Query 016112
Match_columns 395
No_of_seqs 195 out of 752
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 03:54:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016112.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016112hhsearch_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 3.9E-58 8.5E-63 469.1 32.0 281 47-328 1-297 (470)
2 KOG1086 Cytosolic sorting prot 100.0 1.4E-44 3.1E-49 356.8 22.2 267 45-316 6-306 (594)
3 cd03569 VHS_Hrs_Vps27p VHS dom 100.0 2.1E-42 4.6E-47 305.1 16.9 139 45-184 2-141 (142)
4 cd03568 VHS_STAM VHS domain fa 100.0 2.9E-42 6.3E-47 304.8 17.0 136 48-184 1-137 (144)
5 cd03565 VHS_Tom1 VHS domain fa 100.0 7.7E-42 1.7E-46 301.3 16.4 137 47-183 1-141 (141)
6 cd03567 VHS_GGA VHS domain fam 100.0 2.1E-40 4.5E-45 291.0 16.0 132 47-181 1-137 (139)
7 smart00288 VHS Domain present 100.0 8E-39 1.7E-43 279.5 15.8 132 48-179 1-133 (133)
8 PF00790 VHS: VHS domain; Int 100.0 2.5E-38 5.3E-43 278.6 15.1 136 44-179 2-140 (140)
9 cd03561 VHS VHS domain family; 100.0 1E-36 2.3E-41 266.1 15.6 130 48-177 1-133 (133)
10 KOG2199 Signal transducing ada 100.0 6.9E-35 1.5E-39 286.0 25.3 266 41-311 2-368 (462)
11 cd00197 VHS_ENTH_ANTH VHS, ENT 99.9 1.2E-24 2.7E-29 184.9 13.0 109 48-156 1-114 (115)
12 KOG1818 Membrane trafficking a 99.9 2.8E-23 6.1E-28 216.8 11.1 146 43-188 4-150 (634)
13 PF03127 GAT: GAT domain; Int 99.8 1.8E-18 4E-23 144.0 12.1 90 225-315 7-98 (100)
14 PF01417 ENTH: ENTH domain; I 98.1 3.1E-05 6.7E-10 66.8 11.2 108 46-154 2-118 (125)
15 cd03572 ENTH_epsin_related ENT 98.0 9.8E-05 2.1E-09 63.8 10.9 75 50-124 4-78 (122)
16 smart00273 ENTH Epsin N-termin 97.8 0.00039 8.5E-09 60.0 12.0 108 46-153 1-115 (127)
17 cd03571 ENTH_epsin ENTH domain 97.7 0.00063 1.4E-08 58.9 11.5 107 47-154 1-115 (123)
18 cd03562 CID CID (CTD-Interacti 97.7 0.00024 5.3E-09 60.0 8.5 107 48-159 4-110 (114)
19 cd03564 ANTH_AP180_CALM ANTH d 97.3 0.0017 3.6E-08 55.4 9.3 77 48-124 1-78 (117)
20 KOG2056 Equilibrative nucleosi 97.2 0.0032 7E-08 62.9 11.7 119 37-156 11-137 (336)
21 KOG0251 Clathrin assembly prot 96.8 0.12 2.7E-06 54.5 19.1 82 45-126 21-104 (491)
22 smart00582 RPR domain present 95.9 0.024 5.1E-07 48.1 6.7 76 80-157 28-107 (121)
23 PF07651 ANTH: ANTH domain; I 94.3 5.6 0.00012 38.5 18.9 87 46-133 2-91 (280)
24 KOG2374 Uncharacterized conser 94.1 0.79 1.7E-05 48.1 12.6 138 46-186 6-153 (661)
25 KOG2057 Predicted equilibrativ 87.0 6.2 0.00014 39.6 10.4 107 46-153 22-139 (499)
26 PF12348 CLASP_N: CLASP N term 85.6 8.8 0.00019 35.6 10.5 77 82-160 129-209 (228)
27 PF13646 HEAT_2: HEAT repeats; 83.1 19 0.00041 27.7 10.1 84 49-150 2-85 (88)
28 PF12210 Hrs_helical: Hepatocy 82.4 16 0.00034 30.4 9.1 66 231-299 4-71 (96)
29 cd00020 ARM Armadillo/beta-cat 80.9 13 0.00028 29.9 8.5 68 84-153 49-116 (120)
30 PF12348 CLASP_N: CLASP N term 78.7 12 0.00026 34.6 8.6 96 61-159 17-125 (228)
31 PF12717 Cnd1: non-SMC mitotic 74.5 47 0.001 30.0 11.1 87 66-158 7-93 (178)
32 KOG1077 Vesicle coat complex A 71.1 19 0.00042 39.8 8.6 88 52-148 80-168 (938)
33 PF08167 RIX1: rRNA processing 69.4 39 0.00085 30.3 9.2 63 82-146 19-86 (165)
34 smart00229 RasGEFN Guanine nuc 67.3 74 0.0016 26.6 11.7 104 46-152 8-123 (127)
35 cd00020 ARM Armadillo/beta-cat 64.7 22 0.00048 28.4 6.1 72 85-158 8-79 (120)
36 KOG2160 Armadillo/beta-catenin 64.3 26 0.00056 35.6 7.5 66 92-159 132-198 (342)
37 cd06224 REM Guanine nucleotide 62.7 86 0.0019 25.8 10.0 71 48-120 2-86 (122)
38 PF05004 IFRD: Interferon-rela 59.9 85 0.0018 31.3 10.4 102 48-151 45-154 (309)
39 PF11841 DUF3361: Domain of un 59.8 27 0.00059 31.7 6.2 59 96-156 72-130 (160)
40 PF06160 EzrA: Septation ring 59.0 2.6E+02 0.0057 30.2 15.1 192 102-309 160-400 (560)
41 PF13646 HEAT_2: HEAT repeats; 57.3 36 0.00077 26.1 5.9 54 87-153 2-56 (88)
42 PF07197 DUF1409: Protein of u 56.6 9.4 0.0002 28.0 2.1 30 108-138 7-39 (51)
43 KOG2071 mRNA cleavage and poly 52.3 42 0.00092 36.3 7.0 102 48-156 9-110 (579)
44 PRK04778 septation ring format 49.6 3.7E+02 0.008 29.1 14.3 79 103-186 165-253 (569)
45 PF01602 Adaptin_N: Adaptin N 48.6 1.1E+02 0.0024 31.8 9.6 67 83-155 113-179 (526)
46 PF02854 MIF4G: MIF4G domain; 46.8 97 0.0021 27.4 7.8 87 66-152 105-203 (209)
47 PF08045 CDC14: Cell division 46.3 79 0.0017 30.9 7.4 73 82-155 131-205 (257)
48 PF14555 UBA_4: UBA-like domai 43.7 59 0.0013 22.4 4.5 36 271-306 2-38 (43)
49 KOG0946 ER-Golgi vesicle-tethe 43.1 1.4E+02 0.003 33.9 9.2 73 84-158 122-196 (970)
50 PF00618 RasGEF_N: RasGEF N-te 42.9 59 0.0013 26.3 5.2 72 47-120 6-92 (104)
51 cd08777 Death_RIP1 Death Domai 42.6 40 0.00088 27.2 4.0 53 108-160 5-58 (86)
52 PF12333 Ipi1_N: Rix1 complex 42.0 2E+02 0.0043 23.7 8.4 51 86-136 13-63 (102)
53 PF01526 DDE_Tnp_Tn3: Tn3 tran 41.0 14 0.0003 38.3 1.3 138 48-192 218-376 (388)
54 PF11698 V-ATPase_H_C: V-ATPas 40.4 1.1E+02 0.0023 26.5 6.5 70 84-156 43-114 (119)
55 KOG1820 Microtubule-associated 40.0 1E+02 0.0022 35.1 7.9 61 60-120 262-331 (815)
56 PF02985 HEAT: HEAT repeat; I 40.0 80 0.0017 19.9 4.4 30 86-115 2-31 (31)
57 PF04818 CTD_bind: RNA polymer 39.4 65 0.0014 23.9 4.6 52 104-157 4-59 (64)
58 PF12830 Nipped-B_C: Sister ch 37.9 1.5E+02 0.0032 27.1 7.6 81 90-177 14-97 (187)
59 KOG1293 Proteins containing ar 37.4 1.3E+02 0.0029 33.1 8.0 86 70-158 442-534 (678)
60 PF12243 CTK3: CTD kinase subu 37.4 2.9E+02 0.0063 24.4 10.8 71 106-178 66-138 (139)
61 PF01602 Adaptin_N: Adaptin N 36.7 1.2E+02 0.0025 31.6 7.5 101 52-156 119-220 (526)
62 KOG1077 Vesicle coat complex A 36.4 1.1E+02 0.0023 34.4 7.0 72 81-157 326-398 (938)
63 PF06812 ImpA-rel_N: ImpA-rela 35.8 1.7E+02 0.0037 21.7 6.3 55 64-118 1-56 (62)
64 PF00531 Death: Death domain; 35.7 1E+02 0.0022 23.5 5.3 66 107-174 3-69 (83)
65 PF13513 HEAT_EZ: HEAT-like re 35.7 74 0.0016 22.4 4.2 52 98-152 1-52 (55)
66 PTZ00429 beta-adaptin; Provisi 34.7 3.1E+02 0.0067 31.0 10.7 72 63-135 232-307 (746)
67 cd08306 Death_FADD Fas-associa 33.9 66 0.0014 25.8 4.0 69 107-179 4-73 (86)
68 COG5215 KAP95 Karyopherin (imp 32.2 3.3E+02 0.0071 30.1 9.7 64 96-160 651-714 (858)
69 KOG1820 Microtubule-associated 32.0 2.4E+02 0.0053 32.1 9.3 105 65-172 353-458 (815)
70 smart00543 MIF4G Middle domain 32.0 2.2E+02 0.0048 25.1 7.7 73 66-138 98-177 (200)
71 PF03670 UPF0184: Uncharacteri 31.6 1.1E+02 0.0024 24.7 4.9 53 229-281 26-78 (83)
72 PF10508 Proteasom_PSMB: Prote 31.5 2.3E+02 0.005 30.1 8.8 92 64-157 51-148 (503)
73 KOG4508 Uncharacterized conser 31.3 2.8E+02 0.006 29.0 8.7 66 19-95 334-400 (522)
74 PF07462 MSP1_C: Merozoite sur 30.9 1.3E+02 0.0028 32.5 6.5 19 293-311 243-261 (574)
75 PF11864 DUF3384: Domain of un 30.4 3.7E+02 0.0081 28.2 10.0 93 65-157 8-117 (464)
76 PF09090 MIF4G_like_2: MIF4G l 29.8 4.4E+02 0.0095 25.3 9.7 110 63-183 9-126 (253)
77 KOG0151 Predicted splicing reg 29.0 3.1E+02 0.0067 30.8 9.0 108 47-160 435-556 (877)
78 PRK09706 transcriptional repre 28.5 1.7E+02 0.0036 25.1 6.0 113 4-124 5-127 (135)
79 PF12755 Vac14_Fab1_bd: Vacuol 27.6 3E+02 0.0066 22.5 7.0 61 83-146 26-86 (97)
80 cd01670 Death Death Domain: a 26.9 1.2E+02 0.0027 22.9 4.4 67 109-180 3-70 (79)
81 KOG3219 Transcription initiati 26.6 1E+02 0.0022 28.8 4.4 37 143-182 148-185 (195)
82 COG4477 EzrA Negative regulato 26.6 8.6E+02 0.019 26.5 15.1 121 62-188 117-254 (570)
83 KOG4535 HEAT and armadillo rep 26.5 60 0.0013 34.7 3.1 52 64-115 123-181 (728)
84 PF10508 Proteasom_PSMB: Prote 26.2 4.7E+02 0.01 27.8 10.0 93 64-158 117-232 (503)
85 PRK09687 putative lyase; Provi 25.2 6.5E+02 0.014 24.5 11.0 27 82-108 190-216 (280)
86 cd08324 CARD_NOD1_CARD4 Caspas 24.8 63 0.0014 26.3 2.3 21 138-158 41-61 (85)
87 KOG1105 Transcription elongati 24.7 2.8E+02 0.006 27.8 7.3 24 137-160 56-79 (296)
88 COG1059 Thermostable 8-oxoguan 24.2 2.6E+02 0.0056 26.3 6.5 69 61-136 35-110 (210)
89 COG5387 Chaperone required for 22.6 1.1E+02 0.0023 29.8 3.8 68 45-117 131-203 (264)
90 PF12627 PolyA_pol_RNAbd: Prob 22.4 1E+02 0.0022 22.5 3.1 27 113-139 13-39 (64)
91 COG5369 Uncharacterized conser 22.3 3.9E+02 0.0084 29.3 8.1 110 45-156 429-544 (743)
92 PF12783 Sec7_N: Guanine nucle 21.9 4.7E+02 0.01 23.0 7.8 71 85-157 74-146 (168)
93 KOG4523 Uncharacterized conser 21.3 1.7E+02 0.0037 25.7 4.4 53 67-119 13-65 (157)
94 KOG2021 Nuclear mRNA export fa 21.1 2.1E+02 0.0046 32.3 6.1 111 48-160 5-131 (980)
95 PF04904 NCD1: NAB conserved r 20.9 3.6E+02 0.0077 21.7 5.8 50 106-157 23-75 (82)
No 1
>KOG1087 consensus Cytosolic sorting protein GGA2/TOM1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=3.9e-58 Score=469.09 Aligned_cols=281 Identities=37% Similarity=0.600 Sum_probs=234.2
Q ss_pred hHHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhH-HHhhH
Q 016112 47 PVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFS-EVAAE 125 (395)
Q Consensus 47 ~~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~-eias~ 125 (395)
++..+|+|||++.+.+|||++||+|||+||.+..+++||+|+|+|||++++++||++||+|||+||||||+.|| +|+++
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 47899999999999999999999999999999999999999999999999999999999999999999999999 99999
Q ss_pred HHHHHHHhhhcCCCcccchHHHHHHHHHHHHHhhcC-CCChhhHHHHHHHHhhcCCCCCCCCCCCCCCccCCCCCCCcch
Q 016112 126 RVLDEMVKLIDDPQTVVNNRNKALVMIEAWGESTSE-LRYLPVYEETYKSLRSRGIRFPGRDNESLAPIFTPPRSVSETE 204 (395)
Q Consensus 126 ~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~~f~~-~~~l~~i~~~Y~~Lk~~Gi~FP~~~~~s~api~tP~~s~~~~~ 204 (395)
+||++||+++++++.+..||+|||.||++|+++|.. .++++.|..+|++|+++||+||.++.++++++.+|++.++..+
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 999999999998866789999999999999999998 8899999999999999999999999998877655544443332
Q ss_pred hhhhhHHhhhhhccCC---CC----CHH---HHHHHHHHHHHHHHHHHHHHhcCCC--CCcchhHHHHHHHHHHHhhHHH
Q 016112 205 VDATLAEQIQRDIRGQ---SF----TKE---QTKEAFDVARNSIELLSTVLSSSPQ--QDALQDDLTTTLVQQCRQSQFT 272 (395)
Q Consensus 205 ~~~~l~q~~q~~~~~~---~~----~~e---q~k~~l~~a~~n~~LL~emL~~~~~--~e~~~dEl~~eL~~~Cr~~q~r 272 (395)
..............++ .+ +++ .+.++|+.++++++||++||.+..+ .+..++|++.+|+.+||.+|+|
T Consensus 161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~seLe~~~~~~~ll~emL~~v~p~~~e~~~~el~~~L~~qcr~~q~r 240 (470)
T KOG1087|consen 161 PQEQSGPPNEANASMKSMAGYPTEATPEVSTLSLSELESVKGKADLLSEMLNAVDPSDEEAAKDELLVDLVEQCRSKQRR 240 (470)
T ss_pred chhhcCCccccccccccccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhccCCCCcchhHHHHHHHHHHHHHHHHHH
Confidence 2210000000001111 11 122 2457999999999999999998654 3466789999999999999999
Q ss_pred HHHHHHHhCCCHHHHHHHHHhhHHHHHHHHHHHhhcCCCCCCCC--CCCCCcccccCC
Q 016112 273 VQRIIETAGDNEALLFEALNVNDEIQKVLTKYEELKKPSGAPAE--PEPAMIPVAVEP 328 (395)
Q Consensus 273 I~rlI~~~~ddEe~L~eLL~~NDeL~~aL~kYe~l~~~~~~~~~--~~~~~~~~~~~~ 328 (395)
|++||++++ ||++|.++|++||+|+++|.+|+++..|...+.. .+++..|++.++
T Consensus 241 v~~Li~~~~-DE~ll~~lL~lND~L~~vL~~ye~~~~g~s~~~~~~~e~~~~p~~~~~ 297 (470)
T KOG1087|consen 241 VMHLIEETS-DEELLCELLKLNDELQRVLERYERIASGSSVATTSKSETASDPVDQSS 297 (470)
T ss_pred HHHHHHHhc-cHHHHHHHHHHhHHHHHHHHHHHHHhcccccccccccccCCCccccCc
Confidence 999999996 8999999999999999999999999999222221 345666665555
No 2
>KOG1086 consensus Cytosolic sorting protein/ADP-ribosylation factor effector GGA [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.4e-44 Score=356.75 Aligned_cols=267 Identities=25% Similarity=0.397 Sum_probs=222.6
Q ss_pred CChHHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhH-HHh
Q 016112 45 PNPVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFS-EVA 123 (395)
Q Consensus 45 ~s~~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~-eia 123 (395)
.-+++.||.|||++.+.++||..|..|||.||.++.||..|+|.+.+||++....++++||++||+||+|||++|| +++
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 3579999999999999999999999999999999999999999999999999999999999999999999999999 999
Q ss_pred hHHHHHHHHhhhcCC----CcccchHHHHHHHHHHHHHhhcCCCChhhHHHHHHHHhhcCCCC--CCCCCCCCCCccCCC
Q 016112 124 AERVLDEMVKLIDDP----QTVVNNRNKALVMIEAWGESTSELRYLPVYEETYKSLRSRGIRF--PGRDNESLAPIFTPP 197 (395)
Q Consensus 124 s~~Fl~eLvkli~~~----~t~~~Vk~KiL~lI~~W~~~f~~~~~l~~i~~~Y~~Lk~~Gi~F--P~~~~~s~api~tP~ 197 (395)
+++|||||+|+++.+ .+...||.||++++..|..+|++ .++|+++|++||++||.. |....+ -.+++.||
T Consensus 86 kfrFLNELIkvvsPKYlG~~tSekvKtkiIelLfsWtv~lpe---~~KikdaYqmLKkqgIik~DP~lp~d-~~~~p~pp 161 (594)
T KOG1086|consen 86 KFRFLNELIKVVSPKYLGSRTSEKVKTKIIELLFSWTVSLPE---EPKIKDAYQMLKKQGIIKSDPKLPVD-ETPVPAPP 161 (594)
T ss_pred HHHHHHHHHHHhCchhcchhhhHHHHHHHHHHHhhheecCcc---cchHHHHHHHHHhcCcccCCCCCCCC-CccCCCCC
Confidence 999999999999875 56778999999999999998876 578999999999999975 322222 13444433
Q ss_pred CCCCcchhhh------hh--------HHhhhhhc-cCCCCCHH-H--------HHHHHHHHHHHHHHHHHHHhcCCCC--
Q 016112 198 RSVSETEVDA------TL--------AEQIQRDI-RGQSFTKE-Q--------TKEAFDVARNSIELLSTVLSSSPQQ-- 251 (395)
Q Consensus 198 ~s~~~~~~~~------~l--------~q~~q~~~-~~~~~~~e-q--------~k~~l~~a~~n~~LL~emL~~~~~~-- 251 (395)
+.+ ....|+ .+ +.++|.++ .+++|..+ + +...+++|+|++++|.+|+..+.++
T Consensus 162 P~p-kssvFddEEksklL~rLLkSn~PeDLqaANkLIK~lVkeee~k~eKiskR~~aleev~n~vk~l~em~l~~s~eg~ 240 (594)
T KOG1086|consen 162 PRP-KSSVFDDEEKSKLLARLLKSNHPEDLQAANKLIKTLVKEEEHKLEKISKRVKALEEVNNNVKLLEEMLLDYSQEGN 240 (594)
T ss_pred CCC-CccccCcHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCC
Confidence 322 111221 11 22444444 46666322 2 2467999999999999999987543
Q ss_pred CcchhH-HHHHHHHHHHhhHHHHHHHHHHhCCCHHHHHHHHHhhHHHHHHHHHHHhhcCCCCCCCC
Q 016112 252 DALQDD-LTTTLVQQCRQSQFTVQRIIETAGDNEALLFEALNVNDEIQKVLTKYEELKKPSGAPAE 316 (395)
Q Consensus 252 e~~~dE-l~~eL~~~Cr~~q~rI~rlI~~~~ddEe~L~eLL~~NDeL~~aL~kYe~l~~~~~~~~~ 316 (395)
...++| +++++|++|.++|+.++||+.++.||++.|+++|++||.|++++..|+..+.|+.....
T Consensus 241 a~pd~E~~lq~v~~~ce~lr~tlfrlaset~dnD~aL~eILqanD~ltrvi~~ykt~~~G~~~~g~ 306 (594)
T KOG1086|consen 241 ASPDNELLLQEVYNRCEQLRPTLFRLASETEDNDPALAEILQANDNLTRVINLYKTPKEGNVANGS 306 (594)
T ss_pred CCCcHHHHHHHHHHHHHHHHHHHHHhhcccccCcHHHHHHHhhhhhHHhhhhhccccccccccccc
Confidence 245677 89999999999999999999999999999999999999999999999999999887664
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=2.1e-42 Score=305.12 Aligned_cols=139 Identities=38% Similarity=0.631 Sum_probs=134.8
Q ss_pred CChHHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhH-HHh
Q 016112 45 PNPVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFS-EVA 123 (395)
Q Consensus 45 ~s~~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~-eia 123 (395)
.++++++|++||++.+.+|||+.|++|||+||+++.+|++|+|+|||||+|+||++|++||+|||+||+|||.+|| +|+
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 4689999999999999999999999999999999999999999999999999999999999999999999999998 999
Q ss_pred hHHHHHHHHhhhcCCCcccchHHHHHHHHHHHHHhhcCCCChhhHHHHHHHHhhcCCCCCC
Q 016112 124 AERVLDEMVKLIDDPQTVVNNRNKALVMIEAWGESTSELRYLPVYEETYKSLRSRGIRFPG 184 (395)
Q Consensus 124 s~~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~~f~~~~~l~~i~~~Y~~Lk~~Gi~FP~ 184 (395)
+++|+++|++++++ .+++.||+|+|++|+.|+.+|++++.++.|.++|++|+++||.||+
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 99999999999987 6778999999999999999999999999999999999999999996
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=2.9e-42 Score=304.78 Aligned_cols=136 Identities=31% Similarity=0.552 Sum_probs=132.3
Q ss_pred HHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhH-HHhhHH
Q 016112 48 VEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFS-EVAAER 126 (395)
Q Consensus 48 ~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~-eias~~ 126 (395)
++++|++||++.++++||++|++|||+||+++.+|++|+|+|+|||+|+||++|++||+|||+||+|||.+|| +|++++
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 HHHHHHhhhcCCCcccchHHHHHHHHHHHHHhhcCCCChhhHHHHHHHHhhcCCCCCC
Q 016112 127 VLDEMVKLIDDPQTVVNNRNKALVMIEAWGESTSELRYLPVYEETYKSLRSRGIRFPG 184 (395)
Q Consensus 127 Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~~f~~~~~l~~i~~~Y~~Lk~~Gi~FP~ 184 (395)
|+++|+++++++ +++.||+|||++|+.|+.+|++++.++.|.++|++|+.+||.||.
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 999999999987 788999999999999999999999999999999999999999984
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=7.7e-42 Score=301.25 Aligned_cols=137 Identities=36% Similarity=0.634 Sum_probs=130.7
Q ss_pred hHHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcC-CCHHHHHHHHHHHHHHHhcccchhH-HHhh
Q 016112 47 PVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIML-KSPRIQYLALVLLETVVKNCEKAFS-EVAA 124 (395)
Q Consensus 47 ~~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~-~n~~vq~~AL~LLe~~VkNcG~~F~-eias 124 (395)
|++++|++|||+.++++||++|++|||+||+++++|++|+|+|+|||++ +||++|++||+|||+||||||.+|| +||+
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 5799999999999999999999999999999999999999999999985 7999999999999999999999998 9999
Q ss_pred HHHHHH-HHhhhcCCC-cccchHHHHHHHHHHHHHhhcCCCChhhHHHHHHHHhhcCCCCC
Q 016112 125 ERVLDE-MVKLIDDPQ-TVVNNRNKALVMIEAWGESTSELRYLPVYEETYKSLRSRGIRFP 183 (395)
Q Consensus 125 ~~Fl~e-Lvkli~~~~-t~~~Vk~KiL~lI~~W~~~f~~~~~l~~i~~~Y~~Lk~~Gi~FP 183 (395)
++|+++ |++++.++. ++..||+|++++|+.|+.+|++++.++.|.++|++|+++||.||
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 999998543 45689999999999999999999999999999999999999998
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=2.1e-40 Score=291.04 Aligned_cols=132 Identities=27% Similarity=0.460 Sum_probs=125.2
Q ss_pred hHHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhH-HHhhH
Q 016112 47 PVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFS-EVAAE 125 (395)
Q Consensus 47 ~~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~-eias~ 125 (395)
+++++|++||++.+.+|||++|++|||+||+++.+|++|+|+|+|||+|+||++|++||+|||+||+|||++|| +|+++
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----CCcccchHHHHHHHHHHHHHhhcCCCChhhHHHHHHHHhhcCCC
Q 016112 126 RVLDEMVKLIDD----PQTVVNNRNKALVMIEAWGESTSELRYLPVYEETYKSLRSRGIR 181 (395)
Q Consensus 126 ~Fl~eLvkli~~----~~t~~~Vk~KiL~lI~~W~~~f~~~~~l~~i~~~Y~~Lk~~Gi~ 181 (395)
+|+++|++++++ +.++..||+|||++|+.|+.+|+. .|.|.++|+.||++||.
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 999999999975 357789999999999999999975 46689999999999985
No 7
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=100.00 E-value=8e-39 Score=279.51 Aligned_cols=132 Identities=36% Similarity=0.629 Sum_probs=127.6
Q ss_pred HHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhH-HHhhHH
Q 016112 48 VEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFS-EVAAER 126 (395)
Q Consensus 48 ~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~-eias~~ 126 (395)
++++|++||++.+.+|||+.|++|||+||+++.+|++|+|+|+|||+|+||++|++||+|||+||+|||.+|| +|++++
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 4789999999999999999999999999999999999999999999999999999999999999999999998 999999
Q ss_pred HHHHHHhhhcCCCcccchHHHHHHHHHHHHHhhcCCCChhhHHHHHHHHhhcC
Q 016112 127 VLDEMVKLIDDPQTVVNNRNKALVMIEAWGESTSELRYLPVYEETYKSLRSRG 179 (395)
Q Consensus 127 Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~~f~~~~~l~~i~~~Y~~Lk~~G 179 (395)
|+++|+++++++.+.+.||+|++++|+.|+.+|.+++.++.|.++|+.|+++|
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 99999999998876666999999999999999999999999999999999987
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=2.5e-38 Score=278.58 Aligned_cols=136 Identities=38% Similarity=0.684 Sum_probs=128.2
Q ss_pred CCChHHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhH-HH
Q 016112 44 GPNPVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFS-EV 122 (395)
Q Consensus 44 ~~s~~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~-ei 122 (395)
.+++++.+|++||++.+.++||+.|++|||+||+++.+|++|+++|+|||+|+||++|++||+|||+||+|||.+|| +|
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 hhHHHHHHHHhhhcCCCcccc--hHHHHHHHHHHHHHhhcCCCChhhHHHHHHHHhhcC
Q 016112 123 AAERVLDEMVKLIDDPQTVVN--NRNKALVMIEAWGESTSELRYLPVYEETYKSLRSRG 179 (395)
Q Consensus 123 as~~Fl~eLvkli~~~~t~~~--Vk~KiL~lI~~W~~~f~~~~~l~~i~~~Y~~Lk~~G 179 (395)
++++|+++|++++.++.+.+. ||+|++++|+.|+.+|+..+.++.|.++|+.||++|
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 999999999999988776665 999999999999999999999999999999999998
No 9
>cd03561 VHS VHS domain family; The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It has a superhelical structure similar to that of the ARM (Armadillo) repeats and is present at the N-termini of proteins involved in intracellular membrane trafficking. There are four general groups of VHS domain containing proteins based on their association with other domains. The first group consists of proteins of the STAM/EAST/Hbp family which has the domain composition VHS-SH3-ITAM. The second consists of proteins with a FYVE domain C-terminal to VHS. The third consists of GGA proteins with a domain composition VHS-GAT (GGA and TOM)-GAE (gamma-adaptin ear) domain. The fourth consists of proteins with a VHS domain alone or with domains other than those mentioned above. In GGA proteins, VHS domains are involved in cargo recognition in trans-Golgi, thereby having a general me
Probab=100.00 E-value=1e-36 Score=266.09 Aligned_cols=130 Identities=45% Similarity=0.702 Sum_probs=125.0
Q ss_pred HHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhH-HHhhHH
Q 016112 48 VEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFS-EVAAER 126 (395)
Q Consensus 48 ~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~-eias~~ 126 (395)
++++|++||++.+.++||++|++|||+||+++.+|++|+|+|+|||+|+||++|++||+|||+||+|||++|| +|++++
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 999999
Q ss_pred HHHHHHhhhcCC-CcccchHHHHHHHHHHHHHhhcCC-CChhhHHHHHHHHhh
Q 016112 127 VLDEMVKLIDDP-QTVVNNRNKALVMIEAWGESTSEL-RYLPVYEETYKSLRS 177 (395)
Q Consensus 127 Fl~eLvkli~~~-~t~~~Vk~KiL~lI~~W~~~f~~~-~~l~~i~~~Y~~Lk~ 177 (395)
|+++|++++.++ .++..||.|++++|+.|+.+|+.. +.+++|.++|+.||+
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 999999999876 778899999999999999999987 889999999999984
No 10
>KOG2199 consensus Signal transducing adaptor protein STAM/STAM2 [Signal transduction mechanisms]
Probab=100.00 E-value=6.9e-35 Score=285.95 Aligned_cols=266 Identities=25% Similarity=0.363 Sum_probs=201.7
Q ss_pred hcCCCChHHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhH
Q 016112 41 LFQGPNPVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFS 120 (395)
Q Consensus 41 ~f~~~s~~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~ 120 (395)
||+.+++|+.+|++||++.++.+||.+||.+||+|+++++++++++++|+|||.+++|||+++||+||++||.|||++|+
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 67779999999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred -HHhhHHHHHHHHhhhcCCCcccchHHHHHHHHHHHHHhhcCCCChhhHHHHHHHHhhcCCCCCCCCCCCC-CCccCC-C
Q 016112 121 -EVAAERVLDEMVKLIDDPQTVVNNRNKALVMIEAWGESTSELRYLPVYEETYKSLRSRGIRFPGRDNESL-APIFTP-P 197 (395)
Q Consensus 121 -eias~~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~~f~~~~~l~~i~~~Y~~Lk~~Gi~FP~~~~~s~-api~tP-~ 197 (395)
||+++.|.++|.+|+.+ .+.+.|++|+..++..|++.|+.++.|..|..+|+.||+.||.|+..+.-.. ..+-+- .
T Consensus 82 ~EVsSr~F~~el~al~~~-~~h~kV~~k~~~lv~eWsee~K~Dp~lsLi~~l~~klk~~g~~f~~~~~k~~k~a~~~~~v 160 (462)
T KOG2199|consen 82 LEVSSRDFTTELRALIES-KAHPKVCEKMRDLVKEWSEEFKKDPSLSLISALYKKLKEEGITFLVAGSKPEKHAMSTNTV 160 (462)
T ss_pred HHHhhhhHHHHHHHHHhh-cccHHHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHcCCCcccCCCchhHHHhhcccc
Confidence 99999999999999987 5578999999999999999999999999999999999999999986553210 000000 0
Q ss_pred CCC--------------------------CcchhhhhhH----------------Hhhh--hh------c----------
Q 016112 198 RSV--------------------------SETEVDATLA----------------EQIQ--RD------I---------- 217 (395)
Q Consensus 198 ~s~--------------------------~~~~~~~~l~----------------q~~q--~~------~---------- 217 (395)
.+. +....+.+.. ...+ +| +
T Consensus 161 ~~k~EeEdiaKAi~lSL~E~~~Q~k~a~~~tst~yPs~qk~nqapa~~l~s~~~~rkVRALYDFeAaE~nELsFkaGdII 240 (462)
T KOG2199|consen 161 SSKQEEEDIAKAIELSLKEQEKQKKLAETETSTLYPSHQKQNQAPASQLNSQTVVRKVRALYDFEAAEDNELSFKAGDII 240 (462)
T ss_pred cccccHHHHHHHHHhhHHHHhhchhhccCCccccCccccccccCchhhccCCccchhhhhhhcccccCCCccceecCcEE
Confidence 000 0000000000 0000 00 0
Q ss_pred -----------------cCC----CC--------CHHHHH--H---H--HHHHHHHH-HHHHHHHhcCCC-CCcchhHHH
Q 016112 218 -----------------RGQ----SF--------TKEQTK--E---A--FDVARNSI-ELLSTVLSSSPQ-QDALQDDLT 259 (395)
Q Consensus 218 -----------------~~~----~~--------~~eq~k--~---~--l~~a~~n~-~LL~emL~~~~~-~e~~~dEl~ 259 (395)
-++ +| +.+++. . + .......+ +|| ++|.+..+ .+..+++-+
T Consensus 241 tVLd~s~~~WWKG~~~~~~GlFPsnfVT~~le~~~~ee~~~~~~~~E~~vfi~e~~iDrlL-~~L~~~dPtd~~~D~~~l 319 (462)
T KOG2199|consen 241 TVLDDSDPNWWKGENHRGIGLFPSNFVTADLEEPKIEEQEQKQKNKEAIVFIDEDKIDRLL-QVLHEADPTDEVQDDDDL 319 (462)
T ss_pred EEcccCCcchhccccCCcccccchhhhhhhhcccchhhhhhhhcCcceeeeccHHHHHHHH-HHHhhcCCCCccCCCHHH
Confidence 000 01 111111 0 0 01111222 344 46776544 566788888
Q ss_pred HHHHHHHHhhHHHHHHHHHHhCCCHHHHHHHHHhhHHHHHHHHHHHhhcCCC
Q 016112 260 TTLVQQCRQSQFTVQRIIETAGDNEALLFEALNVNDEIQKVLTKYEELKKPS 311 (395)
Q Consensus 260 ~eL~~~Cr~~q~rI~rlI~~~~ddEe~L~eLL~~NDeL~~aL~kYe~l~~~~ 311 (395)
..|+..|.+|+|.|-+.++.+. .-=.+|.++|..|..|+..|+.+....
T Consensus 320 ~~le~~~~~mgPlid~~Le~id---rk~~eL~~Ln~~l~~Al~lY~kLm~~~ 368 (462)
T KOG2199|consen 320 LDLEAAVHQMGPLIDRKLEKID---RKHEELSQLNVKLLDALRLYNKLMNEA 368 (462)
T ss_pred HHHHHHHHHhhhHHHHHHHHHH---hhHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 9999999999999999999983 346788999999999999999998755
No 11
>cd00197 VHS_ENTH_ANTH VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It is located at the N-termini of proteins involved in intracellular membrane trafficking. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. VHS, ENTH and ANTH domains are structurally similar and are composed of a superhelix of eight alpha helices. ENTH adnd ANTH (E/ANTH) domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membra
Probab=99.92 E-value=1.2e-24 Score=184.85 Aligned_cols=109 Identities=38% Similarity=0.633 Sum_probs=100.8
Q ss_pred HHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhH-HHhhHH
Q 016112 48 VEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFS-EVAAER 126 (395)
Q Consensus 48 ~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~-eias~~ 126 (395)
++++|++||++.+.+|+|..+++|||+++..+.++++++++|+|||.++|+++++.||+|||+||+|||++|| +++++.
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 4789999999999999999999999999999899999999999999999999999999999999999999998 899999
Q ss_pred HHHHHHhhhcC----CCcccchHHHHHHHHHHHH
Q 016112 127 VLDEMVKLIDD----PQTVVNNRNKALVMIEAWG 156 (395)
Q Consensus 127 Fl~eLvkli~~----~~t~~~Vk~KiL~lI~~W~ 156 (395)
|+.+|.+.... ...+..||+|++++++.|+
T Consensus 81 ~~~~l~~~~~~~~~~~~~~~~Vr~k~~~l~~~w~ 114 (115)
T cd00197 81 FAVELLKFDKSKLLGDDVSTNVREKAIELVQLWA 114 (115)
T ss_pred HHHHHHHhhccccccCCCChHHHHHHHHHHHHHh
Confidence 99999875322 2446789999999999997
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=2.8e-23 Score=216.82 Aligned_cols=146 Identities=31% Similarity=0.532 Sum_probs=139.0
Q ss_pred CCCChHHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhH-H
Q 016112 43 QGPNPVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFS-E 121 (395)
Q Consensus 43 ~~~s~~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~-e 121 (395)
+.++.+..+|++||++.+.+.||..|++|||+|++....|++++|.|+|||.|.||+++..+|.|++.||+|||..|| +
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 446779999999999999999999999999999999999999999999999999999999999999999999999997 9
Q ss_pred HhhHHHHHHHHhhhcCCCcccchHHHHHHHHHHHHHhhcCCCChhhHHHHHHHHhhcCCCCCCCCCC
Q 016112 122 VAAERVLDEMVKLIDDPQTVVNNRNKALVMIEAWGESTSELRYLPVYEETYKSLRSRGIRFPGRDNE 188 (395)
Q Consensus 122 ias~~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~~f~~~~~l~~i~~~Y~~Lk~~Gi~FP~~~~~ 188 (395)
|+++.|++.+..++....+...|+.++|.+|+.|+.+|.+...+..+.++|+.|+..|+.||..+..
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 9999999999999987768889999999999999999999899999999999999999999998754
No 13
>PF03127 GAT: GAT domain; InterPro: IPR004152 The GAT domain is responsible for binding of GGA proteins to several members of the ARF family including ARF1 [] and ARF3. The GAT domain stabilises membrane bound ARF1 in its GTP bound state, by interfering with GAP proteins [].; GO: 0006886 intracellular protein transport, 0005622 intracellular; PDB: 1YD8_H 1WR6_C 1WRD_A 1O3X_A 1J2J_B 1NWM_X 1X79_A 1OXZ_A 1NAF_A.
Probab=99.78 E-value=1.8e-18 Score=143.96 Aligned_cols=90 Identities=26% Similarity=0.461 Sum_probs=77.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCCcc--hhHHHHHHHHHHHhhHHHHHHHHHHhCCCHHHHHHHHHhhHHHHHHHH
Q 016112 225 EQTKEAFDVARNSIELLSTVLSSSPQQDAL--QDDLTTTLVQQCRQSQFTVQRIIETAGDNEALLFEALNVNDEIQKVLT 302 (395)
Q Consensus 225 eq~k~~l~~a~~n~~LL~emL~~~~~~e~~--~dEl~~eL~~~Cr~~q~rI~rlI~~~~ddEe~L~eLL~~NDeL~~aL~ 302 (395)
.+++.+|++|++|+.||++||.++++++.. ++++++|||++||++||+|++||+.+.++ ++|++||++||+|++||.
T Consensus 7 ~k~~~~l~~v~~~~~lL~emL~~~~~~~~~~~~~el~~eL~~~ck~~r~~i~~li~~~~de-e~l~~lL~~ND~L~~~l~ 85 (100)
T PF03127_consen 7 SKRRSELEKVKNNAKLLNEMLDNYDPGEESSSDNELIQELYESCKSMRPRIQRLIEEVEDE-ELLGELLQANDELNQALE 85 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTTTTTSTHHHHHHHHHHHHHHHHHHHHHHHHHHTSTTC-HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCCCCccchHHHHHHHHHHHHHHHHHHHHHhhcCcH-HHHHHHHHHHHHHHHHHH
Confidence 456789999999999999999998775543 34899999999999999999999999755 599999999999999999
Q ss_pred HHHhhcCCCCCCC
Q 016112 303 KYEELKKPSGAPA 315 (395)
Q Consensus 303 kYe~l~~~~~~~~ 315 (395)
+|+++.++....+
T Consensus 86 ~Y~~l~~~~~~~~ 98 (100)
T PF03127_consen 86 RYDRLVKGQQRGT 98 (100)
T ss_dssp HHHHHHCCC----
T ss_pred HHHHHHcCccccc
Confidence 9999999987644
No 14
>PF01417 ENTH: ENTH domain; InterPro: IPR001026 The ENTH (Epsin N-terminal homology) domain is approximately 150 amino acids in length and is always found located at the N-termini of proteins. The domain forms a compact globular structure, composed of 9 alpha-helices connected by loops of varying length. The general topology is determined by three helical hairpins that are stacked consecutively with a right hand twist []. An N-terminal helix folds back, forming a deep basic groove that forms the binding pocket for the Ins(1,4,5)P3 ligand []. The ligand is coordinated by residues from surrounding alpha-helices and all three phosphates are multiply coordinated. The coordination of Ins(1,4,5)P3 suggests that ENTH is specific for particular head groups. Proteins containing this domain have been found to bind PtdIns(4,5)P2 and PtdIns(1,4,5)P3 suggesting that the domain may be a membrane interacting module. The main function of proteins containing this domain appears to be to act as accessory clathrin adaptors in endocytosis, Epsin is able to recruit and promote clathrin polymerisation on a lipid monolayer, but may have additional roles in signalling and actin regulation []. Epsin causes a strong degree of membrane curvature and tubulation, even fragmentation of membranes with a high PtdIns(4,5)P2 content. Epsin binding to membranes facilitates their deformation by insertion of the N-terminal helix into the outer leaflet of the bilayer, pushing the head groups apart. This would reduce the energy needed to curve the membrane into a vesicle, making it easier for the clathrin cage to fix and stabilise the curved membrane. This points to a pioneering role for epsin in vesicle budding as it provides both a driving force and a link between membrane invagination and clathrin polymerisation. ; PDB: 1H0A_A 1EYH_A 1EDU_A 2QY7_B 1XGW_A 2V8S_E 1VDY_A 2DCP_A 1INZ_A 3ONL_B ....
Probab=98.13 E-value=3.1e-05 Score=66.77 Aligned_cols=108 Identities=25% Similarity=0.284 Sum_probs=76.7
Q ss_pred ChHHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHh---cCCCHHHHHHHHHHHHHHHhcccchhH-H
Q 016112 46 NPVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRI---MLKSPRIQYLALVLLETVVKNCEKAFS-E 121 (395)
Q Consensus 46 s~~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL---~~~n~~vq~~AL~LLe~~VkNcG~~F~-e 121 (395)
|+++.+|.+||+...-.|.-...-+||..-... ....+.+..|.||| ..++.++.+-||.||+.|++||...|. .
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 678999999999997788888888888887665 67899999999999 789999999999999999999999995 5
Q ss_pred Hhh-HHHHHHHHhh--hcCCCcc--cchHHHHHHHHHH
Q 016112 122 VAA-ERVLDEMVKL--IDDPQTV--VNNRNKALVMIEA 154 (395)
Q Consensus 122 ias-~~Fl~eLvkl--i~~~~t~--~~Vk~KiL~lI~~ 154 (395)
+-. ...+..|... +.+...+ ..||+++-+++.-
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 522 1223333221 1111111 3588777666543
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=97.96 E-value=9.8e-05 Score=63.76 Aligned_cols=75 Identities=17% Similarity=0.238 Sum_probs=66.9
Q ss_pred HHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhHHHhh
Q 016112 50 KLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFSEVAA 124 (395)
Q Consensus 50 ~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~eias 124 (395)
.+|.+||+..-..+--...-|||.+...++....+.+..|-|||++++|||-+-||.+|+.|+.++...|...+.
T Consensus 4 ~ll~~ATsdd~~p~pgy~~~Eia~~t~~s~~~~~ei~d~L~kRL~~~~~hVK~K~Lrilk~l~~~G~~~f~~~~~ 78 (122)
T cd03572 4 SLLSKATSDDDEPTPGYLYEEIAKLTRKSVGSCQELLEYLLKRLKRSSPHVKLKVLKIIKHLCEKGNSDFKRELQ 78 (122)
T ss_pred HHHHHHhcCCCCCCchHHHHHHHHHHHcCHHHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHHhhCCHHHHHHHH
Confidence 589999999887777777779999999988889999999999999999999999999999999999889964333
No 16
>smart00273 ENTH Epsin N-terminal homology (ENTH) domain.
Probab=97.79 E-value=0.00039 Score=60.01 Aligned_cols=108 Identities=21% Similarity=0.217 Sum_probs=82.5
Q ss_pred ChHHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHhcccchhH-HHh
Q 016112 46 NPVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLK-SPRIQYLALVLLETVVKNCEKAFS-EVA 123 (395)
Q Consensus 46 s~~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~-n~~vq~~AL~LLe~~VkNcG~~F~-eia 123 (395)
++++..|.+||+.....|.-..+-+|+......+....+++.+|.+||... +..+++-||.||+.|++|+.+.|- ++.
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 468899999999999999999999999999887788999999999999765 999999999999999999988773 543
Q ss_pred hH-HHHHHHHhhhc-CCC---cccchHHHHHHHHH
Q 016112 124 AE-RVLDEMVKLID-DPQ---TVVNNRNKALVMIE 153 (395)
Q Consensus 124 s~-~Fl~eLvkli~-~~~---t~~~Vk~KiL~lI~ 153 (395)
.. ..+..|...-. ++. -...||.++..|+.
T Consensus 81 ~~~~~i~~L~~f~~~~~~~~d~g~~VR~ya~~L~~ 115 (127)
T smart00273 81 RNRNRILNLSDFQDIDSRGKDQGANIRTYAKYLLE 115 (127)
T ss_pred HhhHHHhhHhhCeecCCCCeeCcHHHHHHHHHHHH
Confidence 32 23344544332 111 12356666555543
No 17
>cd03571 ENTH_epsin ENTH domain, Epsin family; The epsin (Eps15 interactor) N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. ENTH and ANTH (E/ANTH) domains are structurally similar to the VHS domain and are composed of a superhelix of eight alpha helices. E/ANTH domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membranes. ENTH domains also function in the development of membrane curvature through lipid remodeling during the formation of clathrin-coated vesicles. E/ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the trans-Golgi network, which suggests that E/ANTH domains are univ
Probab=97.69 E-value=0.00063 Score=58.91 Aligned_cols=107 Identities=22% Similarity=0.253 Sum_probs=79.0
Q ss_pred hHHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHHHhcccchhH-HHh
Q 016112 47 PVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIML--KSPRIQYLALVLLETVVKNCEKAFS-EVA 123 (395)
Q Consensus 47 ~~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~--~n~~vq~~AL~LLe~~VkNcG~~F~-eia 123 (395)
+++..|..||+...-.|.-..+-+||+.-.. ...-.+.+..|.|||.. ++-+..+-||+||+.|++|+...|- ++-
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 4688999999999888888899999988665 35678999999999964 5889999999999999999998884 553
Q ss_pred hHH-HHHHHHhhh--cCC--CcccchHHHHHHHHHH
Q 016112 124 AER-VLDEMVKLI--DDP--QTVVNNRNKALVMIEA 154 (395)
Q Consensus 124 s~~-Fl~eLvkli--~~~--~t~~~Vk~KiL~lI~~ 154 (395)
..- .+..|...- .+. ..-..||+|+-.++.-
T Consensus 80 ~~~~~i~~L~~F~~~d~~g~d~G~~VR~ka~~i~~L 115 (123)
T cd03571 80 ENLYIIRTLKDFQYIDENGKDQGINVREKAKEILEL 115 (123)
T ss_pred HhHHHHHhhccceeeCCCCCchhHHHHHHHHHHHHH
Confidence 332 333342211 111 1224788887766543
No 18
>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=97.66 E-value=0.00024 Score=59.98 Aligned_cols=107 Identities=19% Similarity=0.253 Sum_probs=77.8
Q ss_pred HHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhHHHhhHHH
Q 016112 48 VEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFSEVAAERV 127 (395)
Q Consensus 48 ~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~eias~~F 127 (395)
+...+++.|.-... -..|-.+...+......+++.+.+|.++|+...|...+.+|-|+|.+++||+.+........|
T Consensus 4 ~~~~l~~L~~~~~S---~~~I~~lt~~a~~~~~~a~~iv~~i~~~i~~~~~~~KL~~LYL~dsIvkn~~~~~~~~~~~~~ 80 (114)
T cd03562 4 YNALLEKLTFNKNS---QPSIQTLTKLAIENRKHAKEIVEIIEKHIKKCPPEQKLPLLYLLDSIVKNVGRKYKEFFSEFL 80 (114)
T ss_pred HHHHHHHHHcCccc---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHHHcccchHHHHHHHH
Confidence 45556666665433 344555555555544578899999999999999999999999999999999988754433344
Q ss_pred HHHHHhhhcCCCcccchHHHHHHHHHHHHHhh
Q 016112 128 LDEMVKLIDDPQTVVNNRNKALVMIEAWGEST 159 (395)
Q Consensus 128 l~eLvkli~~~~t~~~Vk~KiL~lI~~W~~~f 159 (395)
.+-+...+. ..++.+|.|+..++.-|.+.+
T Consensus 81 ~~~f~~~~~--~~~~~~r~kl~rl~~iW~~~~ 110 (114)
T cd03562 81 VPLFLDAYE--KVDEKTRKKLERLLNIWEERF 110 (114)
T ss_pred HHHHHHHHH--hCCHHHHHHHHHHHHHccCCC
Confidence 444444444 346789999999999998654
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=97.31 E-value=0.0017 Score=55.44 Aligned_cols=77 Identities=19% Similarity=0.239 Sum_probs=69.2
Q ss_pred HHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhH-HHhh
Q 016112 48 VEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFS-EVAA 124 (395)
Q Consensus 48 ~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~-eias 124 (395)
++..|-+||+.....|+-..+-+|......++.+..+++.+|.+|+..+|..+++-||.||..|++++.+.|. ++..
T Consensus 1 ~~~aV~kAT~~~~~~pk~k~v~~ii~~t~~~~~~~~~~~~~l~~Rl~~~~w~v~~K~LillH~llr~G~~~~~~~~~~ 78 (117)
T cd03564 1 LEKAVKKATSHDEAPPKDKHVRKIIAGTSSSPASIPSFASALSRRLLDRNWVVVLKALILLHRLLREGHPSFLQELLS 78 (117)
T ss_pred CchHHHhhcCCCCCCCChHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence 3568999999999999999999999998877889999999999999999999999999999999999998885 4433
No 20
>KOG2056 consensus Equilibrative nucleoside transporter protein [Nucleotide transport and metabolism]
Probab=97.24 E-value=0.0032 Score=62.86 Aligned_cols=119 Identities=24% Similarity=0.222 Sum_probs=87.2
Q ss_pred HHHhhcCCCChHHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHHHhc
Q 016112 37 KMKELFQGPNPVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIM--LKSPRIQYLALVLLETVVKN 114 (395)
Q Consensus 37 ~~~~~f~~~s~~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~--~~n~~vq~~AL~LLe~~VkN 114 (395)
+++.|+.+-++.+..|-.||+...-.|.-.++.+|++.--. ...-.+.+-.|.||+. .+|=+.+|-||+|||.|++|
T Consensus 11 qakn~v~~y~~~e~kVrdAT~nd~wGPs~~lm~eIA~~ty~-~~e~~eIm~vi~kRl~d~gknWR~VyKaLtlleyLl~~ 89 (336)
T KOG2056|consen 11 QAKNFIKNYSEAELKVRDATSNDPWGPSGTLMAEIAQATYN-FVEYQEIMDVLWKRLNDSGKNWRHVYKALTLLEYLLKN 89 (336)
T ss_pred HHHHHHhcchHHHHHHHhccccccCCCchHHHHHHHHHhcC-HHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHhc
Confidence 36667777789999999999999999999999999987553 2456899999999996 67889999999999999999
Q ss_pred ccchhHHHhhHH-HHHHHHhhhc----C-CCcccchHHHHHHHHHHHH
Q 016112 115 CEKAFSEVAAER-VLDEMVKLID----D-PQTVVNNRNKALVMIEAWG 156 (395)
Q Consensus 115 cG~~F~eias~~-Fl~eLvkli~----~-~~t~~~Vk~KiL~lI~~W~ 156 (395)
+..+|-.-+.+. ++-++.+-+. + ..--..||+|+-+++.-..
T Consensus 90 GSErv~~~~ren~~~I~tL~~Fq~iD~~G~dqG~nVRkkak~l~~LL~ 137 (336)
T KOG2056|consen 90 GSERVVDETRENIYTIETLKDFQYIDEDGKDQGLNVRKKAKELLSLLE 137 (336)
T ss_pred CcHHHHHHHHhhhHHHHHHhhceeeCCCCccchHHHHHHHHHHHHHhc
Confidence 988884222222 3322222221 1 1222468888777765554
No 21
>KOG0251 consensus Clathrin assembly protein AP180 and related proteins, contain ENTH domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=96.78 E-value=0.12 Score=54.50 Aligned_cols=82 Identities=18% Similarity=0.216 Sum_probs=74.9
Q ss_pred CChHHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHhcccchhH-HH
Q 016112 45 PNPVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLK-SPRIQYLALVLLETVVKNCEKAFS-EV 122 (395)
Q Consensus 45 ~s~~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~-n~~vq~~AL~LLe~~VkNcG~~F~-ei 122 (395)
.+.++..|-|||+.....|+-..+-.|--.+++.+.....++.+|-.||.+. |=.|++-||.|+.-+++.+.+.|. ++
T Consensus 21 ~~~l~~AV~KATsh~~~ppk~k~l~~Il~~ts~~~~~i~~~v~aLs~Rl~~TrnW~VAlKsLIliH~ll~~G~~~f~~~l 100 (491)
T KOG0251|consen 21 GSDLEKAVVKATSHDDMPPKDKYLDEILSATSSSPASIPSCVHALSERLNKTRNWTVALKALILIHRLLKEGDPSFEQEL 100 (491)
T ss_pred hhhHHHHHHhhccCCCCCccHHHHHHHHHHhcCCcccHHHHHHHHHHHhCCCcceeehHHHHHHHHHHHhcCcHHHHHHH
Confidence 3569999999999999999999999999999999999999999999999865 999999999999999999889996 77
Q ss_pred hhHH
Q 016112 123 AAER 126 (395)
Q Consensus 123 as~~ 126 (395)
....
T Consensus 101 ~~~~ 104 (491)
T KOG0251|consen 101 LSRN 104 (491)
T ss_pred Hhcc
Confidence 6654
No 22
>smart00582 RPR domain present in proteins, which are involved in regulation of nuclear pre-mRNA.
Probab=95.94 E-value=0.024 Score=48.14 Aligned_cols=76 Identities=14% Similarity=0.277 Sum_probs=54.8
Q ss_pred CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhHHHhhHHHHHH----HHhhhcCCCcccchHHHHHHHHHHH
Q 016112 80 ISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFSEVAAERVLDE----MVKLIDDPQTVVNNRNKALVMIEAW 155 (395)
Q Consensus 80 ~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~eias~~Fl~e----Lvkli~~~~t~~~Vk~KiL~lI~~W 155 (395)
..+.+.+..|.++++...+..-+..|-|++.+++||...........|... +..+.... .+.+|.|+..++.-|
T Consensus 28 ~~a~~Iv~~i~~~~~~~~~~~kL~~LYlindIl~n~~~~~~~~f~~~~~~~~~~~~~~~~~~~--~~~~~~ki~kll~iW 105 (121)
T smart00582 28 SHAKEIVELWEKYIKKAPPPRKLPLLYLLDSIVQNSKRKYGSEFGDELGPVFQDALRDVLGAA--NDETKKKIRRLLNIW 105 (121)
T ss_pred HHHHHHHHHHHHHHHhCCccceehhHHhHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHhC--CHHHHHHHHHHHHHH
Confidence 356789999999998777777788899999999999766422222233333 33333322 257899999999999
Q ss_pred HH
Q 016112 156 GE 157 (395)
Q Consensus 156 ~~ 157 (395)
.+
T Consensus 106 ~~ 107 (121)
T smart00582 106 EE 107 (121)
T ss_pred hc
Confidence 87
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=94.27 E-value=5.6 Score=38.51 Aligned_cols=87 Identities=22% Similarity=0.235 Sum_probs=63.6
Q ss_pred ChHHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHhcccchhH-HHh
Q 016112 46 NPVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLK-SPRIQYLALVLLETVVKNCEKAFS-EVA 123 (395)
Q Consensus 46 s~~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~-n~~vq~~AL~LLe~~VkNcG~~F~-eia 123 (395)
+.++..|-|||+....-|+--.+-.|.-.... +.....++.+|.+|+... +..|++-+|.|+..|+.-+.+.|. ++.
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 45789999999998888888888888877777 778899999999999865 999999999999999999988884 655
Q ss_pred hH-HHHHHHHh
Q 016112 124 AE-RVLDEMVK 133 (395)
Q Consensus 124 s~-~Fl~eLvk 133 (395)
.. .++..+..
T Consensus 81 ~~~~~~~~~~~ 91 (280)
T PF07651_consen 81 RYNRRLFDLSN 91 (280)
T ss_dssp HTT-----TT-
T ss_pred Hcccchhhhcc
Confidence 43 33444443
No 24
>KOG2374 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.13 E-value=0.79 Score=48.08 Aligned_cols=138 Identities=15% Similarity=0.223 Sum_probs=102.0
Q ss_pred ChHHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhH-H-Hh
Q 016112 46 NPVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFS-E-VA 123 (395)
Q Consensus 46 s~~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~-e-ia 123 (395)
..+-.+|+++|...-.+-|--..-+|--.++.+.....-+.+.|.--+.+....+-+++|.+.+.|.-.. +-|. . |.
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 3577899999999988888888888888888877778888888888888999999999999999988774 7786 3 33
Q ss_pred hH-HHHHHHHhhhcCC--Ccc----cchHHHHHHHHHHHHHhhcCCCChhhHHHHHHHHhh-cCCCCCCCC
Q 016112 124 AE-RVLDEMVKLIDDP--QTV----VNNRNKALVMIEAWGESTSELRYLPVYEETYKSLRS-RGIRFPGRD 186 (395)
Q Consensus 124 s~-~Fl~eLvkli~~~--~t~----~~Vk~KiL~lI~~W~~~f~~~~~l~~i~~~Y~~Lk~-~Gi~FP~~~ 186 (395)
.. +||.-+...=... +.+ ...|.+++..|..|.+.|.. .+..+.=.|.-||. +.+.||...
T Consensus 85 n~~efLeL~~gt~p~~PLP~p~~~a~~Lr~~ai~~~e~Wnekfg~--~yk~l~lg~~~Lk~tkkvdf~d~~ 153 (661)
T KOG2374|consen 85 NLDEFLELSIGTRPNLPLPAPPAVATTLRSKAIEFLEKWNEKFGF--HYKELRLGFDYLKNTKKVDFPDLQ 153 (661)
T ss_pred CHHHHHHHhhcCCCCCCCCCChHHHHHHHHHHHHHHHHHHHHHhH--HHHHHHHHHHHHhccccccCcchh
Confidence 33 5776665433321 111 24688999999999988853 24455556777765 447787543
No 25
>KOG2057 consensus Predicted equilibrative nucleoside transporter protein [Nucleotide transport and metabolism]
Probab=87.03 E-value=6.2 Score=39.61 Aligned_cols=107 Identities=22% Similarity=0.286 Sum_probs=71.1
Q ss_pred ChHHHHHHHHcCCCCCCccHHHHHHHHHHHhcCC-CCHHHHHHHHHHHhc---CCCHHHHHHHHHHHHHHHhcccchhHH
Q 016112 46 NPVEKLVEDATSEALEEPDWAMNLDLCDMINTEK-ISSVDLIRGIKKRIM---LKSPRIQYLALVLLETVVKNCEKAFSE 121 (395)
Q Consensus 46 s~~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~-~~~keA~raIrKrL~---~~n~~vq~~AL~LLe~~VkNcG~~F~e 121 (395)
..++--|..||++.--.|-=.++-+||+.-...- +.--+....|-.|+- ..+=+.+|-+|.||+.|++|+.++|-+
T Consensus 22 ~e~e~~VREATNdDPWGPsG~lMgeIaeaTfmry~EdFpelmnmL~qRMLedNK~~WRRVYKSLiLLaYLikNGSER~Vq 101 (499)
T KOG2057|consen 22 PEAEMDVREATNDDPWGPSGPLMGEIAEATFMRYMEDFPELMNMLFQRMLEDNKDAWRRVYKSLILLAYLIKNGSERFVQ 101 (499)
T ss_pred hHHHHHHHhhccCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcccHHHHH
Confidence 4577788999998866666678889998866531 223466666666653 235567899999999999999999965
Q ss_pred HhhHHHHHHHHhh-----hcCC--CcccchHHHHHHHHH
Q 016112 122 VAAERVLDEMVKL-----IDDP--QTVVNNRNKALVMIE 153 (395)
Q Consensus 122 ias~~Fl~eLvkl-----i~~~--~t~~~Vk~KiL~lI~ 153 (395)
-+.++-- +|++| |... ..-..+|.|+.++++
T Consensus 102 eAREh~Y-dLR~LEnYhfiDEhGKDQGINIR~kVKeilE 139 (499)
T KOG2057|consen 102 EAREHAY-DLRRLENYHFIDEHGKDQGINIRHKVKEILE 139 (499)
T ss_pred HHHHHHH-HHHhhhhccchhhhCccccccHHHHHHHHHH
Confidence 5554432 33333 2221 223467888877764
No 26
>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=85.55 E-value=8.8 Score=35.61 Aligned_cols=77 Identities=14% Similarity=0.176 Sum_probs=53.4
Q ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccc---chhH-HHhhHHHHHHHHhhhcCCCcccchHHHHHHHHHHHHH
Q 016112 82 SVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCE---KAFS-EVAAERVLDEMVKLIDDPQTVVNNRNKALVMIEAWGE 157 (395)
Q Consensus 82 ~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG---~~F~-eias~~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~ 157 (395)
++-....|..-++++||.+-..++..|..++.+.| ..+. ...-..+...+.+.+.++. ++||+-+..++..+..
T Consensus 129 ~~~~~~~l~~~~~~Kn~~vR~~~~~~l~~~l~~~~~~~~~l~~~~~~~~l~~~l~~~l~D~~--~~VR~~Ar~~~~~l~~ 206 (228)
T PF12348_consen 129 PKILLEILSQGLKSKNPQVREECAEWLAIILEKWGSDSSVLQKSAFLKQLVKALVKLLSDAD--PEVREAARECLWALYS 206 (228)
T ss_dssp -HHHHHHHHHHTT-S-HHHHHHHHHHHHHHHTT-----GGG--HHHHHHHHHHHHHHHTSS---HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHccchHhhhcccchHHHHHHHHHHHCCCCC--HHHHHHHHHHHHHHHH
Confidence 34447888888899999999999999999999999 4443 3334667788888887764 5888888877777666
Q ss_pred hhc
Q 016112 158 STS 160 (395)
Q Consensus 158 ~f~ 160 (395)
.++
T Consensus 207 ~~~ 209 (228)
T PF12348_consen 207 HFP 209 (228)
T ss_dssp HH-
T ss_pred HCC
Confidence 554
No 27
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A.
Probab=83.09 E-value=19 Score=27.70 Aligned_cols=84 Identities=14% Similarity=0.192 Sum_probs=60.7
Q ss_pred HHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhHHHhhHHHH
Q 016112 49 EKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFSEVAAERVL 128 (395)
Q Consensus 49 ~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~eias~~Fl 128 (395)
..+++...+ ++||..-...+..+..- +..+++..|...+++.++.++..|+.-|..+ .+.+.+
T Consensus 2 ~~L~~~l~~----~~~~~vr~~a~~~L~~~--~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~i-----------~~~~~~ 64 (88)
T PF13646_consen 2 PALLQLLQN----DPDPQVRAEAARALGEL--GDPEAIPALIELLKDEDPMVRRAAARALGRI-----------GDPEAI 64 (88)
T ss_dssp HHHHHHHHT----SSSHHHHHHHHHHHHCC--THHHHHHHHHHHHTSSSHHHHHHHHHHHHCC-----------HHHHTH
T ss_pred HHHHHHHhc----CCCHHHHHHHHHHHHHc--CCHhHHHHHHHHHcCCCHHHHHHHHHHHHHh-----------CCHHHH
Confidence 344555433 45788888888888854 6779999999999999999999998877643 467788
Q ss_pred HHHHhhhcCCCcccchHHHHHH
Q 016112 129 DEMVKLIDDPQTVVNNRNKALV 150 (395)
Q Consensus 129 ~eLvkli~~~~t~~~Vk~KiL~ 150 (395)
..|.+++.+.. +..||..+..
T Consensus 65 ~~L~~~l~~~~-~~~vr~~a~~ 85 (88)
T PF13646_consen 65 PALIKLLQDDD-DEVVREAAAE 85 (88)
T ss_dssp HHHHHHHTC-S-SHHHHHHHHH
T ss_pred HHHHHHHcCCC-cHHHHHHHHh
Confidence 88888887653 3455655544
No 28
>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=82.36 E-value=16 Score=30.36 Aligned_cols=66 Identities=15% Similarity=0.190 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHHHHhc-C-CCCCcchhHHHHHHHHHHHhhHHHHHHHHHHhCCCHHHHHHHHHhhHHHHH
Q 016112 231 FDVARNSIELLSTVLSS-S-PQQDALQDDLTTTLVQQCRQSQFTVQRIIETAGDNEALLFEALNVNDEIQK 299 (395)
Q Consensus 231 l~~a~~n~~LL~emL~~-~-~~~e~~~dEl~~eL~~~Cr~~q~rI~rlI~~~~ddEe~L~eLL~~NDeL~~ 299 (395)
+...+..++++.+=+.+ . .+-....|..++.||.+.-.|.+++++||+... +--...=.+.|.|..
T Consensus 4 ~~~l~~~v~if~nRmksns~RGrsIanDsaVqsLF~~lt~mH~~LL~~i~~~e---e~R~~~E~lQdkL~q 71 (96)
T PF12210_consen 4 CNTLRSSVEIFVNRMKSNSSRGRSIANDSAVQSLFQTLTAMHPQLLKYIQEQE---EKRVYYEGLQDKLAQ 71 (96)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTT--GGG-HHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhHhcCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHH
Confidence 45566777777665544 2 333455788999999999999999999999873 333333344455544
No 29
>cd00020 ARM Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.
Probab=80.86 E-value=13 Score=29.86 Aligned_cols=68 Identities=13% Similarity=0.090 Sum_probs=52.0
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhHHHhhHHHHHHHHhhhcCCCcccchHHHHHHHHH
Q 016112 84 DLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFSEVAAERVLDEMVKLIDDPQTVVNNRNKALVMIE 153 (395)
Q Consensus 84 eA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~eias~~Fl~eLvkli~~~~t~~~Vk~KiL~lI~ 153 (395)
.++..|.+-|.+.+++++..|+..|-.+..++...-..+....++..|.+++... +..++..++.++.
T Consensus 49 ~~i~~l~~~l~~~~~~v~~~a~~~L~~l~~~~~~~~~~~~~~g~l~~l~~~l~~~--~~~~~~~a~~~l~ 116 (120)
T cd00020 49 GGLPALVQLLKSEDEEVVKAALWALRNLAAGPEDNKLIVLEAGGVPKLVNLLDSS--NEDIQKNATGALS 116 (120)
T ss_pred CChHHHHHHHhCCCHHHHHHHHHHHHHHccCcHHHHHHHHHCCChHHHHHHHhcC--CHHHHHHHHHHHH
Confidence 5677788888899999999999999999998754333445556888999988765 3467777766654
No 30
>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=78.66 E-value=12 Score=34.64 Aligned_cols=96 Identities=23% Similarity=0.304 Sum_probs=60.5
Q ss_pred CCccHHHHHH----HHHHHhcC--CCCHHHH---HH----HHHHHhcCCCHHHHHHHHHHHHHHHhcccchhHHHhhHHH
Q 016112 61 EEPDWAMNLD----LCDMINTE--KISSVDL---IR----GIKKRIMLKSPRIQYLALVLLETVVKNCEKAFSEVAAERV 127 (395)
Q Consensus 61 ~~~Dw~~ile----IcD~Ins~--~~~~keA---~r----aIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~eias~~F 127 (395)
.+.||..-.+ |-.+++.. ...+... ++ .|.+.+.+.+..+...|+.++..|..++|..|... ...+
T Consensus 17 ~~~~W~~r~~al~~L~~l~~~~~~~~~~~~~~~~l~~~~~~i~~~l~d~Rs~v~~~A~~~l~~l~~~l~~~~~~~-~~~~ 95 (228)
T PF12348_consen 17 SESDWEERVEALQKLRSLIKGNAPEDFPPDFVECLRQLLDAIIKQLSDLRSKVSKTACQLLSDLARQLGSHFEPY-ADIL 95 (228)
T ss_dssp T-SSHHHHHHHHHHHHHHHHH-B-----HHHHHHHH---HHHHH-S-HH---HHHHHHHHHHHHHHHHGGGGHHH-HHHH
T ss_pred CccCHHHHHHHHHHHHHHHHcCCccccHHHHHHHHHHhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhHhHHHH-HHHH
Confidence 5568987554 34444444 2333333 33 55578888999999999999999999999999755 4578
Q ss_pred HHHHHhhhcCCCcccchHHHHHHHHHHHHHhh
Q 016112 128 LDEMVKLIDDPQTVVNNRNKALVMIEAWGEST 159 (395)
Q Consensus 128 l~eLvkli~~~~t~~~Vk~KiL~lI~~W~~~f 159 (395)
+..|.+.+.++. .-+++.+...|..+....
T Consensus 96 l~~Ll~~~~~~~--~~i~~~a~~~L~~i~~~~ 125 (228)
T PF12348_consen 96 LPPLLKKLGDSK--KFIREAANNALDAIIESC 125 (228)
T ss_dssp HHHHHHGGG-----HHHHHHHHHHHHHHHTTS
T ss_pred HHHHHHHHcccc--HHHHHHHHHHHHHHHHHC
Confidence 888888887643 357788888888877654
No 31
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=74.53 E-value=47 Score=29.96 Aligned_cols=87 Identities=14% Similarity=0.112 Sum_probs=68.1
Q ss_pred HHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhHHHhhHHHHHHHHhhhcCCCcccchH
Q 016112 66 AMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFSEVAAERVLDEMVKLIDDPQTVVNNR 145 (395)
Q Consensus 66 ~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~eias~~Fl~eLvkli~~~~t~~~Vk 145 (395)
..+.-+||+.-.-+.-..--+..|.++|.+.+|.|-..||.+|--|+.+.--++. ..++..+.+++.++ ++.||
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----GQLFSRILKLLVDE--NPEIR 80 (178)
T ss_pred HHHHHHHHHHHhCcHHHHhHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCceeeh----hhhhHHHHHHHcCC--CHHHH
Confidence 3567789999888777777899999999999999999999999999999644443 22344555666544 56899
Q ss_pred HHHHHHHHHHHHh
Q 016112 146 NKALVMIEAWGES 158 (395)
Q Consensus 146 ~KiL~lI~~W~~~ 158 (395)
.-+..++..+...
T Consensus 81 ~~A~~~~~e~~~~ 93 (178)
T PF12717_consen 81 SLARSFFSELLKK 93 (178)
T ss_pred HHHHHHHHHHHHh
Confidence 9888888888765
No 32
>KOG1077 consensus Vesicle coat complex AP-2, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=71.10 E-value=19 Score=39.85 Aligned_cols=88 Identities=22% Similarity=0.212 Sum_probs=63.5
Q ss_pred HHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccch-hHHHhhHHHHHH
Q 016112 52 VEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKA-FSEVAAERVLDE 130 (395)
Q Consensus 52 IekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~-F~eias~~Fl~e 130 (395)
|+=..+..+++ -.-.-+-|.=++|.+.+--+.++..||+-|.++||..+.+||. ||-|-|.+ |. +-|-++
T Consensus 80 V~LLss~kysE-KqIGYl~is~L~n~n~dl~klvin~iknDL~srn~~fv~LAL~----~I~niG~re~~----ea~~~D 150 (938)
T KOG1077|consen 80 VNLLSSNKYSE-KQIGYLFISLLLNENSDLMKLVINSIKNDLSSRNPTFVCLALH----CIANIGSREMA----EAFADD 150 (938)
T ss_pred HHHhhcCCccH-HHHhHHHHHHHHhcchHHHHHHHHHHHhhhhcCCcHHHHHHHH----HHHhhccHhHH----HHhhhh
Confidence 33333444433 3334456777888887788999999999999999999999996 78888763 33 245567
Q ss_pred HHhhhcCCCcccchHHHH
Q 016112 131 MVKLIDDPQTVVNNRNKA 148 (395)
Q Consensus 131 Lvkli~~~~t~~~Vk~Ki 148 (395)
+-|++-.+.+..-||+|.
T Consensus 151 I~KlLvS~~~~~~vkqka 168 (938)
T KOG1077|consen 151 IPKLLVSGSSMDYVKQKA 168 (938)
T ss_pred hHHHHhCCcchHHHHHHH
Confidence 778887776667788763
No 33
>PF08167 RIX1: rRNA processing/ribosome biogenesis
Probab=69.37 E-value=39 Score=30.32 Aligned_cols=63 Identities=19% Similarity=0.318 Sum_probs=46.6
Q ss_pred HHHHHHHHHHHh----cCCCHHHHHHHHHHHHHHHhcccch-hHHHhhHHHHHHHHhhhcCCCcccchHH
Q 016112 82 SVDLIRGIKKRI----MLKSPRIQYLALVLLETVVKNCEKA-FSEVAAERVLDEMVKLIDDPQTVVNNRN 146 (395)
Q Consensus 82 ~keA~raIrKrL----~~~n~~vq~~AL~LLe~~VkNcG~~-F~eias~~Fl~eLvkli~~~~t~~~Vk~ 146 (395)
.+.++..++.|| +++++..-+.++.|+...+.+||.. |.+- ...|+..+.+++.++. ++.+++
T Consensus 19 ~~~~l~~l~~ri~~LL~s~~~~~rw~G~~Ll~~~~~~~~~e~l~~~-~~~W~~~Ll~~L~~~~-~~~~~~ 86 (165)
T PF08167_consen 19 SKSALHKLVTRINSLLQSKSAYSRWAGLCLLKVTVEQCSWEILLSH-GSQWLRALLSILEKPD-PPSVLE 86 (165)
T ss_pred CHHHHHHHHHHHHHHhCCCChhhHHHHHHHHHHHHHHhhHHHHHHH-HHHHHHHHHHHHcCCC-CHHHHH
Confidence 466666666665 5788999999999999999999754 4333 3579999999998754 234444
No 34
>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=67.32 E-value=74 Score=26.65 Aligned_cols=104 Identities=19% Similarity=0.157 Sum_probs=63.1
Q ss_pred ChHHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCH-----------HHHHHHHHHHHHHHhc
Q 016112 46 NPVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSP-----------RIQYLALVLLETVVKN 114 (395)
Q Consensus 46 s~~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~-----------~vq~~AL~LLe~~VkN 114 (395)
..++++|+..|+.... .|-..+-.+.=..+ .-..|.+.+..|..|.....+ .++.+.+.++..-|.|
T Consensus 8 gtl~~Li~~L~~~~~~-~d~~f~~~Flltyr-~F~tp~~ll~~L~~rf~~~~~~~~~~~~~~~~~~~~rv~~~l~~Wv~~ 85 (127)
T smart00229 8 GTLEKLIEHLTEAFDK-ADPFFVETFLLTYR-SFITTQELLQLLLYRYNAIPPESWVERKVNPLRVKNRVLNILRHWVEN 85 (127)
T ss_pred ecHHHHHHHHcCCCcC-CCHHHHHHHHHHhh-hhCCHHHHHHHHHHHhCCCCcHHHHHHHhhHHHHHHHHHHHHHHHHHH
Confidence 4589999999998653 34332222222222 345788999999988875433 3778889999999999
Q ss_pred ccchhH-HHhhHHHHHHHHhhhcCCCcccchHHHHHHHH
Q 016112 115 CEKAFS-EVAAERVLDEMVKLIDDPQTVVNNRNKALVMI 152 (395)
Q Consensus 115 cG~~F~-eias~~Fl~eLvkli~~~~t~~~Vk~KiL~lI 152 (395)
+...|. +-.-..++.++...+... .......++.+++
T Consensus 86 ~~~dF~~~~~l~~~l~~f~~~~~~~-~~~~~~~~l~~~~ 123 (127)
T smart00229 86 YWQDFEDDPKLILRLLEFLDLVDQE-KGPGLVTSLQELL 123 (127)
T ss_pred CCcccccCHHHHHHHHHHHHHHhhC-cCCCHHHHHHHHH
Confidence 988885 433334444444444322 1223334455544
No 35
>cd00020 ARM Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.
Probab=64.67 E-value=22 Score=28.42 Aligned_cols=72 Identities=13% Similarity=0.082 Sum_probs=55.3
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhHHHhhHHHHHHHHhhhcCCCcccchHHHHHHHHHHHHHh
Q 016112 85 LIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFSEVAAERVLDEMVKLIDDPQTVVNNRNKALVMIEAWGES 158 (395)
Q Consensus 85 A~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~eias~~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~~ 158 (395)
.+..|.+-|++.++.+...|+..|..+..+.......+....++..+.+++.++ ++.|+..++..+..+...
T Consensus 8 ~i~~l~~~l~~~~~~~~~~a~~~l~~l~~~~~~~~~~~~~~~~i~~l~~~l~~~--~~~v~~~a~~~L~~l~~~ 79 (120)
T cd00020 8 GLPALVSLLSSSDENVQREAAWALSNLSAGNNDNIQAVVEAGGLPALVQLLKSE--DEEVVKAALWALRNLAAG 79 (120)
T ss_pred ChHHHHHHHHcCCHHHHHHHHHHHHHHhcCCHHHHHHHHHCCChHHHHHHHhCC--CHHHHHHHHHHHHHHccC
Confidence 567777888888999999999999999888533334555667888899988764 467888888887777643
No 36
>KOG2160 consensus Armadillo/beta-catenin-like repeat-containing protein [Posttranslational modification, protein turnover, chaperones]
Probab=64.28 E-value=26 Score=35.60 Aligned_cols=66 Identities=20% Similarity=0.223 Sum_probs=52.9
Q ss_pred HhcCCCHHHHHHHHHHHHHHHhcccchhH-HHhhHHHHHHHHhhhcCCCcccchHHHHHHHHHHHHHhh
Q 016112 92 RIMLKSPRIQYLALVLLETVVKNCEKAFS-EVAAERVLDEMVKLIDDPQTVVNNRNKALVMIEAWGEST 159 (395)
Q Consensus 92 rL~~~n~~vq~~AL~LLe~~VkNcG~~F~-eias~~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~~f 159 (395)
.+++.++.+-.+|..++-+|+.|- ++-+ +|....|+..|.++++ ...+..||.|+|-.|.+.=..+
T Consensus 132 ~l~~~~~~lR~~Aa~Vigt~~qNN-P~~Qe~v~E~~~L~~Ll~~ls-~~~~~~~r~kaL~AissLIRn~ 198 (342)
T KOG2160|consen 132 YLENSDAELRELAARVIGTAVQNN-PKSQEQVIELGALSKLLKILS-SDDPNTVRTKALFAISSLIRNN 198 (342)
T ss_pred HhcCCcHHHHHHHHHHHHHHHhcC-HHHHHHHHHcccHHHHHHHHc-cCCCchHHHHHHHHHHHHHhcC
Confidence 899999999999999999999994 4345 5666669999999998 4445688999998777665433
No 37
>cd06224 REM Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal domain (RasGef_N), also called REM domain (Ras exchanger motif). This domain is common in nucleotide exchange factors for Ras-like small GTPases and is typically found immediately N-terminal to the RasGef (Cdc25-like) domain. REM contacts the GTPase and is assumed to participate in the catalytic activity of the exchange factor. Proteins with the REM domain include Sos1 and Sos2, which relay signals from tyrosine-kinase mediated signalling to Ras, RasGRP1-4, RasGRF1,2, CNrasGEF, and RAP-specific nucleotide exchange factors, to name a few.
Probab=62.66 E-value=86 Score=25.78 Aligned_cols=71 Identities=23% Similarity=0.214 Sum_probs=49.5
Q ss_pred HHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCC--------------HHHHHHHHHHHHHHHh
Q 016112 48 VEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKS--------------PRIQYLALVLLETVVK 113 (395)
Q Consensus 48 ~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n--------------~~vq~~AL~LLe~~Vk 113 (395)
+.++|+++|++.. ..|-..+-.+.=..+ .-..|.+.+..|..|..... ..++.+.+.++..-|.
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 6789999999987 223332222222222 33568889999999887432 3467888999999999
Q ss_pred cccchhH
Q 016112 114 NCEKAFS 120 (395)
Q Consensus 114 NcG~~F~ 120 (395)
||...|.
T Consensus 80 ~~~~df~ 86 (122)
T cd06224 80 NYPYDFF 86 (122)
T ss_pred hCCCccc
Confidence 9999884
No 38
>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=59.90 E-value=85 Score=31.26 Aligned_cols=102 Identities=14% Similarity=0.123 Sum_probs=69.2
Q ss_pred HHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCC------CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchh--
Q 016112 48 VEKLVEDATSEALEEPDWAMNLDLCDMINTEKI------SSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAF-- 119 (395)
Q Consensus 48 ~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~------~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F-- 119 (395)
+...|+..+.-+ ..-=-+..-.|++++.+... .....+.++.|-|+.+...++.+|+.++-.++-..|...
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 667777777655 22334455567777766532 234567788888988888999999999999988866433
Q ss_pred HHHhhHHHHHHHHhhhcCCCcccchHHHHHHH
Q 016112 120 SEVAAERVLDEMVKLIDDPQTVVNNRNKALVM 151 (395)
Q Consensus 120 ~eias~~Fl~eLvkli~~~~t~~~Vk~KiL~l 151 (395)
.++. +.+...|.+++.+....+.+|..++..
T Consensus 124 ~ei~-~~~~~~L~~~l~d~s~~~~~R~~~~~a 154 (309)
T PF05004_consen 124 EEIF-EELKPVLKRILTDSSASPKARAACLEA 154 (309)
T ss_pred HHHH-HHHHHHHHHHHhCCccchHHHHHHHHH
Confidence 3443 357777888888765455666655543
No 39
>PF11841 DUF3361: Domain of unknown function (DUF3361)
Probab=59.80 E-value=27 Score=31.65 Aligned_cols=59 Identities=22% Similarity=0.309 Sum_probs=46.9
Q ss_pred CCHHHHHHHHHHHHHHHhcccchhHHHhhHHHHHHHHhhhcCCCcccchHHHHHHHHHHHH
Q 016112 96 KSPRIQYLALVLLETVVKNCEKAFSEVAAERVLDEMVKLIDDPQTVVNNRNKALVMIEAWG 156 (395)
Q Consensus 96 ~n~~vq~~AL~LLe~~VkNcG~~F~eias~~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~ 156 (395)
.+++++.+||.+||.+|.|....++.|..+==+..|...+.. ++.+++..++.||-+.-
T Consensus 72 ~d~~i~q~sLaILEs~Vl~S~~ly~~V~~evt~~~Li~hLq~--~~~~iq~naiaLinAL~ 130 (160)
T PF11841_consen 72 MDASILQRSLAILESIVLNSPKLYQLVEQEVTLESLIRHLQV--SNQEIQTNAIALINALF 130 (160)
T ss_pred ccchHHHHHHHHHHHHHhCCHHHHHHHhccCCHHHHHHHHHc--CCHHHHHHHHHHHHHHH
Confidence 378999999999999999976666777765567888888876 45678888888887753
No 40
>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=59.03 E-value=2.6e+02 Score=30.21 Aligned_cols=192 Identities=18% Similarity=0.266 Sum_probs=99.0
Q ss_pred HHHHHHHHHHHhcccchhHHH---h-------hHHHHHHHHhhhcCCCcccchHHHHHHHHHHHHHhhcCCCChhhHHHH
Q 016112 102 YLALVLLETVVKNCEKAFSEV---A-------AERVLDEMVKLIDDPQTVVNNRNKALVMIEAWGESTSELRYLPVYEET 171 (395)
Q Consensus 102 ~~AL~LLe~~VkNcG~~F~ei---a-------s~~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~~f~~~~~l~~i~~~ 171 (395)
-.|+.-|+....+-...|.++ . .++.+..+..-+.. .....++|=.++..-...|++ .+..+.+.
T Consensus 160 G~a~~~Le~~L~~ie~~F~~f~~lt~~GD~~~A~eil~~l~~~~~~---l~~~~e~IP~l~~~l~~~~P~--ql~eL~~g 234 (560)
T PF06160_consen 160 GPAIEELEKQLENIEEEFSEFEELTENGDYLEAREILEKLKEETDE---LEEIMEDIPKLYKELQKEFPD--QLEELKEG 234 (560)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH---HHHHHHHhHHHHHHHHHHhHH--HHHHHHHH
Confidence 456777888888877777422 1 12333333332221 112223455566666666664 37788999
Q ss_pred HHHHhhcCCCCCCCCCCCCCCccCCCCCCCcchhhhhhHH------------------hhhh------hc-----cCCCC
Q 016112 172 YKSLRSRGIRFPGRDNESLAPIFTPPRSVSETEVDATLAE------------------QIQR------DI-----RGQSF 222 (395)
Q Consensus 172 Y~~Lk~~Gi~FP~~~~~s~api~tP~~s~~~~~~~~~l~q------------------~~q~------~~-----~~~~~ 222 (395)
|+.|+.+||.|+..+.+. .+- .....+.+ ..+. +. ....+
T Consensus 235 y~~m~~~gy~l~~~~i~~--~i~---------~i~~~l~~~~~~L~~l~l~~~~~~~~~i~~~Id~lYd~le~E~~Ak~~ 303 (560)
T PF06160_consen 235 YREMEEEGYYLEHLDIEE--EIE---------QIEEQLEEALALLKNLELDEVEEENEEIEERIDQLYDILEKEVEAKKY 303 (560)
T ss_pred HHHHHHCCCCCCCCCHHH--HHH---------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999998644221 000 00000000 0000 00 00000
Q ss_pred ---CHHHHHHHHHHHHHHHHHHHHHHhcCCCCCc---chhHHHHHHHHHHHhhHHHHHHHHHHhCCCH----HHHHHHHH
Q 016112 223 ---TKEQTKEAFDVARNSIELLSTVLSSSPQQDA---LQDDLTTTLVQQCRQSQFTVQRIIETAGDNE----ALLFEALN 292 (395)
Q Consensus 223 ---~~eq~k~~l~~a~~n~~LL~emL~~~~~~e~---~~dEl~~eL~~~Cr~~q~rI~rlI~~~~ddE----e~L~eLL~ 292 (395)
....+...|+.++.+.+-|..-+......-. .+-+...++-.+++.++.++..+.+.+.++. .+...+-.
T Consensus 304 V~~~~~~l~~~l~~~~~~~~~l~~e~~~v~~sY~L~~~e~~~~~~l~~~l~~l~~~~~~~~~~i~~~~~~yS~i~~~l~~ 383 (560)
T PF06160_consen 304 VEKNLKELYEYLEHAKEQNKELKEELERVSQSYTLNHNELEIVRELEKQLKELEKRYEDLEERIEEQQVPYSEIQEELEE 383 (560)
T ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcCHHHHHHHHHH
Confidence 0112334566666655555555554322111 1234667788888888888888888885432 34445555
Q ss_pred hhHHHHHHHHHHHhhcC
Q 016112 293 VNDEIQKVLTKYEELKK 309 (395)
Q Consensus 293 ~NDeL~~aL~kYe~l~~ 309 (395)
+.+.|...-+.+..+..
T Consensus 384 ~~~~l~~ie~~q~~~~~ 400 (560)
T PF06160_consen 384 IEEQLEEIEEEQEEINE 400 (560)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 55555555555555443
No 41
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A.
Probab=57.34 E-value=36 Score=26.10 Aligned_cols=54 Identities=15% Similarity=0.177 Sum_probs=40.1
Q ss_pred HHHHHHh-cCCCHHHHHHHHHHHHHHHhcccchhHHHhhHHHHHHHHhhhcCCCcccchHHHHHHHHH
Q 016112 87 RGIKKRI-MLKSPRIQYLALVLLETVVKNCEKAFSEVAAERVLDEMVKLIDDPQTVVNNRNKALVMIE 153 (395)
Q Consensus 87 raIrKrL-~~~n~~vq~~AL~LLe~~VkNcG~~F~eias~~Fl~eLvkli~~~~t~~~Vk~KiL~lI~ 153 (395)
..|.+.| .++++.+...|+.+|. ++.+.+.+..|..++.++ ++.||..++..+.
T Consensus 2 ~~L~~~l~~~~~~~vr~~a~~~L~-----------~~~~~~~~~~L~~~l~d~--~~~vr~~a~~aL~ 56 (88)
T PF13646_consen 2 PALLQLLQNDPDPQVRAEAARALG-----------ELGDPEAIPALIELLKDE--DPMVRRAAARALG 56 (88)
T ss_dssp HHHHHHHHTSSSHHHHHHHHHHHH-----------CCTHHHHHHHHHHHHTSS--SHHHHHHHHHHHH
T ss_pred HHHHHHHhcCCCHHHHHHHHHHHH-----------HcCCHhHHHHHHHHHcCC--CHHHHHHHHHHHH
Confidence 4677788 7999999999988887 234557888899988653 4578877666554
No 42
>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=56.64 E-value=9.4 Score=28.04 Aligned_cols=30 Identities=27% Similarity=0.551 Sum_probs=22.1
Q ss_pred HHHHHhcccc---hhHHHhhHHHHHHHHhhhcCC
Q 016112 108 LETVVKNCEK---AFSEVAAERVLDEMVKLIDDP 138 (395)
Q Consensus 108 Le~~VkNcG~---~F~eias~~Fl~eLvkli~~~ 138 (395)
||.+|.|||. +|+++ ....-+++.+++..+
T Consensus 7 ld~lv~~cg~IrarleE~-qa~i~~e~~~l~~~~ 39 (51)
T PF07197_consen 7 LDLLVVDCGSIRARLEEI-QAQIPDELAKLATPA 39 (51)
T ss_pred HHHHHhccchHHHHHHHH-HHHhhHHHHHhcChH
Confidence 7899999996 34555 456777888887654
No 43
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=52.34 E-value=42 Score=36.31 Aligned_cols=102 Identities=13% Similarity=0.201 Sum_probs=68.5
Q ss_pred HHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhHHHhhHHH
Q 016112 48 VEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFSEVAAERV 127 (395)
Q Consensus 48 ~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~eias~~F 127 (395)
+...++..|..+-+....- .-+.+...-.++..+-+|-++|..-.|..-+.++-++|..+||-|....-..+...
T Consensus 9 y~s~ledltfnskp~i~~l-----t~la~En~~~a~~iv~~iE~hi~kcpp~~kL~~~y~~dsi~knvg~py~~~fs~~l 83 (579)
T KOG2071|consen 9 YQSSLEDLTFNSKPIINTL-----TILAEENLPFAKSIVSAIEAHIAKCPPSQKLPVMYLLDSIVKNVGSPYTTAFSRNL 83 (579)
T ss_pred HHHHHHHHhcCCcchhHHh-----hHhhhhcccccHHHHHHHHHHHhhCCcccccchhhhhHHHHhhcCCcchhhhhhhH
Confidence 4455556665554422222 22233333467888999999999999999999999999999999987654444444
Q ss_pred HHHHHhhhcCCCcccchHHHHHHHHHHHH
Q 016112 128 LDEMVKLIDDPQTVVNNRNKALVMIEAWG 156 (395)
Q Consensus 128 l~eLvkli~~~~t~~~Vk~KiL~lI~~W~ 156 (395)
+......+. .++...|.+...++..|.
T Consensus 84 ~a~f~~~~~--~vd~r~r~~l~~~~~tw~ 110 (579)
T KOG2071|consen 84 VATFICAFT--KVDERTRTSLFKLRATWD 110 (579)
T ss_pred HHHHHHHHh--hccccccchhHhhHHhhc
Confidence 444333332 234566778889999998
No 44
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=49.65 E-value=3.7e+02 Score=29.09 Aligned_cols=79 Identities=20% Similarity=0.283 Sum_probs=46.3
Q ss_pred HHHHHHHHHHhcccchhHHHh----------hHHHHHHHHhhhcCCCcccchHHHHHHHHHHHHHhhcCCCChhhHHHHH
Q 016112 103 LALVLLETVVKNCEKAFSEVA----------AERVLDEMVKLIDDPQTVVNNRNKALVMIEAWGESTSELRYLPVYEETY 172 (395)
Q Consensus 103 ~AL~LLe~~VkNcG~~F~eia----------s~~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~~f~~~~~l~~i~~~Y 172 (395)
-|+.-|+....|-...|.++. .++.+..+..-+.. ......+|=.++..-...|++ .+.-+...|
T Consensus 165 ~a~~~le~~l~~~e~~f~~f~~l~~~Gd~~~A~e~l~~l~~~~~~---l~~~~~~iP~l~~~~~~~~P~--ql~el~~gy 239 (569)
T PRK04778 165 PALDELEKQLENLEEEFSQFVELTESGDYVEAREILDQLEEELAA---LEQIMEEIPELLKELQTELPD--QLQELKAGY 239 (569)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHhhH--HHHHHHHHH
Confidence 466778888888777774321 12233333322211 011122333555555555654 377889999
Q ss_pred HHHhhcCCCCCCCC
Q 016112 173 KSLRSRGIRFPGRD 186 (395)
Q Consensus 173 ~~Lk~~Gi~FP~~~ 186 (395)
+.|+.+||.|+...
T Consensus 240 ~~m~~~gy~~~~~~ 253 (569)
T PRK04778 240 RELVEEGYHLDHLD 253 (569)
T ss_pred HHHHHcCCCCCCCC
Confidence 99999999997653
No 45
>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=48.64 E-value=1.1e+02 Score=31.81 Aligned_cols=67 Identities=19% Similarity=0.211 Sum_probs=31.7
Q ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhHHHhhHHHHHHHHhhhcCCCcccchHHHHHHHHHHH
Q 016112 83 VDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFSEVAAERVLDEMVKLIDDPQTVVNNRNKALVMIEAW 155 (395)
Q Consensus 83 keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~eias~~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W 155 (395)
...+..|.+-+.+++|.|...|+.-+-.+.+.+.. .+-.. |++.+.+++.++ ++.|+.-++.++...
T Consensus 113 ~~l~~~v~~ll~~~~~~VRk~A~~~l~~i~~~~p~---~~~~~-~~~~l~~lL~d~--~~~V~~~a~~~l~~i 179 (526)
T PF01602_consen 113 EPLIPDVIKLLSDPSPYVRKKAALALLKIYRKDPD---LVEDE-LIPKLKQLLSDK--DPSVVSAALSLLSEI 179 (526)
T ss_dssp HHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCHC---CHHGG-HHHHHHHHTTHS--SHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHhcCCchHHHHHHHHHHHHHhccCHH---HHHHH-HHHHHhhhccCC--cchhHHHHHHHHHHH
Confidence 33444444444555555555555444444333211 12222 566666666433 245555566665555
No 46
>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=46.78 E-value=97 Score=27.40 Aligned_cols=87 Identities=15% Similarity=0.151 Sum_probs=54.7
Q ss_pred HHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCH----HHHHHHHHHHHHHHhcccchhH--HHhhH---HHHHHHHhhhc
Q 016112 66 AMNLDLCDMINTEKISSVDLIRGIKKRIMLKSP----RIQYLALVLLETVVKNCEKAFS--EVAAE---RVLDEMVKLID 136 (395)
Q Consensus 66 ~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~----~vq~~AL~LLe~~VkNcG~~F~--eias~---~Fl~eLvkli~ 136 (395)
+.+.=||++.+..-.........++.=+..... ......+.++=.+..+||..+. ..... +|+..+...+.
T Consensus 105 ~~~~fl~eL~~~~vv~~~~i~~~l~~ll~~~~~~~~~~~~~~~ie~~~~lL~~~G~~l~~~~~~~~~l~~~~~~~~~~~~ 184 (209)
T PF02854_consen 105 GNIRFLAELFNFGVVSEKIIFDILRELLSDGTDECQPPPDEENIECLCTLLKTCGKKLENSEESPKALDEIFERLQKYAN 184 (209)
T ss_dssp HHHHHHHHHHHTTSSCHHHHHHHHHHHHHHTSHHCCHHTCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHH
T ss_pred hhhhHHHhhHhhccccchhHHHHHHHHHhcccccccCCCcHhHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHHH
Confidence 345558888888777777666666655554443 4556667777788888999886 44332 35566666665
Q ss_pred C---CCcccchHHHHHHHH
Q 016112 137 D---PQTVVNNRNKALVMI 152 (395)
Q Consensus 137 ~---~~t~~~Vk~KiL~lI 152 (395)
. +..+..+|-.+.+++
T Consensus 185 ~~~~~~~~~r~~~~l~~l~ 203 (209)
T PF02854_consen 185 SKKDPNLSSRIRFMLEDLI 203 (209)
T ss_dssp HCHSSSSSHHHHHHHHHHH
T ss_pred hhcccCCCHHHHHHHHHHH
Confidence 4 444455665555544
No 47
>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=46.26 E-value=79 Score=30.91 Aligned_cols=73 Identities=14% Similarity=0.099 Sum_probs=49.1
Q ss_pred HHHHHHHHHHHh-cCCCHHHHHHHHHHHHH-HHhcccchhHHHhhHHHHHHHHhhhcCCCcccchHHHHHHHHHHH
Q 016112 82 SVDLIRGIKKRI-MLKSPRIQYLALVLLET-VVKNCEKAFSEVAAERVLDEMVKLIDDPQTVVNNRNKALVMIEAW 155 (395)
Q Consensus 82 ~keA~raIrKrL-~~~n~~vq~~AL~LLe~-~VkNcG~~F~eias~~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W 155 (395)
-.-+++.|-.=| ....+.+|..+|..|-. |+++. .-+..+=.-.=+..+.++++.++++.+||-|+++.+.-|
T Consensus 131 r~~~m~lll~LL~~~~~~~i~~a~L~tLv~iLld~p-~N~r~FE~~~Gl~~v~~llk~~~~~~~~r~K~~EFL~fy 205 (257)
T PF08045_consen 131 REQNMELLLDLLSPSNPPAIQSACLDTLVCILLDSP-ENQRDFEELNGLSTVCSLLKSKSTDRELRLKCIEFLYFY 205 (257)
T ss_pred hhhhHHHHHHHhccCCCchHHHHHHHHHHHHHHcCh-HHHHHHHHhCCHHHHHHHHccccccHHHhHHHHHHHHHH
Confidence 345666666667 46789999999965555 55553 322211111225568888899999999999999987655
No 48
>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=43.74 E-value=59 Score=22.44 Aligned_cols=36 Identities=14% Similarity=0.405 Sum_probs=25.9
Q ss_pred HHHHHHHHHhCCCHHHHHHHHHhhH-HHHHHHHHHHh
Q 016112 271 FTVQRIIETAGDNEALLFEALNVND-EIQKVLTKYEE 306 (395)
Q Consensus 271 ~rI~rlI~~~~ddEe~L~eLL~~ND-eL~~aL~kYe~ 306 (395)
.+|..++.-++-+++.-..+|+.|+ +|..|+..|=.
T Consensus 2 e~i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~~y~~ 38 (43)
T PF14555_consen 2 EKIAQFMSITGADEDVAIQYLEANNWDLEAAVNAYFD 38 (43)
T ss_dssp HHHHHHHHHH-SSHHHHHHHHHHTTT-HHHHHHHHHH
T ss_pred HHHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 3566666666657778888888888 99999999854
No 49
>KOG0946 consensus ER-Golgi vesicle-tethering protein p115 [Intracellular trafficking, secretion, and vesicular transport]
Probab=43.13 E-value=1.4e+02 Score=33.88 Aligned_cols=73 Identities=14% Similarity=0.216 Sum_probs=52.0
Q ss_pred HHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhH-HHh-hHHHHHHHHhhhcCCCcccchHHHHHHHHHHHHHh
Q 016112 84 DLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFS-EVA-AERVLDEMVKLIDDPQTVVNNRNKALVMIEAWGES 158 (395)
Q Consensus 84 eA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~-eia-s~~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~~ 158 (395)
+-+..+.--+.+.+-+|-++|+.|+.+++++-|...+ .+- ..-=+..|+.++.+.+ ..+|+-++-+|.+....
T Consensus 122 d~I~lll~~~e~~DF~VR~~aIqLlsalls~r~~e~q~~ll~~P~gIS~lmdlL~Dsr--E~IRNe~iLlL~eL~k~ 196 (970)
T KOG0946|consen 122 DNITLLLQSLEEFDFHVRLYAIQLLSALLSCRPTELQDALLVSPMGISKLMDLLRDSR--EPIRNEAILLLSELVKD 196 (970)
T ss_pred hhHHHHHHHHHhhchhhhhHHHHHHHHHHhcCCHHHHHHHHHCchhHHHHHHHHhhhh--hhhchhHHHHHHHHHcc
Confidence 4456666667788999999999999999999998775 433 3334566666666543 35677777777766543
No 50
>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=42.94 E-value=59 Score=26.29 Aligned_cols=72 Identities=21% Similarity=0.239 Sum_probs=46.0
Q ss_pred hHHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCH---------------HHHHHHHHHHHHH
Q 016112 47 PVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSP---------------RIQYLALVLLETV 111 (395)
Q Consensus 47 ~~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~---------------~vq~~AL~LLe~~ 111 (395)
++++||+++|++.... |-..+-.+.=.-+ .-..|.+.+..|..|.....| .++.+.+.+|-.-
T Consensus 6 tl~~Li~~L~~~~~~~-d~~f~~~FllTyr-~F~tp~~Ll~~L~~ry~~~~~~~~~~~~~~~~~~~~~i~~rv~~~l~~W 83 (104)
T PF00618_consen 6 TLEKLIERLTSSFNSD-DEEFVDTFLLTYR-SFTTPEELLDKLIQRYNIPPPNGLSQDESWDQDSQEPIRLRVLNVLKYW 83 (104)
T ss_dssp -HHHHHHHHCHC-SS--HHHHHHHHHHHHH-HCS-HHHHHHHHHHHHT---SSS-HHHHT-HHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHhcccccC-CHHHHHHHHHHhH-hhCCHHHHHHHHHHHhcccCCccccccchhhhhhhHHHHHHHHHHHHHH
Confidence 5899999999983332 2232222222222 456899999999999942111 2667888888888
Q ss_pred HhcccchhH
Q 016112 112 VKNCEKAFS 120 (395)
Q Consensus 112 VkNcG~~F~ 120 (395)
++++...|+
T Consensus 84 i~~~~~df~ 92 (104)
T PF00618_consen 84 IENYPDDFR 92 (104)
T ss_dssp HHHHCCCCH
T ss_pred HHHChHhhC
Confidence 888888885
No 51
>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=42.55 E-value=40 Score=27.16 Aligned_cols=53 Identities=17% Similarity=0.248 Sum_probs=35.7
Q ss_pred HHHHHhcccchhHHHhhH-HHHHHHHhhhcCCCcccchHHHHHHHHHHHHHhhc
Q 016112 108 LETVVKNCEKAFSEVAAE-RVLDEMVKLIDDPQTVVNNRNKALVMIEAWGESTS 160 (395)
Q Consensus 108 Le~~VkNcG~~F~eias~-~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~~f~ 160 (395)
|+.+..|-|+.+..++.+ .|-+.=+..+.........++++.+++..|.....
T Consensus 5 l~~l~~~lG~~Wk~lar~LG~s~~eI~~ie~~~~r~~~~eq~~~mL~~W~~r~g 58 (86)
T cd08777 5 LDLLRENLGKKWKRCARKLGFTESEIEEIDHDYERDGLKEKVHQMLHKWKMKEG 58 (86)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHhcccCCHHHHHHHHHHHHHHccC
Confidence 566778888888777655 35555444454332223467899999999998654
No 52
>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=41.98 E-value=2e+02 Score=23.73 Aligned_cols=51 Identities=16% Similarity=0.251 Sum_probs=36.0
Q ss_pred HHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhHHHhhHHHHHHHHhhhc
Q 016112 86 IRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFSEVAAERVLDEMVKLID 136 (395)
Q Consensus 86 ~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~eias~~Fl~eLvkli~ 136 (395)
+-.|+-=+.|-.+.++.-|+.+|+.|+.+|+...-.-...+.++....++.
T Consensus 13 ~~~i~sAMTHi~~~Ir~dsl~~L~~lL~~~p~~~~~~~~~kil~~f~~ll~ 63 (102)
T PF12333_consen 13 MLYISSAMTHISPDIREDSLKFLDLLLEHAPDELCSGGWVKILPNFLDLLG 63 (102)
T ss_pred HHHHHHHHHhCCHHHHHhHHHHHHHHHHHCChHhHhhhHHHHHHHHHHHHC
Confidence 334555567889999999999999999999987322223345666666664
No 53
>PF01526 DDE_Tnp_Tn3: Tn3 transposase DDE domain; InterPro: IPR002513 Proteins containing this domain include transposases of Tn3, Tn21, Tn1721, Tn2501, Tn3926 transposons from Escherichia coli. The specific binding of the Tn3 transposase to DNA has been demonstrated. Sequence analysis has suggested that the invariant triad of Asp689, Asp765, Glu895 (numbering as in Tn3) may correspond to the D-D-35-E motif previously implicated in the catalytic performance of numerous transposases [].; GO: 0004803 transposase activity, 0006313 transposition, DNA-mediated
Probab=40.97 E-value=14 Score=38.25 Aligned_cols=138 Identities=17% Similarity=0.195 Sum_probs=77.3
Q ss_pred HHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhc-CCCHHHHHHHHHHHHHHHhcccchhH--HHhh
Q 016112 48 VEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIM-LKSPRIQYLALVLLETVVKNCEKAFS--EVAA 124 (395)
Q Consensus 48 ~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~-~~n~~vq~~AL~LLe~~VkNcG~~F~--eias 124 (395)
+..++.+..+..+....|.-++.|+--|+.....+.. |-+||. ++.++-.+.||.-+.-++|-- |. -+.+
T Consensus 218 l~~~~~~~I~~~lI~~~wddilRia~Si~~g~~~as~----ilrkl~s~~r~n~l~~Al~elGri~rT~---fll~yi~d 290 (388)
T PF01526_consen 218 LDPLLGKRINWDLIEEHWDDILRIAASIKLGKVSAST----ILRKLSSYSRQNPLYKALRELGRIERTL---FLLRYIDD 290 (388)
T ss_pred hhhhccCccchhhHHHHHHHHHHHHHhcccccCCHHH----HHHHHhccCCcChHHHHHHHcCchhhhc---cccccchh
Confidence 5555666666667788999999999999887655443 445664 678888888988777666643 31 2333
Q ss_pred HHHHHHHHhhhcCC------------CcccchHHHHHHHHHHHHHhhcCCC------ChhhHHHHHHHHhhcCCCCCCCC
Q 016112 125 ERVLDEMVKLIDDP------------QTVVNNRNKALVMIEAWGESTSELR------YLPVYEETYKSLRSRGIRFPGRD 186 (395)
Q Consensus 125 ~~Fl~eLvkli~~~------------~t~~~Vk~KiL~lI~~W~~~f~~~~------~l~~i~~~Y~~Lk~~Gi~FP~~~ 186 (395)
..|-.++.+-++.. ...-+++.+-.+-.+.|.....=.. .--.+.++++.|+.+|+..++..
T Consensus 291 ~~lRr~i~~~LNkgEa~h~l~r~i~~g~~g~~~~~~~e~q~~~~~~l~Lv~NaII~wNt~~l~~~l~~l~~~g~~~~~e~ 370 (388)
T PF01526_consen 291 PELRREIQAQLNKGEAYHQLARAIFFGKRGEIRGRDPEEQEKRASCLRLVANAIIYWNTLYLSRALEQLRAEGYEVDDED 370 (388)
T ss_pred hHHHhHhHHHHHHhhhhhHHhhhhhhccCCccccchHHHHHHHHhcccccccceeEecHHHHHHHHHHHHhcCCcCcHHH
Confidence 33333333333210 0001223333333333333211000 12356889999999999886544
Q ss_pred CCCCCC
Q 016112 187 NESLAP 192 (395)
Q Consensus 187 ~~s~ap 192 (395)
....+|
T Consensus 371 l~~lSP 376 (388)
T PF01526_consen 371 LAHLSP 376 (388)
T ss_pred HhhcCC
Confidence 333344
No 54
>PF11698 V-ATPase_H_C: V-ATPase subunit H; InterPro: IPR011987 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents the C-terminal domain of subunit H (also known as Vma13p) found in the V1 complex of V-ATPases. This subunit has a regulatory function, being responsible for activating ATPase activity and coupling ATPase activity to proton flow []. The yeast enzyme contains five motifs similar to the HEAT or Armadillo repeats seen in the importins, and can be divided into two distinct domains: a large N-terminal domain consisting of stacked alpha helices, and a smaller C-terminal alpha-helical domain with a similar superhelical topology to an armadillo repeat []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=40.42 E-value=1.1e+02 Score=26.51 Aligned_cols=70 Identities=13% Similarity=0.201 Sum_probs=38.4
Q ss_pred HHHHHHHHHh-cCCCHHHHHHHHHHHHHHHhcccchhHHHh-hHHHHHHHHhhhcCCCcccchHHHHHHHHHHHH
Q 016112 84 DLIRGIKKRI-MLKSPRIQYLALVLLETVVKNCEKAFSEVA-AERVLDEMVKLIDDPQTVVNNRNKALVMIEAWG 156 (395)
Q Consensus 84 eA~raIrKrL-~~~n~~vq~~AL~LLe~~VkNcG~~F~eia-s~~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~ 156 (395)
+.+|.|.+-| .+.++.+..-|..=|-.+|+..... ..|. .-..-..+-.++.. .+++||..+|..+|.|=
T Consensus 43 ~llk~L~~lL~~s~d~~~laVac~Dig~~vr~~p~g-r~ii~~lg~K~~vM~Lm~h--~d~eVr~eAL~avQklm 114 (119)
T PF11698_consen 43 ELLKKLIKLLDKSDDPTTLAVACHDIGEFVRHYPNG-RNIIEKLGAKERVMELMNH--EDPEVRYEALLAVQKLM 114 (119)
T ss_dssp HHHHHHHHHH-SHHHHHHHHHHHHHHHHHHHH-GGG-HHHHHHHSHHHHHHHHTS---SSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHccCCCcceeehhhcchHHHHHHChhH-HHHHHhcChHHHHHHHhcC--CCHHHHHHHHHHHHHHH
Confidence 3444444444 2345666666666667788876321 1222 11233344455554 46799999999988763
No 55
>KOG1820 consensus Microtubule-associated protein [Cytoskeleton]
Probab=40.01 E-value=1e+02 Score=35.10 Aligned_cols=61 Identities=18% Similarity=0.156 Sum_probs=45.0
Q ss_pred CCCccHHHHHHHH----HHHhcCC-----CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhH
Q 016112 60 LEEPDWAMNLDLC----DMINTEK-----ISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFS 120 (395)
Q Consensus 60 l~~~Dw~~ileIc----D~Ins~~-----~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~ 120 (395)
...++|....|.. +.+.... ....+..+.++.+++..|.++.++|+..|..+.+=-+..|.
T Consensus 262 ~~s~~WK~R~Eale~l~~~l~e~~~~~~~~~~~ll~~~~ki~~kDaN~~v~~~aa~~l~~ia~~lr~~~~ 331 (815)
T KOG1820|consen 262 MLSKKWKDRKEALEELVAILEEAKKEIVKGYTGLLGILLKIRLKDANINVVMLAAQILELIAKKLRPLFR 331 (815)
T ss_pred hhccchHHHHHHHHHHHHHHhccccccccCcchHHHHHHHHhccCcchhHHHHHHHHHHHHHHhcchhhH
Confidence 4456887666544 4444332 34568889999999999999999999999988777777673
No 56
>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=39.99 E-value=80 Score=19.91 Aligned_cols=30 Identities=17% Similarity=0.268 Sum_probs=24.9
Q ss_pred HHHHHHHhcCCCHHHHHHHHHHHHHHHhcc
Q 016112 86 IRGIKKRIMLKSPRIQYLALVLLETVVKNC 115 (395)
Q Consensus 86 ~raIrKrL~~~n~~vq~~AL~LLe~~VkNc 115 (395)
+..|.+-+.+.+++|-..|..-|-.++++|
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 346778889999999999999999998877
No 57
>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=39.45 E-value=65 Score=23.93 Aligned_cols=52 Identities=21% Similarity=0.296 Sum_probs=30.6
Q ss_pred HHHHHHHHHhcccchhH-HHhhHH---HHHHHHhhhcCCCcccchHHHHHHHHHHHHH
Q 016112 104 ALVLLETVVKNCEKAFS-EVAAER---VLDEMVKLIDDPQTVVNNRNKALVMIEAWGE 157 (395)
Q Consensus 104 AL~LLe~~VkNcG~~F~-eias~~---Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~ 157 (395)
-|=|++..++||...-. ++. .. ++..+..-+... .+++++.|+..+|.-|.+
T Consensus 4 ~lYl~ndI~q~sk~k~~~~f~-~~F~~~l~~~~~~~~~~-~~~~~~~kv~rll~iW~~ 59 (64)
T PF04818_consen 4 LLYLANDILQNSKRKNPDEFA-PAFSPVLPDAFAHAYKN-VDPEVRKKVQRLLNIWEE 59 (64)
T ss_dssp HHHHHHHHHHHHHHHTTHCHH-HHHHCCHHHHHHHHCCC-S-HHHHHHHHHHHHHHHH
T ss_pred eeehHHHHHHHhhhcChHHHH-HHHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHhhC
Confidence 45688888888854311 111 22 333333333222 267899999999999985
No 58
>PF12830 Nipped-B_C: Sister chromatid cohesion C-terminus
Probab=37.90 E-value=1.5e+02 Score=27.07 Aligned_cols=81 Identities=16% Similarity=0.234 Sum_probs=56.2
Q ss_pred HHHhcCCCHHHHHHHHHHHHHHHhcccchhHHHhhHHHHHHHHhhhcCCCcccchHHHHHHHHHHHHHhhc---CCCChh
Q 016112 90 KKRIMLKSPRIQYLALVLLETVVKNCEKAFSEVAAERVLDEMVKLIDDPQTVVNNRNKALVMIEAWGESTS---ELRYLP 166 (395)
Q Consensus 90 rKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~eias~~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~~f~---~~~~l~ 166 (395)
-+-..+.+..+++.|+.++..+++.+ -.. =...+..|+.+..++ ++.+|.++..++..-.+.++ ..++..
T Consensus 14 l~~~~~~~~~vr~~Al~~l~~il~qG-Lvn----P~~cvp~lIAL~ts~--~~~ir~~A~~~l~~l~eK~~s~v~~~~~~ 86 (187)
T PF12830_consen 14 LELCLSSDDSVRLAALQVLELILRQG-LVN----PKQCVPTLIALETSP--NPSIRSRAYQLLKELHEKHESLVESRYSE 86 (187)
T ss_pred HHHHhCCCHHHHHHHHHHHHHHHhcC-CCC----hHHHHhHhhhhhCCC--ChHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 33345899999999999999999986 211 123566788888764 45788888888888776554 234455
Q ss_pred hHHHHHHHHhh
Q 016112 167 VYEETYKSLRS 177 (395)
Q Consensus 167 ~i~~~Y~~Lk~ 177 (395)
++..+|+--+.
T Consensus 87 gi~~af~~~~~ 97 (187)
T PF12830_consen 87 GIRLAFDYQRR 97 (187)
T ss_pred HHHHHHHHHHH
Confidence 66666665554
No 59
>KOG1293 consensus Proteins containing armadillo/beta-catenin-like repeat [General function prediction only]
Probab=37.43 E-value=1.3e+02 Score=33.10 Aligned_cols=86 Identities=13% Similarity=0.216 Sum_probs=66.4
Q ss_pred HHHHHHhcCCCCHH------HHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhH-HHhhHHHHHHHHhhhcCCCccc
Q 016112 70 DLCDMINTEKISSV------DLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFS-EVAAERVLDEMVKLIDDPQTVV 142 (395)
Q Consensus 70 eIcD~Ins~~~~~k------eA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~-eias~~Fl~eLvkli~~~~t~~ 142 (395)
.||.+|-.-. +++ -.+..|-+.+....+++--.++-+|.-+|-||...|. +.-++=|.+-+..++.+|. .
T Consensus 442 ai~NlVmefs-~~kskfl~~ngId~l~s~~~~~~~n~r~~~~~~Lr~l~f~~de~~k~~~~~ki~a~~i~~l~nd~d--~ 518 (678)
T KOG1293|consen 442 AICNLVMEFS-NLKSKFLRNNGIDILESMLTDPDFNSRANSLWVLRHLMFNCDEEEKFQLLAKIPANLILDLINDPD--W 518 (678)
T ss_pred HHHHHHhhcc-cHHHHHHHcCcHHHHHHHhcCCCchHHHHHHHHHHHHHhcchHHHHHHHHHHhhHHHHHHHHhCCC--H
Confidence 4666665432 222 3456677777889999999999999999999999997 6666667788888888764 5
Q ss_pred chHHHHHHHHHHHHHh
Q 016112 143 NNRNKALVMIEAWGES 158 (395)
Q Consensus 143 ~Vk~KiL~lI~~W~~~ 158 (395)
.|++.++.++....-.
T Consensus 519 ~Vqeq~fqllRNl~c~ 534 (678)
T KOG1293|consen 519 AVQEQCFQLLRNLTCN 534 (678)
T ss_pred HHHHHHHHHHHHhhcC
Confidence 8999999999988643
No 60
>PF12243 CTK3: CTD kinase subunit gamma CTK3
Probab=37.42 E-value=2.9e+02 Score=24.40 Aligned_cols=71 Identities=15% Similarity=0.158 Sum_probs=40.8
Q ss_pred HHHHHHHhcc--cchhHHHhhHHHHHHHHhhhcCCCcccchHHHHHHHHHHHHHhhcCCCChhhHHHHHHHHhhc
Q 016112 106 VLLETVVKNC--EKAFSEVAAERVLDEMVKLIDDPQTVVNNRNKALVMIEAWGESTSELRYLPVYEETYKSLRSR 178 (395)
Q Consensus 106 ~LLe~~VkNc--G~~F~eias~~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~~f~~~~~l~~i~~~Y~~Lk~~ 178 (395)
.|.+.|.+.. +..|-..-...+..-+-.++.+.........-+...++.|.....=+ -..+.+.+..|+.+
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 4666777776 45554444444443333444433332344557888889999875432 24667777777654
No 61
>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=36.66 E-value=1.2e+02 Score=31.63 Aligned_cols=101 Identities=20% Similarity=0.230 Sum_probs=60.6
Q ss_pred HHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHH-HHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhHHHhhHHHHHH
Q 016112 52 VEDATSEALEEPDWAMNLDLCDMINTEKISSVD-LIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFSEVAAERVLDE 130 (395)
Q Consensus 52 IekATs~~l~~~Dw~~ileIcD~Ins~~~~~ke-A~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~eias~~Fl~e 130 (395)
|.++-+...+--=..+++.++.+.+..++.... .+..|.+-|..+++.|+..|+.++..| +.-...+. -.-..+...
T Consensus 119 v~~ll~~~~~~VRk~A~~~l~~i~~~~p~~~~~~~~~~l~~lL~d~~~~V~~~a~~~l~~i-~~~~~~~~-~~~~~~~~~ 196 (526)
T PF01602_consen 119 VIKLLSDPSPYVRKKAALALLKIYRKDPDLVEDELIPKLKQLLSDKDPSVVSAALSLLSEI-KCNDDSYK-SLIPKLIRI 196 (526)
T ss_dssp HHHHHHSSSHHHHHHHHHHHHHHHHHCHCCHHGGHHHHHHHHTTHSSHHHHHHHHHHHHHH-HCTHHHHT-THHHHHHHH
T ss_pred HHHHhcCCchHHHHHHHHHHHHHhccCHHHHHHHHHHHHhhhccCCcchhHHHHHHHHHHH-ccCcchhh-hhHHHHHHH
Confidence 334333333333445677788888887777666 589999999999999999999999999 22222211 112233444
Q ss_pred HHhhhcCCCcccchHHHHHHHHHHHH
Q 016112 131 MVKLIDDPQTVVNNRNKALVMIEAWG 156 (395)
Q Consensus 131 Lvkli~~~~t~~~Vk~KiL~lI~~W~ 156 (395)
|.+++..+ ++-++.+++.++..+.
T Consensus 197 L~~~l~~~--~~~~q~~il~~l~~~~ 220 (526)
T PF01602_consen 197 LCQLLSDP--DPWLQIKILRLLRRYA 220 (526)
T ss_dssp HHHHHTCC--SHHHHHHHHHHHTTST
T ss_pred hhhccccc--chHHHHHHHHHHHhcc
Confidence 44444322 2334445666555443
No 62
>KOG1077 consensus Vesicle coat complex AP-2, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=36.37 E-value=1.1e+02 Score=34.37 Aligned_cols=72 Identities=17% Similarity=0.256 Sum_probs=51.0
Q ss_pred CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchh-HHHhhHHHHHHHHhhhcCCCcccchHHHHHHHHHHHHH
Q 016112 81 SSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAF-SEVAAERVLDEMVKLIDDPQTVVNNRNKALVMIEAWGE 157 (395)
Q Consensus 81 ~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F-~eias~~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~ 157 (395)
.-.-|+.+|-+-|.++.++.-|+||.- +++=|...| |...+++ .+.+...++. ..+..||+|+++|++...+
T Consensus 326 ll~~~~~~Lg~fls~rE~NiRYLaLEs---m~~L~ss~~s~davK~h-~d~Ii~sLkt-erDvSirrravDLLY~mcD 398 (938)
T KOG1077|consen 326 LLSRAVNQLGQFLSHRETNIRYLALES---MCKLASSEFSIDAVKKH-QDTIINSLKT-ERDVSIRRRAVDLLYAMCD 398 (938)
T ss_pred HHHHHHHHHHHHhhcccccchhhhHHH---HHHHHhccchHHHHHHH-HHHHHHHhcc-ccchHHHHHHHHHHHHHhc
Confidence 346788889999999999999999754 444445577 4544544 6666666652 2367899999999887754
No 63
>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=35.78 E-value=1.7e+02 Score=21.71 Aligned_cols=55 Identities=15% Similarity=0.056 Sum_probs=41.7
Q ss_pred cHHHHHHHHHHHh-cCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccch
Q 016112 64 DWAMNLDLCDMIN-TEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKA 118 (395)
Q Consensus 64 Dw~~ileIcD~In-s~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~ 118 (395)
||..+.+.|..+- ++.-.-+-++-.+.-.+......--..+|.+|..|+.+....
T Consensus 1 DW~~v~~~~~~lL~~~sKDlrv~~~l~~a~~~~~g~~gl~~gl~ll~~ll~~~W~~ 56 (62)
T PF06812_consen 1 DWDKVEELALELLSEQSKDLRVAVWLTEALLRLEGLAGLAEGLELLADLLENYWDS 56 (62)
T ss_pred CHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHccChhHHHHHHHHHHHHHHHCCcc
Confidence 7999999997665 554456777777888887677777778888888888876544
No 64
>PF00531 Death: Death domain; InterPro: IPR000488 The death domain (DD) is a homotypic protein interaction module composed of a bundle of six alpha-helices. DD is related in sequence and structure to the death effector domain (DED, see IPR001875 from INTERPRO) and the caspase recruitment domain (CARD, see IPR001315 from INTERPRO), which work in similar pathways and show similar interaction properties []. DD bind each other forming oligomers. Mammals have numerous and diverse DD-containing proteins []. Within these proteins, the DD domains can be found in combination with other domains, including: CARDs, DEDs, ankyrin repeats (IPR002110 from INTERPRO), caspase-like folds, kinase domains, leucine zippers (IPR002158 from INTERPRO), leucine-rich repeats (LRR) (IPR001611 from INTERPRO), TIR domains (IPR000157 from INTERPRO), and ZU5 domains (IPR000906 from INTERPRO) []. Some DD-containing proteins are involved in the regulation of apoptosis and inflammation through their activation of caspases and NF-kappaB, which typically involves interactions with TNF (tumour necrosis factor) cytokine receptors [, ]. In humans, eight of the over 30 known TNF receptors contain DD in their cytoplasmic tails; several of these TNF receptors use caspase activation as a signalling mechanism. The DD mediates self-association of these receptors, thus giving the signal to downstream events that lead to apoptosis. Other DD-containing proteins, such as ankyrin, MyD88 and pelle, are probably not directly involved in cell death signalling. DD-containing proteins also have links to innate immunity, communicating with Toll family receptors through bipartite adapter proteins such as MyD88 [].; GO: 0005515 protein binding, 0007165 signal transduction; PDB: 3OQ9_L 3EZQ_F 1E41_A 1E3Y_A 2GF5_A 2OF5_L 3EWV_E 3G5B_A 3MOP_L 2A9I_A ....
Probab=35.68 E-value=1e+02 Score=23.47 Aligned_cols=66 Identities=9% Similarity=0.276 Sum_probs=35.8
Q ss_pred HHHHHHhcccchhHHHhhH-HHHHHHHhhhcCCCcccchHHHHHHHHHHHHHhhcCCCChhhHHHHHHH
Q 016112 107 LLETVVKNCEKAFSEVAAE-RVLDEMVKLIDDPQTVVNNRNKALVMIEAWGESTSELRYLPVYEETYKS 174 (395)
Q Consensus 107 LLe~~VkNcG~~F~eias~-~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~~f~~~~~l~~i~~~Y~~ 174 (395)
|.+.+....|..+..+|.. .|-+.-+..+..... .++.++.+++..|.........+..+.++.+.
T Consensus 3 l~~~l~~~~~~~Wk~La~~Lg~~~~~i~~i~~~~~--~~~~~~~~~L~~W~~~~~~~at~~~L~~aL~~ 69 (83)
T PF00531_consen 3 LFDLLAEDLGSDWKRLARKLGLSESEIENIEEENP--DLREQTYEMLQRWRQREGPNATVDQLIQALRD 69 (83)
T ss_dssp HHHHHHHSHSTCHHHHHHHTTS-HHHHHHHHHHST--SHHHHHHHHHHHHHHHHGSTSSHHHHHHHHHH
T ss_pred HHHHHhhcchhhHHHHHHHhCcCHHHHHHHHHhCC--ChHHHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Confidence 3444455556666555533 343333333332221 26789999999999985555455444444333
No 65
>PF13513 HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O_A 2H4M_A 2QMR_A 1QBK_B 2Z5M_A 2Z5K_A 2Z5N_A 1GCJ_B ....
Probab=35.67 E-value=74 Score=22.45 Aligned_cols=52 Identities=19% Similarity=0.325 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHHHHHhcccchhHHHhhHHHHHHHHhhhcCCCcccchHHHHHHHH
Q 016112 98 PRIQYLALVLLETVVKNCEKAFSEVAAERVLDEMVKLIDDPQTVVNNRNKALVMI 152 (395)
Q Consensus 98 ~~vq~~AL~LLe~~VkNcG~~F~eias~~Fl~eLvkli~~~~t~~~Vk~KiL~lI 152 (395)
|.+...|+..|-.+..+|+..+.. .-.+.+..|..++.++. ..||..+...|
T Consensus 1 p~vR~~A~~aLg~l~~~~~~~~~~-~~~~~~~~L~~~L~d~~--~~VR~~A~~aL 52 (55)
T PF13513_consen 1 PRVRRAAAWALGRLAEGCPELLQP-YLPELLPALIPLLQDDD--DSVRAAAAWAL 52 (55)
T ss_dssp HHHHHHHHHHHHCTTTTTHHHHHH-HHHHHHHHHHHHTTSSS--HHHHHHHHHHH
T ss_pred CHHHHHHHHHHhhHhcccHHHHHH-HHHHHHHHHHHHHcCCC--HHHHHHHHHHH
Confidence 456777777777777777665544 34567888888887654 37887765443
No 66
>PTZ00429 beta-adaptin; Provisional
Probab=34.66 E-value=3.1e+02 Score=30.97 Aligned_cols=72 Identities=15% Similarity=0.328 Sum_probs=46.2
Q ss_pred ccHHHHHHHHHHHhc-CC---CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhHHHhhHHHHHHHHhhh
Q 016112 63 PDWAMNLDLCDMINT-EK---ISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFSEVAAERVLDEMVKLI 135 (395)
Q Consensus 63 ~Dw~~ileIcD~Ins-~~---~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~eias~~Fl~eLvkli 135 (395)
.+|..+ .|-+++.. .| ....+.+..+..+|+|.|+.|.+-|+.++=.+..+|.+.....+-.+.-.-|+.+.
T Consensus 232 ~EW~Qi-~IL~lL~~y~P~~~~e~~~il~~l~~~Lq~~N~AVVl~Aik~il~l~~~~~~~~~~~~~~rl~~pLv~L~ 307 (746)
T PTZ00429 232 NEWGQL-YILELLAAQRPSDKESAETLLTRVLPRMSHQNPAVVMGAIKVVANLASRCSQELIERCTVRVNTALLTLS 307 (746)
T ss_pred ChHHHH-HHHHHHHhcCCCCcHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcCcCCHHHHHHHHHHHHHHHHHhh
Confidence 367754 34444433 22 23457778888999999999999999988877777754444333344444455554
No 67
>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=33.89 E-value=66 Score=25.78 Aligned_cols=69 Identities=13% Similarity=0.282 Sum_probs=42.0
Q ss_pred HHHHHHhcccchhHHHhhH-HHHHHHHhhhcCCCcccchHHHHHHHHHHHHHhhcCCCChhhHHHHHHHHhhcC
Q 016112 107 LLETVVKNCEKAFSEVAAE-RVLDEMVKLIDDPQTVVNNRNKALVMIEAWGESTSELRYLPVYEETYKSLRSRG 179 (395)
Q Consensus 107 LLe~~VkNcG~~F~eias~-~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~~f~~~~~l~~i~~~Y~~Lk~~G 179 (395)
..+.+.+|-|..+.+++.. .|-+.=+.-+....+ ..+++++.+++..|.+....... +..+.+.|+.-|
T Consensus 4 ~f~~i~~~lG~~Wk~laR~LGlse~~Id~i~~~~~-~~~~eq~~~mL~~W~~~~g~~At---~~~L~~aL~~~~ 73 (86)
T cd08306 4 AFDVICENVGRDWRKLARKLGLSETKIESIEEAHP-RNLREQVRQSLREWKKIKKKEAK---VADLIKALRDCQ 73 (86)
T ss_pred HHHHHHHHHhhhHHHHHHHcCCCHHHHHHHHHHCC-CCHHHHHHHHHHHHHHhHCcchH---HHHHHHHHHHcC
Confidence 4677788888888777665 355443333332221 35789999999999987654322 334444455433
No 68
>COG5215 KAP95 Karyopherin (importin) beta [Intracellular trafficking and secretion]
Probab=32.15 E-value=3.3e+02 Score=30.08 Aligned_cols=64 Identities=11% Similarity=0.119 Sum_probs=45.2
Q ss_pred CCHHHHHHHHHHHHHHHhcccchhHHHhhHHHHHHHHhhhcCCCcccchHHHHHHHHHHHHHhhc
Q 016112 96 KSPRIQYLALVLLETVVKNCEKAFSEVAAERVLDEMVKLIDDPQTVVNNRNKALVMIEAWGESTS 160 (395)
Q Consensus 96 ~n~~vq~~AL~LLe~~VkNcG~~F~eias~~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~~f~ 160 (395)
...-+-.-|+.|.--+..--|..|..+ ...|++.|+..++++.++..+|--||..+-.-+-++.
T Consensus 651 ~d~~v~~~avglvgdlantl~~df~~y-~d~~ms~LvQ~lss~~~~R~lKPaiLSvFgDIAlaig 714 (858)
T COG5215 651 TDRFVLNSAVGLVGDLANTLGTDFNIY-ADVLMSSLVQCLSSEATHRDLKPAILSVFGDIALAIG 714 (858)
T ss_pred hhHHHHHHHHHHHHHHHHHhhhhHHHH-HHHHHHHHHHHhcChhhccccchHHHHHHHHHHHHHh
Confidence 333444445555555555556666544 3479999999999998888999999998877776654
No 69
>KOG1820 consensus Microtubule-associated protein [Cytoskeleton]
Probab=32.01 E-value=2.4e+02 Score=32.12 Aligned_cols=105 Identities=18% Similarity=0.190 Sum_probs=69.7
Q ss_pred HHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchh-HHHhhHHHHHHHHhhhcCCCcccc
Q 016112 65 WAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAF-SEVAAERVLDEMVKLIDDPQTVVN 143 (395)
Q Consensus 65 w~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F-~eias~~Fl~eLvkli~~~~t~~~ 143 (395)
...+..+||.+-. ...--...++|---++++||..-..++.+++-|+++-+..- ..-+-......+++.+.+ ++..
T Consensus 353 ~d~l~~~~d~~~n-s~~l~~~~~~I~e~lk~knp~~k~~~~~~l~r~~~~~~~~~~~~~t~~~l~p~~~~~~~D--~~~~ 429 (815)
T KOG1820|consen 353 RDALLKALDAILN-STPLSKMSEAILEALKGKNPQIKGECLLLLDRKLRKLGPKTVEKETVKTLVPHLIKHIND--TDKD 429 (815)
T ss_pred HHHHHHHHHHHHh-cccHHHHHHHHHHHhcCCChhhHHHHHHHHHHHHhhcCCcCcchhhHHHHhHHHhhhccC--CcHH
Confidence 4455667777665 34557888889999999999999999999999999988521 122233445555555554 4568
Q ss_pred hHHHHHHHHHHHHHhhcCCCChhhHHHHH
Q 016112 144 NRNKALVMIEAWGESTSELRYLPVYEETY 172 (395)
Q Consensus 144 Vk~KiL~lI~~W~~~f~~~~~l~~i~~~Y 172 (395)
||.-+++.+-.-...+.+......+.+.|
T Consensus 430 VR~Aa~e~~~~v~k~~Ge~~~~k~L~~~~ 458 (815)
T KOG1820|consen 430 VRKAALEAVAAVMKVHGEEVFKKLLKDLD 458 (815)
T ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHhhc
Confidence 88877777766666554432233334444
No 70
>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=31.98 E-value=2.2e+02 Score=25.11 Aligned_cols=73 Identities=12% Similarity=0.187 Sum_probs=46.6
Q ss_pred HHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCH---HHHHHHHHHHHHHHhcccchhH-HHhh---HHHHHHHHhhhcCC
Q 016112 66 AMNLDLCDMINTEKISSVDLIRGIKKRIMLKSP---RIQYLALVLLETVVKNCEKAFS-EVAA---ERVLDEMVKLIDDP 138 (395)
Q Consensus 66 ~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~---~vq~~AL~LLe~~VkNcG~~F~-eias---~~Fl~eLvkli~~~ 138 (395)
+.+.=||++.+..-.........|+.-+...++ ......+.++=.+...||+.+. .-.. ++|++.+...+..+
T Consensus 98 ~~i~fl~eL~~~~~i~~~~i~~~l~~ll~~~~~~~~~~~~~~ve~l~~lL~~~G~~l~~~~~~~~~~~~l~~l~~~~~~~ 177 (200)
T smart00543 98 GLVRFLGELYNFQVLTSKIILELLKELLNDLTKLDPPRSDFSVECLLSLLPTCGKDLEREKSPKLLDEILERLQDYLLKK 177 (200)
T ss_pred hHHHHHHHHHHcccCcHHHHHHHHHHHHhccCCCCCCCcHHHHHHHHHHHHHhhHHHcCcccHHHHHHHHHHHHHHHhcc
Confidence 344458899888877777777777766654322 2345677788888888999875 3322 23555555555443
No 71
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=31.64 E-value=1.1e+02 Score=24.73 Aligned_cols=53 Identities=17% Similarity=0.249 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCCcchhHHHHHHHHHHHhhHHHHHHHHHHhC
Q 016112 229 EAFDVARNSIELLSTVLSSSPQQDALQDDLTTTLVQQCRQSQFTVQRIIETAG 281 (395)
Q Consensus 229 ~~l~~a~~n~~LL~emL~~~~~~e~~~dEl~~eL~~~Cr~~q~rI~rlI~~~~ 281 (395)
++++.+...+--||..|++.......=...+++|.+.+|++|..++.-.....
T Consensus 26 ~E~~~ins~LD~Lns~LD~LE~rnD~l~~~L~~LLesnrq~R~e~~~~~~~~~ 78 (83)
T PF03670_consen 26 EEYAAINSMLDQLNSCLDHLEQRNDHLHAQLQELLESNRQIRLEFQEQLSKAP 78 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 35666667777777777775433211134668999999999999988877654
No 72
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=31.52 E-value=2.3e+02 Score=30.13 Aligned_cols=92 Identities=16% Similarity=0.303 Sum_probs=64.7
Q ss_pred cHHHHHHHHHHHhc--CCCCH----HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhHHHhhHHHHHHHHhhhcC
Q 016112 64 DWAMNLDLCDMINT--EKISS----VDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFSEVAAERVLDEMVKLIDD 137 (395)
Q Consensus 64 Dw~~ileIcD~Ins--~~~~~----keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~eias~~Fl~eLvkli~~ 137 (395)
+-..+..+|+.+.. +...+ ......|.+=|.|.++.|+.+|+..|.-|+.+-+.....+....++..+...+.+
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 44555666766655 22233 3455567777789999999999999988887765444456677788888888876
Q ss_pred CCcccchHHHHHHHHHHHHH
Q 016112 138 PQTVVNNRNKALVMIEAWGE 157 (395)
Q Consensus 138 ~~t~~~Vk~KiL~lI~~W~~ 157 (395)
+. ..|...+..+|..-+.
T Consensus 131 ~d--~~Va~~A~~~L~~l~~ 148 (503)
T PF10508_consen 131 PD--LSVAKAAIKALKKLAS 148 (503)
T ss_pred Cc--HHHHHHHHHHHHHHhC
Confidence 54 4777788888777664
No 73
>KOG4508 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.26 E-value=2.8e+02 Score=29.00 Aligned_cols=66 Identities=14% Similarity=0.134 Sum_probs=39.4
Q ss_pred cchhhhhhhhccccchHHHHHhhcCCCChHHHHHHHHcCCCCCCccHHHH-HHHHHHHhcCCCCHHHHHHHHHHHhcC
Q 016112 19 GGAEVGRKMSEGMSQMSFKMKELFQGPNPVEKLVEDATSEALEEPDWAMN-LDLCDMINTEKISSVDLIRGIKKRIML 95 (395)
Q Consensus 19 ~~~~~~~~~~~~~~~~~~~~~~~f~~~s~~~~lIekATs~~l~~~Dw~~i-leIcD~Ins~~~~~keA~raIrKrL~~ 95 (395)
.|+++-+-|-.| .++-.+.+++-+=+++=+|++.+.- -.+.. -.|-++|.. +|+.|+..|.|--.+
T Consensus 334 ~Gv~lkd~~ikg-------lk~tlstt~qsdmm~el~~dPklv~-h~gvtp~klp~lVe~---Np~~A~e~L~kl~~S 400 (522)
T KOG4508|consen 334 DGVDLKDEVIKG-------LKGTLSTTSQSDMMIELVTDPKLVL-HAGVTPEKLPSLVET---NPKFAGEFLVKLALS 400 (522)
T ss_pred CcccHHHHHHHH-------ccCCCCCccHHHHHHHHhcCcceeE-ecccChhhhHHHHHc---ChHHHHHHHHHHhhH
Confidence 356666666544 2344444566777888889998631 11111 135566665 788888887776554
No 74
>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=30.92 E-value=1.3e+02 Score=32.51 Aligned_cols=19 Identities=26% Similarity=0.363 Sum_probs=15.4
Q ss_pred hhHHHHHHHHHHHhhcCCC
Q 016112 293 VNDEIQKVLTKYEELKKPS 311 (395)
Q Consensus 293 ~NDeL~~aL~kYe~l~~~~ 311 (395)
-+.++..||+.|+++....
T Consensus 243 n~~~Vk~ALq~YqELLPKv 261 (574)
T PF07462_consen 243 NIAEVKEALQAYQELLPKV 261 (574)
T ss_pred hHHHHHHHHHHHHHhCCCC
Confidence 3567899999999999743
No 75
>PF11864 DUF3384: Domain of unknown function (DUF3384); InterPro: IPR024584 This entry represents the N-terminal domain of tuberin which is functionally uncharacterised.
Probab=30.37 E-value=3.7e+02 Score=28.20 Aligned_cols=93 Identities=19% Similarity=0.302 Sum_probs=59.1
Q ss_pred HHHHHHHHHHHhcCCCCHHHHHHHHHHHhc-C-CCHHHHHHHHHHHHHHHhcccc-------hh-HHHhh-------HHH
Q 016112 65 WAMNLDLCDMINTEKISSVDLIRGIKKRIM-L-KSPRIQYLALVLLETVVKNCEK-------AF-SEVAA-------ERV 127 (395)
Q Consensus 65 w~~ileIcD~Ins~~~~~keA~raIrKrL~-~-~n~~vq~~AL~LLe~~VkNcG~-------~F-~eias-------~~F 127 (395)
...+-++|+.|..-+..+-+++-...|-|- . ..+.....++.||.+|++.... .| +.|.. .-+
T Consensus 8 ~~a~~~l~~~i~~~~~~~i~~iW~~~~DLi~~~~p~e~R~~~~~ll~~~i~~~~~~~~~~R~~fF~~I~~~~~~~d~~~~ 87 (464)
T PF11864_consen 8 IKAAEELCESIQKYPLSSIEEIWYAAKDLIDPNQPSEARRAALELLIACIKRQDSSSGLMRAEFFRDISDPSNDDDFDLR 87 (464)
T ss_pred HHHHHHHHHHHHhCCchHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHhcCCCchhHHHH
Confidence 356788999999988877777777666663 3 3455778899999999999865 12 23321 124
Q ss_pred HHHHHhhhcCCCcccchHHHHHHHHHHHHH
Q 016112 128 LDEMVKLIDDPQTVVNNRNKALVMIEAWGE 157 (395)
Q Consensus 128 l~eLvkli~~~~t~~~Vk~KiL~lI~~W~~ 157 (395)
++.|+.|-.+.+.....-..+..++-.|-.
T Consensus 88 l~aL~~LT~~Grdi~~~~~~i~~~L~~wl~ 117 (464)
T PF11864_consen 88 LEALIALTDNGRDIDFFEYEIGPFLLSWLE 117 (464)
T ss_pred HHHHHHHHcCCcCchhcccchHHHHHHHHH
Confidence 555555555543222223456666666653
No 76
>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=29.81 E-value=4.4e+02 Score=25.27 Aligned_cols=110 Identities=16% Similarity=0.191 Sum_probs=64.5
Q ss_pred ccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCH----HHHHHHHHHHHHHHhcccc-hh-H-HHhhHHHHHHHHhhh
Q 016112 63 PDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSP----RIQYLALVLLETVVKNCEK-AF-S-EVAAERVLDEMVKLI 135 (395)
Q Consensus 63 ~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~----~vq~~AL~LLe~~VkNcG~-~F-~-eias~~Fl~eLvkli 135 (395)
|--+...+|.++|+.+ .+.+-+..+-+.+..... ..-..++.|+=.|+-++|. .| | ..+=.++.+.|+.+.
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 4556678899999987 444444555455542222 3346788999999999985 68 6 456678999999882
Q ss_pred cCCCcccchHHHHH-HHHHHHHHhhcCCCChhhHHHHHHHHhhcCCCCC
Q 016112 136 DDPQTVVNNRNKAL-VMIEAWGESTSELRYLPVYEETYKSLRSRGIRFP 183 (395)
Q Consensus 136 ~~~~t~~~Vk~KiL-~lI~~W~~~f~~~~~l~~i~~~Y~~Lk~~Gi~FP 183 (395)
.+. ..-+..|+ .+..-|...- +...-..+.|.+-|+.-|
T Consensus 87 ~~~---~~~q~~il~~v~~~W~~~~------q~~~li~dkll~~~ii~~ 126 (253)
T PF09090_consen 87 AES---EEAQFWILDAVFRFWKNNP------QMGFLIIDKLLNYGIISP 126 (253)
T ss_dssp TSS---HHHHHHHHHHHHHHHTT-H------HHHHHHHHHHHHTTSS-H
T ss_pred cCC---hHHHHHHHHHHHHHHhcCC------ceehHHHHHHHhcCCCCH
Confidence 211 23344455 4455686432 233446777888887543
No 77
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=29.01 E-value=3.1e+02 Score=30.80 Aligned_cols=108 Identities=12% Similarity=0.218 Sum_probs=60.0
Q ss_pred hHHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCHH--HHHHHHHHHHHHHhcccchhHHH--
Q 016112 47 PVEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPR--IQYLALVLLETVVKNCEKAFSEV-- 122 (395)
Q Consensus 47 ~~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~~--vq~~AL~LLe~~VkNcG~~F~ei-- 122 (395)
.++.||.-.|-+... .+..|=+| |+. ..++.|.+.+|-+-|...++. --+-=|.|+--...||..+-..+
T Consensus 435 klE~liR~LTpEk~s---Ig~aM~Fa--len-A~aa~EI~eci~eSlt~~~t~~~kKiarLyLvsDIL~N~sarv~nas~ 508 (877)
T KOG0151|consen 435 KLEDLIRGLTPEKSS---IGDAMVFA--LEN-ADAAGEIVECITESLTNKETPLPKKIARLYLVSDILHNSSARVANASA 508 (877)
T ss_pred HHHHHHHhcCcccch---HHHHHHHH--Hhh-hhhHHHHHHHHHHHHhccCCcchhHHHHHHHHHHHHhhhhhhhhHHHH
Confidence 355666665655533 33233232 322 246677777787777543221 11233566677778887665322
Q ss_pred hhHHHHHHHHhhhcC----------CCcccchHHHHHHHHHHHHHhhc
Q 016112 123 AAERVLDEMVKLIDD----------PQTVVNNRNKALVMIEAWGESTS 160 (395)
Q Consensus 123 as~~Fl~eLvkli~~----------~~t~~~Vk~KiL~lI~~W~~~f~ 160 (395)
..+.|-..|.+|+.+ .-+....++|++.+|+.|.+.+.
T Consensus 509 YR~~FEa~L~~Ifd~l~~~yr~I~gRIkaE~fkqRV~kVirvWedW~i 556 (877)
T KOG0151|consen 509 YRKSFEATLEDIFDDLNDLYRSIGGRIKAEAFKQRVMKVIRVWEDWAI 556 (877)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHh
Confidence 233344444444432 22234678899999999999764
No 78
>PRK09706 transcriptional repressor DicA; Reviewed
Probab=28.50 E-value=1.7e+02 Score=25.07 Aligned_cols=113 Identities=14% Similarity=0.165 Sum_probs=62.7
Q ss_pred hHHHHHHHhhhhhhccchhhhhhhhccccchHHHHHhhcCCC-ChHHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCC--
Q 016112 4 NLMEKVSAFGERLKIGGAEVGRKMSEGMSQMSFKMKELFQGP-NPVEKLVEDATSEALEEPDWAMNLDLCDMINTEKI-- 80 (395)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~-s~~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~-- 80 (395)
++-+++..+-++..+.-.++++++ |+|-- .+..|..+. .|-...|.+.+.-....+||-..-.. ...+.
T Consensus 5 ~~g~rlk~~R~~~gltq~~lA~~~--gvs~~--~is~~E~g~~~p~~~~l~~la~~l~vs~~~l~~g~~----~~~~~~~ 76 (135)
T PRK09706 5 TLGQRIRYRRKQLKLSQRSLAKAV--KVSHV--SISQWERDETEPTGKNLFALAKALQCSPTWLLFGDE----DKQPTPP 76 (135)
T ss_pred hHHHHHHHHHHHcCCCHHHHHHHh--CCCHH--HHHHHHcCCCCCCHHHHHHHHHHHCcCHHHHhcCCC----cCCCCCc
Confidence 355666666666677778888876 44311 123566553 23333444444444445565422111 11111
Q ss_pred -------CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhHHHhh
Q 016112 81 -------SSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFSEVAA 124 (395)
Q Consensus 81 -------~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~eias 124 (395)
.-..--+.|...+..-++..+-..|..+++.+.+-..-|.++..
T Consensus 77 ~~~~~~~~l~~~~~~ll~~~~~L~~~~~~~~l~~l~~~~~~~~~~~~~~~~ 127 (135)
T PRK09706 77 VPLNQPVELSEDQKELLELFDALPESEQDAQLSEMRARVENFNKLFEELLK 127 (135)
T ss_pred ccccCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 11123455666667788888888899998888887666655543
No 79
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=27.57 E-value=3e+02 Score=22.50 Aligned_cols=61 Identities=21% Similarity=0.287 Sum_probs=45.5
Q ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhHHHhhHHHHHHHHhhhcCCCcccchHH
Q 016112 83 VDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFSEVAAERVLDEMVKLIDDPQTVVNNRN 146 (395)
Q Consensus 83 keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~eias~~Fl~eLvkli~~~~t~~~Vk~ 146 (395)
.+.+.-|-+-+...+++|-+.|..-|=.++|.++..+.. .-.+.++.|.+++.++. +.||.
T Consensus 26 ~~Il~pVL~~~~D~d~rVRy~AcEaL~ni~k~~~~~~l~-~f~~IF~~L~kl~~D~d--~~Vr~ 86 (97)
T PF12755_consen 26 DEILPPVLKCFDDQDSRVRYYACEALYNISKVARGEILP-YFNEIFDALCKLSADPD--ENVRS 86 (97)
T ss_pred HHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHcCCc--hhHHH
Confidence 455666666677899999999999999999998765533 22356778888888754 46764
No 80
>cd01670 Death Death Domain: a protein-protein interaction domain. Death Domains (DDs) are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. Structural analysis of DD-DD complexes show that the domains interact with each other in many different ways. DD-containing proteins serve as adaptors in signaling pathways and they can recruit other proteins into signaling complexes. In mammals, they are prominent components of the programmed cell death (apoptosis) pathway and are found in a number of other signaling pathways. In invertebrates, they are involved in transcriptional regulation of zygotic patterning genes in insect embryogenesis, and are components of the ToII/NF-kappaB pathway, a conserved innate immune pathway in a
Probab=26.94 E-value=1.2e+02 Score=22.89 Aligned_cols=67 Identities=18% Similarity=0.317 Sum_probs=37.2
Q ss_pred HHHHhcccchhHHHhhH-HHHHHHHhhhcCCCcccchHHHHHHHHHHHHHhhcCCCChhhHHHHHHHHhhcCC
Q 016112 109 ETVVKNCEKAFSEVAAE-RVLDEMVKLIDDPQTVVNNRNKALVMIEAWGESTSELRYLPVYEETYKSLRSRGI 180 (395)
Q Consensus 109 e~~VkNcG~~F~eias~-~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~~f~~~~~l~~i~~~Y~~Lk~~Gi 180 (395)
..+.++-|.....++.+ .|.+.=+.-+...... +.+++.+++..|........ .+..++..|+.-|.
T Consensus 3 ~~ia~~lg~~W~~la~~Lgl~~~~I~~i~~~~~~--~~~~~~~mL~~W~~~~~~~a---t~~~L~~aL~~~~~ 70 (79)
T cd01670 3 DKLAKKLGKDWKKLARKLGLSDGEIDQIEEDNPR--VREQAYQLLLKWEEREGDNA---TVGNLIEALREIGR 70 (79)
T ss_pred HHHHHHHhhHHHHHHHHhCCCHHHHHHHHHhCCC--HHHHHHHHHHHHHhccCcCc---HHHHHHHHHHHcCH
Confidence 33444555555444433 2333333333332222 67899999999998776433 34556666666553
No 81
>KOG3219 consensus Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=26.58 E-value=1e+02 Score=28.83 Aligned_cols=37 Identities=32% Similarity=0.474 Sum_probs=28.4
Q ss_pred chHHHHHHHHHHHHHhhcCCCChh-hHHHHHHHHhhcCCCC
Q 016112 143 NNRNKALVMIEAWGESTSELRYLP-VYEETYKSLRSRGIRF 182 (395)
Q Consensus 143 ~Vk~KiL~lI~~W~~~f~~~~~l~-~i~~~Y~~Lk~~Gi~F 182 (395)
+|.+-++.+-..|.+.- |-.| +|+++|+.|+.+|..+
T Consensus 148 EvVEeAl~V~~~~~e~~---PLqP~HIREA~rrL~~qgk~~ 185 (195)
T KOG3219|consen 148 EVVEEALDVREEWGESG---PLQPKHIREAYRRLKLQGKLP 185 (195)
T ss_pred HHHHHHHHHHHHhccCC---CCCcHHHHHHHHHHHhcCCCC
Confidence 45677888889999732 2233 7999999999999766
No 82
>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]
Probab=26.56 E-value=8.6e+02 Score=26.46 Aligned_cols=121 Identities=16% Similarity=0.239 Sum_probs=63.5
Q ss_pred CccHHHHHH-HHHHHhcCCCCHH------HHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhHHHhh----------
Q 016112 62 EPDWAMNLD-LCDMINTEKISSV------DLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFSEVAA---------- 124 (395)
Q Consensus 62 ~~Dw~~ile-IcD~Ins~~~~~k------eA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~eias---------- 124 (395)
+.|+..|++ |.+++.+...+.. +--+-+|+.+- .|.+.=--|+..||.=+.|-...|.++-.
T Consensus 117 E~~i~~il~~l~~Lv~sEekN~~~i~~~~ely~elr~~vl-~n~~~~Ge~~~~lEk~Le~i~~~l~qf~~lt~~Gd~ieA 195 (570)
T COG4477 117 EEDIEQILEDLNELVESEEKNSEEIDHVLELYEELRRDVL-ANRHQYGEAAPELEKKLENIEEELSQFVELTSSGDYIEA 195 (570)
T ss_pred HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH-HhhhhhhhhhHHHHHHHHHHHHHHHHHHHhccCCChhHH
Confidence 445555554 5566655444332 22233333332 23333345566666666666655532211
Q ss_pred HHHHHHHHhhhcCCCcccchHHHHHHHHHHHHHhhcCCCChhhHHHHHHHHhhcCCCCCCCCCC
Q 016112 125 ERVLDEMVKLIDDPQTVVNNRNKALVMIEAWGESTSELRYLPVYEETYKSLRSRGIRFPGRDNE 188 (395)
Q Consensus 125 ~~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~~f~~~~~l~~i~~~Y~~Lk~~Gi~FP~~~~~ 188 (395)
.+.+.+..+-+- ......++|=.||..-...+++ .+..+..-|+.|+.+||.||....+
T Consensus 196 ~evl~~~ee~~~---~L~~~~e~IP~L~~e~~~~lP~--ql~~Lk~Gyr~m~~~gY~l~~~~id 254 (570)
T COG4477 196 REVLEEAEEHMI---ALRSIMERIPSLLAELQTELPG--QLQDLKAGYRDMKEEGYHLEHVNID 254 (570)
T ss_pred HHHHHHHHHHHH---HHHHHHHHHHHHHHHHHhhchH--HHHHHHHHHHHHHHccCCcccccHH
Confidence 122222221111 0112334555666666666654 4778899999999999999876543
No 83
>KOG4535 consensus HEAT and armadillo repeat-containing protein [General function prediction only]
Probab=26.46 E-value=60 Score=34.75 Aligned_cols=52 Identities=17% Similarity=0.232 Sum_probs=39.9
Q ss_pred cHHHHHH-HHHHHhcCCCC------HHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcc
Q 016112 64 DWAMNLD-LCDMINTEKIS------SVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNC 115 (395)
Q Consensus 64 Dw~~ile-IcD~Ins~~~~------~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNc 115 (395)
-...++. ++.+|...|-. -.+.+..|+|.|+|++|+|..-||+|++++|...
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 3444443 55666665532 3578899999999999999999999999999764
No 84
>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=26.22 E-value=4.7e+02 Score=27.81 Aligned_cols=93 Identities=18% Similarity=0.200 Sum_probs=50.9
Q ss_pred cHHHHHHHHHHHhcCCCC-HHHHHHHHHHHhcCC----------------------CHHHHHHHHHHHHHHHhcccchhH
Q 016112 64 DWAMNLDLCDMINTEKIS-SVDLIRGIKKRIMLK----------------------SPRIQYLALVLLETVVKNCEKAFS 120 (395)
Q Consensus 64 Dw~~ileIcD~Ins~~~~-~keA~raIrKrL~~~----------------------n~~vq~~AL~LLe~~VkNcG~~F~ 120 (395)
+-..+..|+..+...... ++.|+++|++=.++. +..+.++.+.++-.+.+.-...|.
T Consensus 117 ~~~l~~~i~~~L~~~d~~Va~~A~~~L~~l~~~~~~~~~l~~~~~~~~L~~l~~~~~~~vR~Rv~el~v~i~~~S~~~~~ 196 (503)
T PF10508_consen 117 DNELLPLIIQCLRDPDLSVAKAAIKALKKLASHPEGLEQLFDSNLLSKLKSLMSQSSDIVRCRVYELLVEIASHSPEAAE 196 (503)
T ss_pred CccHHHHHHHHHcCCcHHHHHHHHHHHHHHhCCchhHHHHhCcchHHHHHHHHhccCHHHHHHHHHHHHHHHhcCHHHHH
Confidence 344566677777765443 456666655554433 333333333333333222222233
Q ss_pred HHhhHHHHHHHHhhhcCCCcccchHHHHHHHHHHHHHh
Q 016112 121 EVAAERVLDEMVKLIDDPQTVVNNRNKALVMIEAWGES 158 (395)
Q Consensus 121 eias~~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~~ 158 (395)
.+....|++.+.+.+.+ .|.-||--+++++..-+..
T Consensus 197 ~~~~sgll~~ll~eL~~--dDiLvqlnalell~~La~~ 232 (503)
T PF10508_consen 197 AVVNSGLLDLLLKELDS--DDILVQLNALELLSELAET 232 (503)
T ss_pred HHHhccHHHHHHHHhcC--ccHHHHHHHHHHHHHHHcC
Confidence 33334477777777765 4667888899998888763
No 85
>PRK09687 putative lyase; Provisional
Probab=25.15 E-value=6.5e+02 Score=24.54 Aligned_cols=27 Identities=19% Similarity=0.175 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHH
Q 016112 82 SVDLIRGIKKRIMLKSPRIQYLALVLL 108 (395)
Q Consensus 82 ~keA~raIrKrL~~~n~~vq~~AL~LL 108 (395)
...++..|.+.|...++.|...|+.-|
T Consensus 190 ~~~~~~~L~~~L~D~~~~VR~~A~~aL 216 (280)
T PRK09687 190 NPDIREAFVAMLQDKNEEIRIEAIIGL 216 (280)
T ss_pred CHHHHHHHHHHhcCCChHHHHHHHHHH
Confidence 445666666666666666665555433
No 86
>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=24.80 E-value=63 Score=26.26 Aligned_cols=21 Identities=24% Similarity=0.261 Sum_probs=14.6
Q ss_pred CCcccchHHHHHHHHHHHHHh
Q 016112 138 PQTVVNNRNKALVMIEAWGES 158 (395)
Q Consensus 138 ~~t~~~Vk~KiL~lI~~W~~~ 158 (395)
.+|...=..+++.++++|++.
T Consensus 41 ~~T~qdkmRkLld~v~akG~~ 61 (85)
T cd08324 41 CPTQPDKVRKILDLVQSKGEE 61 (85)
T ss_pred CCCCHHHHHHHHHHHHhcCch
Confidence 344443335899999999965
No 87
>KOG1105 consensus Transcription elongation factor TFIIS/Cofactor of enhancer-binding protein Sp1 [Transcription]
Probab=24.74 E-value=2.8e+02 Score=27.78 Aligned_cols=24 Identities=17% Similarity=0.275 Sum_probs=19.8
Q ss_pred CCCcccchHHHHHHHHHHHHHhhc
Q 016112 137 DPQTVVNNRNKALVMIEAWGESTS 160 (395)
Q Consensus 137 ~~~t~~~Vk~KiL~lI~~W~~~f~ 160 (395)
...++++|+.++-.||..|...+.
T Consensus 56 Kk~~n~ev~~~ak~Lik~Wkk~~~ 79 (296)
T KOG1105|consen 56 KKHKNEEVRSLAKKLIKSWKKLVD 79 (296)
T ss_pred HhCCCHHHHHHHHHHHHHHHHHhh
Confidence 456688999999999999987653
No 88
>COG1059 Thermostable 8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]
Probab=24.16 E-value=2.6e+02 Score=26.34 Aligned_cols=69 Identities=16% Similarity=0.243 Sum_probs=41.2
Q ss_pred CCccHHHHHHHHHH-HhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhHH------HhhHHHHHHHHh
Q 016112 61 EEPDWAMNLDLCDM-INTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFSE------VAAERVLDEMVK 133 (395)
Q Consensus 61 ~~~Dw~~ileIcD~-Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~e------ias~~Fl~eLvk 133 (395)
..++|=.-+.+|=+ .|++..++-.|.+.|.+-+-+.+. .=|.-..++||++|+. |-.++++..+..
T Consensus 35 ~~e~lf~ELsFCILTANsSA~~~~~~q~~lG~gfly~~~-------eEL~e~Lk~~g~Rf~n~raeyIVeaR~~~~~lk~ 107 (210)
T COG1059 35 TKEDLFKELSFCILTANSSATMGLRAQNELGDGFLYLSE-------EELREKLKEVGYRFYNVRAEYIVEAREKFDDLKI 107 (210)
T ss_pred cHHHHHHHHHHHhccccchHHHHHHHHHHhccccccCCH-------HHHHHHHHHhcchhcccchHHHHHHHHHHHHHHH
Confidence 34566655555543 344445555555556555555443 4456667889999952 334566667777
Q ss_pred hhc
Q 016112 134 LID 136 (395)
Q Consensus 134 li~ 136 (395)
++.
T Consensus 108 ~v~ 110 (210)
T COG1059 108 IVK 110 (210)
T ss_pred HHh
Confidence 776
No 89
>COG5387 Chaperone required for the assembly of the mitochondrial F1-ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=22.58 E-value=1.1e+02 Score=29.77 Aligned_cols=68 Identities=25% Similarity=0.253 Sum_probs=44.5
Q ss_pred CChHHHHHHHHcCCCCCCccHHHH-----HHHHHHHhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccc
Q 016112 45 PNPVEKLVEDATSEALEEPDWAMN-----LDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEK 117 (395)
Q Consensus 45 ~s~~~~lIekATs~~l~~~Dw~~i-----leIcD~Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~ 117 (395)
.+|++ ||++-+..-.+-.||..+ +.++|-|-.. ..|.|++.++++.+.+-+...++-| |++.|.=||.
T Consensus 131 ~sp~e-Lv~rQ~e~w~Piidw~e~~lg~rf~~vdgvih~-~Qp~E~va~~a~~l~s~~sp~~LA~---l~~~~sl~gS 203 (264)
T COG5387 131 ESPFE-LVERQNENWDPIIDWAENFLGARFILVDGVIHG-EQPREAVAAFAVKLMSLDSPWALAA---LETMVSLTGS 203 (264)
T ss_pred CCHHH-HHHHHHhhhHHHHHHHHHhhCceEEeehhhhcC-CCcHHHHHHHHHHHhhcCCHHHHHH---HHHHHHHHHH
Confidence 47777 888877666666666655 2233444332 4789999999999987666555544 5555555554
No 90
>PF12627 PolyA_pol_RNAbd: Probable RNA and SrmB- binding site of polymerase A; PDB: 1OU5_B 3H38_A 3H3A_B 3H39_B 3H37_A 3AQN_A 3AQK_A 3AQM_B 3AQL_B 1MIY_A ....
Probab=22.40 E-value=1e+02 Score=22.54 Aligned_cols=27 Identities=26% Similarity=0.569 Sum_probs=19.7
Q ss_pred hcccchhHHHhhHHHHHHHHhhhcCCC
Q 016112 113 KNCEKAFSEVAAERVLDEMVKLIDDPQ 139 (395)
Q Consensus 113 kNcG~~F~eias~~Fl~eLvkli~~~~ 139 (395)
+++......++.+|..+|+.|++..+.
T Consensus 13 ~~~~~~L~~is~ERi~~El~kil~~~~ 39 (64)
T PF12627_consen 13 KENAELLSKISKERIREELEKILSSPN 39 (64)
T ss_dssp HHHGGGGGGS-HHHHHHHHHHHHTSTT
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHcCCC
Confidence 344455568889999999999998664
No 91
>COG5369 Uncharacterized conserved protein [Function unknown]
Probab=22.29 E-value=3.9e+02 Score=29.29 Aligned_cols=110 Identities=17% Similarity=0.314 Sum_probs=67.3
Q ss_pred CChHHHHHHHHcCCCCCCccHHHHHHHHHHHhc-CCCC----HHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchh
Q 016112 45 PNPVEKLVEDATSEALEEPDWAMNLDLCDMINT-EKIS----SVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAF 119 (395)
Q Consensus 45 ~s~~~~lIekATs~~l~~~Dw~~ileIcD~Ins-~~~~----~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F 119 (395)
-.++.+++-+|-|..-.-........||+.+-. ++-+ .+-.+-.|.+-+.+++-..|-.++=+|.-+|-||.+.-
T Consensus 429 d~~I~elLi~~Ls~Peimi~~~~t~~icn~vv~fsnL~~~fL~~~iIdvl~~~v~sKDdaLqans~wvlrHlmyncq~~e 508 (743)
T COG5369 429 DYPIVELLIDALSNPEIMIEFPDTIDICNKVVPFSNLGAGFLEKSIIDVLVNLVMSKDDALQANSEWVLRHLMYNCQKNE 508 (743)
T ss_pred ccchHHHHHHHhcCccceeeccchhhhhheeeeccchHHHHHHhhHHHHHHHHhhcchhhhhhcchhhhhhhhhcCcchh
Confidence 367777777776653222223344578877544 2222 24567778888889999999999999999999998642
Q ss_pred H-HHhhHHHHHHHHhhhcCCCcccchHHHHHHHHHHHH
Q 016112 120 S-EVAAERVLDEMVKLIDDPQTVVNNRNKALVMIEAWG 156 (395)
Q Consensus 120 ~-eias~~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~ 156 (395)
+ +.-.+==++-++..+.+|- -.|+..+++++..+.
T Consensus 509 kf~~Lakig~~kvl~~~NDpc--~~vq~q~lQilrNft 544 (743)
T COG5369 509 KFKFLAKIGVEKVLSYTNDPC--FKVQHQVLQILRNFT 544 (743)
T ss_pred hhhhHHhcCHHHHHHHhcCcc--cccHHHHHHHHHhcc
Confidence 2 2211112233344444432 356677777766654
No 92
>PF12783 Sec7_N: Guanine nucleotide exchange factor in Golgi transport N-terminal
Probab=21.91 E-value=4.7e+02 Score=23.01 Aligned_cols=71 Identities=14% Similarity=0.216 Sum_probs=46.6
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchhH-HHhhHHHHHHHHh-hhcCCCcccchHHHHHHHHHHHHH
Q 016112 85 LIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAFS-EVAAERVLDEMVK-LIDDPQTVVNNRNKALVMIEAWGE 157 (395)
Q Consensus 85 A~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F~-eias~~Fl~eLvk-li~~~~t~~~Vk~KiL~lI~~W~~ 157 (395)
...+|-+-+.+.++.+-.++|.++-.++.+-+..+. |+ +-|+..+.. ++..+.+...-|.-+|+.+..+-.
T Consensus 74 l~~~Ll~~~~~~~~~i~~~slri~~~l~~~~~~~Lk~el--e~~l~~i~~~il~~~~~~~~~k~~~Le~l~~l~~ 146 (168)
T PF12783_consen 74 LCPALLKNLSSSDFPIFSRSLRIFLTLLSRFRSHLKLEL--EVFLSHIILRILESDNSSLWQKELALEILRELCK 146 (168)
T ss_pred HHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHccCCCcHHHHHHHHHHHHHHHh
Confidence 344455555567799999999999999976444332 33 458888777 555443333456668888887754
No 93
>KOG4523 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.26 E-value=1.7e+02 Score=25.65 Aligned_cols=53 Identities=19% Similarity=0.182 Sum_probs=47.1
Q ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcccchh
Q 016112 67 MNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNCEKAF 119 (395)
Q Consensus 67 ~ileIcD~Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNcG~~F 119 (395)
.+-.||++|+-=...|.-|+..|...+...-|.+.-+-++||+.-..-+|..|
T Consensus 13 InE~iaEmik~iaNEPSl~LY~iQeHirnaaP~liNln~~llekS~e~g~~qe 65 (157)
T KOG4523|consen 13 INERIAEMIKLIANEPSLALYRIQEHIRNAAPGLINLNIMLLEKSAELGGAQE 65 (157)
T ss_pred HHHHHHHHHHHHcCCchHHHHHHHHHHHhhCcchhhHHHHHHHHHHhhccchh
Confidence 44569999999888999999999999999999999999999998888887776
No 94
>KOG2021 consensus Nuclear mRNA export factor receptor LOS1/Exportin-t (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport; Translation, ribosomal structure and biogenesis]
Probab=21.07 E-value=2.1e+02 Score=32.34 Aligned_cols=111 Identities=13% Similarity=0.116 Sum_probs=68.9
Q ss_pred HHHHHHHHcCCCCCCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcc--cchh--HHHh
Q 016112 48 VEKLVEDATSEALEEPDWAMNLDLCDMINTEKISSVDLIRGIKKRIMLKSPRIQYLALVLLETVVKNC--EKAF--SEVA 123 (395)
Q Consensus 48 ~~~lIekATs~~l~~~Dw~~ileIcD~Ins~~~~~keA~raIrKrL~~~n~~vq~~AL~LLe~~VkNc--G~~F--~eia 123 (395)
+++.|.-+-+++....--...++.|..|++++++.+-|+.++-.+- .+++++..+|..|.-.|+-. ...- +++.
T Consensus 5 iEqav~a~ndp~vdsa~KqqA~~y~~qiKsSp~aw~Icie~l~~~t--s~d~vkf~clqtL~e~vrekyne~nl~elqlv 82 (980)
T KOG2021|consen 5 IEQAVNAVNDPRVDSATKQQAIEYLNQIKSSPNAWEICIELLINET--SNDLVKFYCLQTLIELVREKYNEANLNELQLV 82 (980)
T ss_pred HHHHHHhhCCCcccHHHHHHHHHHHHhhcCCccHHHHHHHHHHhhc--ccchhhhhhHHHHHHHHHHhhccCCHHHHHHH
Confidence 4455555544433333344678999999999999999999887776 88999999999998887643 2222 2454
Q ss_pred hHHHHHHHHhhh-cCCCc--ccchHHHHHHH---------HHHHHHhhc
Q 016112 124 AERVLDEMVKLI-DDPQT--VVNNRNKALVM---------IEAWGESTS 160 (395)
Q Consensus 124 s~~Fl~eLvkli-~~~~t--~~~Vk~KiL~l---------I~~W~~~f~ 160 (395)
++....-+...+ .+.++ +.=+++|+-++ .-.|..-|.
T Consensus 83 R~sv~swlk~qvl~ne~~~~p~fi~Nk~aqvlttLf~~eYp~~WnsfF~ 131 (980)
T KOG2021|consen 83 RFSVTSWLKFQVLGNEQTKLPDFIMNKIAQVLTTLFMLEYPDCWNSFFD 131 (980)
T ss_pred HHHHHHHHHHHHhCcccCCCChHHHHHHHHHHHHHHHHHhhhhhHHHHH
Confidence 554443333322 23322 23466665433 345776553
No 95
>PF04904 NCD1: NAB conserved region 1 (NCD1); InterPro: IPR006988 Nab1 and Nab2 are co-repressors that specifically interact with and repress transcription mediated by the three members of the NGFI-A (Egr-1, Krox24, zif/268) family of eukaryotic (metazoa) transcription factors []. This entry represents the N-terminal NAB domain, which interacts with the EGR1 inhibitory domain (R1) []. It may also mediate multimerisation.; GO: 0045892 negative regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=20.87 E-value=3.6e+02 Score=21.67 Aligned_cols=50 Identities=12% Similarity=0.324 Sum_probs=31.0
Q ss_pred HHHHHHHhcccchhHHHh---hHHHHHHHHhhhcCCCcccchHHHHHHHHHHHHH
Q 016112 106 VLLETVVKNCEKAFSEVA---AERVLDEMVKLIDDPQTVVNNRNKALVMIEAWGE 157 (395)
Q Consensus 106 ~LLe~~VkNcG~~F~eia---s~~Fl~eLvkli~~~~t~~~Vk~KiL~lI~~W~~ 157 (395)
.--+.++..+|...++++ ..+|+. ++.++--...+-.|| |....++.|..
T Consensus 23 ~Yyd~fi~~GgDDvqQL~~~~e~eF~e-im~lvGM~sKPLHVr-RlqKAL~ew~~ 75 (82)
T PF04904_consen 23 QYYDTFIAQGGDDVQQLCEAGEEEFLE-IMALVGMASKPLHVR-RLQKALQEWST 75 (82)
T ss_pred HHHHHHHHHcChhHHHHHhcChHHHHH-HHHHhCccCccHHHH-HHHHHHHHHhc
Confidence 445778899999887554 456874 444442111123565 67788889975
Done!