ss_pred HHHHHHhcCCCCCCchHHHHHHHHHHHcCHHHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHHhhCCHHHHHHHHHhHHH
Confidence 57999999988777777788999999998889999999999999999999999999999999999888896433332 2
Q ss_pred HHHHHHhhcC--C----CCChhHHHHHHHHHH
Q 041149 118 LDEMVRMIEN--P----QMDPGNRSRALQLIR 143 (389)
Q Consensus 118 l~eL~kl~~~--~----~~~~~Vk~kiL~Li~ 143 (389)
+.++...--. + .....||....+++.
T Consensus 84 Ik~~~~f~g~~Dp~~Gd~~~~~VR~~A~El~~ 115 (122)
T cd03572 84 IRECANYKGPPDPLKGDSLNEKVREEAQELIK 115 (122)
T ss_pred HHHHHHcCCCCCcccCcchhHHHHHHHHHHHH
Confidence 3332222111 1 122468877777664
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=97.83 E-value=0.00011 Score=62.09 Aligned_cols=106 Identities=20% Similarity=0.241 Sum_probs=79.9
Q ss_pred HHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchhhhccHHH
Q 041149 38 ESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFSEVASEKV 117 (389)
Q Consensus 38 ~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~evas~~F 117 (389)
+...+++.|.-.. .-..|-.+...+......+++.+..|.++|+...|...+.+|-|+|.+++|||..........|
T Consensus 4 ~~~~l~~L~~~~~---S~~~I~~lt~~a~~~~~~a~~iv~~i~~~i~~~~~~~KL~~LYL~dsIvkn~~~~~~~~~~~~~ 80 (114)
T cd03562 4 YNALLEKLTFNKN---SQPSIQTLTKLAIENRKHAKEIVEIIEKHIKKCPPEQKLPLLYLLDSIVKNVGRKYKEFFSEFL 80 (114)
T ss_pred HHHHHHHHHcCcc---cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHHHcccchHHHHHHHH
Confidence 4555666655542 3345555555555555578999999999999999999999999999999999998764444444
Q ss_pred HHHHHHhhcCCCCChhHHHHHHHHHHHHhcC
Q 041149 118 LDEMVRMIENPQMDPGNRSRALQLIRAWGES 148 (389)
Q Consensus 118 l~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~ 148 (389)
.+.+...+. ..++.+|.|+..|+..|.+.
T Consensus 81 ~~~f~~~~~--~~~~~~r~kl~rl~~iW~~~ 109 (114)
T cd03562 81 VPLFLDAYE--KVDEKTRKKLERLLNIWEER 109 (114)
T ss_pred HHHHHHHHH--hCCHHHHHHHHHHHHHccCC
Confidence 555555554 57889999999999999985
No 17
>smart00273 ENTH Epsin N-terminal homology (ENTH) domain.
Probab=97.70 E-value=0.00059 Score=58.82 Aligned_cols=109 Identities=16% Similarity=0.033 Sum_probs=84.1
Q ss_pred ChHHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHhcCCcch-hhhc
Q 041149 36 TPESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGK-SVVSQRLSLDLLEACAMNCEKVF-SEVA 113 (389)
Q Consensus 36 s~~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~-n~~vql~AL~LLe~cVkNCG~~F-~eva 113 (389)
++++..|.+||+.....|.-..+-+|+......+....+.+.+|.+||... |..+++-||.||+.|++|+...| .++.
T Consensus 1 ~~~e~~V~kAT~~~~~~p~~k~~~~I~~~t~~~~~~~~~i~~~l~~Rl~~~~~w~~v~KsL~llh~ll~~G~~~~~~~~~ 80 (127)
T smart00273 1 SDLEVKVRKATNNDEWGPKGKHLREIIQGTHNEKSSFAEIMAVLWRRLNDTKNWRVVYKALILLHYLLRNGSPRVILEAL 80 (127)
T ss_pred CHHHHHHHHhcCCCCCCcCHHHHHHHHHHHccCHhhHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHhcCCHHHHHHHH
Confidence 468899999999999999999999999999888788999999999999886 99999999999999999988766 3443
Q ss_pred c-HHHHHHHHHhhcC-C---CCChhHHHHHHHHHHH
Q 041149 114 S-EKVLDEMVRMIEN-P---QMDPGNRSRALQLIRA 144 (389)
Q Consensus 114 s-~~Fl~eL~kl~~~-~---~~~~~Vk~kiL~Li~~ 144 (389)
+ ...+..|...-.. + .....||.+...|+.-
T Consensus 81 ~~~~~i~~L~~f~~~~~~~~d~g~~VR~ya~~L~~~ 116 (127)
T smart00273 81 RNRNRILNLSDFQDIDSRGKDQGANIRTYAKYLLER 116 (127)
T ss_pred HhhHHHhhHhhCeecCCCCeeCcHHHHHHHHHHHHH
Confidence 2 2234444443321 1 1224577777766643
No 18
>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=97.65 E-value=0.00073 Score=58.49 Aligned_cols=108 Identities=16% Similarity=0.126 Sum_probs=79.4
Q ss_pred hHHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHHHhcCCcch-hhhc
Q 041149 37 PESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISG--KSVVSQRLSLDLLEACAMNCEKVF-SEVA 113 (389)
Q Consensus 37 ~~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~--~n~~vql~AL~LLe~cVkNCG~~F-~eva 113 (389)
+++.+|..|||...-.|.-..+-+||+.-.. .....+.+..|.|||.. ++-..++-||+|||.|++|+...| .++-
T Consensus 1 ~~e~~vreATs~d~wGp~~~~m~eIa~~t~~-~~~~~~Im~~l~kRL~~~~k~WR~vyKaL~lleyLl~nGse~vv~~~r 79 (123)
T cd03571 1 EAELKVREATSNDPWGPSGTLMAEIARATYN-YVEFQEIMSMLWKRLNDKGKNWRHVYKALTLLEYLLKNGSERVVDDAR 79 (123)
T ss_pred CHHHHHHHHcCCCCCCCCHHHHHHHHHHhCC-HHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHhCCHHHHHHHH
Confidence 4678999999998888888888899988554 35678999999999976 499999999999999999998887 3553
Q ss_pred cHH-HHHHHHHhh--cCC--CCChhHHHHHHHHHHHH
Q 041149 114 SEK-VLDEMVRMI--ENP--QMDPGNRSRALQLIRAW 145 (389)
Q Consensus 114 s~~-Fl~eL~kl~--~~~--~~~~~Vk~kiL~Li~~W 145 (389)
+.- -+..|...- ... ..-..||+|..+++.--
T Consensus 80 ~~~~~i~~L~~F~~~d~~g~d~G~~VR~ka~~i~~Ll 116 (123)
T cd03571 80 ENLYIIRTLKDFQYIDENGKDQGINVREKAKEILELL 116 (123)
T ss_pred HhHHHHHhhccceeeCCCCCchhHHHHHHHHHHHHHh
Confidence 332 233332211 111 12257999887777543
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=97.22 E-value=0.0017 Score=55.25 Aligned_cols=76 Identities=21% Similarity=0.114 Sum_probs=68.7
Q ss_pred HHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchh-hhc
Q 041149 38 ESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFS-EVA 113 (389)
Q Consensus 38 ~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~-eva 113 (389)
++..|.+||+.....|+-..+-.|......+.....+++.+|.+|+..+|..+++-||.||.-|++++.+.|. ++.
T Consensus 1 ~~~aV~kAT~~~~~~pk~k~v~~ii~~t~~~~~~~~~~~~~l~~Rl~~~~w~v~~K~LillH~llr~G~~~~~~~~~ 77 (117)
T cd03564 1 LEKAVKKATSHDEAPPKDKHVRKIIAGTSSSPASIPSFASALSRRLLDRNWVVVLKALILLHRLLREGHPSFLQELL 77 (117)
T ss_pred CchHHHhhcCCCCCCCChHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHHHHhcCCHHHHHHHH
Confidence 3567999999999999999999999999887789999999999999999999999999999999999988884 443
No 20
>KOG2056 consensus Equilibrative nucleoside transporter protein [Nucleotide transport and metabolism]
Probab=97.17 E-value=0.0024 Score=63.74 Aligned_cols=119 Identities=17% Similarity=0.126 Sum_probs=87.0
Q ss_pred hhhcCCCChHHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHHHhcCC
Q 041149 29 KEMLQAPTPESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISG--KSVVSQRLSLDLLEACAMNCE 106 (389)
Q Consensus 29 ~~~f~~~s~~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~--~n~~vql~AL~LLe~cVkNCG 106 (389)
+-|+..-++.+..|-.||+...-.|.-.++.+|++.--.. ..-.+.+-.|.||++. +|-..+|-||+|||.||+|+.
T Consensus 13 kn~v~~y~~~e~kVrdAT~nd~wGPs~~lm~eIA~~ty~~-~e~~eIm~vi~kRl~d~gknWR~VyKaLtlleyLl~~GS 91 (336)
T KOG2056|consen 13 KNFIKNYSEAELKVRDATSNDPWGPSGTLMAEIAQATYNF-VEYQEIMDVLWKRLNDSGKNWRHVYKALTLLEYLLKNGS 91 (336)
T ss_pred HHHHhcchHHHHHHHhccccccCCCchHHHHHHHHHhcCH-HHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHhcCc
Confidence 3344334789999999999999899999999999875433 4678999999999975 799999999999999999887
Q ss_pred cchh-hhccHHHHHHHHHhhc----CC-CCChhHHHHHHHHHHHHhcC
Q 041149 107 KVFS-EVASEKVLDEMVRMIE----NP-QMDPGNRSRALQLIRAWGES 148 (389)
Q Consensus 107 ~~F~-evas~~Fl~eL~kl~~----~~-~~~~~Vk~kiL~Li~~Wa~~ 148 (389)
.+|- ++-..-++-++.+-+. +. .--..||+|+-+++.-..+.
T Consensus 92 Erv~~~~ren~~~I~tL~~Fq~iD~~G~dqG~nVRkkak~l~~LL~D~ 139 (336)
T KOG2056|consen 92 ERVVDETRENIYTIETLKDFQYIDEDGKDQGLNVRKKAKELLSLLEDD 139 (336)
T ss_pred HHHHHHHHhhhHHHHHHhhceeeCCCCccchHHHHHHHHHHHHHhccH
Confidence 7774 4333333333332222 11 12247999988888776664
No 21
>smart00582 RPR domain present in proteins, which are involved in regulation of nuclear pre-mRNA.
Probab=96.67 E-value=0.0059 Score=51.81 Aligned_cols=79 Identities=15% Similarity=0.218 Sum_probs=57.3
Q ss_pred CcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchhhhccHHHHHHHHHhhcC--CCCChhHHHHHHHHHHHHhc
Q 041149 70 FSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFSEVASEKVLDEMVRMIEN--PQMDPGNRSRALQLIRAWGE 147 (389)
Q Consensus 70 ~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~evas~~Fl~eL~kl~~~--~~~~~~Vk~kiL~Li~~Wa~ 147 (389)
..+++.+..|.++++...+..-+..|-|++.+++||+..+.......|...+..++.. ....+.+|+|+..++..|.+
T Consensus 28 ~~a~~Iv~~i~~~~~~~~~~~kL~~LYlindIl~n~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~ki~kll~iW~~ 107 (121)
T smart00582 28 SHAKEIVELWEKYIKKAPPPRKLPLLYLLDSIVQNSKRKYGSEFGDELGPVFQDALRDVLGAANDETKKKIRRLLNIWEE 107 (121)
T ss_pred HHHHHHHHHHHHHHHhCCccceehhHHhHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhc
Confidence 3578899999999998777788899999999999998764222222333333333321 12347899999999999999
Q ss_pred C
Q 041149 148 S 148 (389)
Q Consensus 148 ~ 148 (389)
.
T Consensus 108 ~ 108 (121)
T smart00582 108 R 108 (121)
T ss_pred C
Confidence 6
No 22
>KOG0251 consensus Clathrin assembly protein AP180 and related proteins, contain ENTH domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=95.56 E-value=1.6 Score=46.16 Aligned_cols=81 Identities=19% Similarity=0.094 Sum_probs=74.5
Q ss_pred ChHHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHhcCCcchh-hhc
Q 041149 36 TPESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGK-SVVSQRLSLDLLEACAMNCEKVFS-EVA 113 (389)
Q Consensus 36 s~~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~-n~~vql~AL~LLe~cVkNCG~~F~-eva 113 (389)
+.++..|-|||+.....++-..+-.|--.++..+.....++.+|-+||++. |-.|++-||.|+.-+++.+...|. ++.
T Consensus 22 ~~l~~AV~KATsh~~~ppk~k~l~~Il~~ts~~~~~i~~~v~aLs~Rl~~TrnW~VAlKsLIliH~ll~~G~~~f~~~l~ 101 (491)
T KOG0251|consen 22 SDLEKAVVKATSHDDMPPKDKYLDEILSATSSSPASIPSCVHALSERLNKTRNWTVALKALILIHRLLKEGDPSFEQELL 101 (491)
T ss_pred hhHHHHHHhhccCCCCCccHHHHHHHHHHhcCCcccHHHHHHHHHHHhCCCcceeehHHHHHHHHHHHhcCcHHHHHHHH
Confidence 679999999999999999999999999999999999999999999999995 999999999999999997777996 776
Q ss_pred cHH
Q 041149 114 SEK 116 (389)
Q Consensus 114 s~~ 116 (389)
.+.
T Consensus 102 ~~~ 104 (491)
T KOG0251|consen 102 SRN 104 (491)
T ss_pred hcc
Confidence 655
No 23
>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=92.39 E-value=0.43 Score=46.17 Aligned_cols=78 Identities=18% Similarity=0.061 Sum_probs=62.2
Q ss_pred ChHHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHhcCCcchh-hhc
Q 041149 36 TPESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGK-SVVSQRLSLDLLEACAMNCEKVFS-EVA 113 (389)
Q Consensus 36 s~~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~-n~~vql~AL~LLe~cVkNCG~~F~-eva 113 (389)
+.++..|-|||+.....|+--.+-.|.-.... +.....++.+|.+|+... |+.|++-+|.|+.-|+.-+.+.|. ++.
T Consensus 2 ~~l~~av~KAT~~~~~ppk~Khv~~il~~t~~-~~~~~~~~~~l~~Rl~~~~~w~V~~K~Lil~H~llr~G~~~~~~~~~ 80 (280)
T PF07651_consen 2 SDLEKAVIKATSHDEAPPKEKHVREILSATSS-PESVAFLFWALSRRLPLTRNWIVALKALILLHRLLRDGHPSFLQELL 80 (280)
T ss_dssp -HHHHHHHHHT-SSS---HHHHHHHHHHHCST-TS-HHHHHHHHHHHCTSS-SHHHHHHHHHHHHHHHHHS-CHHHHHHH
T ss_pred hHHHHHHHHHcCCCCCCCCHHHHHHHHHHhcC-CccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHcCchHHHHHHH
Confidence 45788999999999999999999888888777 678899999999999986 999999999999999999877773 544
Q ss_pred c
Q 041149 114 S 114 (389)
Q Consensus 114 s 114 (389)
.
T Consensus 81 ~ 81 (280)
T PF07651_consen 81 R 81 (280)
T ss_dssp H
T ss_pred H
Confidence 3
No 24
>KOG2057 consensus Predicted equilibrative nucleoside transporter protein [Nucleotide transport and metabolism]
Probab=89.26 E-value=1.7 Score=43.50 Aligned_cols=122 Identities=16% Similarity=0.073 Sum_probs=79.0
Q ss_pred cccccchhhhhcCCCChHHHHHHHHcCCCCCCCChHHHHHHHHhHhcCC-CcHHHHHHHHHHHhcC---CCHHHHHHHHH
Q 041149 21 GRIVSGKVKEMLQAPTPESKMVDEATLETLEEPNWGMNMRICALINSEE-FSGSEIVKAIKKKISG---KSVVSQRLSLD 96 (389)
Q Consensus 21 ~~~~~~~~~~~f~~~s~~~~lIekATs~~l~~~Dw~~ileicD~In~~~-~~~keA~raIrKrL~~---~n~~vql~AL~ 96 (389)
-|++-+||-+.--+-..++--|..||++.--.|-=.++-+||+.-...- +.--+.+..|-.|+.. .+-+.++-+|.
T Consensus 7 VRel~dkandaiMNY~e~e~~VREATNdDPWGPsG~lMgeIaeaTfmry~EdFpelmnmL~qRMLedNK~~WRRVYKSLi 86 (499)
T KOG2057|consen 7 VRELTDKANDAIMNYPEAEMDVREATNDDPWGPSGPLMGEIAEATFMRYMEDFPELMNMLFQRMLEDNKDAWRRVYKSLI 86 (499)
T ss_pred HHHHHHHHhHHHhcchHHHHHHHhhccCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 3666666655443335677778889987655555567888998876532 2345667777777643 35678899999
Q ss_pred HHHHHHhcCCcchhhhccHHHHHHHHHhhcC-------CCCChhHHHHHHHHHH
Q 041149 97 LLEACAMNCEKVFSEVASEKVLDEMVRMIEN-------PQMDPGNRSRALQLIR 143 (389)
Q Consensus 97 LLe~cVkNCG~~F~evas~~Fl~eL~kl~~~-------~~~~~~Vk~kiL~Li~ 143 (389)
||+.|++|+..+|-+-+.++ .=+|++|-+- ...-..+|.|+.+++.
T Consensus 87 LLaYLikNGSER~VqeAREh-~YdLR~LEnYhfiDEhGKDQGINIR~kVKeilE 139 (499)
T KOG2057|consen 87 LLAYLIKNGSERFVQEAREH-AYDLRRLENYHFIDEHGKDQGINIRHKVKEILE 139 (499)
T ss_pred HHHHHHhcccHHHHHHHHHH-HHHHHhhhhccchhhhCccccccHHHHHHHHHH
Confidence 99999999999995444333 2233333221 1122368888888774
No 25
>KOG2374 consensus Uncharacterized conserved protein [Function unknown]
Probab=87.50 E-value=4.9 Score=42.41 Aligned_cols=141 Identities=16% Similarity=0.193 Sum_probs=105.2
Q ss_pred ChHHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchhh--hc
Q 041149 36 TPESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFSE--VA 113 (389)
Q Consensus 36 s~~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~e--va 113 (389)
.-+-.+|+.+|...-.+-|--..-+|=-+++.+.....-+.+.|.--+.+.-..+-+++|-+++.+.--. +.|.+ |.
T Consensus 6 ~kl~~lIeelT~sg~~~~~p~~~k~lkkiv~~sdee~~~~~~~L~~~~~~~h~~vR~l~lqii~elF~rs-~~FR~lii~ 84 (661)
T KOG2374|consen 6 GKLIGLIEELTKSGAQEVDPRLLKALKKIVRYSDEEVRLSSQTLMELMRHNHSQVRYLTLQIIDELFMRS-KLFRTLIIE 84 (661)
T ss_pred hHHHHHHHHHhhcCCcccChHHHHHHHHHHhccHHHHHHHHHHHHHHHhhcCchHHHHHHHHHHHHHHhh-HHHHHHHHh
Confidence 4577899999999999999999999999999888889999999999999988899999999999988763 66763 33
Q ss_pred cH-HHHHHHHHhhcC---C---CCChhHHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhhC-CCCCCCCCCCC
Q 041149 114 SE-KVLDEMVRMIEN---P---QMDPGNRSRALQLIRAWGESEDLAYLPVYRQTYMSLKER-SVPPPVEDGNL 178 (389)
Q Consensus 114 s~-~Fl~eL~kl~~~---~---~~~~~Vk~kiL~Li~~Wa~~~~~~~l~~i~~~Y~~Lk~~-Gv~FP~~~~~~ 178 (389)
.. +||+-.+..=.+ | ......|.+.++.|..|.+.-. ..+..+.-.|..||.- .+.||......
T Consensus 85 n~~efLeL~~gt~p~~PLP~p~~~a~~Lr~~ai~~~e~Wnekfg-~~yk~l~lg~~~Lk~tkkvdf~d~~a~~ 156 (661)
T KOG2374|consen 85 NLDEFLELSIGTRPNLPLPAPPAVATTLRSKAIEFLEKWNEKFG-FHYKELRLGFDYLKNTKKVDFPDLQANA 156 (661)
T ss_pred CHHHHHHHhhcCCCCCCCCCChHHHHHHHHHHHHHHHHHHHHHh-HHHHHHHHHHHHHhccccccCcchhhHH
Confidence 33 376665543222 1 1223688999999999997510 1135566677777765 48999876643
No 26
>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=86.51 E-value=4.3 Score=33.59 Aligned_cols=70 Identities=14% Similarity=0.248 Sum_probs=46.4
Q ss_pred HHHHHhHHHHHHH-HHhhCCCCCCC-chhHHHHHHHHHHHHhHHHHHHhhhcCCCHHHHHHHHHhhHHHHHHHHH
Q 041149 231 LVVTRNSLDLLSS-ILNTETEPKPI-KEDLTVSMLEKCKESQPVIQRIIESTTDDEAMLFEALNLHDELQLVISR 303 (389)
Q Consensus 231 Le~vk~n~~LL~e-mL~~~~~~~~~-~ddli~EL~~~Cr~mq~rI~rli~~~~~dEe~L~eLL~~NDeL~~vl~r 303 (389)
+...+..+.+|.+ |-++...|-+. .|..++.||.+.-.|+++++++|++. |+--...=.+.|.|..+=+-
T Consensus 4 ~~~l~~~v~if~nRmksns~RGrsIanDsaVqsLF~~lt~mH~~LL~~i~~~---ee~R~~~E~lQdkL~qi~eA 75 (96)
T PF12210_consen 4 CNTLRSSVEIFVNRMKSNSSRGRSIANDSAVQSLFQTLTAMHPQLLKYIQEQ---EEKRVYYEGLQDKLAQIKEA 75 (96)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTT--GGG-HHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhHhcCCCCcccHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH
Confidence 5566778877754 66665556555 45569999999999999999999863 22233445556666655443
No 27
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A.
Probab=84.62 E-value=11 Score=29.12 Aligned_cols=78 Identities=10% Similarity=0.216 Sum_probs=60.5
Q ss_pred CCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchhhhccHHHHHHHHHhhcCCCC
Q 041149 51 EEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFSEVASEKVLDEMVRMIENPQM 130 (389)
Q Consensus 51 ~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~evas~~Fl~eL~kl~~~~~~ 130 (389)
.++||..-...+..+..- +..+++..|...++++++.|...|+.-|..+ ++.+.+..|.+++.++ .
T Consensus 10 ~~~~~~vr~~a~~~L~~~--~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~i-----------~~~~~~~~L~~~l~~~-~ 75 (88)
T PF13646_consen 10 NDPDPQVRAEAARALGEL--GDPEAIPALIELLKDEDPMVRRAAARALGRI-----------GDPEAIPALIKLLQDD-D 75 (88)
T ss_dssp TSSSHHHHHHHHHHHHCC--THHHHHHHHHHHHTSSSHHHHHHHHHHHHCC-----------HHHHTHHHHHHHHTC--S
T ss_pred cCCCHHHHHHHHHHHHHc--CCHhHHHHHHHHHcCCCHHHHHHHHHHHHHh-----------CCHHHHHHHHHHHcCC-C
Confidence 357888888888888855 6779999999999999999999999887643 5677888899988763 3
Q ss_pred ChhHHHHHHHHH
Q 041149 131 DPGNRSRALQLI 142 (389)
Q Consensus 131 ~~~Vk~kiL~Li 142 (389)
+..||..+..-|
T Consensus 76 ~~~vr~~a~~aL 87 (88)
T PF13646_consen 76 DEVVREAAAEAL 87 (88)
T ss_dssp SHHHHHHHHHHH
T ss_pred cHHHHHHHHhhc
Confidence 456777665543
No 28
>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=81.65 E-value=3.8 Score=32.96 Aligned_cols=69 Identities=12% Similarity=0.058 Sum_probs=55.0
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchhhhccHHHHHHHHHhhcCCCCChhHHHHHHHHHHH
Q 041149 74 EIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFSEVASEKVLDEMVRMIENPQMDPGNRSRALQLIRA 144 (389)
Q Consensus 74 eA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~evas~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~ 144 (389)
+++..|.+-|.+.++.++..|+..|-.+..++...-..+....++..|.+++... +..|++.++.++..
T Consensus 49 ~~i~~l~~~l~~~~~~v~~~a~~~L~~l~~~~~~~~~~~~~~g~l~~l~~~l~~~--~~~~~~~a~~~l~~ 117 (120)
T cd00020 49 GGLPALVQLLKSEDEEVVKAALWALRNLAAGPEDNKLIVLEAGGVPKLVNLLDSS--NEDIQKNATGALSN 117 (120)
T ss_pred CChHHHHHHHhCCCHHHHHHHHHHHHHHccCcHHHHHHHHHCCChHHHHHHHhcC--CHHHHHHHHHHHHH
Confidence 5677888888999999999999999999998764334455566899999999753 66888888877753
No 29
>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=80.64 E-value=18 Score=33.43 Aligned_cols=74 Identities=12% Similarity=0.195 Sum_probs=51.2
Q ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCC---cchh-hhccHHHHHHHHHhhcCCCCChhHHHHHHHHHHHHhc
Q 041149 72 GSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCE---KVFS-EVASEKVLDEMVRMIENPQMDPGNRSRALQLIRAWGE 147 (389)
Q Consensus 72 ~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG---~~F~-evas~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~ 147 (389)
++-....|..-++++|+.+-..++..|..++.++| ..+. ...-..+...|.+.+.+ .+++||+-...++..+..
T Consensus 129 ~~~~~~~l~~~~~~Kn~~vR~~~~~~l~~~l~~~~~~~~~l~~~~~~~~l~~~l~~~l~D--~~~~VR~~Ar~~~~~l~~ 206 (228)
T PF12348_consen 129 PKILLEILSQGLKSKNPQVREECAEWLAIILEKWGSDSSVLQKSAFLKQLVKALVKLLSD--ADPEVREAARECLWALYS 206 (228)
T ss_dssp -HHHHHHHHHHTT-S-HHHHHHHHHHHHHHHTT-----GGG--HHHHHHHHHHHHHHHTS--S-HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHccchHhhhcccchHHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHHH
Confidence 34448888888999999999999999999999999 3443 33335677777777764 567899988877765544
No 30
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=79.82 E-value=28 Score=31.45 Aligned_cols=87 Identities=9% Similarity=0.080 Sum_probs=69.8
Q ss_pred HHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchhhhccHHHHHHHHHhhcCCCCChhHH
Q 041149 56 GMNMRICALINSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFSEVASEKVLDEMVRMIENPQMDPGNR 135 (389)
Q Consensus 56 ~~ileicD~In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~evas~~Fl~eL~kl~~~~~~~~~Vk 135 (389)
..+.-+||++-.-+.-....+..|.++|.+++|.|-..||.+|--|+.+.--++. -.++-.+.+++.+ .+++|+
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 NAIIALGDLCIRYPNLVEPYLPNLYKCLRDEDPLVRKTALLVLSHLILEDMIKVK----GQLFSRILKLLVD--ENPEIR 80 (178)
T ss_pred HHHHHHHHHHHhCcHHHHhHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCceeeh----hhhhHHHHHHHcC--CCHHHH
Confidence 3577899999888777777899999999999999999999999999998544443 2234555566643 677999
Q ss_pred HHHHHHHHHHhcC
Q 041149 136 SRALQLIRAWGES 148 (389)
Q Consensus 136 ~kiL~Li~~Wa~~ 148 (389)
+-....+..+...
T Consensus 81 ~~A~~~~~e~~~~ 93 (178)
T PF12717_consen 81 SLARSFFSELLKK 93 (178)
T ss_pred HHHHHHHHHHHHh
Confidence 9999999998886
No 31
>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=77.59 E-value=13 Score=34.27 Aligned_cols=96 Identities=21% Similarity=0.232 Sum_probs=62.4
Q ss_pred CCCCChHHHHH----HHHhHhcC--CCcHHHHHH-------HHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchhhhccHH
Q 041149 50 LEEPNWGMNMR----ICALINSE--EFSGSEIVK-------AIKKKISGKSVVSQRLSLDLLEACAMNCEKVFSEVASEK 116 (389)
Q Consensus 50 l~~~Dw~~ile----icD~In~~--~~~~keA~r-------aIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~evas~~ 116 (389)
..+.||..-.+ |-.+++.. ...+...+. .|.+.+.+.+..++..|+.++..|..++|..|... ...
T Consensus 16 ~~~~~W~~r~~al~~L~~l~~~~~~~~~~~~~~~~l~~~~~~i~~~l~d~Rs~v~~~A~~~l~~l~~~l~~~~~~~-~~~ 94 (228)
T PF12348_consen 16 ESESDWEERVEALQKLRSLIKGNAPEDFPPDFVECLRQLLDAIIKQLSDLRSKVSKTACQLLSDLARQLGSHFEPY-ADI 94 (228)
T ss_dssp HT-SSHHHHHHHHHHHHHHHHH-B-----HHHHHHHH---HHHHH-S-HH---HHHHHHHHHHHHHHHHGGGGHHH-HHH
T ss_pred CCccCHHHHHHHHHHHHHHHHcCCccccHHHHHHHHHHhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhHhHHHH-HHH
Confidence 46678987554 44444444 233344333 55578888899999999999999999999999755 566
Q ss_pred HHHHHHHhhcCCCCChhHHHHHHHHHHHHhcC
Q 041149 117 VLDEMVRMIENPQMDPGNRSRALQLIRAWGES 148 (389)
Q Consensus 117 Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~ 148 (389)
|+..|.+.+.. ...-|++.+...|..+...
T Consensus 95 ~l~~Ll~~~~~--~~~~i~~~a~~~L~~i~~~ 124 (228)
T PF12348_consen 95 LLPPLLKKLGD--SKKFIREAANNALDAIIES 124 (228)
T ss_dssp HHHHHHHGGG-----HHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHcc--ccHHHHHHHHHHHHHHHHH
Confidence 88888888875 3457888888888887775
No 32
>PF11841 DUF3361: Domain of unknown function (DUF3361)
Probab=74.33 E-value=17 Score=32.90 Aligned_cols=72 Identities=22% Similarity=0.319 Sum_probs=56.5
Q ss_pred HHHHHHHHhcC--CCHHHHHHHHHHHHHHHhcCCcchhhhccHHHHHHHHHhhcCCCCChhHHHHHHHHHHHHhcC
Q 041149 75 IVKAIKKKISG--KSVVSQRLSLDLLEACAMNCEKVFSEVASEKVLDEMVRMIENPQMDPGNRSRALQLIRAWGES 148 (389)
Q Consensus 75 A~raIrKrL~~--~n~~vql~AL~LLe~cVkNCG~~F~evas~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~ 148 (389)
.++-|...++. .+++++.+||.+||.+|.|....|+.|..+==+..|+..+.. ++++++...+.||-+.-..
T Consensus 59 FI~Kia~~Vn~~~~d~~i~q~sLaILEs~Vl~S~~ly~~V~~evt~~~Li~hLq~--~~~~iq~naiaLinAL~~k 132 (160)
T PF11841_consen 59 FIKKIASYVNSSAMDASILQRSLAILESIVLNSPKLYQLVEQEVTLESLIRHLQV--SNQEIQTNAIALINALFLK 132 (160)
T ss_pred HHHHHHHHHccccccchHHHHHHHHHHHHHhCCHHHHHHHhccCCHHHHHHHHHc--CCHHHHHHHHHHHHHHHhc
Confidence 34444444544 379999999999999999987778888887778899998875 7789999999998664443
No 33
>KOG2160 consensus Armadillo/beta-catenin-like repeat-containing protein [Posttranslational modification, protein turnover, chaperones]
Probab=74.25 E-value=12 Score=38.03 Aligned_cols=65 Identities=14% Similarity=0.174 Sum_probs=53.1
Q ss_pred HhcCCCHHHHHHHHHHHHHHHhcCCcchhhhccHHHHHHHHHhhcCCCCChhHHHHHHHHHHHHhc
Q 041149 82 KISGKSVVSQRLSLDLLEACAMNCEKVFSEVASEKVLDEMVRMIENPQMDPGNRSRALQLIRAWGE 147 (389)
Q Consensus 82 rL~~~n~~vql~AL~LLe~cVkNCG~~F~evas~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~ 147 (389)
.|++.++.+-.+|..|+-+|+.|--+.-.+|-...|+..|.++++. ..+..||.|+|.-|..--.
T Consensus 132 ~l~~~~~~lR~~Aa~Vigt~~qNNP~~Qe~v~E~~~L~~Ll~~ls~-~~~~~~r~kaL~AissLIR 196 (342)
T KOG2160|consen 132 YLENSDAELRELAARVIGTAVQNNPKSQEQVIELGALSKLLKILSS-DDPNTVRTKALFAISSLIR 196 (342)
T ss_pred HhcCCcHHHHHHHHHHHHHHHhcCHHHHHHHHHcccHHHHHHHHcc-CCCchHHHHHHHHHHHHHh
Confidence 8999999999999999999999964444467667799999999984 5566899999887755444
No 34
>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=72.70 E-value=15 Score=29.47 Aligned_cols=72 Identities=17% Similarity=0.112 Sum_probs=58.3
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchhhhccHHHHHHHHHhhcCCCCChhHHHHHHHHHHHHhcC
Q 041149 75 IVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFSEVASEKVLDEMVRMIENPQMDPGNRSRALQLIRAWGES 148 (389)
Q Consensus 75 A~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~evas~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~ 148 (389)
.+..|.+-|++.++.+...|+..|..+..+.......+....++..|.+++.. .+..|+...+..+..+...
T Consensus 8 ~i~~l~~~l~~~~~~~~~~a~~~l~~l~~~~~~~~~~~~~~~~i~~l~~~l~~--~~~~v~~~a~~~L~~l~~~ 79 (120)
T cd00020 8 GLPALVSLLSSSDENVQREAAWALSNLSAGNNDNIQAVVEAGGLPALVQLLKS--EDEEVVKAALWALRNLAAG 79 (120)
T ss_pred ChHHHHHHHHcCCHHHHHHHHHHHHHHhcCCHHHHHHHHHCCChHHHHHHHhC--CCHHHHHHHHHHHHHHccC
Confidence 56778888888899999999999999998864444455666889999999975 4678999999999888774
No 35
>KOG1077 consensus Vesicle coat complex AP-2, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=69.22 E-value=21 Score=39.59 Aligned_cols=82 Identities=18% Similarity=0.208 Sum_probs=61.9
Q ss_pred CChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCc-chhhhccHHHHHHHHHhhcCCCCC
Q 041149 53 PNWGMNMRICALINSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEK-VFSEVASEKVLDEMVRMIENPQMD 131 (389)
Q Consensus 53 ~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~-~F~evas~~Fl~eL~kl~~~~~~~ 131 (389)
+-.=.-|-|.=++|.+.+--+.++..|++-|.++|+..+.+||. ||-|-|. .|.| -|-+++-|++-.+.+.
T Consensus 90 EKqIGYl~is~L~n~n~dl~klvin~iknDL~srn~~fv~LAL~----~I~niG~re~~e----a~~~DI~KlLvS~~~~ 161 (938)
T KOG1077|consen 90 EKQIGYLFISLLLNENSDLMKLVINSIKNDLSSRNPTFVCLALH----CIANIGSREMAE----AFADDIPKLLVSGSSM 161 (938)
T ss_pred HHHHhHHHHHHHHhcchHHHHHHHHHHHhhhhcCCcHHHHHHHH----HHHhhccHhHHH----HhhhhhHHHHhCCcch
Confidence 33344566777889888889999999999999999999999995 7888876 3433 3566777888766666
Q ss_pred hhHHHH-HHHHH
Q 041149 132 PGNRSR-ALQLI 142 (389)
Q Consensus 132 ~~Vk~k-iL~Li 142 (389)
.-||+| .|.++
T Consensus 162 ~~vkqkaALclL 173 (938)
T KOG1077|consen 162 DYVKQKAALCLL 173 (938)
T ss_pred HHHHHHHHHHHH
Confidence 678876 34444
No 36
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=67.37 E-value=9.7 Score=41.01 Aligned_cols=77 Identities=17% Similarity=0.251 Sum_probs=63.4
Q ss_pred CcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchhhhccHHHHHHHHHhhcCCCCChhHHHHHHHHHHHHhcC
Q 041149 70 FSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFSEVASEKVLDEMVRMIENPQMDPGNRSRALQLIRAWGES 148 (389)
Q Consensus 70 ~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~evas~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~ 148 (389)
--++..+-+|-++|...-|..-|.++-++|..+||-|..+.-..++.........+. .+++..|.++..++..|...
T Consensus 36 ~~a~~iv~~iE~hi~kcpp~~kL~~~y~~dsi~knvg~py~~~fs~~l~a~f~~~~~--~vd~r~r~~l~~~~~tw~~~ 112 (579)
T KOG2071|consen 36 PFAKSIVSAIEAHIAKCPPSQKLPVMYLLDSIVKNVGSPYTTAFSRNLVATFICAFT--KVDERTRTSLFKLRATWDLD 112 (579)
T ss_pred cccHHHHHHHHHHHhhCCcccccchhhhhHHHHhhcCCcchhhhhhhHHHHHHHHHh--hccccccchhHhhHHhhccC
Confidence 357888999999999999999999999999999999998765555555555555553 46777888999999999965
No 37
>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=66.29 E-value=77 Score=26.49 Aligned_cols=105 Identities=11% Similarity=0.083 Sum_probs=68.2
Q ss_pred ChHHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCH-----------HHHHHHHHHHHHHHhc
Q 041149 36 TPESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGKSV-----------VSQRLSLDLLEACAMN 104 (389)
Q Consensus 36 s~~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n~-----------~vql~AL~LLe~cVkN 104 (389)
..+++||+..|+.... .|-..+-.+.-.. ..-..|.+.+..|..|.....+ .++.+.+.+|-.-|.|
T Consensus 8 gtl~~Li~~L~~~~~~-~d~~f~~~Fllty-r~F~tp~~ll~~L~~rf~~~~~~~~~~~~~~~~~~~~rv~~~l~~Wv~~ 85 (127)
T smart00229 8 GTLEKLIEHLTEAFDK-ADPFFVETFLLTY-RSFITTQELLQLLLYRYNAIPPESWVERKVNPLRVKNRVLNILRHWVEN 85 (127)
T ss_pred ecHHHHHHHHcCCCcC-CCHHHHHHHHHHh-hhhCCHHHHHHHHHHHhCCCCcHHHHHHHhhHHHHHHHHHHHHHHHHHH
Confidence 4689999999998553 3433333222222 2235788999999999886433 3788889999999999
Q ss_pred CCcchh-hhccHHHHHHHHHhhcCCCCChhHHHHHHHHHH
Q 041149 105 CEKVFS-EVASEKVLDEMVRMIENPQMDPGNRSRALQLIR 143 (389)
Q Consensus 105 CG~~F~-evas~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~ 143 (389)
+...|. +-.-..++.++...+..... .....++.+++.
T Consensus 86 ~~~dF~~~~~l~~~l~~f~~~~~~~~~-~~~~~~l~~~~~ 124 (127)
T smart00229 86 YWQDFEDDPKLILRLLEFLDLVDQEKG-PGLVTSLQELLQ 124 (127)
T ss_pred CCcccccCHHHHHHHHHHHHHHhhCcC-CCHHHHHHHHHH
Confidence 999996 55455666666665543222 244555666554
No 38
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A.
Probab=65.54 E-value=35 Score=26.10 Aligned_cols=55 Identities=13% Similarity=0.217 Sum_probs=43.1
Q ss_pred HHHHHHh-cCCCHHHHHHHHHHHHHHHhcCCcchhhhccHHHHHHHHHhhcCCCCChhHHHHHHHHHHH
Q 041149 77 KAIKKKI-SGKSVVSQRLSLDLLEACAMNCEKVFSEVASEKVLDEMVRMIENPQMDPGNRSRALQLIRA 144 (389)
Q Consensus 77 raIrKrL-~~~n~~vql~AL~LLe~cVkNCG~~F~evas~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~ 144 (389)
..|.+.| +++++.+...|+.+|. ++.+.+.+..|..+++ ..++.||..++..+..
T Consensus 2 ~~L~~~l~~~~~~~vr~~a~~~L~-----------~~~~~~~~~~L~~~l~--d~~~~vr~~a~~aL~~ 57 (88)
T PF13646_consen 2 PALLQLLQNDPDPQVRAEAARALG-----------ELGDPEAIPALIELLK--DEDPMVRRAAARALGR 57 (88)
T ss_dssp HHHHHHHHTSSSHHHHHHHHHHHH-----------CCTHHHHHHHHHHHHT--SSSHHHHHHHHHHHHC
T ss_pred HHHHHHHhcCCCHHHHHHHHHHHH-----------HcCCHhHHHHHHHHHc--CCCHHHHHHHHHHHHH
Confidence 4677888 7899999999998887 4456688999999995 3667899888777643
No 39
>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=64.05 E-value=6.2 Score=29.57 Aligned_cols=54 Identities=24% Similarity=0.329 Sum_probs=34.0
Q ss_pred HHHHHHHHHHhcCCcchh-hhccHH---HHHHHHHhhcCCCCChhHHHHHHHHHHHHhcC
Q 041149 93 LSLDLLEACAMNCEKVFS-EVASEK---VLDEMVRMIENPQMDPGNRSRALQLIRAWGES 148 (389)
Q Consensus 93 ~AL~LLe~cVkNCG~~F~-evas~~---Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~ 148 (389)
.-|-|++..++||...-. ++. .. ++..+..-+.. ..+++++.++..++.-|.+.
T Consensus 3 ~~lYl~ndI~q~sk~k~~~~f~-~~F~~~l~~~~~~~~~-~~~~~~~~kv~rll~iW~~r 60 (64)
T PF04818_consen 3 ALLYLANDILQNSKRKNPDEFA-PAFSPVLPDAFAHAYK-NVDPEVRKKVQRLLNIWEER 60 (64)
T ss_dssp HHHHHHHHHHHHHHHHTTHCHH-HHHHCCHHHHHHHHCC-CS-HHHHHHHHHHHHHHHHC
T ss_pred ceeehHHHHHHHhhhcChHHHH-HHHHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHhhCC
Confidence 456788999999854321 221 22 33333333332 34889999999999999874
No 40
>PF08167 RIX1: rRNA processing/ribosome biogenesis
Probab=59.41 E-value=58 Score=29.18 Aligned_cols=69 Identities=17% Similarity=0.269 Sum_probs=49.8
Q ss_pred HHHHHHHHHHHh----cCCCHHHHHHHHHHHHHHHhcCCc-chhhhccHHHHHHHHHhhcCCCCChhHHHHHHHHH
Q 041149 72 GSEIVKAIKKKI----SGKSVVSQRLSLDLLEACAMNCEK-VFSEVASEKVLDEMVRMIENPQMDPGNRSRALQLI 142 (389)
Q Consensus 72 ~keA~raIrKrL----~~~n~~vql~AL~LLe~cVkNCG~-~F~evas~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li 142 (389)
.+.++..++.|| +++++..-+.++.|+...+.+||. .|.+-+ ..|+..|.+++.+ ..+..+++-++..+
T Consensus 19 ~~~~l~~l~~ri~~LL~s~~~~~rw~G~~Ll~~~~~~~~~e~l~~~~-~~W~~~Ll~~L~~-~~~~~~~~~ai~~L 92 (165)
T PF08167_consen 19 SKSALHKLVTRINSLLQSKSAYSRWAGLCLLKVTVEQCSWEILLSHG-SQWLRALLSILEK-PDPPSVLEAAIITL 92 (165)
T ss_pred CHHHHHHHHHHHHHHhCCCChhhHHHHHHHHHHHHHHhhHHHHHHHH-HHHHHHHHHHHcC-CCCHHHHHHHHHHH
Confidence 355555555554 578899999999999999999986 564333 6799999999986 44455666544444
No 41
>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=58.26 E-value=1e+02 Score=25.26 Aligned_cols=71 Identities=10% Similarity=0.019 Sum_probs=50.3
Q ss_pred HHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCC--------------HHHHHHHHHHHHHHHh
Q 041149 38 ESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGKS--------------VVSQRLSLDLLEACAM 103 (389)
Q Consensus 38 ~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n--------------~~vql~AL~LLe~cVk 103 (389)
+.+||+++|++.. ..|-..+-.+.-.-+ +-..|.+.+..|..|..... ..++++.+.+|-.-|.
T Consensus 2 l~~Li~~L~~~~~-~~d~~f~~~FllTyr-sF~s~~~ll~~L~~rf~~~~~~~~~~~~~~~~~~~~~~~~v~~~l~~Wv~ 79 (122)
T cd06224 2 LEALIEHLTSTFD-MPDPSFVSTFLLTYR-SFTTPTELLEKLIERYEIAPPENLEYNDWDKKKSKPIRLRVLNVLRTWVE 79 (122)
T ss_pred HHHHHHHHcCCCc-cccHHHHHHHHHHhh-hhCCHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6789999999876 233333333322222 23468889999999988642 3468888999999999
Q ss_pred cCCcchh
Q 041149 104 NCEKVFS 110 (389)
Q Consensus 104 NCG~~F~ 110 (389)
||...|.
T Consensus 80 ~~~~df~ 86 (122)
T cd06224 80 NYPYDFF 86 (122)
T ss_pred hCCCccc
Confidence 9999884
No 42
>KOG1293 consensus Proteins containing armadillo/beta-catenin-like repeat [General function prediction only]
Probab=48.10 E-value=81 Score=34.66 Aligned_cols=88 Identities=13% Similarity=0.181 Sum_probs=67.9
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchh-hhccHHHHHHHHHhhcCCCCChhHHHHHHHHHHHHhcCCCCCC
Q 041149 75 IVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFS-EVASEKVLDEMVRMIENPQMDPGNRSRALQLIRAWGESEDLAY 153 (389)
Q Consensus 75 A~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~-evas~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~~~~~~ 153 (389)
.+..|-+-+..+.+++--.++-+|.-+|-||...|. +.-++=|.+-+.-++++ .+..|++.++.+++...-. ....
T Consensus 462 gId~l~s~~~~~~~n~r~~~~~~Lr~l~f~~de~~k~~~~~ki~a~~i~~l~nd--~d~~Vqeq~fqllRNl~c~-~~~s 538 (678)
T KOG1293|consen 462 GIDILESMLTDPDFNSRANSLWVLRHLMFNCDEEEKFQLLAKIPANLILDLIND--PDWAVQEQCFQLLRNLTCN-SRKS 538 (678)
T ss_pred cHHHHHHHhcCCCchHHHHHHHHHHHHHhcchHHHHHHHHHHhhHHHHHHHHhC--CCHHHHHHHHHHHHHhhcC-cHHH
Confidence 466777788889999999999999999999999997 66666677778888775 4568999999999999875 1122
Q ss_pred chHHHHHHHHHh
Q 041149 154 LPVYRQTYMSLK 165 (389)
Q Consensus 154 l~~i~~~Y~~Lk 165 (389)
...+.+.|.+.-
T Consensus 539 vdfll~~~~~~l 550 (678)
T KOG1293|consen 539 VDFLLEKFKDVL 550 (678)
T ss_pred HHHHHHhhhHHH
Confidence 445666665533
No 43
>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=47.13 E-value=44 Score=34.72 Aligned_cols=102 Identities=14% Similarity=0.215 Sum_probs=68.9
Q ss_pred HHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHH-HHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCc-chhhhccHHHHH
Q 041149 42 VDEATLETLEEPNWGMNMRICALINSEEFSGSE-IVKAIKKKISGKSVVSQRLSLDLLEACAMNCEK-VFSEVASEKVLD 119 (389)
Q Consensus 42 IekATs~~l~~~Dw~~ileicD~In~~~~~~ke-A~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~-~F~evas~~Fl~ 119 (389)
|.+.-+......-..+++.++.+.+..++-... .+..|.+-|..+++.|+..|+.++..| .|.. .+. -.-..+..
T Consensus 119 v~~ll~~~~~~VRk~A~~~l~~i~~~~p~~~~~~~~~~l~~lL~d~~~~V~~~a~~~l~~i--~~~~~~~~-~~~~~~~~ 195 (526)
T PF01602_consen 119 VIKLLSDPSPYVRKKAALALLKIYRKDPDLVEDELIPKLKQLLSDKDPSVVSAALSLLSEI--KCNDDSYK-SLIPKLIR 195 (526)
T ss_dssp HHHHHHSSSHHHHHHHHHHHHHHHHHCHCCHHGGHHHHHHHHTTHSSHHHHHHHHHHHHHH--HCTHHHHT-THHHHHHH
T ss_pred HHHHhcCCchHHHHHHHHHHHHHhccCHHHHHHHHHHHHhhhccCCcchhHHHHHHHHHHH--ccCcchhh-hhHHHHHH
Confidence 334333333344455788899999988887666 599999999999999999999999999 2222 222 22233445
Q ss_pred HHHHhhcCCCCChhHHHHHHHHHHHHhcC
Q 041149 120 EMVRMIENPQMDPGNRSRALQLIRAWGES 148 (389)
Q Consensus 120 eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~ 148 (389)
.|.+++. ..++-++-+++.++..+...
T Consensus 196 ~L~~~l~--~~~~~~q~~il~~l~~~~~~ 222 (526)
T PF01602_consen 196 ILCQLLS--DPDPWLQIKILRLLRRYAPM 222 (526)
T ss_dssp HHHHHHT--CCSHHHHHHHHHHHTTSTSS
T ss_pred Hhhhccc--ccchHHHHHHHHHHHhcccC
Confidence 5555553 45566777888888766654
No 44
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=45.91 E-value=44 Score=27.09 Aligned_cols=51 Identities=18% Similarity=0.143 Sum_probs=37.7
Q ss_pred HHHHHHHhHHHHHHHHHhhCCCCCCCchhHHHHHHHHHHHHhHHHHHHhhh
Q 041149 229 EFLVVTRNSLDLLSSILNTETEPKPIKEDLTVSMLEKCKESQPVIQRIIES 279 (389)
Q Consensus 229 ~eLe~vk~n~~LL~emL~~~~~~~~~~ddli~EL~~~Cr~mq~rI~rli~~ 279 (389)
++++.+...+.-|+..|+........-..-+++|.+.+|+.|..++.-...
T Consensus 26 ~E~~~ins~LD~Lns~LD~LE~rnD~l~~~L~~LLesnrq~R~e~~~~~~~ 76 (83)
T PF03670_consen 26 EEYAAINSMLDQLNSCLDHLEQRNDHLHAQLQELLESNRQIRLEFQEQLSK 76 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 568888888888888888764421111123799999999999999887764
No 45
>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=45.08 E-value=12 Score=27.45 Aligned_cols=29 Identities=17% Similarity=0.553 Sum_probs=20.8
Q ss_pred HHHHHhcCCcc---hhhhccHHHHHHHHHhhcC
Q 041149 98 LEACAMNCEKV---FSEVASEKVLDEMVRMIEN 127 (389)
Q Consensus 98 Le~cVkNCG~~---F~evas~~Fl~eL~kl~~~ 127 (389)
||.+|.|||.. |+++ ....-+++.+++.+
T Consensus 7 ld~lv~~cg~IrarleE~-qa~i~~e~~~l~~~ 38 (51)
T PF07197_consen 7 LDLLVVDCGSIRARLEEI-QAQIPDELAKLATP 38 (51)
T ss_pred HHHHHhccchHHHHHHHH-HHHhhHHHHHhcCh
Confidence 78999999983 4443 45567777777764
No 46
>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=44.10 E-value=1.1e+02 Score=22.73 Aligned_cols=56 Identities=11% Similarity=0.044 Sum_probs=45.3
Q ss_pred ChHHHHHHHHhHh-cCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcch
Q 041149 54 NWGMNMRICALIN-SEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVF 109 (389)
Q Consensus 54 Dw~~ileicD~In-~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F 109 (389)
||..+.+.|..+- +..-.-+-++-.+.-.++.....--..+|.+|..|+.+.....
T Consensus 1 DW~~v~~~~~~lL~~~sKDlrv~~~l~~a~~~~~g~~gl~~gl~ll~~ll~~~W~~l 57 (62)
T PF06812_consen 1 DWDKVEELALELLSEQSKDLRVAVWLTEALLRLEGLAGLAEGLELLADLLENYWDSL 57 (62)
T ss_pred CHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHccChhHHHHHHHHHHHHHHHCCccc
Confidence 8999999998877 4445677788888888877778888889999999998877643
No 47
>COG1059 Thermostable 8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]
Probab=43.31 E-value=82 Score=29.57 Aligned_cols=101 Identities=14% Similarity=0.161 Sum_probs=60.7
Q ss_pred CCCChHHHHHHHHh-HhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchhh------hccHHHHHHHHH
Q 041149 51 EEPNWGMNMRICAL-INSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFSE------VASEKVLDEMVR 123 (389)
Q Consensus 51 ~~~Dw~~ileicD~-In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~e------vas~~Fl~eL~k 123 (389)
..++|-.-+.+|=+ .|+++.++-.|.+.|.+-+-+.+.. =|.--.++||++|+. |-.++++..+..
T Consensus 35 ~~e~lf~ELsFCILTANsSA~~~~~~q~~lG~gfly~~~e-------EL~e~Lk~~g~Rf~n~raeyIVeaR~~~~~lk~ 107 (210)
T COG1059 35 TKEDLFKELSFCILTANSSATMGLRAQNELGDGFLYLSEE-------ELREKLKEVGYRFYNVRAEYIVEAREKFDDLKI 107 (210)
T ss_pred cHHHHHHHHHHHhccccchHHHHHHHHHHhccccccCCHH-------HHHHHHHHhcchhcccchHHHHHHHHHHHHHHH
Confidence 44577766666654 3445455556666666555554443 366777899999952 445677778888
Q ss_pred hhcCCCCChhH-HHHHHHHHHHHhcCCCCCCchHHHHHHHHHhhCCC
Q 041149 124 MIENPQMDPGN-RSRALQLIRAWGESEDLAYLPVYRQTYMSLKERSV 169 (389)
Q Consensus 124 l~~~~~~~~~V-k~kiL~Li~~Wa~~~~~~~l~~i~~~Y~~Lk~~Gv 169 (389)
++.. ..++.| |+.+++-|.. + ++.++-+.||.-|+
T Consensus 108 ~v~~-~~~~~vaRE~Lv~nikG---------i-GyKEASHFLRNVG~ 143 (210)
T COG1059 108 IVKA-DENEKVARELLVENIKG---------I-GYKEASHFLRNVGF 143 (210)
T ss_pred HHhc-CcchHHHHHHHHHHccc---------c-cHHHHHHHHHhcCh
Confidence 8874 344443 3334333321 1 34677777888776
No 48
>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=43.17 E-value=67 Score=20.30 Aligned_cols=30 Identities=17% Similarity=0.243 Sum_probs=25.2
Q ss_pred HHHHHHHhcCCCHHHHHHHHHHHHHHHhcC
Q 041149 76 VKAIKKKISGKSVVSQRLSLDLLEACAMNC 105 (389)
Q Consensus 76 ~raIrKrL~~~n~~vql~AL~LLe~cVkNC 105 (389)
+..|.+-++++++.|-..|..-|..+++.|
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 356778899999999999999999998887
No 49
>PF08045 CDC14: Cell division control protein 14, SIN component; InterPro: IPR012535 Cdc14 is a component of the septation initiation network (SIN) and is required for the localisation and activity of Sid1. Sid1 is a protein kinase that localises asymmetrically to one spindle pole body (SPB) in anaphase disappears prior to cell separation [], [].
Probab=43.00 E-value=95 Score=30.32 Aligned_cols=73 Identities=14% Similarity=0.157 Sum_probs=50.8
Q ss_pred HHHHHHHHHHHh-cCCCHHHHHHHHHHH-HHHHhcCCc--chhhhccHHHHHHHHHhhcCCCCChhHHHHHHHHHHHHhc
Q 041149 72 GSEIVKAIKKKI-SGKSVVSQRLSLDLL-EACAMNCEK--VFSEVASEKVLDEMVRMIENPQMDPGNRSRALQLIRAWGE 147 (389)
Q Consensus 72 ~keA~raIrKrL-~~~n~~vql~AL~LL-e~cVkNCG~--~F~evas~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~ 147 (389)
-..+++.|..-| ....+.+|..+|..| -+|+++..- .|-++ .=+..+.++++...++.+||=|+++.+.-|=.
T Consensus 131 r~~~m~lll~LL~~~~~~~i~~a~L~tLv~iLld~p~N~r~FE~~---~Gl~~v~~llk~~~~~~~~r~K~~EFL~fyl~ 207 (257)
T PF08045_consen 131 REQNMELLLDLLSPSNPPAIQSACLDTLVCILLDSPENQRDFEEL---NGLSTVCSLLKSKSTDRELRLKCIEFLYFYLM 207 (257)
T ss_pred hhhhHHHHHHHhccCCCchHHHHHHHHHHHHHHcChHHHHHHHHh---CCHHHHHHHHccccccHHHhHHHHHHHHHHHc
Confidence 445677777777 346799999999644 455554422 34322 22667888888889999999999999866654
No 50
>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=42.54 E-value=2.3e+02 Score=28.17 Aligned_cols=103 Identities=15% Similarity=0.163 Sum_probs=67.8
Q ss_pred HHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCC------cHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcch--
Q 041149 38 ESKMVDEATLETLEEPNWGMNMRICALINSEEF------SGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVF-- 109 (389)
Q Consensus 38 ~~~lIekATs~~l~~~Dw~~ileicD~In~~~~------~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F-- 109 (389)
+...|+..++-+ ..---...-.|++.+.+... ..-..+.++.|-|+.+...++.+|+.++..++-..|...
T Consensus 45 L~~~Id~l~eK~-~~~Re~aL~~l~~~l~~~~~~d~v~~~~~tL~~~~~k~lkkg~~~E~~lA~~~l~Ll~ltlg~g~~~ 123 (309)
T PF05004_consen 45 LKEAIDLLTEKS-SSTREAALEALIRALSSRYLPDFVEDRRETLLDALLKSLKKGKSEEQALAARALALLALTLGAGEDS 123 (309)
T ss_pred HHHHHHHHHhcC-HHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhhhcCCCccH
Confidence 556677776554 33344455567777765532 123446778888888888999999999999988876433
Q ss_pred hhhccHHHHHHHHHhhcCCCCChhHHHHHHHHH
Q 041149 110 SEVASEKVLDEMVRMIENPQMDPGNRSRALQLI 142 (389)
Q Consensus 110 ~evas~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li 142 (389)
.+|. +.+...|.+++.+......+|..++..+
T Consensus 124 ~ei~-~~~~~~L~~~l~d~s~~~~~R~~~~~aL 155 (309)
T PF05004_consen 124 EEIF-EELKPVLKRILTDSSASPKARAACLEAL 155 (309)
T ss_pred HHHH-HHHHHHHHHHHhCCccchHHHHHHHHHH
Confidence 2332 3566778888877555566777666444
No 51
>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=42.44 E-value=92 Score=27.50 Aligned_cols=87 Identities=15% Similarity=0.206 Sum_probs=56.9
Q ss_pred HHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCH----HHHHHHHHHHHHHHhcCCcchh--hhccH---HHHHHHHHhhcC
Q 041149 57 MNMRICALINSEEFSGSEIVKAIKKKISGKSV----VSQRLSLDLLEACAMNCEKVFS--EVASE---KVLDEMVRMIEN 127 (389)
Q Consensus 57 ~ileicD~In~~~~~~keA~raIrKrL~~~n~----~vql~AL~LLe~cVkNCG~~F~--evas~---~Fl~eL~kl~~~ 127 (389)
.+.=||++.+..-...+.....|+.=+..... ......+.++=.++++||..+. ....+ +|+..+...+..
T Consensus 106 ~~~fl~eL~~~~vv~~~~i~~~l~~ll~~~~~~~~~~~~~~~ie~~~~lL~~~G~~l~~~~~~~~~l~~~~~~~~~~~~~ 185 (209)
T PF02854_consen 106 NIRFLAELFNFGVVSEKIIFDILRELLSDGTDECQPPPDEENIECLCTLLKTCGKKLENSEESPKALDEIFERLQKYANS 185 (209)
T ss_dssp HHHHHHHHHHTTSSCHHHHHHHHHHHHHHTSHHCCHHTCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhHHHhhHhhccccchhHHHHHHHHHhcccccccCCCcHhHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHHHh
Confidence 44458888888877777666666665655444 4455666777777888899886 43332 355666666654
Q ss_pred ---CCCChhHHHHHHHHHH
Q 041149 128 ---PQMDPGNRSRALQLIR 143 (389)
Q Consensus 128 ---~~~~~~Vk~kiL~Li~ 143 (389)
+..+..++-.+.+++.
T Consensus 186 ~~~~~~~~r~~~~l~~l~~ 204 (209)
T PF02854_consen 186 KKDPNLSSRIRFMLEDLIE 204 (209)
T ss_dssp CHSSSSSHHHHHHHHHHHH
T ss_pred hcccCCCHHHHHHHHHHHH
Confidence 5667777777777663
No 52
>KOG1077 consensus Vesicle coat complex AP-2, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=40.91 E-value=80 Score=35.25 Aligned_cols=74 Identities=18% Similarity=0.215 Sum_probs=54.0
Q ss_pred CcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcch-hhhccHHHHHHHHHhhcCCCCChhHHHHHHHHHHHHhcC
Q 041149 70 FSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVF-SEVASEKVLDEMVRMIENPQMDPGNRSRALQLIRAWGES 148 (389)
Q Consensus 70 ~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F-~evas~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~ 148 (389)
+.-.-|+..|-+-|.++-++.-++||. ++++=|...| |...++. .+.++..++- -.|..||+|+++|++...+.
T Consensus 325 ~ll~~~~~~Lg~fls~rE~NiRYLaLE---sm~~L~ss~~s~davK~h-~d~Ii~sLkt-erDvSirrravDLLY~mcD~ 399 (938)
T KOG1077|consen 325 ELLSRAVNQLGQFLSHRETNIRYLALE---SMCKLASSEFSIDAVKKH-QDTIINSLKT-ERDVSIRRRAVDLLYAMCDV 399 (938)
T ss_pred HHHHHHHHHHHHHhhcccccchhhhHH---HHHHHHhccchHHHHHHH-HHHHHHHhcc-ccchHHHHHHHHHHHHHhch
Confidence 344567788888889999999998874 4444455577 4555555 7777777752 45678999999999988775
No 53
>PF12783 Sec7_N: Guanine nucleotide exchange factor in Golgi transport N-terminal
Probab=40.57 E-value=1.8e+02 Score=25.74 Aligned_cols=81 Identities=15% Similarity=0.219 Sum_probs=54.7
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchh-hhccHHHHHHHHH-hhcCCCCChhHHHHHHHHHHHHhcCCCCC
Q 041149 75 IVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFS-EVASEKVLDEMVR-MIENPQMDPGNRSRALQLIRAWGESEDLA 152 (389)
Q Consensus 75 A~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~-evas~~Fl~eL~k-l~~~~~~~~~Vk~kiL~Li~~Wa~~~~~~ 152 (389)
...+|-+-+.+.++.+..++|.++-.++.+-+..+. |+ .-|+..+.. ++....+...-|.-+|+.+..+-.. |
T Consensus 74 l~~~Ll~~~~~~~~~i~~~slri~~~l~~~~~~~Lk~el--e~~l~~i~~~il~~~~~~~~~k~~~Le~l~~l~~~---p 148 (168)
T PF12783_consen 74 LCPALLKNLSSSDFPIFSRSLRIFLTLLSRFRSHLKLEL--EVFLSHIILRILESDNSSLWQKELALEILRELCKD---P 148 (168)
T ss_pred HHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHccCCCcHHHHHHHHHHHHHHHhC---h
Confidence 344555555677799999999999999966433332 33 458888877 6654444456677799999887763 2
Q ss_pred CchHHHHHHH
Q 041149 153 YLPVYRQTYM 162 (389)
Q Consensus 153 ~l~~i~~~Y~ 162 (389)
..+.+.|.
T Consensus 149 --~~l~~lf~ 156 (168)
T PF12783_consen 149 --QFLVDLFV 156 (168)
T ss_pred --hHHHHHHH
Confidence 34677774
No 54
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=40.12 E-value=1.5e+02 Score=31.58 Aligned_cols=93 Identities=15% Similarity=0.181 Sum_probs=69.6
Q ss_pred ChHHHHHHHHhHh---cCCC---cHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchhhhccHHHHHHHHHhhcC
Q 041149 54 NWGMNMRICALIN---SEEF---SGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFSEVASEKVLDEMVRMIEN 127 (389)
Q Consensus 54 Dw~~ileicD~In---~~~~---~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~evas~~Fl~eL~kl~~~ 127 (389)
+-..+..+|+.|. .... -.......|.+=|.|+++.|..+++..|.-|+.+-....+.+.+.+++..+...+..
T Consensus 51 ~~e~v~~~~~iL~~~l~~~~~~~l~~~~~~~L~~gL~h~~~~Vr~l~l~~l~~~~~~~~~~~~~~~~~~l~~~i~~~L~~ 130 (503)
T PF10508_consen 51 NREQVELICDILKRLLSALSPDSLLPQYQPFLQRGLTHPSPKVRRLALKQLGRIARHSEGAAQLLVDNELLPLIIQCLRD 130 (503)
T ss_pred ChHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhcCCHHHHHHhcCccHHHHHHHHHcC
Confidence 5555666666655 2221 134566778888999999999999999999887765555567888899999998864
Q ss_pred CCCChhHHHHHHHHHHHHhcC
Q 041149 128 PQMDPGNRSRALQLIRAWGES 148 (389)
Q Consensus 128 ~~~~~~Vk~kiL~Li~~Wa~~ 148 (389)
.+..|.+.+..+|..-+..
T Consensus 131 --~d~~Va~~A~~~L~~l~~~ 149 (503)
T PF10508_consen 131 --PDLSVAKAAIKALKKLASH 149 (503)
T ss_pred --CcHHHHHHHHHHHHHHhCC
Confidence 6668889988888777764
No 55
>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=40.11 E-value=27 Score=28.04 Aligned_cols=68 Identities=13% Similarity=0.229 Sum_probs=44.4
Q ss_pred HHHHHHhcCCcchhhhccH-HHHHHHHHhhcCCCCChhHHHHHHHHHHHHhcC-CCCCCchHHHHHHHHHhhCC
Q 041149 97 LLEACAMNCEKVFSEVASE-KVLDEMVRMIENPQMDPGNRSRALQLIRAWGES-EDLAYLPVYRQTYMSLKERS 168 (389)
Q Consensus 97 LLe~cVkNCG~~F~evas~-~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~-~~~~~l~~i~~~Y~~Lk~~G 168 (389)
..+.+.+|-|..+.+++.+ .|.+.=+.-+..... ..+++++.++|..|... +.. ..+..+.+-|+.-|
T Consensus 4 ~f~~i~~~lG~~Wk~laR~LGlse~~Id~i~~~~~-~~~~eq~~~mL~~W~~~~g~~---At~~~L~~aL~~~~ 73 (86)
T cd08306 4 AFDVICENVGRDWRKLARKLGLSETKIESIEEAHP-RNLREQVRQSLREWKKIKKKE---AKVADLIKALRDCQ 73 (86)
T ss_pred HHHHHHHHHhhhHHHHHHHcCCCHHHHHHHHHHCC-CCHHHHHHHHHHHHHHhHCcc---hHHHHHHHHHHHcC
Confidence 4677888888888776655 465554444443122 35889999999999997 433 33455555666555
No 56
>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=39.85 E-value=2.1e+02 Score=23.52 Aligned_cols=52 Identities=13% Similarity=0.089 Sum_probs=37.8
Q ss_pred HHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchhhhccHHHHHHHHHhhcC
Q 041149 76 VKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFSEVASEKVLDEMVRMIEN 127 (389)
Q Consensus 76 ~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~evas~~Fl~eL~kl~~~ 127 (389)
+-.|+-=+.|-++.|+.-|+.+||.|+..|+...-.-...+.++.+..++..
T Consensus 13 ~~~i~sAMTHi~~~Ir~dsl~~L~~lL~~~p~~~~~~~~~kil~~f~~ll~~ 64 (102)
T PF12333_consen 13 MLYISSAMTHISPDIREDSLKFLDLLLEHAPDELCSGGWVKILPNFLDLLGW 64 (102)
T ss_pred HHHHHHHHHhCCHHHHHhHHHHHHHHHHHCChHhHhhhHHHHHHHHHHHHCC
Confidence 4455556678899999999999999999999873222334466666666653
No 57
>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=38.30 E-value=1.1e+02 Score=26.44 Aligned_cols=72 Identities=11% Similarity=0.147 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHh-cCCCHHHHHHHHHHHHHHHhcCCcchhhhccHHHHHHHHHhhcCCCCChhHHHHHHHHHHHH
Q 041149 72 GSEIVKAIKKKI-SGKSVVSQRLSLDLLEACAMNCEKVFSEVASEKVLDEMVRMIENPQMDPGNRSRALQLIRAW 145 (389)
Q Consensus 72 ~keA~raIrKrL-~~~n~~vql~AL~LLe~cVkNCG~~F~evas~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~W 145 (389)
--+.++.|.+-| .+.++.+.--|..=|...|+.....-..|..-..-..+-.++. ..+++||...|..+|.|
T Consensus 41 ~~~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 41 NFELLKKLIKLLDKSDDPTTLAVACHDIGEFVRHYPNGRNIIEKLGAKERVMELMN--HEDPEVRYEALLAVQKL 113 (119)
T ss_dssp GGHHHHHHHHHH-SHHHHHHHHHHHHHHHHHHHH-GGGHHHHHHHSHHHHHHHHTS---SSHHHHHHHHHHHHHH
T ss_pred ccHHHHHHHHHHccCCCcceeehhhcchHHHHHHChhHHHHHHhcChHHHHHHHhc--CCCHHHHHHHHHHHHHH
Confidence 344555555555 3345666666777777777776331112222224444556665 36789999999998876
No 58
>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=38.26 E-value=1.6e+02 Score=30.47 Aligned_cols=27 Identities=22% Similarity=0.443 Sum_probs=18.5
Q ss_pred HHHHHHHhhcCCCCChhHHHHHHHHHHHH
Q 041149 117 VLDEMVRMIENPQMDPGNRSRALQLIRAW 145 (389)
Q Consensus 117 Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~W 145 (389)
|++.|.+++.+ .++.|+.-++.++...
T Consensus 153 ~~~~l~~lL~d--~~~~V~~~a~~~l~~i 179 (526)
T PF01602_consen 153 LIPKLKQLLSD--KDPSVVSAALSLLSEI 179 (526)
T ss_dssp HHHHHHHHTTH--SSHHHHHHHHHHHHHH
T ss_pred HHHHHhhhccC--CcchhHHHHHHHHHHH
Confidence 67777777743 4467777777777777
No 59
>PF12243 CTK3: CTD kinase subunit gamma CTK3
Probab=37.97 E-value=2.5e+02 Score=24.83 Aligned_cols=71 Identities=15% Similarity=0.210 Sum_probs=41.7
Q ss_pred HHHHHHHhcC--CcchhhhccHHHHHHHHHhhcCCCCChhHHHHHHHHHHHHhcCCCCCCchHHHHHHHHHhhC
Q 041149 96 DLLEACAMNC--EKVFSEVASEKVLDEMVRMIENPQMDPGNRSRALQLIRAWGESEDLAYLPVYRQTYMSLKER 167 (389)
Q Consensus 96 ~LLe~cVkNC--G~~F~evas~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~~~~~~l~~i~~~Y~~Lk~~ 167 (389)
.+.+.|.+.. +..|-+.-.++...-+-.++.+......-..-+...|+.|....-.+ ...+.+.+..|+.+
T Consensus 66 ~l~e~~~~~~~~~~~Yv~~l~~dL~~Iv~~V~P~~~~g~~N~~~~~kvL~~~~~k~~l~-~~~~~~~~~~l~~r 138 (139)
T PF12243_consen 66 SLCESSQKSKKYNYPYVSMLQRDLPRIVDAVAPPDNSGAANLKSVRKVLKNWSKKKILD-PEEYEEIEASLKER 138 (139)
T ss_pred HHHHHHHhcccccchhHHHHHHHHHHHHHHhCCCCCccchHHHHHHHHHHHHHHcCCCC-HHHHHHHHHHHhcc
Confidence 4677777777 45564555555555454444433232233456788889999972111 25677777777654
No 60
>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=37.54 E-value=72 Score=21.98 Aligned_cols=33 Identities=21% Similarity=0.394 Sum_probs=22.7
Q ss_pred HHHHhhhcCCCHHHHHHHHHhhH-HHHHHHHHHH
Q 041149 273 IQRIIESTTDDEAMLFEALNLHD-ELQLVISRYE 305 (389)
Q Consensus 273 I~rli~~~~~dEe~L~eLL~~ND-eL~~vl~rYe 305 (389)
|..++.-++-+++.-..+|+.|+ +|..++..|-
T Consensus 4 i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~~y~ 37 (43)
T PF14555_consen 4 IAQFMSITGADEDVAIQYLEANNWDLEAAVNAYF 37 (43)
T ss_dssp HHHHHHHH-SSHHHHHHHHHHTTT-HHHHHHHHH
T ss_pred HHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHH
Confidence 44444434457777788998888 9999999983
No 61
>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=37.53 E-value=4.4e+02 Score=28.50 Aligned_cols=81 Identities=16% Similarity=0.135 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHhcCCcchhh---hc-c------HHHHHHHHHhhcCCCCChhHHHHHHHHHHHHhcCCCCCCchHHHHHH
Q 041149 92 RLSLDLLEACAMNCEKVFSE---VA-S------EKVLDEMVRMIENPQMDPGNRSRALQLIRAWGESEDLAYLPVYRQTY 161 (389)
Q Consensus 92 l~AL~LLe~cVkNCG~~F~e---va-s------~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~~~~~~l~~i~~~Y 161 (389)
-.|+.-|+..+.|-...|.+ .. + ++.+..+..-+.. -...-++|=.++..-... -...+.-+.+.|
T Consensus 160 G~a~~~Le~~L~~ie~~F~~f~~lt~~GD~~~A~eil~~l~~~~~~---l~~~~e~IP~l~~~l~~~-~P~ql~eL~~gy 235 (560)
T PF06160_consen 160 GPAIEELEKQLENIEEEFSEFEELTENGDYLEAREILEKLKEETDE---LEEIMEDIPKLYKELQKE-FPDQLEELKEGY 235 (560)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH---HHHHHHHhHHHHHHHHHH-hHHHHHHHHHHH
Confidence 45667778888887776632 21 1 2233333322210 001111222233222222 123477889999
Q ss_pred HHHhhCCCCCCCCCC
Q 041149 162 MSLKERSVPPPVEDG 176 (389)
Q Consensus 162 ~~Lk~~Gv~FP~~~~ 176 (389)
+.|+.+||.|+..+.
T Consensus 236 ~~m~~~gy~l~~~~i 250 (560)
T PF06160_consen 236 REMEEEGYYLEHLDI 250 (560)
T ss_pred HHHHHCCCCCCCCCH
Confidence 999999999998553
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=37.45 E-value=60 Score=26.21 Aligned_cols=72 Identities=10% Similarity=0.021 Sum_probs=46.7
Q ss_pred hHHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCC---------------HHHHHHHHHHHHHH
Q 041149 37 PESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGKS---------------VVSQRLSLDLLEAC 101 (389)
Q Consensus 37 ~~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n---------------~~vql~AL~LLe~c 101 (389)
++++||+++|++.... |-..+-.+.=.- ..-..|.+.+..|..|..... ..++++.+.+|-.-
T Consensus 6 tl~~Li~~L~~~~~~~-d~~f~~~FllTy-r~F~tp~~Ll~~L~~ry~~~~~~~~~~~~~~~~~~~~~i~~rv~~~l~~W 83 (104)
T PF00618_consen 6 TLEKLIERLTSSFNSD-DEEFVDTFLLTY-RSFTTPEELLDKLIQRYNIPPPNGLSQDESWDQDSQEPIRLRVLNVLKYW 83 (104)
T ss_dssp -HHHHHHHHCHC-SS--HHHHHHHHHHHH-HHCS-HHHHHHHHHHHHT---SSS-HHHHT-HHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHhcccccC-CHHHHHHHHHHh-HhhCCHHHHHHHHHHHhcccCCccccccchhhhhhhHHHHHHHHHHHHHH
Confidence 5899999999983332 323333333223 334579999999999995311 13677888888899
Q ss_pred HhcCCcchh
Q 041149 102 AMNCEKVFS 110 (389)
Q Consensus 102 VkNCG~~F~ 110 (389)
++++...|+
T Consensus 84 i~~~~~df~ 92 (104)
T PF00618_consen 84 IENYPDDFR 92 (104)
T ss_dssp HHHHCCCCH
T ss_pred HHHChHhhC
Confidence 999888885
No 63
>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=37.32 E-value=62 Score=26.71 Aligned_cols=33 Identities=12% Similarity=0.259 Sum_probs=26.1
Q ss_pred HHHHHHHHHhhcCCCCChhHHHHHHHHHHHHhcC
Q 041149 115 EKVLDEMVRMIENPQMDPGNRSRALQLIRAWGES 148 (389)
Q Consensus 115 ~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~ 148 (389)
++|+..|+++-++... ++|-+++.+||+..-++
T Consensus 6 k~FL~tLi~ls~~~~q-pe~~~~Vr~LV~~L~~~ 38 (92)
T smart00549 6 KRFLTTLIQLSNDISQ-PEVAERVRTLVLGLVNG 38 (92)
T ss_pred HHHHHHHHHHhcCCCc-chHHHHHHHHHHHHHhC
Confidence 5799999999886332 67888888888887776
No 64
>KOG1062 consensus Vesicle coat complex AP-1, gamma subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=35.79 E-value=3e+02 Score=31.21 Aligned_cols=127 Identities=20% Similarity=0.233 Sum_probs=90.9
Q ss_pred hhhhhhhhhhhcccccccccccchhhhhcCCCChHHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHh
Q 041149 4 LKLTQLGERIKTGGAQMGRIVSGKVKEMLQAPTPESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKI 83 (389)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~s~~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL 83 (389)
|-|+++| -++++||-|-+.--|.++.+.+.|+-+ - -+++-..-.|+..++-...-+-.-+++|
T Consensus 126 lAL~alg---~i~s~EmardlapeVe~Ll~~~~~~ir--K------------KA~Lca~r~irK~P~l~e~f~~~~~~lL 188 (866)
T KOG1062|consen 126 LALCALG---NICSPEMARDLAPEVERLLQHRDPYIR--K------------KAALCAVRFIRKVPDLVEHFVIAFRKLL 188 (866)
T ss_pred HHHHHhh---ccCCHHHhHHhhHHHHHHHhCCCHHHH--H------------HHHHHHHHHHHcCchHHHHhhHHHHHHH
Confidence 4577777 478999999887777777665444322 2 2467777789999988888999999999
Q ss_pred cCCCHHHHHHHHHHHHHHHhcCCc---chhhhccHHHHHHHHHhhcCC---------CCChhHHHHHHHHHHHHhcC
Q 041149 84 SGKSVVSQRLSLDLLEACAMNCEK---VFSEVASEKVLDEMVRMIENP---------QMDPGNRSRALQLIRAWGES 148 (389)
Q Consensus 84 ~~~n~~vql~AL~LLe~cVkNCG~---~F~evas~~Fl~eL~kl~~~~---------~~~~~Vk~kiL~Li~~Wa~~ 148 (389)
..+++.|-+-++.++-.+.++... .|.- ....|+..|+.+.... -+++=.+=+||.++.-....
T Consensus 189 ~ek~hGVL~~~l~l~~e~c~~~~~~l~~fr~-l~~~lV~iLk~l~~~~yspeydv~gi~dPFLQi~iLrlLriLGq~ 264 (866)
T KOG1062|consen 189 CEKHHGVLIAGLHLITELCKISPDALSYFRD-LVPSLVKILKQLTNSGYSPEYDVHGISDPFLQIRILRLLRILGQN 264 (866)
T ss_pred hhcCCceeeeHHHHHHHHHhcCHHHHHHHHH-HHHHHHHHHHHHhcCCCCCccCccCCCchHHHHHHHHHHHHhcCC
Confidence 999999999999876555555333 3332 5556777777777531 24555777899888777764
No 65
>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=34.93 E-value=61 Score=26.95 Aligned_cols=33 Identities=9% Similarity=0.326 Sum_probs=27.6
Q ss_pred HHHHHHHHHhhcCCCCChhHHHHHHHHHHHHhcC
Q 041149 115 EKVLDEMVRMIENPQMDPGNRSRALQLIRAWGES 148 (389)
Q Consensus 115 ~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~ 148 (389)
+.|+..|+++.++ ...++|.+++..||+..-++
T Consensus 7 k~FL~tLi~las~-~~spev~~~Vr~LV~~L~~~ 39 (96)
T PF07531_consen 7 KNFLNTLIQLASD-KQSPEVGENVRELVQNLVDG 39 (96)
T ss_dssp HHHHHHHHHHHCC-SC-CCHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHhcC-CCChHHHHHHHHHHHHHHcC
Confidence 4699999999987 56668889999999988887
No 66
>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=34.36 E-value=2.4e+02 Score=24.89 Aligned_cols=71 Identities=14% Similarity=0.234 Sum_probs=45.5
Q ss_pred HHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCH---HHHHHHHHHHHHHHhcCCcchh-hhcc---HHHHHHHHHhhcC
Q 041149 57 MNMRICALINSEEFSGSEIVKAIKKKISGKSV---VSQRLSLDLLEACAMNCEKVFS-EVAS---EKVLDEMVRMIEN 127 (389)
Q Consensus 57 ~ileicD~In~~~~~~keA~raIrKrL~~~n~---~vql~AL~LLe~cVkNCG~~F~-evas---~~Fl~eL~kl~~~ 127 (389)
.+.=||++.+..-.........|+.-+...++ ......+.++=.++..||..+. .-.. .+|++.+...+..
T Consensus 99 ~i~fl~eL~~~~~i~~~~i~~~l~~ll~~~~~~~~~~~~~~ve~l~~lL~~~G~~l~~~~~~~~~~~~l~~l~~~~~~ 176 (200)
T smart00543 99 LVRFLGELYNFQVLTSKIILELLKELLNDLTKLDPPRSDFSVECLLSLLPTCGKDLEREKSPKLLDEILERLQDYLLK 176 (200)
T ss_pred HHHHHHHHHHcccCcHHHHHHHHHHHHhccCCCCCCCcHHHHHHHHHHHHHhhHHHcCcccHHHHHHHHHHHHHHHhc
Confidence 44458888888877777777777776665332 2345677888888889999775 3222 2345555555543
No 67
>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=34.25 E-value=3.6e+02 Score=28.61 Aligned_cols=94 Identities=18% Similarity=0.174 Sum_probs=54.5
Q ss_pred CChHHHHHHHHhHhcCCC-cHHHHHHHHHHHhcCCCHHHHH---HHHHHHHHHHhcCC-------------------cch
Q 041149 53 PNWGMNMRICALINSEEF-SGSEIVKAIKKKISGKSVVSQR---LSLDLLEACAMNCE-------------------KVF 109 (389)
Q Consensus 53 ~Dw~~ileicD~In~~~~-~~keA~raIrKrL~~~n~~vql---~AL~LLe~cVkNCG-------------------~~F 109 (389)
.+-+.+..|+..+..... -++.|+++|++=.+++..-.++ ..+.-|..++.+|. ..|
T Consensus 116 ~~~~l~~~i~~~L~~~d~~Va~~A~~~L~~l~~~~~~~~~l~~~~~~~~L~~l~~~~~~~vR~Rv~el~v~i~~~S~~~~ 195 (503)
T PF10508_consen 116 VDNELLPLIIQCLRDPDLSVAKAAIKALKKLASHPEGLEQLFDSNLLSKLKSLMSQSSDIVRCRVYELLVEIASHSPEAA 195 (503)
T ss_pred cCccHHHHHHHHHcCCcHHHHHHHHHHHHHHhCCchhHHHHhCcchHHHHHHHHhccCHHHHHHHHHHHHHHHhcCHHHH
Confidence 344456667777776654 3566666666555443222112 01233333333322 223
Q ss_pred hhhccHHHHHHHHHhhcCCCCChhHHHHHHHHHHHHhcC
Q 041149 110 SEVASEKVLDEMVRMIENPQMDPGNRSRALQLIRAWGES 148 (389)
Q Consensus 110 ~evas~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~ 148 (389)
..+....|++.+.+.+.+ .|.-||--+++++..-+..
T Consensus 196 ~~~~~sgll~~ll~eL~~--dDiLvqlnalell~~La~~ 232 (503)
T PF10508_consen 196 EAVVNSGLLDLLLKELDS--DDILVQLNALELLSELAET 232 (503)
T ss_pred HHHHhccHHHHHHHHhcC--ccHHHHHHHHHHHHHHHcC
Confidence 334445578888877764 7778999999999998885
No 68
>PF14523 Syntaxin_2: Syntaxin-like protein; PDB: 2DNX_A.
Probab=33.76 E-value=2.5e+02 Score=22.48 Aligned_cols=83 Identities=10% Similarity=0.222 Sum_probs=46.0
Q ss_pred HHHHHHHhHHHHHHHHHhhCCCCCCCc--hhHHHHHHHHHHHHhHHHHHHhhhcCC-------CHHHHHHHHHhhHHHHH
Q 041149 229 EFLVVTRNSLDLLSSILNTETEPKPIK--EDLTVSMLEKCKESQPVIQRIIESTTD-------DEAMLFEALNLHDELQL 299 (389)
Q Consensus 229 ~eLe~vk~n~~LL~emL~~~~~~~~~~--ddli~EL~~~Cr~mq~rI~rli~~~~~-------dEe~L~eLL~~NDeL~~ 299 (389)
..|..+.+++..|..++...-...... -+-+.++...|..+-..+-+.+..+.. +-..-...=.+..++..
T Consensus 3 ~~l~~in~~v~~l~k~~~~lGt~~Ds~~lR~~i~~~~~~~~~l~k~~~~~l~~l~~~~~~~~~~~~~k~~~~KL~~df~~ 82 (102)
T PF14523_consen 3 SNLFKINQNVSQLEKLVNQLGTPRDSQELREKIHQLIQKTNQLIKEISELLKKLNSLSSDRSNDRQQKLQREKLSRDFKE 82 (102)
T ss_dssp HHHHHHHHHHHHHHHHHHHH-SSS--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSH----HHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHhCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHH
Confidence 347778888888888887753221111 122455555555554444444432211 11222344566778888
Q ss_pred HHHHHHHHHHhh
Q 041149 300 VISRYEELEAAV 311 (389)
Q Consensus 300 vl~rYe~~~~~~ 311 (389)
++..|+...+..
T Consensus 83 ~l~~fq~~q~~~ 94 (102)
T PF14523_consen 83 ALQEFQKAQRRY 94 (102)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 888998887653
No 69
>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=32.65 E-value=1.6e+02 Score=27.02 Aligned_cols=51 Identities=18% Similarity=0.180 Sum_probs=37.8
Q ss_pred HHHHHHhhCCCCCCC---chhHHHHHHHHHHHHhHHHHHHhhhcCCCHHHHHHHHHh
Q 041149 240 LLSSILNTETEPKPI---KEDLTVSMLEKCKESQPVIQRIIESTTDDEAMLFEALNL 293 (389)
Q Consensus 240 LL~emL~~~~~~~~~---~ddli~EL~~~Cr~mq~rI~rli~~~~~dEe~L~eLL~~ 293 (389)
-|..|.-+++-+... .++.++++.+.|...|.++..|+.+ |.+....++.+
T Consensus 32 aL~~Mv~~lT~gkk~~~~~~~~~~~~~~~~~~~~~~ll~l~d~---D~~af~~~~~a 85 (184)
T PF04961_consen 32 ALGSMVANLTLGKKKYEDVEEELKEIIEKLEELREELLDLADE---DAEAFNAVMAA 85 (184)
T ss_dssp HHHHHHHHCTTTSTTSGGGHHHHHHHHHHHHHHHHHHHCHHHH---HHHHHHHHHCC
T ss_pred HHHHHHHHHhCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHH
Confidence 367788777665432 3456899999999999999999974 56666666665
No 70
>KOG0168 consensus Putative ubiquitin fusion degradation protein [Posttranslational modification, protein turnover, chaperones]
Probab=32.28 E-value=2.6e+02 Score=32.08 Aligned_cols=86 Identities=13% Similarity=0.147 Sum_probs=64.5
Q ss_pred ccccchhhhhcCC------CChHHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCC------cHHHHHHHHHHHhcC-CCH
Q 041149 22 RIVSGKVKEMLQA------PTPESKMVDEATLETLEEPNWGMNMRICALINSEEF------SGSEIVKAIKKKISG-KSV 88 (389)
Q Consensus 22 ~~~~~~~~~~f~~------~s~~~~lIekATs~~l~~~Dw~~ileicD~In~~~~------~~keA~raIrKrL~~-~n~ 88 (389)
|+++-.|..||+. .+.+.+||+..+++.-...-.....|+|+++.-.-+ ..+-.+-+|.+-|++ -|+
T Consensus 147 g~lgprv~~ll~rt~~~sasSk~kkLL~gL~~~~Des~Qleal~Elce~L~mgnEesLs~fpv~slvp~Lv~LL~~E~n~ 226 (1051)
T KOG0168|consen 147 GRLGPRVLQLLHRTIGSSASSKAKKLLQGLQAESDESQQLEALTELCEMLSMGNEESLSGFPVKSLVPVLVALLSHEHNF 226 (1051)
T ss_pred cccchhHHHHhhhcccccchHHHHHHHHhccccCChHHHHHHHHHHHHHHhhcchhhhccccHHHHHHHHHHHHhccccH
Confidence 3456778888863 257889999999888667778899999999874432 467788999999998 588
Q ss_pred HHHHHHHH----HHHHHHhcCCc
Q 041149 89 VSQRLSLD----LLEACAMNCEK 107 (389)
Q Consensus 89 ~vql~AL~----LLe~cVkNCG~ 107 (389)
.++++|.. |+|.|-.-|+-
T Consensus 227 DIMl~AcRaltyl~evlP~S~a~ 249 (1051)
T KOG0168|consen 227 DIMLLACRALTYLCEVLPRSSAI 249 (1051)
T ss_pred HHHHHHHHHHHHHHhhccchhhe
Confidence 88887775 55555555554
No 71
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=30.81 E-value=3.9e+02 Score=23.80 Aligned_cols=54 Identities=19% Similarity=0.292 Sum_probs=39.7
Q ss_pred hHHHHHHHHHHhHHHHHHHHHhhCCCCCCCchhH---HHHHHHHHHHHhHHHHHHhhh
Q 041149 225 DEKKEFLVVTRNSLDLLSSILNTETEPKPIKEDL---TVSMLEKCKESQPVIQRIIES 279 (389)
Q Consensus 225 ek~~~eLe~vk~n~~LL~emL~~~~~~~~~~ddl---i~EL~~~Cr~mq~rI~rli~~ 279 (389)
.++.+++...+..++-|..=|..+.. ..+.+++ +.+|-..|+.++.++..|-+.
T Consensus 82 ~~L~~el~~l~~~~k~l~~eL~~L~~-~~t~~el~~~i~~l~~e~~~l~~kL~~l~~~ 138 (169)
T PF07106_consen 82 KELREELAELKKEVKSLEAELASLSS-EPTNEELREEIEELEEEIEELEEKLEKLRSG 138 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 34567788888888777777766533 2334444 789999999999999988874
No 72
>KOG1820 consensus Microtubule-associated protein [Cytoskeleton]
Probab=30.48 E-value=3.2e+02 Score=31.18 Aligned_cols=92 Identities=16% Similarity=0.124 Sum_probs=66.3
Q ss_pred ChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcch-hhhccHHHHHHHHHhhcCCCCCh
Q 041149 54 NWGMNMRICALINSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVF-SEVASEKVLDEMVRMIENPQMDP 132 (389)
Q Consensus 54 Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F-~evas~~Fl~eL~kl~~~~~~~~ 132 (389)
=.+.+..+||.|-.. ..--...++|.--++++||..-..++.+++-|+++-|+.- ..-+.+...-.+++.+. .++.
T Consensus 352 l~d~l~~~~d~~~ns-~~l~~~~~~I~e~lk~knp~~k~~~~~~l~r~~~~~~~~~~~~~t~~~l~p~~~~~~~--D~~~ 428 (815)
T KOG1820|consen 352 LRDALLKALDAILNS-TPLSKMSEAILEALKGKNPQIKGECLLLLDRKLRKLGPKTVEKETVKTLVPHLIKHIN--DTDK 428 (815)
T ss_pred HHHHHHHHHHHHHhc-ccHHHHHHHHHHHhcCCChhhHHHHHHHHHHHHhhcCCcCcchhhHHHHhHHHhhhcc--CCcH
Confidence 345667788887663 3556778999999999999999999999999999998622 12333445556666665 3677
Q ss_pred hHHHHHHHHHHHHhcC
Q 041149 133 GNRSRALQLIRAWGES 148 (389)
Q Consensus 133 ~Vk~kiL~Li~~Wa~~ 148 (389)
.||.-.++.+-.-...
T Consensus 429 ~VR~Aa~e~~~~v~k~ 444 (815)
T KOG1820|consen 429 DVRKAALEAVAAVMKV 444 (815)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 8998777766555443
No 73
>PF14726 RTTN_N: Rotatin, an armadillo repeat protein, centriole functioning
Probab=30.06 E-value=1.7e+02 Score=24.35 Aligned_cols=68 Identities=12% Similarity=0.137 Sum_probs=52.0
Q ss_pred cHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcC-Ccc-hhhhccHHHHHHHHHhhcCCCCChhHHHHHHHHHH
Q 041149 71 SGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNC-EKV-FSEVASEKVLDEMVRMIENPQMDPGNRSRALQLIR 143 (389)
Q Consensus 71 ~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNC-G~~-F~evas~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~ 143 (389)
.++.-++.+-.=+++..+-.+-..|.||.-+++.. |.. ...++..+|+..|++.+. +..+..|-+++.
T Consensus 27 ~~~~Ll~~LleWFnf~~~~~~~~VL~Ll~~L~~~~~a~~~l~~iG~~~fL~klr~~~~-----~~~~~~id~il~ 96 (98)
T PF14726_consen 27 KERLLLKQLLEWFNFPPVPMKEEVLALLLRLLKSPYAAQILRDIGAVRFLSKLRPNVE-----PNLQAEIDEILD 96 (98)
T ss_pred cHHHHHHHHHHHhCCCCCccHHHHHHHHHHHHhCcHHHHHHHHccHHHHHHHHHhcCC-----HHHHHHHHHHHh
Confidence 36777777877888887778999999999999998 444 368999999988886543 355666666653
No 74
>PF09090 MIF4G_like_2: MIF4G like; InterPro: IPR015174 This entry represents an MIF4G-like domain. MIF4G domains share a common structure but can differ in sequence. This entry is designated "type 2", and is found in nuclear cap-binding proteins and eIF4G. 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.; GO: 0016070 RNA metabolic process; PDB: 3FEY_A 3FEX_A 1H6K_C 1H2V_C 1H2U_A 1H2T_C 1N54_A 1N52_A.
Probab=29.74 E-value=5e+02 Score=24.80 Aligned_cols=108 Identities=13% Similarity=0.200 Sum_probs=68.1
Q ss_pred CChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCH----HHHHHHHHHHHHHHhcCCc-ch-h-hhccHHHHHHHHHhh
Q 041149 53 PNWGMNMRICALINSEEFSGSEIVKAIKKKISGKSV----VSQRLSLDLLEACAMNCEK-VF-S-EVASEKVLDEMVRMI 125 (389)
Q Consensus 53 ~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n~----~vql~AL~LLe~cVkNCG~-~F-~-evas~~Fl~eL~kl~ 125 (389)
|--+...+|.+.|+.. .+.+-+..+-+.+..... ..-..++.|+=.|+-++|. .| | -.+-.++.+.|..+.
T Consensus 9 P~~~~a~~l~~~ir~k--~~~eei~~~l~~i~~~~~~~~~~~~~~~i~v~~q~ll~~GSkS~SH~~~~lery~~~Lk~l~ 86 (253)
T PF09090_consen 9 PFHALAQKLLDLIRKK--APPEEISELLEEIEEPAEEHGSDFDKFVIDVFVQCLLHIGSKSFSHVLSALERYKEVLKELE 86 (253)
T ss_dssp TTHHHHHHHHHHHHTT----HHHHHHHHTTS------------HHHHHHHHHHHHHHTTTSHHHHHHHHHHTHHHHHHH-
T ss_pred ccHHHHHHHHHHHHcC--CCHHHHHHHHHhccccccccccchhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHhc
Confidence 4455677899999988 344444445455544222 3456889999999999997 78 7 457778999999882
Q ss_pred cCCCCChhHHHHHHHHH-HHHhcCCCCCCchHHHHHHHHHhhCCCC
Q 041149 126 ENPQMDPGNRSRALQLI-RAWGESEDLAYLPVYRQTYMSLKERSVP 170 (389)
Q Consensus 126 ~~~~~~~~Vk~kiL~Li-~~Wa~~~~~~~l~~i~~~Y~~Lk~~Gv~ 170 (389)
.....-+..|++.+ .-|... + ..+.-+.+.|.+.|+-
T Consensus 87 ---~~~~~~q~~il~~v~~~W~~~---~--q~~~li~dkll~~~ii 124 (253)
T PF09090_consen 87 ---AESEEAQFWILDAVFRFWKNN---P--QMGFLIIDKLLNYGII 124 (253)
T ss_dssp ---TSSHHHHHHHHHHHHHHHTT----H--HHHHHHHHHHHHTTSS
T ss_pred ---cCChHHHHHHHHHHHHHHhcC---C--ceehHHHHHHHhcCCC
Confidence 12234566676654 678874 2 3456677788888864
No 75
>PHA02986 hypothetical protein; Provisional
Probab=28.90 E-value=1.5e+02 Score=25.81 Aligned_cols=48 Identities=10% Similarity=0.122 Sum_probs=38.8
Q ss_pred HHHHHHHhcCCc---chh--hhccHHHHHHHHHhhcCCCCChhHHHHHHHHHH
Q 041149 96 DLLEACAMNCEK---VFS--EVASEKVLDEMVRMIENPQMDPGNRSRALQLIR 143 (389)
Q Consensus 96 ~LLe~cVkNCG~---~F~--evas~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~ 143 (389)
.++.+|++|-|. .|. +|+.+.|-|-.+..++..+...-+|++|.+.+-
T Consensus 6 ei~~ILi~~Hgt~~~~~~~nei~~k~FsNLCkefi~~~k~~~~ik~~IK~ill 58 (141)
T PHA02986 6 EIINILINNHGTSYLDFNDNEISFKYFSNLCKEFISNKKKTTLIKEEIKKILL 58 (141)
T ss_pred HHHHHHHHhcCccccccccchhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHH
Confidence 578899999997 463 799999999999999877776677777777663
No 76
>PRK09687 putative lyase; Provisional
Probab=28.76 E-value=5.3e+02 Score=25.13 Aligned_cols=70 Identities=11% Similarity=0.016 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHHH------------HHHhcCCcchh------hhccHHHHHHHHHhhcCCCCChh
Q 041149 72 GSEIVKAIKKKISGKSVVSQRLSLDLLE------------ACAMNCEKVFS------EVASEKVLDEMVRMIENPQMDPG 133 (389)
Q Consensus 72 ~keA~raIrKrL~~~n~~vql~AL~LLe------------~cVkNCG~~F~------evas~~Fl~eL~kl~~~~~~~~~ 133 (389)
...++..|.+.|.+.|+.|...|+.-|- .++++...++. ++++.+++..|..++.. ..+..
T Consensus 190 ~~~~~~~L~~~L~D~~~~VR~~A~~aLg~~~~~~av~~Li~~L~~~~~~~~a~~ALg~ig~~~a~p~L~~l~~~-~~d~~ 268 (280)
T PRK09687 190 NPDIREAFVAMLQDKNEEIRIEAIIGLALRKDKRVLSVLIKELKKGTVGDLIIEAAGELGDKTLLPVLDTLLYK-FDDNE 268 (280)
T ss_pred CHHHHHHHHHHhcCCChHHHHHHHHHHHccCChhHHHHHHHHHcCCchHHHHHHHHHhcCCHhHHHHHHHHHhh-CCChh
Confidence 4566677777777777777665553332 22222111221 35666666666666653 23566
Q ss_pred HHHHHHHHH
Q 041149 134 NRSRALQLI 142 (389)
Q Consensus 134 Vk~kiL~Li 142 (389)
|+.++.+.+
T Consensus 269 v~~~a~~a~ 277 (280)
T PRK09687 269 IITKAIDKL 277 (280)
T ss_pred HHHHHHHHH
Confidence 666666554
No 77
>PTZ00429 beta-adaptin; Provisional
Probab=28.55 E-value=3.2e+02 Score=30.85 Aligned_cols=36 Identities=11% Similarity=0.230 Sum_probs=29.5
Q ss_pred cHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCC
Q 041149 71 SGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCE 106 (389)
Q Consensus 71 ~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG 106 (389)
...+.+..+..+|+|.|+.|++-|+.++=.+..+|.
T Consensus 253 e~~~il~~l~~~Lq~~N~AVVl~Aik~il~l~~~~~ 288 (746)
T PTZ00429 253 SAETLLTRVLPRMSHQNPAVVMGAIKVVANLASRCS 288 (746)
T ss_pred HHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcCcCC
Confidence 456778889999999999999999987776666654
No 78
>KOG4535 consensus HEAT and armadillo repeat-containing protein [General function prediction only]
Probab=27.69 E-value=55 Score=35.01 Aligned_cols=52 Identities=21% Similarity=0.212 Sum_probs=38.2
Q ss_pred ChHHHHH-HHHhHhcCCC------cHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcC
Q 041149 54 NWGMNMR-ICALINSEEF------SGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNC 105 (389)
Q Consensus 54 Dw~~ile-icD~In~~~~------~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNC 105 (389)
-...++. ++.++...+- --.+.+..|++.|+|++++|...+|+||+++|...
T Consensus 123 ~~tq~~kcla~lv~~~p~~~l~~~~~~~~~~~ik~~i~~~d~~v~vs~l~~~~~~v~t~ 181 (728)
T KOG4535|consen 123 TVTQIIKCLANLVSNAPYDRLKLSLLTKVWNQIKPYIRHKDVNVRVSSLTLLGAIVSTH 181 (728)
T ss_pred hHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHhhcCCCChhhHHHHHHHHHHhcC
Confidence 3343333 4555555542 13577889999999999999999999999999753
No 79
>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=27.53 E-value=1.2e+02 Score=24.27 Aligned_cols=67 Identities=7% Similarity=0.074 Sum_probs=37.6
Q ss_pred HHHHhcCCcchhhhccH-HHHHHHHHhhcCCCCChhHHHHHHHHHHHHhcC-CCCCCchHHHHHHHHHhhCC
Q 041149 99 EACAMNCEKVFSEVASE-KVLDEMVRMIENPQMDPGNRSRALQLIRAWGES-EDLAYLPVYRQTYMSLKERS 168 (389)
Q Consensus 99 e~cVkNCG~~F~evas~-~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~-~~~~~l~~i~~~Y~~Lk~~G 168 (389)
..+..|-|..+.+++.+ .|-+.=+..|.. ..+..+++++.++|+.|... ...+ ..+..+.+-|+.-|
T Consensus 6 ~~ia~~LG~~Wk~lar~LGlse~~Id~Ie~-~~~~dl~eq~~~mL~~W~~~~~~~~--atv~~L~~AL~~~g 74 (86)
T cd08779 6 LSIAGRLGLDWQAIGLHLGLSYRELQRIKY-NNRDDLDEQIFDMLFSWAQRQAGDP--DAVGKLVTALEESG 74 (86)
T ss_pred HHHHHHHhHHHHHHHHHcCCCHHHHHHHHH-HCccCHHHHHHHHHHHHHHhcCCCc--hHHHHHHHHHHHcC
Confidence 44455666665544432 132222233322 22236899999999999997 3322 23556666666655
No 80
>COG5387 Chaperone required for the assembly of the mitochondrial F1-ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=27.51 E-value=66 Score=31.16 Aligned_cols=71 Identities=17% Similarity=0.103 Sum_probs=43.8
Q ss_pred cCCCChHHHHHHHHcCCCCCCCChHHH-----HHHHHhHhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCC
Q 041149 32 LQAPTPESKMVDEATLETLEEPNWGMN-----MRICALINSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCE 106 (389)
Q Consensus 32 f~~~s~~~~lIekATs~~l~~~Dw~~i-----leicD~In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG 106 (389)
|++-+|++ ||++-+..-..-.||..+ +.+.|-|-.. ..|+|++.++.+.+.+-+--.+ |..|++.|.=||
T Consensus 128 Yra~sp~e-Lv~rQ~e~w~Piidw~e~~lg~rf~~vdgvih~-~Qp~E~va~~a~~l~s~~sp~~---LA~l~~~~sl~g 202 (264)
T COG5387 128 YRAESPFE-LVERQNENWDPIIDWAENFLGARFILVDGVIHG-EQPREAVAAFAVKLMSLDSPWA---LAALETMVSLTG 202 (264)
T ss_pred ecCCCHHH-HHHHHHhhhHHHHHHHHHhhCceEEeehhhhcC-CCcHHHHHHHHHHHhhcCCHHH---HHHHHHHHHHHH
Confidence 45557777 788776555555555544 1233333222 3799999999999998655444 445555555555
Q ss_pred c
Q 041149 107 K 107 (389)
Q Consensus 107 ~ 107 (389)
.
T Consensus 203 S 203 (264)
T COG5387 203 S 203 (264)
T ss_pred H
Confidence 4
No 81
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=27.25 E-value=3.2e+02 Score=30.70 Aligned_cols=119 Identities=15% Similarity=0.230 Sum_probs=67.2
Q ss_pred hHHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCH--HHHHHHHHHHHHHHhcCCcchhhhc-
Q 041149 37 PESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGKSV--VSQRLSLDLLEACAMNCEKVFSEVA- 113 (389)
Q Consensus 37 ~~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n~--~vql~AL~LLe~cVkNCG~~F~eva- 113 (389)
.++.||.-.|-+.. .++-.|-+| |. ..+.+-|.+.+|-+-|...++ -.-+.=|.|+--.+.||-..-..+.
T Consensus 435 klE~liR~LTpEk~---sIg~aM~Fa--le-nA~aa~EI~eci~eSlt~~~t~~~kKiarLyLvsDIL~N~sarv~nas~ 508 (877)
T KOG0151|consen 435 KLEDLIRGLTPEKS---SIGDAMVFA--LE-NADAAGEIVECITESLTNKETPLPKKIARLYLVSDILHNSSARVANASA 508 (877)
T ss_pred HHHHHHHhcCcccc---hHHHHHHHH--Hh-hhhhHHHHHHHHHHHHhccCCcchhHHHHHHHHHHHHhhhhhhhhHHHH
Confidence 46666666665543 334444444 21 223567777777777765432 1223446778888889876543222
Q ss_pred -cHHHHHHHHHhhcC----------CCCChhHHHHHHHHHHHHhcC--CCCCCchHHHHHH
Q 041149 114 -SEKVLDEMVRMIEN----------PQMDPGNRSRALQLIRAWGES--EDLAYLPVYRQTY 161 (389)
Q Consensus 114 -s~~Fl~eL~kl~~~----------~~~~~~Vk~kiL~Li~~Wa~~--~~~~~l~~i~~~Y 161 (389)
.+.|-..|.+|+.+ .-.....++||+.+|+.|.+. ...+.+-+...+|
T Consensus 509 YR~~FEa~L~~Ifd~l~~~yr~I~gRIkaE~fkqRV~kVirvWedW~ifpe~~l~~l~~~F 569 (877)
T KOG0151|consen 509 YRKSFEATLEDIFDDLNDLYRSIGGRIKAEAFKQRVMKVIRVWEDWAIFPEDFLIGLQNTF 569 (877)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHhCcHHHHHHHHHHH
Confidence 22344444444432 234456899999999999997 4443343444443
No 82
>COG5369 Uncharacterized conserved protein [Function unknown]
Probab=26.95 E-value=1.9e+02 Score=31.59 Aligned_cols=110 Identities=15% Similarity=0.152 Sum_probs=71.9
Q ss_pred ChHHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCC-c----HHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcc--
Q 041149 36 TPESKMVDEATLETLEEPNWGMNMRICALINSEEF-S----GSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKV-- 108 (389)
Q Consensus 36 s~~~~lIekATs~~l~~~Dw~~ileicD~In~~~~-~----~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~-- 108 (389)
.++.+++-+|-|..-.-........||+.+=.-.. + -+-.+..|.+-+.+++-..|-.++=+|.-+|-||...
T Consensus 430 ~~I~elLi~~Ls~Peimi~~~~t~~icn~vv~fsnL~~~fL~~~iIdvl~~~v~sKDdaLqans~wvlrHlmyncq~~ek 509 (743)
T COG5369 430 YPIVELLIDALSNPEIMIEFPDTIDICNKVVPFSNLGAGFLEKSIIDVLVNLVMSKDDALQANSEWVLRHLMYNCQKNEK 509 (743)
T ss_pred cchHHHHHHHhcCccceeeccchhhhhheeeeccchHHHHHHhhHHHHHHHHhhcchhhhhhcchhhhhhhhhcCcchhh
Confidence 56777777776652222233345678887654332 2 3456778888899999988889999999999999874
Q ss_pred hhhhccHHHHHHHHHhhcCCCCChhHHHHHHHHHHHHhcC
Q 041149 109 FSEVASEKVLDEMVRMIENPQMDPGNRSRALQLIRAWGES 148 (389)
Q Consensus 109 F~evas~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~ 148 (389)
|+-+++ ==++-+...+.+ ..-.|+..+++++..+.-.
T Consensus 510 f~~Lak-ig~~kvl~~~ND--pc~~vq~q~lQilrNftc~ 546 (743)
T COG5369 510 FKFLAK-IGVEKVLSYTND--PCFKVQHQVLQILRNFTCD 546 (743)
T ss_pred hhhHHh-cCHHHHHHHhcC--cccccHHHHHHHHHhcccc
Confidence 432222 113334444433 2237889999999888764
No 83
>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=25.20 E-value=85 Score=25.27 Aligned_cols=68 Identities=15% Similarity=0.177 Sum_probs=42.7
Q ss_pred HHHHHhcCCcchhhhccH-HHHHHHHHhhcCCCCChhHHHHHHHHHHHHhcC-C-CCCCchHHHHHHHHHhhCC
Q 041149 98 LEACAMNCEKVFSEVASE-KVLDEMVRMIENPQMDPGNRSRALQLIRAWGES-E-DLAYLPVYRQTYMSLKERS 168 (389)
Q Consensus 98 Le~cVkNCG~~F~evas~-~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~-~-~~~~l~~i~~~Y~~Lk~~G 168 (389)
|+.+..|-|..+.+++.+ .|-+.=+..+.........++++.++|..|... . ... .+..+.+-|+.-|
T Consensus 5 l~~l~~~lG~~Wk~lar~LG~s~~eI~~ie~~~~r~~~~eq~~~mL~~W~~r~g~~~A---Tv~~L~~aL~~~~ 75 (86)
T cd08777 5 LDLLRENLGKKWKRCARKLGFTESEIEEIDHDYERDGLKEKVHQMLHKWKMKEGSKGA---TVGKLAQALEGCI 75 (86)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHhcccCCHHHHHHHHHHHHHHccCCCCc---HHHHHHHHHHHcc
Confidence 566778888887666544 366555555653222234689999999999986 3 223 3455555555544
No 84
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=24.81 E-value=3.9e+02 Score=21.86 Aligned_cols=63 Identities=14% Similarity=0.158 Sum_probs=45.7
Q ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchhhhccHHHHHHHHHhhcCCCCChhHHHHH
Q 041149 73 SEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFSEVASEKVLDEMVRMIENPQMDPGNRSRA 138 (389)
Q Consensus 73 keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~evas~~Fl~eL~kl~~~~~~~~~Vk~ki 138 (389)
.+.+.-|-+-+...+.+|-++|..-|=.++|.++..+-. .-.+..+.|.+++.+ +++.||.-.
T Consensus 26 ~~Il~pVL~~~~D~d~rVRy~AcEaL~ni~k~~~~~~l~-~f~~IF~~L~kl~~D--~d~~Vr~~a 88 (97)
T PF12755_consen 26 DEILPPVLKCFDDQDSRVRYYACEALYNISKVARGEILP-YFNEIFDALCKLSAD--PDENVRSAA 88 (97)
T ss_pred HHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHcC--CchhHHHHH
Confidence 455666777778899999999999999999998764421 223456777888765 566787654
No 85
>KOG2075 consensus Topoisomerase TOP1-interacting protein BTBD1 [Function unknown]
Probab=24.49 E-value=3.8e+02 Score=28.72 Aligned_cols=109 Identities=10% Similarity=0.105 Sum_probs=70.0
Q ss_pred HHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCc--HHHHHHHHHHHhcCCCHHHHHHH-------HHHHHHHHhcCCcc
Q 041149 38 ESKMVDEATLETLEEPNWGMNMRICALINSEEFS--GSEIVKAIKKKISGKSVVSQRLS-------LDLLEACAMNCEKV 108 (389)
Q Consensus 38 ~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~--~keA~raIrKrL~~~n~~vql~A-------L~LLe~cVkNCG~~ 108 (389)
|..++.-..+ .....+-+.+|.+|+..+.--++ .++|++.|+++|.-.|.=.-+.. =.|+-.|++.-...
T Consensus 171 Fl~~L~flYs-dev~~~~dtvi~tl~~AkKY~VpaLer~CVkflr~~l~~~naf~~L~q~A~lf~ep~Li~~c~e~id~~ 249 (521)
T KOG2075|consen 171 FLAFLRFLYS-DEVKLAADTVITTLYAAKKYLVPALERQCVKFLRKNLMADNAFLELFQRAKLFDEPSLISICLEVIDKS 249 (521)
T ss_pred hHHHHHHHhc-chhhhhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCChHHHHHHHHHHHhhcCHHHHHHHHHHhhhH
Confidence 3444444433 23445667788888888887664 58999999999998776555544 16777788777766
Q ss_pred hh-h-----hccHH-HHHHHHHhhcCCCCChhHHHHHHHHHHHHhcC
Q 041149 109 FS-E-----VASEK-VLDEMVRMIENPQMDPGNRSRALQLIRAWGES 148 (389)
Q Consensus 109 F~-e-----vas~~-Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~ 148 (389)
|. - ++..+ -.+.++.++........ .-++.+....|+..
T Consensus 250 ~~~al~~EGf~did~~~dt~~evl~r~~l~~~-e~~lfeA~lkw~~~ 295 (521)
T KOG2075|consen 250 FEDALTPEGFCDIDSTRDTYEEVLRRDTLEAR-EFRLFEAALKWAEA 295 (521)
T ss_pred HHhhhCccceeehhhHHHHHHHHHhhcccchh-HHHHHHHHHhhccC
Confidence 63 1 22211 25556666654232222 34799999999997
No 86
>KOG3192 consensus Mitochondrial J-type chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=24.12 E-value=1.7e+02 Score=26.69 Aligned_cols=16 Identities=31% Similarity=0.661 Sum_probs=8.0
Q ss_pred CHHHHHHHHHhhHHHH
Q 041149 283 DEAMLFEALNLHDELQ 298 (389)
Q Consensus 283 dEe~L~eLL~~NDeL~ 298 (389)
|.++|.++|.++|+|+
T Consensus 94 Dpe~Lmevle~~E~IS 109 (168)
T KOG3192|consen 94 DPEFLMEVLEYHEAIS 109 (168)
T ss_pred CHHHHHHHHHHHHHHH
Confidence 4445555555555544
No 87
>KOG0946 consensus ER-Golgi vesicle-tethering protein p115 [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.48 E-value=4.1e+02 Score=30.30 Aligned_cols=73 Identities=10% Similarity=0.140 Sum_probs=52.4
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchh-hh-ccHHHHHHHHHhhcCCCCChhHHHHHHHHHHHHhcC
Q 041149 74 EIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFS-EV-ASEKVLDEMVRMIENPQMDPGNRSRALQLIRAWGES 148 (389)
Q Consensus 74 eA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~-ev-as~~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~ 148 (389)
+-+..+.--+-+.+.+|-++|+-||.+++++-|..-+ -+ ..--=+..|..++.+ ..+.||+-.+-+|.+...+
T Consensus 122 d~I~lll~~~e~~DF~VR~~aIqLlsalls~r~~e~q~~ll~~P~gIS~lmdlL~D--srE~IRNe~iLlL~eL~k~ 196 (970)
T KOG0946|consen 122 DNITLLLQSLEEFDFHVRLYAIQLLSALLSCRPTELQDALLVSPMGISKLMDLLRD--SREPIRNEAILLLSELVKD 196 (970)
T ss_pred hhHHHHHHHHHhhchhhhhHHHHHHHHHHhcCCHHHHHHHHHCchhHHHHHHHHhh--hhhhhchhHHHHHHHHHcc
Confidence 4556666667788999999999999999999998664 33 333345566666653 4456777777777777665
No 88
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=23.32 E-value=8.1e+02 Score=26.43 Aligned_cols=24 Identities=21% Similarity=0.127 Sum_probs=20.9
Q ss_pred CCchHHHHHHHHHhhCCCCCCCCC
Q 041149 152 AYLPVYRQTYMSLKERSVPPPVED 175 (389)
Q Consensus 152 ~~l~~i~~~Y~~Lk~~Gv~FP~~~ 175 (389)
.++.-+..-|+.|+.+||.|+..+
T Consensus 230 ~ql~el~~gy~~m~~~gy~~~~~~ 253 (569)
T PRK04778 230 DQLQELKAGYRELVEEGYHLDHLD 253 (569)
T ss_pred HHHHHHHHHHHHHHHcCCCCCCCC
Confidence 357889999999999999999865
No 89
>PF07462 MSP1_C: Merozoite surface protein 1 (MSP1) C-terminus; InterPro: IPR010901 This entry represents the C-terminal region of merozoite surface protein 1 (MSP1), which is found in a number of Plasmodium species. MSP-1 is a 200 kDa protein expressed on the surface of the Plasmodium vivax merozoite. MSP-1 of Plasmodium species is synthesised as a high-molecular-weight precursor and then processed into several fragments. At the time of red cell invasion by the merozoite, only the 19 kDa C-terminal fragment (MSP-119), which contains two epidermal growth factor-like domains, remains on the surface. Antibodies against MSP-119 inhibit merozoite entry into red cells, and immunisation with MSP-119 protects monkeys from challenging infections. Hence, MSP-119 is considered a promising vaccine candidate [].; GO: 0009405 pathogenesis, 0016020 membrane
Probab=23.15 E-value=1.5e+02 Score=32.10 Aligned_cols=18 Identities=22% Similarity=0.285 Sum_probs=14.7
Q ss_pred hhHHHHHHHHHHHHHHHh
Q 041149 293 LHDELQLVISRYEELEAA 310 (389)
Q Consensus 293 ~NDeL~~vl~rYe~~~~~ 310 (389)
-+.++.++|+.|+.+..-
T Consensus 243 n~~~Vk~ALq~YqELLPK 260 (574)
T PF07462_consen 243 NIAEVKEALQAYQELLPK 260 (574)
T ss_pred hHHHHHHHHHHHHHhCCC
Confidence 356789999999999854
No 90
>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=21.99 E-value=1.6e+02 Score=29.30 Aligned_cols=66 Identities=14% Similarity=0.168 Sum_probs=49.9
Q ss_pred HHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHh-cCCcchhh-hccHHHH-HHHHHhhcC
Q 041149 56 GMNMRICALINSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAM-NCEKVFSE-VASEKVL-DEMVRMIEN 127 (389)
Q Consensus 56 ~~ileicD~In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVk-NCG~~F~e-vas~~Fl-~eL~kl~~~ 127 (389)
.....||..|=+.. ++.|.+-|.+..+..+.-+|.||-.+|. |.|..-.+ +..++|- ..|.+++..
T Consensus 44 ~~g~~l~~~iL~~~------~k~lyr~L~~~~~~~~~~~LrLL~~iv~f~~g~~a~~v~~~fd~~~~~l~kll~~ 112 (330)
T PF11707_consen 44 SYGLELIRSILQNH------LKLLYRSLSSSKPSLTNPALRLLTAIVSFDGGALAREVLRSFDFSLKSLPKLLTP 112 (330)
T ss_pred HHHHHHHHHHHHHH------HHHHHHHhCcCcHHHHHHHHHHHHHHHccCCHHHHHHHHHhcCCchhhHHHHhcc
Confidence 44567777776541 8888899999999999999999999999 87765555 4566674 457777753
No 91
>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=21.26 E-value=2e+02 Score=22.28 Aligned_cols=68 Identities=13% Similarity=0.177 Sum_probs=40.6
Q ss_pred HHHHHhc-CCcchhhhccH-HHHHHHHHhhcCCCCChhHHHHHHHHHHHHhcC-CCCCCchHHHHHHHHHhhCCC
Q 041149 98 LEACAMN-CEKVFSEVASE-KVLDEMVRMIENPQMDPGNRSRALQLIRAWGES-EDLAYLPVYRQTYMSLKERSV 169 (389)
Q Consensus 98 Le~cVkN-CG~~F~evas~-~Fl~eL~kl~~~~~~~~~Vk~kiL~Li~~Wa~~-~~~~~l~~i~~~Y~~Lk~~Gv 169 (389)
+..++.+ -|..+..+|.+ .|-+.-+..+.. .....+++++.++|..|... +.. ..+..++..|+.-|.
T Consensus 8 ~~~l~~~~~g~~W~~la~~Lg~~~~~i~~i~~-~~~~~~~~~~~~lL~~W~~~~g~~---at~~~L~~aL~~~~~ 78 (88)
T smart00005 8 LAKLLDHPLGLDWRELARKLGLSEADIDQIRT-EAPRDLAEQSVQLLRLWEQREGKN---ATLGTLLEALRKMGR 78 (88)
T ss_pred HHHHHcCccchHHHHHHHHcCCCHHHHHHHHH-HCCCCHHHHHHHHHHHHHHccchh---hHHHHHHHHHHHcCh
Confidence 4445555 56666655554 353333333332 11225789999999999997 332 356677777777663
No 92
>PTZ00429 beta-adaptin; Provisional
Probab=21.00 E-value=6e+02 Score=28.69 Aligned_cols=53 Identities=8% Similarity=0.024 Sum_probs=34.1
Q ss_pred HHHHHHHhHhcCCCcH--HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcch
Q 041149 57 MNMRICALINSEEFSG--SEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVF 109 (389)
Q Consensus 57 ~ileicD~In~~~~~~--keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F 109 (389)
+++.+.-+.+..++-. ..-+..|.+-|..+|+.|+..|+.+|-.+..+++..|
T Consensus 160 Aalai~Kly~~~pelv~~~~~~~~L~~LL~D~dp~Vv~nAl~aL~eI~~~~~~~l 214 (746)
T PTZ00429 160 AAMGLGKLFHDDMQLFYQQDFKKDLVELLNDNNPVVASNAAAIVCEVNDYGSEKI 214 (746)
T ss_pred HHHHHHHHHhhCcccccccchHHHHHHHhcCCCccHHHHHHHHHHHHHHhCchhh
Confidence 3444444444443321 2234556666788999999999999888877776544
No 93
>cd08324 CARD_NOD1_CARD4 Caspase activation and recruitment domain similar to that found in NOD1. Caspase activation and recruitment domain (CARD) found in human NOD1 (CARD4) and similar proteins. NOD1 is a member of the Nod-like receptor (NLR) family, which plays a central role in the innate immune response. NLRs typically contain an N-terminal effector domain, a central nucleotide-binding domain and a C-terminal ligand-binding region of several leucine-rich repeats (LRRs). In NOD1, as well as NOD2, the N-terminal effector domain is a CARD. Nod1-CARD has been shown to interact with the CARD domain of the downstream effector RICK (RIP2, CARDIAK), a serine/threonine kinase. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form hom
Probab=20.96 E-value=1.1e+02 Score=24.90 Aligned_cols=25 Identities=20% Similarity=0.388 Sum_probs=17.2
Q ss_pred hhcCCCCChhHHHHHHHHHHHHhcC
Q 041149 124 MIENPQMDPGNRSRALQLIRAWGES 148 (389)
Q Consensus 124 l~~~~~~~~~Vk~kiL~Li~~Wa~~ 148 (389)
.+...+|.++=-+++++++++|...
T Consensus 37 ~V~a~~T~qdkmRkLld~v~akG~~ 61 (85)
T cd08324 37 IVCACPTQPDKVRKILDLVQSKGEE 61 (85)
T ss_pred HHHhCCCCHHHHHHHHHHHHhcCch
Confidence 3333456555456899999999986
No 94
>KOG4523 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.72 E-value=1.8e+02 Score=25.58 Aligned_cols=53 Identities=23% Similarity=0.101 Sum_probs=47.1
Q ss_pred HHHHHHhHhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchh
Q 041149 58 NMRICALINSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFS 110 (389)
Q Consensus 58 ileicD~In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~ 110 (389)
+-.||++|+-=...|.-|+..|...+...-|.++-+-++||+.-..-+|..|.
T Consensus 14 nE~iaEmik~iaNEPSl~LY~iQeHirnaaP~liNln~~llekS~e~g~~qeD 66 (157)
T KOG4523|consen 14 NERIAEMIKLIANEPSLALYRIQEHIRNAAPGLINLNIMLLEKSAELGGAQED 66 (157)
T ss_pred HHHHHHHHHHHcCCchHHHHHHHHHHHhhCcchhhHHHHHHHHHHhhccchhh
Confidence 44699999988889999999999999999999999999999988888887773
No 95
>KOG3219 consensus Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=20.70 E-value=2e+02 Score=26.91 Aligned_cols=37 Identities=30% Similarity=0.389 Sum_probs=29.7
Q ss_pred hHHHHHHHHHHHHhcC-CCCCCchHHHHHHHHHhhCCCCC
Q 041149 133 GNRSRALQLIRAWGES-EDLAYLPVYRQTYMSLKERSVPP 171 (389)
Q Consensus 133 ~Vk~kiL~Li~~Wa~~-~~~~~l~~i~~~Y~~Lk~~Gv~F 171 (389)
+|-+-.+.+-..|.+. +=.| .+|+++|+.|+.+|--+
T Consensus 148 EvVEeAl~V~~~~~e~~PLqP--~HIREA~rrL~~qgk~~ 185 (195)
T KOG3219|consen 148 EVVEEALDVREEWGESGPLQP--KHIREAYRRLKLQGKLP 185 (195)
T ss_pred HHHHHHHHHHHHhccCCCCCc--HHHHHHHHHHHhcCCCC
Confidence 4667788888999997 4344 47999999999999655
No 96
>PF13251 DUF4042: Domain of unknown function (DUF4042)
Probab=20.45 E-value=1.3e+02 Score=27.87 Aligned_cols=33 Identities=15% Similarity=0.116 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhc
Q 041149 72 GSEIVKAIKKKISGKSVVSQRLSLDLLEACAMN 104 (389)
Q Consensus 72 ~keA~raIrKrL~~~n~~vql~AL~LLe~cVkN 104 (389)
-.+.++.|+.++.|++++++..+|+++.+++..
T Consensus 143 l~~~v~~v~~~l~~~d~~v~v~~l~~~~~l~s~ 175 (182)
T PF13251_consen 143 LTEVVTQVRPLLRHRDPNVRVAALSCLGALLSV 175 (182)
T ss_pred HHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcC
Confidence 578899999999999999999999999998865
No 97
>COG5064 SRP1 Karyopherin (importin) alpha [Intracellular trafficking and secretion]
Probab=20.37 E-value=3.4e+02 Score=28.08 Aligned_cols=90 Identities=10% Similarity=0.084 Sum_probs=63.4
Q ss_pred HHHHHHHHcCCCCCCCChHHHHHHHHhHhcCCCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCcchhhhccHHH
Q 041149 38 ESKMVDEATLETLEEPNWGMNMRICALINSEEFSGSEIVKAIKKKISGKSVVSQRLSLDLLEACAMNCEKVFSEVASEKV 117 (389)
Q Consensus 38 ~~~lIekATs~~l~~~Dw~~ileicD~In~~~~~~keA~raIrKrL~~~n~~vql~AL~LLe~cVkNCG~~F~evas~~F 117 (389)
.+..+.+.|...+..|||..| ..|+-.|.|-|.+.++.+..-|.=-+-.++.-.....+.|-+-..
T Consensus 221 ~TWtLSNlcRGknP~P~w~~i--------------sqalpiL~KLiys~D~evlvDA~WAiSYlsDg~~E~i~avld~g~ 286 (526)
T COG5064 221 ATWTLSNLCRGKNPPPDWSNI--------------SQALPILAKLIYSRDPEVLVDACWAISYLSDGPNEKIQAVLDVGI 286 (526)
T ss_pred hHHHHHHhhCCCCCCCchHHH--------------HHHHHHHHHHHhhcCHHHHHHHHHHHHHhccCcHHHHHHHHhcCC
Confidence 466677778889999999855 456777888888899988877777777776655555566666666
Q ss_pred HHHHHHhhcCCCCChhHHHHHHHHHH
Q 041149 118 LDEMVRMIENPQMDPGNRSRALQLIR 143 (389)
Q Consensus 118 l~eL~kl~~~~~~~~~Vk~kiL~Li~ 143 (389)
.-+|+.+++.+. ..|+.-+|..+.
T Consensus 287 ~~RLvElLs~~s--a~iqtPalR~vG 310 (526)
T COG5064 287 PGRLVELLSHES--AKIQTPALRSVG 310 (526)
T ss_pred cHHHHHHhcCcc--ccccCHHHHhhc
Confidence 777888887633 245555555553
Done!