Query 005489
Match_columns 694
No_of_seqs 178 out of 284
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 00:15:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005489.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005489hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2256 Predicted protein invo 100.0 7E-151 1E-155 1248.7 50.9 557 98-661 63-636 (661)
2 PF03715 Noc2: Noc2p family; 100.0 1E-99 2E-104 801.8 29.7 296 342-638 1-299 (299)
3 COG5604 Uncharacterized conser 100.0 1E-89 2.3E-94 724.7 26.0 426 162-637 92-522 (523)
4 PF04147 Nop14: Nop14-like fam 99.1 1E-08 2.2E-13 123.1 27.4 239 343-618 512-758 (840)
5 KOG2147 Nucleolar protein invo 97.8 0.011 2.4E-07 69.1 27.1 173 426-606 535-715 (823)
6 PF04147 Nop14: Nop14-like fam 97.7 0.0016 3.4E-08 79.1 19.7 274 167-483 426-715 (840)
7 KOG2256 Predicted protein invo 96.9 0.039 8.5E-07 64.2 18.2 38 95-133 81-118 (661)
8 KOG1832 HIV-1 Vpr-binding prot 95.5 0.01 2.2E-07 70.5 3.4 12 112-123 1466-1477(1516)
9 KOG2141 Protein involved in hi 93.6 6.5 0.00014 46.9 20.1 36 368-403 503-541 (822)
10 PF03224 V-ATPase_H_N: V-ATPas 93.1 3 6.6E-05 44.9 15.9 187 264-461 51-254 (312)
11 PF04931 DNA_pol_phi: DNA poly 90.2 0.37 8.1E-06 58.5 5.4 13 182-194 762-774 (784)
12 KOG2147 Nucleolar protein invo 89.1 13 0.00028 44.7 16.3 38 317-354 522-561 (823)
13 KOG1832 HIV-1 Vpr-binding prot 87.8 0.87 1.9E-05 55.0 5.9 6 128-133 1497-1502(1516)
14 cd00256 VATPase_H VATPase_H, r 87.8 28 0.0006 39.8 17.6 152 267-436 52-217 (429)
15 PF03378 CAS_CSE1: CAS/CSE pro 80.9 15 0.00032 42.0 11.7 213 342-570 21-253 (435)
16 KOG0212 Uncharacterized conser 79.4 34 0.00073 40.3 13.7 93 308-404 335-446 (675)
17 KOG2759 Vacuolar H+-ATPase V1 78.3 14 0.00029 41.9 10.0 156 268-436 65-230 (442)
18 PF04931 DNA_pol_phi: DNA poly 77.1 2.7 5.8E-05 51.3 4.6 12 97-108 731-742 (784)
19 KOG2153 Protein involved in th 77.1 88 0.0019 37.5 16.3 70 266-339 277-354 (704)
20 KOG1992 Nuclear export recepto 72.0 86 0.0019 38.6 14.9 181 296-496 480-686 (960)
21 PF01602 Adaptin_N: Adaptin N 68.6 18 0.00038 41.1 8.4 70 281-355 91-160 (526)
22 PF12755 Vac14_Fab1_bd: Vacuol 66.6 40 0.00088 30.5 8.6 63 303-366 21-83 (97)
23 PF01602 Adaptin_N: Adaptin N 64.3 1.3E+02 0.0029 34.0 14.3 155 299-485 141-298 (526)
24 PF10446 DUF2457: Protein of u 63.6 3.3 7.2E-05 46.8 1.2 11 59-69 97-107 (458)
25 KOG1248 Uncharacterized conser 60.9 4.7E+02 0.01 33.7 22.4 403 178-620 105-562 (1176)
26 KOG2141 Protein involved in hi 59.7 2.2E+02 0.0048 34.8 14.9 77 229-323 297-375 (822)
27 KOG2038 CAATT-binding transcri 59.3 17 0.00036 44.0 5.9 30 14-43 833-862 (988)
28 KOG3064 RNA-binding nuclear pr 59.1 6.1 0.00013 41.8 2.1 14 30-43 210-223 (303)
29 KOG0212 Uncharacterized conser 57.1 67 0.0015 37.9 10.0 66 274-343 380-449 (675)
30 PF05918 API5: Apoptosis inhib 54.7 29 0.00063 40.9 6.9 93 296-398 46-140 (556)
31 KOG2171 Karyopherin (importin) 51.2 4.2E+02 0.0091 33.9 16.0 336 265-636 199-587 (1075)
32 PHA02734 coat protein; Provisi 49.3 59 0.0013 31.1 6.6 68 532-603 7-74 (149)
33 KOG0943 Predicted ubiquitin-pr 49.1 10 0.00022 47.7 2.0 19 464-482 2294-2312(3015)
34 KOG1999 RNA polymerase II tran 48.4 16 0.00035 45.0 3.6 22 299-320 214-236 (1024)
35 COG5101 CRM1 Importin beta-rel 47.6 2.6E+02 0.0057 33.9 12.8 66 275-344 199-267 (1053)
36 PF09026 CENP-B_dimeris: Centr 47.2 6.3 0.00014 35.9 0.0 8 64-71 34-41 (101)
37 PF08167 RIX1: rRNA processing 46.5 1.2E+02 0.0027 29.7 9.0 83 259-343 58-148 (165)
38 PTZ00415 transmission-blocking 44.9 17 0.00036 47.4 3.0 25 32-56 142-166 (2849)
39 COG5095 TAF6 Transcription ini 44.1 2.8E+02 0.0061 30.7 11.6 111 268-409 197-315 (450)
40 PF11698 V-ATPase_H_C: V-ATPas 43.0 80 0.0017 30.0 6.6 67 272-338 47-115 (119)
41 PF12074 DUF3554: Domain of un 42.6 4.8E+02 0.01 28.3 14.5 210 269-500 23-250 (339)
42 PF13251 DUF4042: Domain of un 42.3 1.8E+02 0.0039 29.5 9.5 81 259-339 92-175 (182)
43 smart00543 MIF4G Middle domain 39.0 3.6E+02 0.0079 26.0 11.0 121 274-401 5-125 (200)
44 KOG2038 CAATT-binding transcri 38.4 21 0.00045 43.3 2.4 11 32-42 869-879 (988)
45 KOG1020 Sister chromatid cohes 37.8 5.6E+02 0.012 34.1 14.4 240 297-549 616-884 (1692)
46 COG4547 CobT Cobalamin biosynt 36.7 42 0.0009 38.6 4.3 27 34-60 215-241 (620)
47 KOG0262 RNA polymerase I, larg 36.3 52 0.0011 42.0 5.3 73 304-403 1532-1604(1640)
48 KOG1062 Vesicle coat complex A 35.2 5.3E+02 0.012 32.0 13.1 197 235-456 60-281 (866)
49 PF04826 Arm_2: Armadillo-like 35.0 1.5E+02 0.0033 31.5 8.0 76 262-338 87-163 (254)
50 KOG2393 Transcription initiati 34.3 37 0.00079 39.6 3.4 6 131-136 336-341 (555)
51 PTZ00429 beta-adaptin; Provisi 33.6 1E+03 0.022 29.5 16.5 32 309-341 298-329 (746)
52 KOG1241 Karyopherin (importin) 32.6 3.1E+02 0.0068 33.8 10.6 96 281-379 186-288 (859)
53 KOG1991 Nuclear transport rece 31.8 47 0.001 41.3 4.0 24 98-121 959-982 (1010)
54 PHA02458 A protein A*; Reviewe 31.0 98 0.0021 32.7 5.6 49 343-393 200-250 (341)
55 PF03353 Lin-8: Ras-mediated v 30.5 7.3E+02 0.016 26.9 13.6 102 536-647 24-128 (313)
56 KOG3064 RNA-binding nuclear pr 30.4 31 0.00066 36.8 1.9 10 100-109 259-268 (303)
57 KOG1163 Casein kinase (serine/ 29.4 74 0.0016 34.3 4.4 57 333-425 245-301 (341)
58 PF03672 UPF0154: Uncharacteri 28.0 1.2E+02 0.0025 26.0 4.5 32 163-194 31-62 (64)
59 PF02854 MIF4G: MIF4G domain; 27.7 5.5E+02 0.012 24.6 10.5 81 273-358 4-85 (209)
60 PF08595 RXT2_N: RXT2-like, N- 26.8 82 0.0018 31.0 4.0 30 163-192 112-146 (149)
61 KOG1943 Beta-tubulin folding c 26.7 1.5E+03 0.032 29.3 16.0 96 378-492 936-1035(1133)
62 PF12717 Cnd1: non-SMC mitotic 26.6 6.3E+02 0.014 24.9 11.0 97 299-403 15-113 (178)
63 cd05137 RasGAP_CLA2_BUD2 CLA2/ 26.1 5.9E+02 0.013 29.0 11.2 36 305-340 225-263 (395)
64 KOG3130 Uncharacterized conser 26.0 33 0.00071 38.7 1.2 7 165-171 330-336 (514)
65 KOG1991 Nuclear transport rece 25.0 1.5E+03 0.033 28.9 19.0 222 260-500 539-828 (1010)
66 PF12231 Rif1_N: Rap1-interact 24.8 7.4E+02 0.016 27.6 11.6 164 281-461 104-285 (372)
67 PF07165 DUF1397: Protein of u 24.6 8E+02 0.017 25.4 15.7 57 342-399 141-209 (213)
68 PTZ00479 RAP Superfamily; Prov 24.6 7.1E+02 0.015 28.8 11.2 196 263-500 115-325 (435)
69 cd00020 ARM Armadillo/beta-cat 24.5 2.5E+02 0.0055 24.2 6.5 64 273-337 54-119 (120)
70 COG5240 SEC21 Vesicle coat com 23.9 3.4E+02 0.0074 32.6 8.7 120 374-505 224-354 (898)
71 COG3296 Uncharacterized protei 23.6 22 0.00048 34.2 -0.5 31 445-475 111-142 (143)
72 KOG2548 SWAP mRNA splicing reg 23.5 1E+02 0.0022 36.1 4.5 29 93-121 226-257 (653)
73 KOG2171 Karyopherin (importin) 23.4 9.9E+02 0.022 30.8 13.1 101 396-502 513-614 (1075)
74 cd00020 ARM Armadillo/beta-cat 23.2 3.4E+02 0.0074 23.4 7.1 32 309-340 49-80 (120)
75 KOG0943 Predicted ubiquitin-pr 22.8 55 0.0012 41.7 2.4 18 665-682 2581-2599(3015)
76 PF02985 HEAT: HEAT repeat; I 21.5 1.7E+02 0.0036 20.5 3.8 29 311-339 2-30 (31)
77 PF02724 CDC45: CDC45-like pro 21.4 1.3E+02 0.0028 36.2 5.0 14 189-202 221-234 (622)
78 PF11251 DUF3050: Protein of u 21.1 6.9E+02 0.015 26.5 9.6 108 268-387 80-209 (232)
79 KOG2051 Nonsense-mediated mRNA 20.7 1.2E+02 0.0027 38.1 4.8 13 167-179 970-982 (1128)
80 PF12830 Nipped-B_C: Sister ch 20.4 8.6E+02 0.019 24.3 12.3 91 264-358 4-94 (187)
81 PRK00011 glyA serine hydroxyme 20.2 47 0.001 36.8 1.0 27 107-133 3-32 (416)
No 1
>KOG2256 consensus Predicted protein involved in nuclear export of pre-ribosomes [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.5e-151 Score=1248.67 Aligned_cols=557 Identities=38% Similarity=0.613 Sum_probs=512.4
Q ss_pred HHHHHHHHHHHhhhcCChhHhHhhhhcCccccCCCCCCCCCcccccccc-ccC---CCCCCC----------CCcccCCc
Q 005489 98 LELENKKKKLSRLKAKDPGFSKFLESHDKGLKSFRNENAYSDEDERSDD-GMQ---SMDEDG----------PHLYLNKL 163 (694)
Q Consensus 98 ~e~~~hk~~L~~LkekDPEFyKyLqenD~~LL~F~~~~~~~dede~~dd-~~~---~~~~d~----------~~~~~~k~ 163 (694)
+..+.||++|++|+++||+||+||++||++||+|++ |.++|++.|++| +.+ ++++|. .+....+.
T Consensus 63 g~~~~hk~~l~~l~~~Dp~f~~~~~~~dk~ll~~~~-D~d~d~~lE~~d~Dled~~~d~~d~~~~~~~~~~~~~~~~~k~ 141 (661)
T KOG2256|consen 63 GGASKHKKELEKLKDKDPEFFKFLKEEDKELLNFKE-DSDDDEDLEEPDEDLEDFSEDEEDDEEDEIDKETDKKKNSGKV 141 (661)
T ss_pred chhhhHHHHhhhccccCcHHHHHHHhhhHHHhCCCC-CccchhhccCCcccccccccccchhhhhhcccchhhhhcccch
Confidence 345899999999999999999999999999999996 433333322211 110 111111 11124468
Q ss_pred ccHHHHHHHHHHHHhcCChHHHHHHHHHHHHHhhccccCCCCCCCCCCccccCHHHHHHHHHHHHHHhHHHHHHHhCCcC
Q 005489 164 LTSSAINSWCHLVKEQHNASAFISLLNAYRAACHYGAESTGILGSGSGAPMLDCETFCKILMFVLREADDVFREMLGISS 243 (694)
Q Consensus 164 lT~~~v~~W~~~l~~~~s~~alr~ll~AFraA~~~~~e~~~~~~~~~ky~I~ds~VFn~vv~~~L~~lp~~l~~~l~~k~ 243 (694)
||..+|.+|++++...++++.+|++++||||||+++.+++ ..+.+|.|+|+++||+||.+||+++|.+|+++++++.
T Consensus 142 it~~~V~~w~~~l~~~~~~~~~r~vv~af~aAva~~~~~~---~e~~ky~i~ds~~Fn~vv~~~lq~~~~~l~~ll~~k~ 218 (661)
T KOG2256|consen 142 ITVSNVYSWKQQLEQETSLTLVRRVVQAFRAAVAYGGEDS---AEAPKYVITDSEAFNAVVIFCLQEMPDILRKLLRGKV 218 (661)
T ss_pred hhHHHHHHHHHHHhcccChHHHHHHHHHHHHHHHhccccc---ccccceeechHHHHHHHHHHHHHHhHHHHHHHcCCCc
Confidence 9999999999999999999999999999999999998762 2468999999999999999999999999999999988
Q ss_pred CCCCccccccCCCCcchhhHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHhhhhhhhhhcchHHHHHHHHHHHHhhcCCCc
Q 005489 244 NCKRDTILGLKNNSKWKTVRPLIKSYLRSTLFMLNQATDSEILAFSLNRLRTSIVFFAAFPLLIRRLIKIAVHLWATGEE 323 (694)
Q Consensus 244 ~~~k~~~~~~~~~~kw~kl~~liKsyl~sll~LL~~ltd~~~l~~vL~~l~~l~py~~~f~kl~k~llK~lv~lWst~~e 323 (694)
.+++..... ...+|.++++++|+|++++++||+++|++++++++|++++.++||+++||+++|.++|++|++||||++
T Consensus 219 ~~~~~~~~~--~~~~w~k~~~~vKsYl~s~l~Ll~~~t~te~~~~~L~~l~~l~~~~~~f~k~lk~liK~~V~vWstge~ 296 (661)
T KOG2256|consen 219 DKDKSLFLK--TASKWYKLRVLVKSYLGSSLHLLNQLTDTEVLAFTLRHLTVLVPFLATFPKLLKKLIKAVVHVWSTGEE 296 (661)
T ss_pred CCCcccccc--ccccchhhhHHHHHHhHHHHHHHHHcchHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHheeeccCCc
Confidence 644433333 333499999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHhhcccCCccchhhhHHHHHHHHHHhcCCcchhhHHHHHHHHHHHHH
Q 005489 324 TVSFHSFLILQDVASGFSSDCFDLCLIKMYKAFIGHCKFAEPALFKHLQFLRNSFVELCSQDLLRSSNKAKVSINNLSRI 403 (694)
Q Consensus 324 ~vrv~AFl~Lr~la~~~~~~~le~~LK~~Y~ayv~n~k~t~~~tlp~Infm~N~~~EL~~ld~~~sYq~AF~YIRQLAih 403 (694)
++|++||+||+++|+.+.+++++.|||+||.+||+||++|+++|||+||||+||++||||+|+..+|||||+||||||||
T Consensus 297 ~~rv~Afl~l~~l~~~~~~~~l~~vlk~mY~afv~nsk~~~~~tl~~i~Fl~~slvEL~~ld~~~~Yq~aF~yIrQLAih 376 (661)
T KOG2256|consen 297 SLRVLAFLCLIDLCRKFKSTCLDPVLKTMYLAFVRNSKFVTVNTLPLINFLQNSLVELLGLDLQVSYQHAFVYIRQLAIH 376 (661)
T ss_pred chhhHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhCCCCCCcccchhHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhhhhhhhhhhcccchhHhHHHHHHHHHc-ccCCCCCcchhhHHHHHHHhhhhcccCCCcccchHHHHHHHHHHHH
Q 005489 404 LQLGLQTKKKEAVKKICSWQYANCIDLWVTYIS-HCIHDYDLQPLLYIIIQIINGMATLFPGPRYLPLRCKCIEWLNHLS 482 (694)
Q Consensus 404 LRna~~~k~Ke~~k~VYNWQfi~sL~lWs~Vls-~~~~~s~L~pLiYPLvQVi~G~irLiPt~ry~PLRfh~ir~L~~Ls 482 (694)
|||||++++|++++.||||||||||+||++||| ++...++|+||+|||||||+|||||+||+|||||||||||+||+||
T Consensus 377 LRnam~~k~K~s~~~VYnWqfi~cL~lW~rvisf~~~~~s~lq~LvYpLvQvi~GvirLipT~qy~PLRlhcir~Li~Ls 456 (661)
T KOG2256|consen 377 LRNAMITKNKESVQSVYNWQYVHCLDLWLRVISFANGSASQLQPLVYPLVQVILGVIRLIPTPQYYPLRLHCIRSLISLS 456 (661)
T ss_pred HHHHhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHhhccHhhhhhhhhHHHHHHHHHhhhcCcccchhHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999 7878899999999999999999999999999999999999999999
Q ss_pred hccCcceechhHHHHhhccccc--cCCCCCCCCCCcccccccchhhhcchhhHHHHHHHHHHHHHHHHHHhhcCCccccc
Q 005489 483 SSSGIFIPVTSLMLDVLEYKVS--KEVGKPGKDFNFSSAVKLPKHWLKSRNFREDCVFSAIELLSAHFAQWSYHISFPEL 560 (694)
Q Consensus 483 ~~t~~fIPl~p~LleiL~~~~~--K~~~~~~k~~df~~~Lk~~k~~l~s~~yqd~lie~~~eLL~e~la~~S~sIAFPEL 560 (694)
++||+||||+|+|+|||.+... ++++++++|+||.++||||+.||++++||++|++++++||++||++||+|||||||
T Consensus 457 ~ssg~fIPi~~ll~Eml~~~~~nrkp~~~~~k~~D~~~~Lk~sk~~L~sk~yq~~~ieqv~~lL~ey~a~~s~~IaFPEL 536 (661)
T KOG2256|consen 457 RSSGTFIPLSPLLVEMLKSVTFNRKPKASSVKPIDFDSTLKLSKRYLRSKAYQDGVIEQVIELLLEYFALFSKSIAFPEL 536 (661)
T ss_pred hhcCceeecHHHHHHHHHHhhccCCccccccCCCCeeEEeecCHHHhccHHHHHHHHHHHHHHHHHHHHHHhccCCchhh
Confidence 9999999999999999999765 34556679999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHhhhhhcccHHHHHHHHHHHHHHHHhHHHHHHhhcCCCCCCCCHHHHHHHHHhhhcCCCCchHHHHHHHHHH
Q 005489 561 ATIPLIHLRKFQEKSDVESLRRVVKRFIDVVEQNIEFVKKKRDEVAFSPNDQQSVEAFLQLEKCSGNTPFTQYYRSVMEK 640 (694)
Q Consensus 561 ~~P~i~~LKrf~K~~k~~~~~~~lK~LidkIeens~fI~~kR~~v~F~p~d~~~V~~Fl~~~~~~~~tPL~~y~~~~~~~ 640 (694)
++|+|++||+|+|.|++++|++.+++|+++|++|++||.++|..|+|+|+|.++|++|+++ ..|++||||+||.+|+++
T Consensus 537 v~p~i~rLk~f~k~skn~~~~r~v~~li~kle~ns~FV~~kR~~v~F~pnD~~~V~afe~~-~~~~~TPl~~yy~~~rk~ 615 (661)
T KOG2256|consen 537 VLPVIMRLKSFLKESKNGNYKRVVKQLIEKLEENSKFVLEKRNKVKFSPNDQQAVSAFEQD-LDWNKTPLGQYYSSWRKV 615 (661)
T ss_pred hHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHhcCccCCCcHHHHHHHHHH-HHccCCcHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999996 468999999999999999
Q ss_pred HHHHHHHHhhhhhHHHHHHHH
Q 005489 641 AASRSLIMNENKSFLEQKKQK 661 (694)
Q Consensus 641 ~~~r~~~~~~~~~~~~~~~~~ 661 (694)
+++++++++|+.++.++++++
T Consensus 616 ~~~k~r~~~e~~~~~d~~~~~ 636 (661)
T KOG2256|consen 616 REEKNRLAVESSEEDDKDKPK 636 (661)
T ss_pred HHHHHHHHhhhhhhhhhhhhh
Confidence 999999999999998777655
No 2
>PF03715 Noc2: Noc2p family; InterPro: IPR005343 This is a small family of mainly hypothetical proteins of unknown function.
Probab=100.00 E-value=9.8e-100 Score=801.84 Aligned_cols=296 Identities=38% Similarity=0.656 Sum_probs=287.6
Q ss_pred cchHHHHHHHHHHHHHhhcccCCccchhhhHHHHHHHHHHhcCCcchhhHHHHHHHHHHHHHHHHhhhhhhhhhhhhccc
Q 005489 342 SDCFDLCLIKMYKAFIGHCKFAEPALFKHLQFLRNSFVELCSQDLLRSSNKAKVSINNLSRILQLGLQTKKKEAVKKICS 421 (694)
Q Consensus 342 ~~~le~~LK~~Y~ayv~n~k~t~~~tlp~Infm~N~~~EL~~ld~~~sYq~AF~YIRQLAihLRna~~~k~Ke~~k~VYN 421 (694)
++++|.|||+||.+||+|||+||++|+|+||||+||++|||++|+++||||||+|||||||||||||+.|+||+|++|||
T Consensus 1 ~~~~~~~lK~~Y~~~v~~~k~~~~~t~~~i~fm~n~~~EL~~ld~~~sY~~aF~yIRQLAi~LR~a~~~~~k~~~~~Vyn 80 (299)
T PF03715_consen 1 SDFLETCLKGMYLAYVRNSKFTSPNTLPHINFMKNCLVELYGLDPDVSYQHAFVYIRQLAIHLRNAMTSKKKEAYKSVYN 80 (299)
T ss_pred CchHHHHHHHHHHHHHHhCCCCCcchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHhcchhhheeeee
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhHhHHHHHHHHHcc-cCCCCCcchhhHHHHHHHhhhhcccCCCcccchHHHHHHHHHHHHhccCcceechhHHHHhhc
Q 005489 422 WQYANCIDLWVTYISH-CIHDYDLQPLLYIIIQIINGMATLFPGPRYLPLRCKCIEWLNHLSSSSGIFIPVTSLMLDVLE 500 (694)
Q Consensus 422 WQfi~sL~lWs~Vls~-~~~~s~L~pLiYPLvQVi~G~irLiPt~ry~PLRfh~ir~L~~Ls~~t~~fIPl~p~LleiL~ 500 (694)
|||+|||+||++|||+ +..+++|+||+|||||||+|+|||+||+|||||||||||+|++||++||+|||++|+|+|||+
T Consensus 81 Wqfv~~l~lW~~vls~~~~~~~~L~~LiyPLvqi~~g~i~L~pt~ry~Plrlh~ir~L~~L~~~t~~fIPl~~~lleiL~ 160 (299)
T PF03715_consen 81 WQFVHCLDLWSRVLSAAAKKESQLRPLIYPLVQIIIGVIKLIPTARYFPLRLHCIRSLNRLSQSTGTFIPLAPYLLEILE 160 (299)
T ss_pred HHHHHHHHHHHHHHhcccCcchhhHhHHHHHHHHHHHHHhhcCccccCchHHHHHHHHHHHHHhcCceEecHHHHHHHHh
Confidence 9999999999999999 778899999999999999999999999999999999999999999999999999999999999
Q ss_pred cccc--cCCCCCCCCCCcccccccchhhhcchhhHHHHHHHHHHHHHHHHHHhhcCCccccchhHHHHHHHhhhhhcccH
Q 005489 501 YKVS--KEVGKPGKDFNFSSAVKLPKHWLKSRNFREDCVFSAIELLSAHFAQWSYHISFPELATIPLIHLRKFQEKSDVE 578 (694)
Q Consensus 501 ~~~~--K~~~~~~k~~df~~~Lk~~k~~l~s~~yqd~lie~~~eLL~e~la~~S~sIAFPEL~~P~i~~LKrf~K~~k~~ 578 (694)
+... ++++++++|+||++.||+|+++++|++||++|++++++||+||+++||+||||||+++|++.+||||+|+|+++
T Consensus 161 ~~~~~~~~k~~~~kp~d~~~~Lk~~k~~l~t~~~~d~v~e~~~~LL~e~la~~s~sIaFPEl~~pii~~LKr~~K~~k~~ 240 (299)
T PF03715_consen 161 SSEFNKKPKKSSMKPLDFECLLKVSKSQLRTRQFQDGVIEEVYELLLEYLAIYSYSIAFPELALPIIVQLKRFLKSCKNA 240 (299)
T ss_pred ChhhcCCCCCCCCCCcCHHHHhhccHHHhccHHHHHHHHHHHHHHHHHHHHHHhcCCcchhhHHHHHHHHHHHHHHcccH
Confidence 9864 33466899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHhhcCCCCCCCCHHHHHHHHHhhhcCCCCchHHHHHHHH
Q 005489 579 SLRRVVKRFIDVVEQNIEFVKKKRDEVAFSPNDQQSVEAFLQLEKCSGNTPFTQYYRSVM 638 (694)
Q Consensus 579 ~~~~~lK~LidkIeens~fI~~kR~~v~F~p~d~~~V~~Fl~~~~~~~~tPL~~y~~~~~ 638 (694)
+|++++|+|+++|++|++||+++|++++|+|+|.++|++|+++.+ +++|||++||.+|+
T Consensus 241 ~~~~~ik~Li~kiee~~~~I~~kR~~v~f~p~d~~~V~~fe~~~~-~~~tPl~~~~~~~r 299 (299)
T PF03715_consen 241 KFKRQIKQLIDKIEENSKFIESKRSKVDFSPKDQAQVEAFESELK-WEGTPLGKYYASWR 299 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHccCCCCCCCHHHHHHHHHhcc-cCCCCHHHHHHhhC
Confidence 999999999999999999999999999999999999999999765 79999999999995
No 3
>COG5604 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=1e-89 Score=724.74 Aligned_cols=426 Identities=24% Similarity=0.324 Sum_probs=390.0
Q ss_pred CcccHHHHHHHHHHHHhcCChHHHHHHHHHHHHHhhccccCCCCCCCCCCccccCHHHHHHHHHHHHHHhHHHHHHHhCC
Q 005489 162 KLLTSSAINSWCHLVKEQHNASAFISLLNAYRAACHYGAESTGILGSGSGAPMLDCETFCKILMFVLREADDVFREMLGI 241 (694)
Q Consensus 162 k~lT~~~v~~W~~~l~~~~s~~alr~ll~AFraA~~~~~e~~~~~~~~~ky~I~ds~VFn~vv~~~L~~lp~~l~~~l~~ 241 (694)
..||...+++|++.+...+|+..+++++.||+||+..+.++ .+.||.|+|.++|+.++.+++.++|.++..|.|+
T Consensus 92 i~L~~~~~qkw~k~l~~~~sl~~lqk~~~afkaaa~ln~eE-----eDlKyti~d~k~f~~l~~l~~~~vp~a~~~~~p~ 166 (523)
T COG5604 92 ISLNQVSTQKWRKELDLLASLAYLQKLSGAFKAAALLNNEE-----EDLKYTIDDVKFFARLKILQDLRVPYAEILLTPF 166 (523)
T ss_pred eeeeHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHhhhhH-----HHHHhhhhHHHHHHHHHHHHHhhhhHHHHHhchh
Confidence 46999999999999999999999999999999999998875 3589999999999999999999999999999999
Q ss_pred cCCCCCccccccCCCCcchhhHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHhhhhhhhhhcchHHHHHHHHHHHHhhcCC
Q 005489 242 SSNCKRDTILGLKNNSKWKTVRPLIKSYLRSTLFMLNQATDSEILAFSLNRLRTSIVFFAAFPLLIRRLIKIAVHLWATG 321 (694)
Q Consensus 242 k~~~~k~~~~~~~~~~kw~kl~~liKsyl~sll~LL~~ltd~~~l~~vL~~l~~l~py~~~f~kl~k~llK~lv~lWst~ 321 (694)
...+| ...+++..+.-++++.+|+|-+++++||+.+||.+.++..|+...+++ |+ ++.
T Consensus 167 ~~~KG---~~~l~s~~~v~~i~~~~Ks~~gsvl~Lln~~tn~~~a~l~l~~a~n~i----~~-------i~s-------- 224 (523)
T COG5604 167 FEKKG---YQNLSSALDVIHIKKFSKSPNGSVLQLLNIFTNHSKARLDLQKAVNHI----CK-------IDS-------- 224 (523)
T ss_pred Hhhcc---ccccCCCcCeEeeeehhcCCCchHHHHHHHhccchHHHHHHHHHHHHH----HH-------Hhh--------
Confidence 66444 334555555568999999999999999999999999999999988864 21 111
Q ss_pred CchhHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHhhcccCCccchhhhHHHHHHHHHHhcCCcchhhHHHHHHHHHHH
Q 005489 322 EETVSFHSFLILQDVASGFSSDCFDLCLIKMYKAFIGHCKFAEPALFKHLQFLRNSFVELCSQDLLRSSNKAKVSINNLS 401 (694)
Q Consensus 322 ~e~vrv~AFl~Lr~la~~~~~~~le~~LK~~Y~ayv~n~k~t~~~tlp~Infm~N~~~EL~~ld~~~sYq~AF~YIRQLA 401 (694)
++++++|.+++..+..+.. |..|+.+++|.|||++|+++|||++|....|++||.||||||
T Consensus 225 --t~~~a~f~~l~s~~l~f~k-----------------s~~t~v~~~d~in~lqnsa~nl~~Lde~~~~ki~f~yi~qLa 285 (523)
T COG5604 225 --TLSVAVFQVLYSPLLDFFK-----------------SSPTEVNDFDTINFLQNSAKNLFELDESYLYKIGFSYIRQLA 285 (523)
T ss_pred --hheehhHHHHHHHHHHHhh-----------------cCccccccchHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHH
Confidence 4999999999998776533 899999999999999999999999999999999999999999
Q ss_pred HHHHHhhhhhhhhhhhhcccchhHhHHHHHHHHHcccC---CCCCcchhhHHHHHHHhhhhcccCCCcccchHHHHHHHH
Q 005489 402 RILQLGLQTKKKEAVKKICSWQYANCIDLWVTYISHCI---HDYDLQPLLYIIIQIINGMATLFPGPRYLPLRCKCIEWL 478 (694)
Q Consensus 402 ihLRna~~~k~Ke~~k~VYNWQfi~sL~lWs~Vls~~~---~~s~L~pLiYPLvQVi~G~irLiPt~ry~PLRfh~ir~L 478 (694)
|||||.|...++.+-+.||||||+||||||.+||+..+ -+|.++.|+||+||+++|+|||+||.|||||||||||+|
T Consensus 286 ~hLkn~v~~p~k~drk~Vynwqyv~Sldfwlrvisfa~wng~eS~~~~l~~~lvq~Tl~vIrlipT~Q~yplrfhllrSL 365 (523)
T COG5604 286 IHLKNTVLNPRKVDRKMVYNWQYVHSLDFWLRVISFAVWNGIESKLLRLHYPLVQYTLGVIRLIPTYQDYPLRFHLLRSL 365 (523)
T ss_pred HHHHHHhcCccchhhHHHhhHHHhhhcchHHHHHHHHHHhhhhhHHHHhhhHHHHHHhhheeecCcccccchhHHHHHHH
Confidence 99999999887777777999999999999999999743 368999999999999999999999999999999999999
Q ss_pred HHHHhccCcceechhHHHHhhccccc--cCCCCCCCCCCcccccccchhhhcchhhHHHHHHHHHHHHHHHHHHhhcCCc
Q 005489 479 NHLSSSSGIFIPVTSLMLDVLEYKVS--KEVGKPGKDFNFSSAVKLPKHWLKSRNFREDCVFSAIELLSAHFAQWSYHIS 556 (694)
Q Consensus 479 ~~Ls~~t~~fIPl~p~LleiL~~~~~--K~~~~~~k~~df~~~Lk~~k~~l~s~~yqd~lie~~~eLL~e~la~~S~sIA 556 (694)
++|+++||+|||++|+|+|||.+... +++.+.+++|||+++||++++||+|+.||++++++++.||+||+++||++||
T Consensus 366 Irl~r~s~vyIPLs~~l~eiL~s~~~~k~p~as~l~~fDfd~~lk~~~e~Lrsk~yq~~viee~~~lL~eyfalfsknIa 445 (523)
T COG5604 366 IRLSRGSGVYIPLSPYLVEILKSAISVKNPKASVLRKFDFDSMLKPDTEYLRSKEYQMGVIEEASSLLLEYFALFSKNIA 445 (523)
T ss_pred HHHHhcCceEEeccHHHHHHHHHHHHhcCchhhhccccCchhhcCCCHHHHhHHHHHhhHHHHHHHHHHHHHHHHhccCC
Confidence 99999999999999999999998753 3344469999999999999999999999999999999999999999999999
Q ss_pred cccchhHHHHHHHhhhhhcccHHHHHHHHHHHHHHHHhHHHHHHhhcCCCCCCCCHHHHHHHHHhhhcCCCCchHHHHHH
Q 005489 557 FPELATIPLIHLRKFQEKSDVESLRRVVKRFIDVVEQNIEFVKKKRDEVAFSPNDQQSVEAFLQLEKCSGNTPFTQYYRS 636 (694)
Q Consensus 557 FPEL~~P~i~~LKrf~K~~k~~~~~~~lK~LidkIeens~fI~~kR~~v~F~p~d~~~V~~Fl~~~~~~~~tPL~~y~~~ 636 (694)
||||+.|+|++|||+.+.+ ++++.+-+++.+|+++++||.+||.++.|+|.|..+|++|+++ .+|..||||+|+..
T Consensus 446 FPELv~pvI~~lkrl~k~s---k~nk~vlt~vnkLeqq~kfv~eKRn~vkfs~iD~s~Vs~Fe~d-idw~~TpLG~yV~~ 521 (523)
T COG5604 446 FPELVGPVISELKRLRKGS---KLNKVVLTMVNKLEQQSKFVLEKRNKVKFSPIDGSTVSSFESD-IDWRSTPLGQYVSD 521 (523)
T ss_pred chhHhHHHHHHHHHHHhcc---chhhHHHHHHHHHhhhhHHHHHHhhcCccCCCChHHHHHHHHh-hhhccCCccceeec
Confidence 9999999999999999987 6788999999999999999999999999999999999999996 58999999999876
Q ss_pred H
Q 005489 637 V 637 (694)
Q Consensus 637 ~ 637 (694)
+
T Consensus 522 q 522 (523)
T COG5604 522 Q 522 (523)
T ss_pred c
Confidence 4
No 4
>PF04147 Nop14: Nop14-like family ; InterPro: IPR007276 Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production [].
Probab=99.15 E-value=1e-08 Score=123.09 Aligned_cols=239 Identities=14% Similarity=0.149 Sum_probs=146.8
Q ss_pred chHHHHHHHHHHHHHhhcccCCccchhhhHHH--HHHHHHHhcCCcchhhHHHHHHHHHHHHHHHHhhhhhhhhhhhhcc
Q 005489 343 DCFDLCLIKMYKAFIGHCKFAEPALFKHLQFL--RNSFVELCSQDLLRSSNKAKVSINNLSRILQLGLQTKKKEAVKKIC 420 (694)
Q Consensus 343 ~~le~~LK~~Y~ayv~n~k~t~~~tlp~Infm--~N~~~EL~~ld~~~sYq~AF~YIRQLAihLRna~~~k~Ke~~k~VY 420 (694)
.++-..|+.||..|.+..-..++.+||.+.-+ -.-+.-||.. .+-+-.|.
T Consensus 512 ~~~r~~L~~~~~~~~~~~l~~~~~~~P~l~~Lvllklv~~lFPT----------------------------SD~~HpVV 563 (840)
T PF04147_consen 512 ECFREVLKEMQKRFRKGALKPKERSWPSLSDLVLLKLVGTLFPT----------------------------SDFRHPVV 563 (840)
T ss_pred HHHHHHHHHHHHHHhhhcccccCCCCCChhHHHHHHHHHHhcCc----------------------------ccccCcch
Confidence 34555677888888775444445567765522 1222233332 12222221
Q ss_pred cchhHhHHHHHHHHHcccCCCCCcchhhHHHHHHHhhhhcccCCCcccchHHHHHHHHHHHHhccCcceechhH-HHHhh
Q 005489 421 SWQYANCIDLWVTYISHCIHDYDLQPLLYIIIQIINGMATLFPGPRYLPLRCKCIEWLNHLSSSSGIFIPVTSL-MLDVL 499 (694)
Q Consensus 421 NWQfi~sL~lWs~Vls~~~~~s~L~pLiYPLvQVi~G~irLiPt~ry~PLRfh~ir~L~~Ls~~t~~fIPl~p~-LleiL 499 (694)
.-|+=|-++.|+++ .-..++.+..-|+=+++..--...+-||+|=-+..+..++.++.....-..+.|+ .+...
T Consensus 564 ----TPalllm~~~L~q~-~v~s~~di~~GlfL~~l~l~y~~~SKR~vPEvinFL~~~L~~~~p~~~~~~~~~~~~~~~~ 638 (840)
T PF04147_consen 564 ----TPALLLMSEYLSQC-RVRSLRDIASGLFLCTLLLEYQSLSKRFVPEVINFLLGLLLLLVPEKSKKSPSPFFPSKKP 638 (840)
T ss_pred ----hHHHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCCcccccCCCCCCCCCc
Confidence 13455566666643 3335666665555444443334467888888887776666665322221111111 11111
Q ss_pred cccc-ccCC----CCCCCCCCcccccccchhhhcchhhHHHHHHHHHHHHHHHHHHhhcCCccccchhHHHHHHHhhhhh
Q 005489 500 EYKV-SKEV----GKPGKDFNFSSAVKLPKHWLKSRNFREDCVFSAIELLSAHFAQWSYHISFPELATIPLIHLRKFQEK 574 (694)
Q Consensus 500 ~~~~-~K~~----~~~~k~~df~~~Lk~~k~~l~s~~yqd~lie~~~eLL~e~la~~S~sIAFPEL~~P~i~~LKrf~K~ 574 (694)
.... .+.. .....+++|...+ ......+..++-.|+..++.||..++.+|+...||||++.|++..|.++..
T Consensus 639 ~~~L~l~~~~~~~~~~~~~l~l~~l~--~~~~~~~~~~k~~lL~~~l~ll~~~~~l~~~~~af~eif~p~~~lL~~l~~- 715 (840)
T PF04147_consen 639 SSSLRLSSSSKSKSSEPKKLSLSDLF--SSSEEDSDQFKLSLLATALRLLDRFADLYSSLPAFPEIFEPFLSLLSHLDS- 715 (840)
T ss_pred ccceeecccccccccCcccCChhhhc--ccccccchhHHHHHHHHHHHHHHHHHHHHccCcCHHHHHHHHHHHHHHHHh-
Confidence 1110 1111 1122347777666 667788999999999999999999999999999999999999999999877
Q ss_pred cccHHHHHHHHHHHHHHHHhHHHHHHhhcCCCCCCCCHHHHHHH
Q 005489 575 SDVESLRRVVKRFIDVVEQNIEFVKKKRDEVAFSPNDQQSVEAF 618 (694)
Q Consensus 575 ~k~~~~~~~lK~LidkIeens~fI~~kR~~v~F~p~d~~~V~~F 618 (694)
-...+...++.++++|.+........|.++.+.-.-...+..|
T Consensus 716 -~~~~~~~~l~~l~~~l~~~~~~~~~~r~PL~l~~~kP~~I~~~ 758 (840)
T PF04147_consen 716 -LPKALPEKLQELLEKLSKILKEARRSRRPLQLQKHKPIPIKTF 758 (840)
T ss_pred -ccchhHHHHHHHHHHHHHHHHhccccCCCceeccCCCcccccc
Confidence 3445677888899999998888888888886655544455544
No 5
>KOG2147 consensus Nucleolar protein involved in 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=97.80 E-value=0.011 Score=69.12 Aligned_cols=173 Identities=13% Similarity=0.093 Sum_probs=108.0
Q ss_pred hHHHHHHHHHcccCCCCCcchhhHHHHHHHhhhhccc-CCCcccchHHHHHHHHHHHHhccCcceechhHHHHhhccc--
Q 005489 426 NCIDLWVTYISHCIHDYDLQPLLYIIIQIINGMATLF-PGPRYLPLRCKCIEWLNHLSSSSGIFIPVTSLMLDVLEYK-- 502 (694)
Q Consensus 426 ~sL~lWs~Vls~~~~~s~L~pLiYPLvQVi~G~irLi-Pt~ry~PLRfh~ir~L~~Ls~~t~~fIPl~p~LleiL~~~-- 502 (694)
-||=+-+.+|++++ -..|+.+..-++=+.+ +...+ -+-||.|=-+..+|.++.++--...-+ -.|+=++++.+.
T Consensus 535 Palllm~e~L~~~p-~~Sl~diakglfl~~i-vleyvs~SkRyvPEvi~F~~~iL~~a~p~k~~~-~~~~~F~~~~~lse 611 (823)
T KOG2147|consen 535 PALLLMSEALSQSP-IASLQDIAKGLFLANI-VLEYVSESKRYVPEVINFLRGILLLAIPEKSSQ-EAPNPFEILKSLSE 611 (823)
T ss_pred HHHHHHHHHHHhCc-chhHHHHHHHHHHHHH-HHHHHHHHhhccHHHHHHHHHHHHHhccccccc-ccCCCcccCCCcch
Confidence 46667777777542 3456665555442222 22222 468999999999998888874322211 122323333221
Q ss_pred ----cccCCCCCCCCCCcccccccchhhhcchhhHHHHHHHHHHHHHHHHHHhhcCCccccchhHHHHHHHhhhhhccc-
Q 005489 503 ----VSKEVGKPGKDFNFSSAVKLPKHWLKSRNFREDCVFSAIELLSAHFAQWSYHISFPELATIPLIHLRKFQEKSDV- 577 (694)
Q Consensus 503 ----~~K~~~~~~k~~df~~~Lk~~k~~l~s~~yqd~lie~~~eLL~e~la~~S~sIAFPEL~~P~i~~LKrf~K~~k~- 577 (694)
..+.-.....|.-+. +. --+.+.|..++-.|+..+++||-.+..+|.+-.||||+++||...|-.+++.++.
T Consensus 612 lL~l~a~~d~~~l~p~~L~--l~-~~s~~~tp~~~~svL~~~l~li~~~~~iy~~l~af~eI~~pi~~lL~~~l~~e~~p 688 (823)
T KOG2147|consen 612 LLCLPANYDVTKLEPQSLS--LI-FLSSLSTPDLKVSVLRAVLELIEHLVLIYGSLPAFYEIFFPIFLLLLEYLQAESLP 688 (823)
T ss_pred hhccccccccccccccccc--hh-hhcCCCChhHHHHHHHHHHHHHHHHHHHHcccccHHHHHHhHHHHHHHHHhhccCc
Confidence 011111122222222 11 1234566779999999999999999999999999999999999999999887764
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHhhcCCC
Q 005489 578 ESLRRVVKRFIDVVEQNIEFVKKKRDEVA 606 (694)
Q Consensus 578 ~~~~~~lK~LidkIeens~fI~~kR~~v~ 606 (694)
..+...+..++..++....| ++|.++.
T Consensus 689 ~~l~Ekl~~~l~~vek~~~~--~~~kPLa 715 (823)
T KOG2147|consen 689 QELQEKLEDTLALVEKLTGF--AERKPLA 715 (823)
T ss_pred HHHHHHHHHHHHHHHHHhhh--hhcccch
Confidence 46677777777777777663 4454544
No 6
>PF04147 Nop14: Nop14-like family ; InterPro: IPR007276 Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production [].
Probab=97.71 E-value=0.0016 Score=79.06 Aligned_cols=274 Identities=15% Similarity=0.161 Sum_probs=141.2
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHHHhhccccCCCCCCCCCCccccCHHHHHHHHHHHHHHhHHHHHHHhCCcCCCC
Q 005489 167 SAINSWCHLVKEQHNASAFISLLNAYRAACHYGAESTGILGSGSGAPMLDCETFCKILMFVLREADDVFREMLGISSNCK 246 (694)
Q Consensus 167 ~~v~~W~~~l~~~~s~~alr~ll~AFraA~~~~~e~~~~~~~~~ky~I~ds~VFn~vv~~~L~~lp~~l~~~l~~k~~~~ 246 (694)
...++..+.+. ..+..-...+|.-.|.+ |...=..+ .+-+ ...+..+.|+++-.+ -.. .
T Consensus 426 ~s~eel~~lL~-~~~~~~~~~iI~RIrk~-~hpsLa~~-----NK~K------l~~f~~vLlq~i~~l-------a~~-~ 484 (840)
T PF04147_consen 426 SSHEELLELLD-GYSPEDQPTIIQRIRKC-YHPSLAEG-----NKEK------LQVFFGVLLQHILYL-------ASQ-D 484 (840)
T ss_pred CCHHHHHHHHh-cCCHHHHhHHHHHHHHh-CCCCCCcc-----hHHH------HHHHHHHHHHHHHHH-------hcc-c
Confidence 35677776674 56888888999999865 33221111 1111 122223333332221 111 0
Q ss_pred CccccccCCCCcchhhHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHhh-hhhh-hhh----cchHHH-HHHHHHHHHhhc
Q 005489 247 RDTILGLKNNSKWKTVRPLIKSYLRSTLFMLNQATDSEILAFSLNRLR-TSIV-FFA----AFPLLI-RRLIKIAVHLWA 319 (694)
Q Consensus 247 k~~~~~~~~~~kw~kl~~liKsyl~sll~LL~~ltd~~~l~~vL~~l~-~l~p-y~~----~f~kl~-k~llK~lv~lWs 319 (694)
..+.|.-+..++ .||.++.+....-. ......+|..+. .+.+ .+. +||.+. =.|++.+-.||+
T Consensus 485 --------~~~~~~~ld~L~-~~L~~Laq~~p~~~-a~~~r~~L~~~~~~~~~~~l~~~~~~~P~l~~Lvllklv~~lFP 554 (840)
T PF04147_consen 485 --------SPPPFEVLDSLI-PHLYDLAQKYPEEA-AECFREVLKEMQKRFRKGALKPKERSWPSLSDLVLLKLVGTLFP 554 (840)
T ss_pred --------CCcCHHHHHHHH-HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhhhcccccCCCCCChhHHHHHHHHHHhcC
Confidence 023344444433 45555555443211 233334444442 2333 111 256544 467888888999
Q ss_pred CCC--chhHHHHHHHHHHHHhccCcchHHHHHHHHHH-----HHHhhcccCCccchhhhHHHHHHHHHHhcCCcchhhHH
Q 005489 320 TGE--ETVSFHSFLILQDVASGFSSDCFDLCLIKMYK-----AFIGHCKFAEPALFKHLQFLRNSFVELCSQDLLRSSNK 392 (694)
Q Consensus 320 t~~--e~vrv~AFl~Lr~la~~~~~~~le~~LK~~Y~-----ayv~n~k~t~~~tlp~Infm~N~~~EL~~ld~~~sYq~ 392 (694)
|++ ..|---|+++|.++-...+-..+..+..++|+ .|++-||..-| ..|||+.+++.-+..-.... ...
T Consensus 555 TSD~~HpVVTPalllm~~~L~q~~v~s~~di~~GlfL~~l~l~y~~~SKR~vP---EvinFL~~~L~~~~p~~~~~-~~~ 630 (840)
T PF04147_consen 555 TSDFRHPVVTPALLLMSEYLSQCRVRSLRDIASGLFLCTLLLEYQSLSKRFVP---EVINFLLGLLLLLVPEKSKK-SPS 630 (840)
T ss_pred cccccCcchhHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHhcccCh---HHHHHHHHHHHHhCCCcccc-cCC
Confidence 998 45666788888887777776677777777774 67777755433 46999999998775433322 223
Q ss_pred HHHHHHHHHHHHHHhhhhhhhhhhhhcccchhHhHHHHHHHHHcccCCCCCcc-hhhHHHHHHHhhhhcccCCCcccchH
Q 005489 393 AKVSINNLSRILQLGLQTKKKEAVKKICSWQYANCIDLWVTYISHCIHDYDLQ-PLLYIIIQIINGMATLFPGPRYLPLR 471 (694)
Q Consensus 393 AF~YIRQLAihLRna~~~k~Ke~~k~VYNWQfi~sL~lWs~Vls~~~~~s~L~-pLiYPLvQVi~G~irLiPt~ry~PLR 471 (694)
+|.-++...-.|+ + +.+.....+-.+. |.|+.-.-........++ .|++-+++++-.++.+.-+.-=||--
T Consensus 631 ~~~~~~~~~~~L~--l--~~~~~~~~~~~~~----l~l~~l~~~~~~~~~~~k~~lL~~~l~ll~~~~~l~~~~~af~ei 702 (840)
T PF04147_consen 631 PFFPSKKPSSSLR--L--SSSSKSKSSEPKK----LSLSDLFSSSEEDSDQFKLSLLATALRLLDRFADLYSSLPAFPEI 702 (840)
T ss_pred CCCCCCCccccee--e--cccccccccCccc----CChhhhcccccccchhHHHHHHHHHHHHHHHHHHHHccCcCHHHH
Confidence 3322222222222 1 1111222222222 444444411111223344 48888888888888886554444544
Q ss_pred HHHHHH-HHHHHh
Q 005489 472 CKCIEW-LNHLSS 483 (694)
Q Consensus 472 fh~ir~-L~~Ls~ 483 (694)
|.-+.. |.+|..
T Consensus 703 f~p~~~lL~~l~~ 715 (840)
T PF04147_consen 703 FEPFLSLLSHLDS 715 (840)
T ss_pred HHHHHHHHHHHHh
Confidence 544444 444444
No 7
>KOG2256 consensus Predicted protein involved in nuclear export of pre-ribosomes [Translation, ribosomal structure and biogenesis]
Probab=96.94 E-value=0.039 Score=64.17 Aligned_cols=38 Identities=29% Similarity=0.389 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHhhhcCChhHhHhhhhcCccccCCCC
Q 005489 95 EILLELENKKKKLSRLKAKDPGFSKFLESHDKGLKSFRN 133 (694)
Q Consensus 95 ~~~~e~~~hk~~L~~LkekDPEFyKyLqenD~~LL~F~~ 133 (694)
+.-...+++-++|-++++ |||||+||+++|.+|++|.+
T Consensus 81 ~f~~~~~~~dk~ll~~~~-D~d~d~~lE~~d~Dled~~~ 118 (661)
T KOG2256|consen 81 EFFKFLKEEDKELLNFKE-DSDDDEDLEEPDEDLEDFSE 118 (661)
T ss_pred HHHHHHHhhhHHHhCCCC-CccchhhccCCccccccccc
Confidence 333344666689999999 99999999999999999944
No 8
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=95.48 E-value=0.01 Score=70.47 Aligned_cols=12 Identities=33% Similarity=0.296 Sum_probs=7.6
Q ss_pred cCChhHhHhhhh
Q 005489 112 AKDPGFSKFLES 123 (694)
Q Consensus 112 ekDPEFyKyLqe 123 (694)
.-||+|-.-|+|
T Consensus 1466 ~~D~df~~elee 1477 (1516)
T KOG1832|consen 1466 LIDGDFMEELEE 1477 (1516)
T ss_pred CCChHHHHHHhh
Confidence 458888774443
No 9
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=93.60 E-value=6.5 Score=46.92 Aligned_cols=36 Identities=14% Similarity=0.250 Sum_probs=23.9
Q ss_pred hhhhHHHHHHHHHHhcCCcch-hhHHH--HHHHHHHHHH
Q 005489 368 FKHLQFLRNSFVELCSQDLLR-SSNKA--KVSINNLSRI 403 (694)
Q Consensus 368 lp~Infm~N~~~EL~~ld~~~-sYq~A--F~YIRQLAih 403 (694)
.|.++||-.++.-|=.-++.. .|--+ +.-.|++-..
T Consensus 503 ~pR~rFmleti~aLKnN~~kki~~~d~e~ve~lrk~~k~ 541 (822)
T KOG2141|consen 503 SPRLRFMLETISALKNNKLKKIPYADPERVENLRKLKKA 541 (822)
T ss_pred chHHHHHHHHHHHHhcCCCcCCCcCChHHHHHHHHHHHH
Confidence 799999999999887765532 23222 6667755443
No 10
>PF03224 V-ATPase_H_N: V-ATPase subunit H; InterPro: IPR004908 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents subunit H (also known as Vma13p) found in the V1 complex of V-ATPases. This subunit has a regulatory function, being responsible for activating ATPase activity and coupling ATPase activity to proton flow []. The yeast enzyme contains five motifs similar to the HEAT or Armadillo repeats seen in the importins, and can be divided into two distinct domains: a large N-terminal domain consisting of stacked alpha helices, and a smaller C-terminal alpha-helical domain with a similar superhelical topology to an armadillo repeat []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=93.15 E-value=3 Score=44.89 Aligned_cols=187 Identities=11% Similarity=0.100 Sum_probs=95.4
Q ss_pred HHHHHHHHHHHHHhhcC-CcHHHHHHHHHHhhhhhhhhhcchHHHHH--------HHHHHHHhhcCCCchhHHHHHHHHH
Q 005489 264 PLIKSYLRSTLFMLNQA-TDSEILAFSLNRLRTSIVFFAAFPLLIRR--------LIKIAVHLWATGEETVSFHSFLILQ 334 (694)
Q Consensus 264 ~liKsyl~sll~LL~~l-td~~~l~~vL~~l~~l~py~~~f~kl~k~--------llK~lv~lWst~~e~vrv~AFl~Lr 334 (694)
.-...|..-+++||+.+ ++++++.++|.-+..++.---.+-.+... ....++++-.+++.-++..|..++-
T Consensus 51 ~~~~~~~~~~l~lL~~~~~~~d~v~yvL~li~dll~~~~~~~~~~~~~~~~~~~~~~~~fl~ll~~~D~~i~~~a~~iLt 130 (312)
T PF03224_consen 51 EDGDQYASLFLNLLNKLSSNDDTVQYVLTLIDDLLSDDPSRVELFLELAKQDDSDPYSPFLKLLDRNDSFIQLKAAFILT 130 (312)
T ss_dssp -----------HHHHHH---HHHHHHHHHHHHHHHH-SSSSHHHHHHHHH-TTH--HHHHHHH-S-SSHHHHHHHHHHHH
T ss_pred hchhhHHHHHHHHHHHccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHhcccccchhHHHHHHHhcCCCHHHHHHHHHHHH
Confidence 33446777778999999 99999999999888754333333332222 3445555555666668877777777
Q ss_pred HHHhccCcchHH---HHHHHHHHHHHhhcccCCccchhhhHHHHHHHHHHhcCCcchhhHHHH---HHHHHHHHHHHHhh
Q 005489 335 DVASGFSSDCFD---LCLIKMYKAFIGHCKFAEPALFKHLQFLRNSFVELCSQDLLRSSNKAK---VSINNLSRILQLGL 408 (694)
Q Consensus 335 ~la~~~~~~~le---~~LK~~Y~ayv~n~k~t~~~tlp~Infm~N~~~EL~~ld~~~sYq~AF---~YIRQLAihLRna~ 408 (694)
.++...+...-. ..| ..|..++++ ..+..+-+.+...-.|+.+|... ..|+..| ..+..|.-.||...
T Consensus 131 ~Ll~~~~~~~~~~~~~~l-~~ll~~L~~--~l~~~~~~~~~~av~~L~~LL~~---~~~R~~f~~~~~v~~l~~iL~~~~ 204 (312)
T PF03224_consen 131 SLLSQGPKRSEKLVKEAL-PKLLQWLSS--QLSSSDSELQYIAVQCLQNLLRS---KEYRQVFWKSNGVSPLFDILRKQA 204 (312)
T ss_dssp HHHTSTTT--HHHHHHHH-HHHHHHHH---TT-HHHH---HHHHHHHHHHHTS---HHHHHHHHTHHHHHHHHHHHH---
T ss_pred HHHHcCCccccchHHHHH-HHHHHHHHH--hhcCCCcchHHHHHHHHHHHhCc---chhHHHHHhcCcHHHHHHHHHhhc
Confidence 777765554443 444 566666766 44445556667778888888755 5677777 46666777776444
Q ss_pred hhhhhhhhhhcccchhHhHHHHHHHHHcccCCCCCc--chhhHHHHHHHhhhhcc
Q 005489 409 QTKKKEAVKKICSWQYANCIDLWVTYISHCIHDYDL--QPLLYIIIQIINGMATL 461 (694)
Q Consensus 409 ~~k~Ke~~k~VYNWQfi~sL~lWs~Vls~~~~~s~L--~pLiYPLvQVi~G~irL 461 (694)
..++.-.+|..| --++=+|.--......+ .+ +.+|..|++|+-.+.|-
T Consensus 205 ~~~~~~~~Ql~Y----~~ll~lWlLSF~~~~~~-~~~~~~~i~~L~~i~~~~~KE 254 (312)
T PF03224_consen 205 TNSNSSGIQLQY----QALLCLWLLSFEPEIAE-ELNKKYLIPLLADILKDSIKE 254 (312)
T ss_dssp ------HHHHHH----HHHHHHHHHTTSHHHHH-HHHTTSHHHHHHHHHHH--SH
T ss_pred ccCCCCchhHHH----HHHHHHHHHhcCHHHHH-HHhccchHHHHHHHHHhcccc
Confidence 444555666654 45555685433321100 01 12788888877766554
No 11
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=90.17 E-value=0.37 Score=58.49 Aligned_cols=13 Identities=8% Similarity=0.028 Sum_probs=7.0
Q ss_pred hHHHHHHHHHHHH
Q 005489 182 ASAFISLLNAYRA 194 (694)
Q Consensus 182 ~~alr~ll~AFra 194 (694)
.+.-+..+..||.
T Consensus 762 ~~~~~~~~~~Fk~ 774 (784)
T PF04931_consen 762 AKEAKENVIHFKN 774 (784)
T ss_pred HHHHHHHHHHHHH
Confidence 4445555555664
No 12
>KOG2147 consensus Nucleolar protein involved in 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=89.10 E-value=13 Score=44.68 Aligned_cols=38 Identities=13% Similarity=0.209 Sum_probs=21.7
Q ss_pred hhcCCC--chhHHHHHHHHHHHHhccCcchHHHHHHHHHH
Q 005489 317 LWATGE--ETVSFHSFLILQDVASGFSSDCFDLCLIKMYK 354 (694)
Q Consensus 317 lWst~~--e~vrv~AFl~Lr~la~~~~~~~le~~LK~~Y~ 354 (694)
|++|++ .-|=.-|++++...-...+-..+..+-|++|.
T Consensus 522 LFptSDf~HpVVtPalllm~e~L~~~p~~Sl~diakglfl 561 (823)
T KOG2147|consen 522 LFPTSDFRHPVVTPALLLMSEALSQSPIASLQDIAKGLFL 561 (823)
T ss_pred cccccccccccccHHHHHHHHHHHhCcchhHHHHHHHHHH
Confidence 334444 33555677777766555555556666666554
No 13
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=87.82 E-value=0.87 Score=54.97 Aligned_cols=6 Identities=17% Similarity=0.611 Sum_probs=2.4
Q ss_pred ccCCCC
Q 005489 128 LKSFRN 133 (694)
Q Consensus 128 LL~F~~ 133 (694)
+=+|+.
T Consensus 1497 ~~d~~s 1502 (1516)
T KOG1832|consen 1497 MQDFMS 1502 (1516)
T ss_pred hhcccC
Confidence 334443
No 14
>cd00256 VATPase_H VATPase_H, regulatory vacuolar ATP synthase subunit H (Vma13p); activation component of the peripheral V1 complex of V-ATPase, a heteromultimeric enzyme which uses ATP to actively transport protons into organelles and extracellular compartments. The topology is that of a superhelical spiral, in part the geometry is similar to superhelices composed of armadillo repeat motifs, as found in importins for example.
Probab=87.76 E-value=28 Score=39.82 Aligned_cols=152 Identities=15% Similarity=0.174 Sum_probs=91.9
Q ss_pred HHHHHHHHHHhhcCCcHHHHHHHHHHhhhhhh-------hhhcc----hHHHHHHHHHHHHhhcCCCchhHHHHHHHHHH
Q 005489 267 KSYLRSTLFMLNQATDSEILAFSLNRLRTSIV-------FFAAF----PLLIRRLIKIAVHLWATGEETVSFHSFLILQD 335 (694)
Q Consensus 267 Ksyl~sll~LL~~ltd~~~l~~vL~~l~~l~p-------y~~~f----~kl~k~llK~lv~lWst~~e~vrv~AFl~Lr~ 335 (694)
-.|...++++|+.++.++++..+|.-+..++. +|.-. +.....|++ +-.+.+.-+...||-+|-.
T Consensus 52 ~~y~~~~l~ll~~~~~~d~vqyvL~Li~dll~~~~~~~~~f~~~~~~~~~~~~~fl~----lL~~~d~~i~~~a~~iLt~ 127 (429)
T cd00256 52 GQYVKTFVNLLSQIDKDDTVRYVLTLIDDMLQEDDTRVKLFHDDALLKKKTWEPFFN----LLNRQDQFIVHMSFSILAK 127 (429)
T ss_pred HHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHhchHHHHHHHHHhhccccchHHHHH----HHcCCchhHHHHHHHHHHH
Confidence 57888889999999999999999988876543 33322 223344444 2234444578788877777
Q ss_pred HHhccCcchHHHHHHHHHHHHHhhcccCCccchhhhHHHHHHHHHHhcCCcchhhHHHHH---HHHHHHHHHHHhhhhhh
Q 005489 336 VASGFSSDCFDLCLIKMYKAFIGHCKFAEPALFKHLQFLRNSFVELCSQDLLRSSNKAKV---SINNLSRILQLGLQTKK 412 (694)
Q Consensus 336 la~~~~~~~le~~LK~~Y~ayv~n~k~t~~~tlp~Infm~N~~~EL~~ld~~~sYq~AF~---YIRQLAihLRna~~~k~ 412 (694)
++...+.......+ ..|..++.+. ..+++....+.+--+|+.+|...+ .|+..|. .+.-|.-.||++.
T Consensus 128 l~~~~~~~~~~~~l-~~~~~~l~~~-l~~~~~~~~~~~~v~~L~~LL~~~---~~R~~f~~~~~v~~L~~~L~~~~---- 198 (429)
T cd00256 128 LACFGLAKMEGSDL-DYYFNWLKEQ-LNNITNNDYVQTAARCLQMLLRVD---EYRFAFVLADGVPTLVKLLSNAT---- 198 (429)
T ss_pred HHhcCccccchhHH-HHHHHHHHHH-hhccCCcchHHHHHHHHHHHhCCc---hHHHHHHHccCHHHHHHHHhhcc----
Confidence 76544332222222 2344444422 222344566777778999998875 4666665 4555666666543
Q ss_pred hhhhhhcccchhHhHHHHHHHHHc
Q 005489 413 KEAVKKICSWQYANCIDLWVTYIS 436 (694)
Q Consensus 413 Ke~~k~VYNWQfi~sL~lWs~Vls 436 (694)
-.+|. ||--++=+|.--..
T Consensus 199 -~~~Ql----~Y~~ll~lWlLSF~ 217 (429)
T cd00256 199 -LGFQL----QYQSIFCIWLLTFN 217 (429)
T ss_pred -ccHHH----HHHHHHHHHHHhcc
Confidence 13333 56677778976544
No 15
>PF03378 CAS_CSE1: CAS/CSE protein, C-terminus; InterPro: IPR005043 Mammalian cellular apoptosis susceptibility (CAS) proteins and the yeast chromosome-segregation protein, CSE1 are homologous []. CAS is involved in both cellular apoptosis and proliferation [, ]. Apoptosis is inhibited in CAS-depleted cells, while the expression of CAS correlates to the degree of cellular proliferation. Like CSE1, it is essential for the mitotic checkpoint in the cell cycle (CAS depletion blocks the cell in the G2 phase), and has been shown to be associated with the microtubule network and the mitotic spindle [], as is the protein MEK, which is thought to regulate the intracellular localization (predominantly nuclear vs. predominantly cytosolic) of CAS. In the nucleus, CAS acts as a nuclear transport factor in the importin pathway []. The importin pathway mediates the nuclear transport of several proteins that are necessary for mitosis and further progression. CAS is therefore thought to affect the cell cycle through its effect on the nuclear transport of these proteins []. Since apoptosis also requires the nuclear import of several proteins (such as P53 and transcription factors), it has been suggested that CAS also enables apoptosis by facilitating the nuclear import of at least a subset of these essential proteins []. This entry represents the C-terminal portion of these proteins. Structural studies of the yeast CSE1 protein indicate that this domain binds to both the transport-orchestrating protein RanGTP and the cargo molecule that is being exported [].; GO: 0005515 protein binding; PDB: 1Z3H_B 1WA5_C.
Probab=80.86 E-value=15 Score=41.97 Aligned_cols=213 Identities=10% Similarity=0.084 Sum_probs=125.3
Q ss_pred cchHHHHHHHHHHHHHhhcccCCccchhhhHHHHHHHHHHhcCCcchhhHHHHHHHHHHHHHHHHhhhhhhhhhhhhccc
Q 005489 342 SDCFDLCLIKMYKAFIGHCKFAEPALFKHLQFLRNSFVELCSQDLLRSSNKAKVSINNLSRILQLGLQTKKKEAVKKICS 421 (694)
Q Consensus 342 ~~~le~~LK~~Y~ayv~n~k~t~~~tlp~Infm~N~~~EL~~ld~~~sYq~AF~YIRQLAihLRna~~~k~Ke~~k~VYN 421 (694)
.++.+.+|...+..+-+... .-=.|...|+.-++.+-.+..-.++-.-+.+|+-+|....++.++-.| |
T Consensus 21 ~p~~~~ll~~Lf~~i~~~~s-------~ENeylMk~iMRvl~~~~e~~~p~~~~il~~L~~il~~v~kNPsnP~F----n 89 (435)
T PF03378_consen 21 QPFAQQLLQNLFALIEKPGS-------AENEYLMKCIMRVLSVLQEDILPIAVEILQHLTAILKEVSKNPSNPRF----N 89 (435)
T ss_dssp TCCHHHHHHHHHHHHHTT-S-------TC-HHHHHHHHHHHHHSTTTTGGGHHHHHHHHHHHHHHHHTS---HHH----H
T ss_pred hhhHHHHHHHHHHHHhcCCC-------ccchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhCCCCcch----h
Confidence 35566666666666544332 223577888888888766666777889999999999877776543322 2
Q ss_pred chhHhHHHHHHHHHcccCC--CCCcchhhHHHHHHHhhhhcccCCCcccchHHHHHHHHHHHHh---ccCcceechhHHH
Q 005489 422 WQYANCIDLWVTYISHCIH--DYDLQPLLYIIIQIINGMATLFPGPRYLPLRCKCIEWLNHLSS---SSGIFIPVTSLML 496 (694)
Q Consensus 422 WQfi~sL~lWs~Vls~~~~--~s~L~pLiYPLvQVi~G~irLiPt~ry~PLRfh~ir~L~~Ls~---~t~~fIPl~p~Ll 496 (694)
---..||-.-.+..+.... -..+.+.++|+.|.|+. ---.-|+|..|+++..|+.+.. -...|..++|.|+
T Consensus 90 HylFEsi~~lir~~~~~~~~~v~~~E~~L~P~f~~ILq----~dV~EF~PYvfQIla~Lle~~~~~~~p~~y~~L~~~Ll 165 (435)
T PF03378_consen 90 HYLFESIGALIRFVCEADPEAVSQFEEALFPPFQEILQ----QDVQEFIPYVFQILAQLLELRPSSPLPDAYKQLFPPLL 165 (435)
T ss_dssp HHHHHHHHHHHHHS-GGGHH---HHHHHHHHHHHHHHH----TT-TTTHHHHHHHHHHHHHHSS--S--TTTGGGHHHHT
T ss_pred hhHHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHcCCCCCCcHHHHHHHHHHc
Confidence 1222344444554443211 12578888999888875 1235999999999999999987 3368888888888
Q ss_pred Hhhccccc--------------cCCCCC-CCCCCcccccccchhhhcchhhHHHHHHHHHHHHHHHHHHhhcCCccccch
Q 005489 497 DVLEYKVS--------------KEVGKP-GKDFNFSSAVKLPKHWLKSRNFREDCVFSAIELLSAHFAQWSYHISFPELA 561 (694)
Q Consensus 497 eiL~~~~~--------------K~~~~~-~k~~df~~~Lk~~k~~l~s~~yqd~lie~~~eLL~e~la~~S~sIAFPEL~ 561 (694)
..--+... ++.+.. ..+=.+...|-+=+..+.++. .|.-...+++-+.+|+-.-.....+|.++
T Consensus 166 ~p~lWe~~gniPalvrLL~a~i~k~~~~i~~~~~l~~iLgvFQkLi~sk~-~D~~gF~LL~~iv~~~p~~~l~~yl~~I~ 244 (435)
T PF03378_consen 166 SPALWERRGNIPALVRLLQAYIKKDPSFIVANNQLEPILGVFQKLIASKA-NDHYGFDLLESIVENLPPEALEPYLKQIF 244 (435)
T ss_dssp SGGGGGSTTTHHHHHHHHHHHHHHHGGG----S-CHHHHHHHHHHHT-TT-CHHHHHHHHHHHHHHS-HHHHGGGHHHHH
T ss_pred CcchhccCCCcCcHHHHHHHHHHhCchhhcchhhHHHHHHHHHHHHCCCC-cchHHHHHHHHHHHHCCHHHHHHHHHHHH
Confidence 65543210 111110 111234455555556666665 23333456666777776666666777777
Q ss_pred hHHHHHHHh
Q 005489 562 TIPLIHLRK 570 (694)
Q Consensus 562 ~P~i~~LKr 570 (694)
...+.+|.+
T Consensus 245 ~lll~RLq~ 253 (435)
T PF03378_consen 245 TLLLTRLQS 253 (435)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHhh
Confidence 666666653
No 16
>KOG0212 consensus Uncharacterized conserved protein [Function unknown]
Probab=79.39 E-value=34 Score=40.28 Aligned_cols=93 Identities=13% Similarity=0.146 Sum_probs=61.0
Q ss_pred HHHHHHHHHhhcCCCchhHHHHHHHHHHHHhccC-------cchHHHHHHHHH----------HHHHh-hcccCCccchh
Q 005489 308 RRLIKIAVHLWATGEETVSFHSFLILQDVASGFS-------SDCFDLCLIKMY----------KAFIG-HCKFAEPALFK 369 (694)
Q Consensus 308 k~llK~lv~lWst~~e~vrv~AFl~Lr~la~~~~-------~~~le~~LK~~Y----------~ayv~-n~k~t~~~tlp 369 (694)
+.++..+....+...+.+|+++.--|+.+-...| .+++.+.||+.= ...+. -|..- +-|
T Consensus 335 ~~ii~vl~~~l~~~~~~tri~~L~Wi~~l~~~~p~ql~~h~~~if~tLL~tLsd~sd~vvl~~L~lla~i~~s~---~~~ 411 (675)
T KOG0212|consen 335 GSIIEVLTKYLSDDREETRIAVLNWIILLYHKAPGQLLVHNDSIFLTLLKTLSDRSDEVVLLALSLLASICSSS---NSP 411 (675)
T ss_pred HHHHHHHHHHhhcchHHHHHHHHHHHHHHHhhCcchhhhhccHHHHHHHHhhcCchhHHHHHHHHHHHHHhcCc---ccc
Confidence 5677777777788778899998888887776554 334444444321 01111 12221 112
Q ss_pred h-hHHHHHHHHHHhcCCcchhhHHHHHHHHHHHHHH
Q 005489 370 H-LQFLRNSFVELCSQDLLRSSNKAKVSINNLSRIL 404 (694)
Q Consensus 370 ~-Infm~N~~~EL~~ld~~~sYq~AF~YIRQLAihL 404 (694)
+ +.| -+++.|||.-|+..-|..|=.-||||...|
T Consensus 412 ~~~~f-l~sLL~~f~e~~~~l~~Rg~lIIRqlC~lL 446 (675)
T KOG0212|consen 412 NLRKF-LLSLLEMFKEDTKLLEVRGNLIIRQLCLLL 446 (675)
T ss_pred cHHHH-HHHHHHHHhhhhHHHHhhhhHHHHHHHHHh
Confidence 2 444 478999999999999999999999986554
No 17
>KOG2759 consensus Vacuolar H+-ATPase V1 sector, subunit H [Energy production and conversion]
Probab=78.27 E-value=14 Score=41.94 Aligned_cols=156 Identities=17% Similarity=0.210 Sum_probs=93.1
Q ss_pred HHHHHHHHHhhcCCcHHHHHHHHHHhhhhhhhhhcchHHHHHHHHHHHHh-hcC-----CC-chhHHH-HHHHHHHHHhc
Q 005489 268 SYLRSTLFMLNQATDSEILAFSLNRLRTSIVFFAAFPLLIRRLIKIAVHL-WAT-----GE-ETVSFH-SFLILQDVASG 339 (694)
Q Consensus 268 syl~sll~LL~~ltd~~~l~~vL~~l~~l~py~~~f~kl~k~llK~lv~l-Wst-----~~-e~vrv~-AFl~Lr~la~~ 339 (694)
.|...+++||+++..++...++|.-+..++.=.-..-.+.+.+--..-+. |.. .. ++.-+. +|-+|-.++..
T Consensus 65 ~~v~~fi~LlS~~~kdd~v~yvL~li~DmLs~d~sr~~lf~~~a~~~k~~~~~~fl~ll~r~d~~iv~~~~~Ils~la~~ 144 (442)
T KOG2759|consen 65 QYVKTFINLLSHIDKDDTVQYVLTLIDDMLSEDRSRVDLFHDYAHKLKRTEWLSFLNLLNRQDTFIVEMSFRILSKLACF 144 (442)
T ss_pred HHHHHHHHHhchhhhHHHHHHHHHHHHHHHhhCchHHHHHHHHHHhhhccchHHHHHHHhcCChHHHHHHHHHHHHHHHh
Confidence 67888999999999999988888766654433333333333332222222 332 12 233333 56666666554
Q ss_pred cCcchHHHHHHHHHHHHHhhcccCCccchhhhHHHHHHHHHHhcCCcchhhHHHHHHHH--HHHHHHHHhhhhhhhhhhh
Q 005489 340 FSSDCFDLCLIKMYKAFIGHCKFAEPALFKHLQFLRNSFVELCSQDLLRSSNKAKVSIN--NLSRILQLGLQTKKKEAVK 417 (694)
Q Consensus 340 ~~~~~le~~LK~~Y~ayv~n~k~t~~~tlp~Infm~N~~~EL~~ld~~~sYq~AF~YIR--QLAihLRna~~~k~Ke~~k 417 (694)
+ ..-++..-...|..|++..-.- .++...|+|+.+|+-.|+-++ .|++||+=+- |+++++= . .++-+||
T Consensus 145 g-~~~~~~~e~~~~~~~l~~~l~~-~~~~~~~~~~~rcLQ~ll~~~---eyR~~~v~adg~~~l~~~l--~--s~~~~~Q 215 (442)
T KOG2759|consen 145 G-NCKMELSELDVYKGFLKEQLQS-STNNDYIQFAARCLQTLLRVD---EYRYAFVIADGVSLLIRIL--A--STKCGFQ 215 (442)
T ss_pred c-cccccchHHHHHHHHHHHHHhc-cCCCchHHHHHHHHHHHhcCc---chhheeeecCcchhhHHHH--h--ccCcchh
Confidence 3 4445555567788888763221 356678999999999999986 5999997532 2222211 1 3345555
Q ss_pred hcccchhHhHHHHHHHHHc
Q 005489 418 KICSWQYANCIDLWVTYIS 436 (694)
Q Consensus 418 ~VYNWQfi~sL~lWs~Vls 436 (694)
- ||-.++=+|.--..
T Consensus 216 l----QYqsifciWlLtFn 230 (442)
T KOG2759|consen 216 L----QYQSIFCIWLLTFN 230 (442)
T ss_pred H----HHHHHHHHHHhhcC
Confidence 4 56666667865433
No 18
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=77.14 E-value=2.7 Score=51.27 Aligned_cols=12 Identities=8% Similarity=0.047 Sum_probs=5.2
Q ss_pred HHHHHHHHHHHH
Q 005489 97 LLELENKKKKLS 108 (694)
Q Consensus 97 ~~e~~~hk~~L~ 108 (694)
..++.+.-++|+
T Consensus 731 De~m~~lD~~La 742 (784)
T PF04931_consen 731 DEQMMALDEQLA 742 (784)
T ss_pred HHHHHHHHHHHH
Confidence 334444444444
No 19
>KOG2153 consensus Protein involved in the nuclear export of pre-ribosomes [Translation, ribosomal structure and biogenesis; Intracellular trafficking, secretion, and vesicular transport]
Probab=77.06 E-value=88 Score=37.47 Aligned_cols=70 Identities=17% Similarity=0.226 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHhhcCCc--------HHHHHHHHHHhhhhhhhhhcchHHHHHHHHHHHHhhcCCCchhHHHHHHHHHHHH
Q 005489 266 IKSYLRSTLFMLNQATD--------SEILAFSLNRLRTSIVFFAAFPLLIRRLIKIAVHLWATGEETVSFHSFLILQDVA 337 (694)
Q Consensus 266 iKsyl~sll~LL~~ltd--------~~~l~~vL~~l~~l~py~~~f~kl~k~llK~lv~lWst~~e~vrv~AFl~Lr~la 337 (694)
-++|+..+.+++.+... ..+..-+++.|...+|+| .+.-.+++.++++-+.....++..+..+++.++
T Consensus 277 Yk~ylQkLe~~vK~~~~~~~~~v~l~~vav~c~~~Ll~a~pHF----N~~~kiv~l~vr~in~~~~~~s~~~i~t~k~lf 352 (704)
T KOG2153|consen 277 YKSYLQKLEQFVKDLSLRTPQQVSLAQVAVQCACELLEAVPHF----NLRQKIVKLVVRLINDPGRPVSSGCIQTIKTLF 352 (704)
T ss_pred HHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHHHHHHhhhhc----cHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHh
Confidence 35677778888877722 123333444555545444 445566777777777777778888888888887
Q ss_pred hc
Q 005489 338 SG 339 (694)
Q Consensus 338 ~~ 339 (694)
..
T Consensus 353 ~~ 354 (704)
T KOG2153|consen 353 EN 354 (704)
T ss_pred cC
Confidence 64
No 20
>KOG1992 consensus Nuclear export receptor CSE1/CAS (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=72.01 E-value=86 Score=38.58 Aligned_cols=181 Identities=14% Similarity=0.197 Sum_probs=116.8
Q ss_pred hhhhhhcchHH-----HHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhcc------------CcchHHHHHHHHHHHHHh
Q 005489 296 SIVFFAAFPLL-----IRRLIKIAVHLWATGEETVSFHSFLILQDVASGF------------SSDCFDLCLIKMYKAFIG 358 (694)
Q Consensus 296 l~py~~~f~kl-----~k~llK~lv~lWst~~e~vrv~AFl~Lr~la~~~------------~~~~le~~LK~~Y~ayv~ 358 (694)
.+-|+..||+. +-.++..+++...++.-.|--.|=.+|-++-... -.++.+..|...+.++-
T Consensus 480 aIKy~~~FR~ql~~~~lm~~~p~li~~L~a~s~vvhsYAA~aiEkil~vre~~~~~if~~~~iap~~~~ll~nLf~a~s- 558 (960)
T KOG1992|consen 480 AIKYIYTFRNQLGKEHLMALLPRLIRFLEAESRVVHSYAAIAIEKLLTVRENSNAKIFGAEDIAPFVEILLTNLFKALS- 558 (960)
T ss_pred ccceeeeecccCChHHHHHHHHHHHHhccCcchHHHHHHHHHHHhccccccCccccccchhhcchHHHHHHHHHHHhcc-
Confidence 45677778763 4667778888877766665544444444433321 14566777777775532
Q ss_pred hcccCCccchhhhHHHHHHHHHHhcCCcchhhHHHHHHHHHHHHHHHHhhhhhhhhhhhhcccchhHhHH-HHHHHHHcc
Q 005489 359 HCKFAEPALFKHLQFLRNSFVELCSQDLLRSSNKAKVSINNLSRILQLGLQTKKKEAVKKICSWQYANCI-DLWVTYISH 437 (694)
Q Consensus 359 n~k~t~~~tlp~Infm~N~~~EL~~ld~~~sYq~AF~YIRQLAihLRna~~~k~Ke~~k~VYNWQfi~sL-~lWs~Vls~ 437 (694)
.|.. .-=.|...|+--++++++...-.||=.-+|||+-.+-..- |+.-|=||-|-| +--+-+|-.
T Consensus 559 -----~p~~-~EneylmKaImRii~i~~~~i~p~~~~~l~~Lteiv~~v~--------KNPs~P~fnHYLFEsi~~li~~ 624 (960)
T KOG1992|consen 559 -----LPGK-AENEYLMKAIMRIISILQSAIIPHAPELLRQLTEIVEEVS--------KNPSNPQFNHYLFESIGLLIRK 624 (960)
T ss_pred -----CCcc-cccHHHHHHHHHHHHhCHHhhhhhhhHHHHHHHHHHHHHh--------cCCCCchhHHHHHHHHHHHHHH
Confidence 2222 2234778888999999999999999999999998886444 444566777764 222333332
Q ss_pred cCC-C----CCcchhhHHHHHHHhhhhcccCC-CcccchHHHHHHHHHHHHhcc--CcceechhHHH
Q 005489 438 CIH-D----YDLQPLLYIIIQIINGMATLFPG-PRYLPLRCKCIEWLNHLSSSS--GIFIPVTSLML 496 (694)
Q Consensus 438 ~~~-~----s~L~pLiYPLvQVi~G~irLiPt-~ry~PLRfh~ir~L~~Ls~~t--~~fIPl~p~Ll 496 (694)
.|+ . +.+-.=+.|+.|.|+. .- .-|+|.-|+++-.|+..+..| .-|-|++|+|+
T Consensus 625 t~~~~~~~vs~~e~aL~p~fq~Il~-----eDI~EfiPYvfQlla~lve~~~~~ip~~~~~l~~~lL 686 (960)
T KOG1992|consen 625 TCKANPSAVSSLEEALFPVFQTILS-----EDIQEFIPYVFQLLAVLVEHSSGTIPDSYSPLFPPLL 686 (960)
T ss_pred HhccCchHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHhc
Confidence 332 1 2355556788888763 22 479999999999999888762 45666666554
No 21
>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=68.56 E-value=18 Score=41.08 Aligned_cols=70 Identities=17% Similarity=0.111 Sum_probs=52.6
Q ss_pred CcHHHHHHHHHHhhhhhhhhhcchHHHHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhccCcchHHHHHHHHHHH
Q 005489 281 TDSEILAFSLNRLRTSIVFFAAFPLLIRRLIKIAVHLWATGEETVSFHSFLILQDVASGFSSDCFDLCLIKMYKA 355 (694)
Q Consensus 281 td~~~l~~vL~~l~~l~py~~~f~kl~k~llK~lv~lWst~~e~vrv~AFl~Lr~la~~~~~~~le~~LK~~Y~a 355 (694)
+++-+...+|+.+.. ++.+.+...++..+.++-+++...||-.|.+++.++....|..+-..++..++..
T Consensus 91 ~n~~~~~lAL~~l~~-----i~~~~~~~~l~~~v~~ll~~~~~~VRk~A~~~l~~i~~~~p~~~~~~~~~~l~~l 160 (526)
T PF01602_consen 91 PNPYIRGLALRTLSN-----IRTPEMAEPLIPDVIKLLSDPSPYVRKKAALALLKIYRKDPDLVEDELIPKLKQL 160 (526)
T ss_dssp SSHHHHHHHHHHHHH-----H-SHHHHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCHCCHHGGHHHHHHHH
T ss_pred CCHHHHHHHHhhhhh-----hcccchhhHHHHHHHHHhcCCchHHHHHHHHHHHHHhccCHHHHHHHHHHHHhhh
Confidence 445677888888877 4478889999999999999888899999999999999886554322244444444
No 22
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=66.59 E-value=40 Score=30.54 Aligned_cols=63 Identities=5% Similarity=0.136 Sum_probs=51.3
Q ss_pred chHHHHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHhhcccCCcc
Q 005489 303 FPLLIRRLIKIAVHLWATGEETVSFHSFLILQDVASGFSSDCFDLCLIKMYKAFIGHCKFAEPA 366 (694)
Q Consensus 303 f~kl~k~llK~lv~lWst~~e~vrv~AFl~Lr~la~~~~~~~le~~LK~~Y~ayv~n~k~t~~~ 366 (694)
.......+++-++...+..+..||..|+-.|.+|+...+..++. .+-.+|-+..+-+.-+.++
T Consensus 21 ~~~~l~~Il~pVL~~~~D~d~rVRy~AcEaL~ni~k~~~~~~l~-~f~~IF~~L~kl~~D~d~~ 83 (97)
T PF12755_consen 21 ISKYLDEILPPVLKCFDDQDSRVRYYACEALYNISKVARGEILP-YFNEIFDALCKLSADPDEN 83 (97)
T ss_pred HHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHcCCchh
Confidence 46677888899999999988999999999999999988777766 7778888877766655443
No 23
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=64.30 E-value=1.3e+02 Score=34.04 Aligned_cols=155 Identities=17% Similarity=0.228 Sum_probs=76.1
Q ss_pred hhhcchHHHHH-HHHHHHHhhcCCCchhHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHhhcccCCccchhhhHHHHHH
Q 005489 299 FFAAFPLLIRR-LIKIAVHLWATGEETVSFHSFLILQDVASGFSSDCFDLCLIKMYKAFIGHCKFAEPALFKHLQFLRNS 377 (694)
Q Consensus 299 y~~~f~kl~k~-llK~lv~lWst~~e~vrv~AFl~Lr~la~~~~~~~le~~LK~~Y~ayv~n~k~t~~~tlp~Infm~N~ 377 (694)
.+-.+|.+... ++..+..+-...+..|+.+|..++..+ . .+......++...|..+.+-. ..+..| ++-.
T Consensus 141 i~~~~p~~~~~~~~~~l~~lL~d~~~~V~~~a~~~l~~i-~-~~~~~~~~~~~~~~~~L~~~l--~~~~~~-----~q~~ 211 (526)
T PF01602_consen 141 IYRKDPDLVEDELIPKLKQLLSDKDPSVVSAALSLLSEI-K-CNDDSYKSLIPKLIRILCQLL--SDPDPW-----LQIK 211 (526)
T ss_dssp HHHHCHCCHHGGHHHHHHHHTTHSSHHHHHHHHHHHHHH-H-CTHHHHTTHHHHHHHHHHHHH--TCCSHH-----HHHH
T ss_pred HhccCHHHHHHHHHHHHhhhccCCcchhHHHHHHHHHHH-c-cCcchhhhhHHHHHHHhhhcc--cccchH-----HHHH
Confidence 33445666666 688888888666677888999888888 2 222221133444444333222 222333 3333
Q ss_pred HHHHhcCCcchhhHHH--HHHHHHHHHHHHHhhhhhhhhhhhhcccchhHhHHHHHHHHHcccCCCCCcchhhHHHHHHH
Q 005489 378 FVELCSQDLLRSSNKA--KVSINNLSRILQLGLQTKKKEAVKKICSWQYANCIDLWVTYISHCIHDYDLQPLLYIIIQII 455 (694)
Q Consensus 378 ~~EL~~ld~~~sYq~A--F~YIRQLAihLRna~~~k~Ke~~k~VYNWQfi~sL~lWs~Vls~~~~~s~L~pLiYPLvQVi 455 (694)
++.++..-.......+ ...+..+.-.|+++-..=.-++.+.++.|.- ...-++..+-||++.+
T Consensus 212 il~~l~~~~~~~~~~~~~~~~i~~l~~~l~s~~~~V~~e~~~~i~~l~~---------------~~~~~~~~~~~L~~lL 276 (526)
T PF01602_consen 212 ILRLLRRYAPMEPEDADKNRIIEPLLNLLQSSSPSVVYEAIRLIIKLSP---------------SPELLQKAINPLIKLL 276 (526)
T ss_dssp HHHHHTTSTSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSS---------------SHHHHHHHHHHHHHHH
T ss_pred HHHHHHhcccCChhhhhHHHHHHHHHHHhhccccHHHHHHHHHHHHhhc---------------chHHHHhhHHHHHHHh
Confidence 3344443222233333 5566666666663322111223333321111 1111223333333322
Q ss_pred hhhhcccCCCcccchHHHHHHHHHHHHhcc
Q 005489 456 NGMATLFPGPRYLPLRCKCIEWLNHLSSSS 485 (694)
Q Consensus 456 ~G~irLiPt~ry~PLRfh~ir~L~~Ls~~t 485 (694)
. ..-..+|+-.++.|..|++..
T Consensus 277 ----~----s~~~nvr~~~L~~L~~l~~~~ 298 (526)
T PF01602_consen 277 ----S----SSDPNVRYIALDSLSQLAQSN 298 (526)
T ss_dssp ----T----SSSHHHHHHHHHHHHHHCCHC
T ss_pred ----h----cccchhehhHHHHHHHhhccc
Confidence 2 223347888899999998776
No 24
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=63.60 E-value=3.3 Score=46.84 Aligned_cols=11 Identities=18% Similarity=0.426 Sum_probs=5.8
Q ss_pred CCCCCCCCCCC
Q 005489 59 GSDGYLSEDSN 69 (694)
Q Consensus 59 ~~~~~~~~~~~ 69 (694)
+||||.+++..
T Consensus 97 ~ddG~~TDnE~ 107 (458)
T PF10446_consen 97 DDDGNETDNEA 107 (458)
T ss_pred cccCccCcccc
Confidence 35566555553
No 25
>KOG1248 consensus Uncharacterized conserved protein [Function unknown]
Probab=60.85 E-value=4.7e+02 Score=33.70 Aligned_cols=403 Identities=14% Similarity=0.110 Sum_probs=218.0
Q ss_pred hcCChHHHHHHHHHHHHHhhccccCCCCCCCCCCccccCH-HHHHHHHHHHHHHhHHHHHHHhCCcCCCCCcccc-ccCC
Q 005489 178 EQHNASAFISLLNAYRAACHYGAESTGILGSGSGAPMLDC-ETFCKILMFVLREADDVFREMLGISSNCKRDTIL-GLKN 255 (694)
Q Consensus 178 ~~~s~~alr~ll~AFraA~~~~~e~~~~~~~~~ky~I~ds-~VFn~vv~~~L~~lp~~l~~~l~~k~~~~k~~~~-~~~~ 255 (694)
++.+-+.+|.++.+.+.-.+.-+- ..|...++ ..|..+..+++..-|.+=..-+..-. .++ .|+-
T Consensus 105 ~stn~svlr~~iscL~~lLraQd~--------~aW~~~~t~~~~~~il~~~~h~~pkvRk~a~~~i~-----~VL~~p~~ 171 (1176)
T KOG1248|consen 105 ESTNGSVLRLAISCLEDLLRAQDA--------SAWSYSSTKTELFGILAFAAHKKPKVRKAAQRGIA-----AVLKGPPF 171 (1176)
T ss_pred hcccchHHHHHHHHHHHHHHHcch--------hhhccccHHHHHHHHHHHHhcCchHHHHHHHHHHH-----HHHcCCCC
Confidence 466777888888888877765221 12332222 23556666766655544111110000 000 0000
Q ss_pred CCcchhhHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHhhhhhhhhhcchH-HHHHHHHHHHHhhcCCCchhHHHHHHHHH
Q 005489 256 NSKWKTVRPLIKSYLRSTLFMLNQATDSEILAFSLNRLRTSIVFFAAFPL-LIRRLIKIAVHLWATGEETVSFHSFLILQ 334 (694)
Q Consensus 256 ~~kw~kl~~liKsyl~sll~LL~~ltd~~~l~~vL~~l~~l~py~~~f~k-l~k~llK~lv~lWst~~e~vrv~AFl~Lr 334 (694)
...+..|.+.+=..=.+.+++..-.+...+-+++.|.=+--.+.+||. +.+.+...++.+.+.+.--++..+|-|+.
T Consensus 172 --~~~~~HpA~~~vak~cl~~~e~~~~~a~~t~v~~~L~Ll~~~~~~~p~~li~sl~e~lL~i~~~s~v~v~~~~~q~l~ 249 (1176)
T KOG1248|consen 172 --APDAEHPASLSVAKFCLALIESKLGSAENTTVLRSLMLLRDVLSTFPRPLIKSLCEVLLNITTESPVLVLLEVLQCLH 249 (1176)
T ss_pred --CccccchHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhhcccchHHHHHHHHHHHH
Confidence 111225556555555667776665566666777777665555666886 78899999999988888889999999999
Q ss_pred HHHhccCcchHHHHHHHHHHHHHhhcccCCccchhhhHHHH--HHH-HHHhcCCcchhhHHHHHH-----------HHHH
Q 005489 335 DVASGFSSDCFDLCLIKMYKAFIGHCKFAEPALFKHLQFLR--NSF-VELCSQDLLRSSNKAKVS-----------INNL 400 (694)
Q Consensus 335 ~la~~~~~~~le~~LK~~Y~ayv~n~k~t~~~tlp~Infm~--N~~-~EL~~ld~~~sYq~AF~Y-----------IRQL 400 (694)
.+....+. .+...+-.+-++-+.--+......++.+-||+ |-+ .=|-.+++..+-|+++.. ++|+
T Consensus 250 ~lf~~~~~-~l~a~~~a~lL~al~~l~ps~~D~~~t~~W~~v~~~~~~~la~~q~~~~~~~~~~~~~~~~t~~~s~~~e~ 328 (1176)
T KOG1248|consen 250 SLFKKHPT-ALAAELNARLLTALMTLSPSENDDLLTVAWLKVLNEAHDILATLQEEKALQALPRLFSLFFTILESLIEEL 328 (1176)
T ss_pred HHHhcCCC-cchHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHHHHHHhCHHHHHHhhhhhhhHHHHHHhcccHHH
Confidence 99887655 66666666666666777777777888877763 222 233446777777765543 3888
Q ss_pred HHHHHHhhhhhhhhh-----------hhhcccchhHhHHHHHHHHHcccCCCCCcchhhHHHHHHHhhhhcccCCCcccc
Q 005489 401 SRILQLGLQTKKKEA-----------VKKICSWQYANCIDLWVTYISHCIHDYDLQPLLYIIIQIINGMATLFPGPRYLP 469 (694)
Q Consensus 401 AihLRna~~~k~Ke~-----------~k~VYNWQfi~sL~lWs~Vls~~~~~s~L~pLiYPLvQVi~G~irLiPt~ry~P 469 (694)
+.-.+++++.=-+++ +-...+..|-+|-++--+++++-+. .++ .+.-|
T Consensus 329 ~q~a~q~l~~il~~sv~~~~~~c~~~~~~~l~~kf~~~~~~ilqi~s~~fe--k~G-------------------~~s~~ 387 (1176)
T KOG1248|consen 329 VQAASQSLKEILKESVTVIDALCSKQLHSLLDYKFHAVWRFILQILSALFE--KCG-------------------ELSGP 387 (1176)
T ss_pred HHHHHHHHHHHhcccCcccHHHHHHHHHHHHcchHHHHHHHHHHHHHHHHH--Hhh-------------------hhcCH
Confidence 888888876433332 2333344455554444455554221 111 12333
Q ss_pred hHHHHHHHHHHHHhccCcceechhHHHHhhccccccCCCC---CCCCCCcc-cccccchhhhcchhhHHHHHHHHHHHHH
Q 005489 470 LRCKCIEWLNHLSSSSGIFIPVTSLMLDVLEYKVSKEVGK---PGKDFNFS-SAVKLPKHWLKSRNFREDCVFSAIELLS 545 (694)
Q Consensus 470 LRfh~ir~L~~Ls~~t~~fIPl~p~LleiL~~~~~K~~~~---~~k~~df~-~~Lk~~k~~l~s~~yqd~lie~~~eLL~ 545 (694)
.-..+++.|-.+-.+.+.|-|. -|=++.-+...--++. +.-|++.. -...+..++|- +..|+.+..--+....
T Consensus 388 ~l~~~L~~l~~lr~~~d~~~~~--~ld~~IGSAV~AmGPe~vL~~lpLnl~~~s~~~~RsWLL-PvLR~~i~~A~La~F~ 464 (1176)
T KOG1248|consen 388 ELTKTLEGLCDLRASPDFFHKL--QLDQCIGSAVRAMGPERVLTILPLNLHAESLSFTRSWLL-PVLRDYIIGASLAFFT 464 (1176)
T ss_pred HHHHHHHHHHHhhcCCCCccHH--HHHHHHHHHHHhhCHHHHHHHcchhccccccccchhHhH-HHHHHhhccCcHHHHH
Confidence 3334444444444444554444 1111121111100110 01122221 13344444432 4556666665566666
Q ss_pred HHHHH-----hhcCCccccchhHH-H---------HHHHhhhhhcc--cHHHHHHHHHHHHHHHHhHHH----HHHhhcC
Q 005489 546 AHFAQ-----WSYHISFPELATIP-L---------IHLRKFQEKSD--VESLRRVVKRFIDVVEQNIEF----VKKKRDE 604 (694)
Q Consensus 546 e~la~-----~S~sIAFPEL~~P~-i---------~~LKrf~K~~k--~~~~~~~lK~LidkIeens~f----I~~kR~~ 604 (694)
+|+.. +++.+.++|...++ + ..|=.|+.... ...|....+.|...|..+.++ -..-|.=
T Consensus 465 ~~ivpla~sl~~K~~~l~~~~~~~~~~~tl~~QLW~LLP~FC~~P~Dl~~sF~~la~~l~~al~~~~elr~~Ic~sL~~L 544 (1176)
T KOG1248|consen 465 EYIVPLAMSLQLKAKKLKEAGSQVSLYDTLVDQLWSLLPGFCNYPVDLAESFTDLAPILGAALLKRPELRETICNSLRML 544 (1176)
T ss_pred HHHHHHHHHHHHHHHhhhhccCcHHHHHHHHHHHHHhChhhhCCCccHHHHHHHHHHHHHHHHhcchHhHHHHHHHHHHH
Confidence 66644 45556666665554 1 12344544332 235777777777777766533 2233333
Q ss_pred CCC--CCCCHHHHHHHHH
Q 005489 605 VAF--SPNDQQSVEAFLQ 620 (694)
Q Consensus 605 v~F--~p~d~~~V~~Fl~ 620 (694)
+.+ .|+|.++-.+++.
T Consensus 545 v~~n~~~~~a~e~~e~~s 562 (1176)
T KOG1248|consen 545 VEQNKPSSDAAENKEVLS 562 (1176)
T ss_pred HHcCCCcchHHHHHHHHh
Confidence 444 3666666666654
No 26
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=59.72 E-value=2.2e+02 Score=34.75 Aligned_cols=77 Identities=17% Similarity=0.224 Sum_probs=39.4
Q ss_pred HHhHHHHHHHhCCcCCCCCccccccCCCCcchhhHHHHHHHHHHHHHHhhcCCcHHHHH--HHHHHhhhhhhhhhcchHH
Q 005489 229 READDVFREMLGISSNCKRDTILGLKNNSKWKTVRPLIKSYLRSTLFMLNQATDSEILA--FSLNRLRTSIVFFAAFPLL 306 (694)
Q Consensus 229 ~~lp~~l~~~l~~k~~~~k~~~~~~~~~~kw~kl~~liKsyl~sll~LL~~ltd~~~l~--~vL~~l~~l~py~~~f~kl 306 (694)
+|+|+.+|+.|+-+..+ ..-.+++.-+++ +|+.++++.+.. .-|..|-.-.+=+.--..+
T Consensus 297 KYvPPslRkkl~~~~~s-----------E~l~rl~rkv~g-------~LNKLSdaNi~~I~~~i~~Ly~~~sr~~v~~sL 358 (822)
T KOG2141|consen 297 KYVPPSLRKKLETSSES-----------EQLQRLRRKVNG-------SLNKLSDANIIKIIAGIAELYMNNSRYDVTSSL 358 (822)
T ss_pred ccCCHHHHHHhcCccch-----------HHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHhcchhhHHHHH
Confidence 57899999988733221 111233333333 345555554433 2233332222222222567
Q ss_pred HHHHHHHHHHhhcCCCc
Q 005489 307 IRRLIKIAVHLWATGEE 323 (694)
Q Consensus 307 ~k~llK~lv~lWst~~e 323 (694)
++-++++++...+.-+.
T Consensus 359 tk~l~~~~~~~~~~ld~ 375 (822)
T KOG2141|consen 359 TKLLLKALLGPFRLLDS 375 (822)
T ss_pred HHHHHHHhhhhHHHHHH
Confidence 77788888777666554
No 27
>KOG2038 consensus CAATT-binding transcription factor/60S ribosomal subunit biogenesis protein [Translation, ribosomal structure and biogenesis; Transcription]
Probab=59.34 E-value=17 Score=44.04 Aligned_cols=30 Identities=27% Similarity=0.177 Sum_probs=16.9
Q ss_pred chhHHHHhhhhcCCCCCCcccCchhhhccC
Q 005489 14 NEEENVELSTRRNSENGDIEDMSLEAIFSE 43 (694)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 43 (694)
+|+.++|-.+-.-...+...+-.++-.||.
T Consensus 833 ~Ee~eeel~~~~~~~~~e~~ddd~e~e~~~ 862 (988)
T KOG2038|consen 833 DEEFEEELWRFEDGSLPEEEDDDYEFEFGA 862 (988)
T ss_pred hHHHHHHHHHhcCCcCcccccchhhhhcCc
Confidence 333444444444445666666677777773
No 28
>KOG3064 consensus RNA-binding nuclear protein (MAK16) containing a distinct C4 Zn-finger [RNA processing and modification]
Probab=59.09 E-value=6.1 Score=41.85 Aligned_cols=14 Identities=7% Similarity=0.297 Sum_probs=6.7
Q ss_pred CCcccCchhhhccC
Q 005489 30 GDIEDMSLEAIFSE 43 (694)
Q Consensus 30 ~~~~~~~~~~~~~~ 43 (694)
++.+...-|..|..
T Consensus 210 ~e~E~v~~D~e~e~ 223 (303)
T KOG3064|consen 210 AELEEVEGDGELEA 223 (303)
T ss_pred hhhhhccCCccccc
Confidence 33444444555553
No 29
>KOG0212 consensus Uncharacterized conserved protein [Function unknown]
Probab=57.07 E-value=67 Score=37.94 Aligned_cols=66 Identities=14% Similarity=0.290 Sum_probs=42.7
Q ss_pred HHHhhcCCcH--HHHHHHHHHhhhhhhhhhcchH--HHHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhccCcc
Q 005489 274 LFMLNQATDS--EILAFSLNRLRTSIVFFAAFPL--LIRRLIKIAVHLWATGEETVSFHSFLILQDVASGFSSD 343 (694)
Q Consensus 274 l~LL~~ltd~--~~l~~vL~~l~~l~py~~~f~k--l~k~llK~lv~lWst~~e~vrv~AFl~Lr~la~~~~~~ 343 (694)
..||++++|+ +++..+|.=+..+ +..++ -.++|++.++.++....--++.-+=+.||++|......
T Consensus 380 ~tLL~tLsd~sd~vvl~~L~lla~i----~~s~~~~~~~~fl~sLL~~f~e~~~~l~~Rg~lIIRqlC~lL~aE 449 (675)
T KOG0212|consen 380 LTLLKTLSDRSDEVVLLALSLLASI----CSSSNSPNLRKFLLSLLEMFKEDTKLLEVRGNLIIRQLCLLLNAE 449 (675)
T ss_pred HHHHHhhcCchhHHHHHHHHHHHHH----hcCcccccHHHHHHHHHHHHhhhhHHHHhhhhHHHHHHHHHhCHH
Confidence 4677888774 3443333322221 11111 34899999999999866667788889999999876543
No 30
>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms. Apoptosis or programmed cell death is a physiological form of cell death that occurs in embryonic development and organ formation. It is characterised by biochemical and morphological changes such as DNA fragmentation and cell volume shrinkage. API5 is an anti apoptosis gene located in Homo sapiens chromosome 11, whose expression prevents the programmed cell death that occurs upon the deprivation of growth factors [,].; PDB: 3U0R_A 3V6A_A.
Probab=54.68 E-value=29 Score=40.90 Aligned_cols=93 Identities=17% Similarity=0.176 Sum_probs=66.6
Q ss_pred hhhhhhcchHHHHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhccCcch--HHHHHHHHHHHHHhhcccCCccchhhhHH
Q 005489 296 SIVFFAAFPLLIRRLIKIAVHLWATGEETVSFHSFLILQDVASGFSSDC--FDLCLIKMYKAFIGHCKFAEPALFKHLQF 373 (694)
Q Consensus 296 l~py~~~f~kl~k~llK~lv~lWst~~e~vrv~AFl~Lr~la~~~~~~~--le~~LK~~Y~ayv~n~k~t~~~tlp~Inf 373 (694)
+-.||-.||.+...-+.+++.|.-..+..||+.|.--|=.+|..-+..+ +-.+|-++.. ..--.-+..
T Consensus 46 I~kffk~FP~l~~~Ai~a~~DLcEDed~~iR~~aik~lp~~ck~~~~~v~kvaDvL~QlL~----------tdd~~E~~~ 115 (556)
T PF05918_consen 46 IPKFFKHFPDLQEEAINAQLDLCEDEDVQIRKQAIKGLPQLCKDNPEHVSKVADVLVQLLQ----------TDDPVELDA 115 (556)
T ss_dssp HHHHHCC-GGGHHHHHHHHHHHHT-SSHHHHHHHHHHGGGG--T--T-HHHHHHHHHHHTT-------------HHHHHH
T ss_pred HHHHHhhChhhHHHHHHHHHHHHhcccHHHHHHHHHhHHHHHHhHHHHHhHHHHHHHHHHh----------cccHHHHHH
Confidence 4568999999999999999999998888899999888878887643322 3344544433 244456788
Q ss_pred HHHHHHHHhcCCcchhhHHHHHHHH
Q 005489 374 LRNSFVELCSQDLLRSSNKAKVSIN 398 (694)
Q Consensus 374 m~N~~~EL~~ld~~~sYq~AF~YIR 398 (694)
.+|++++|+.+|+..+-.-.|.-|.
T Consensus 116 v~~sL~~ll~~d~k~tL~~lf~~i~ 140 (556)
T PF05918_consen 116 VKNSLMSLLKQDPKGTLTGLFSQIE 140 (556)
T ss_dssp HHHHHHHHHHH-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHhcCcHHHHHHHHHHHH
Confidence 8999999999999999999898886
No 31
>KOG2171 consensus Karyopherin (importin) beta 3 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=51.18 E-value=4.2e+02 Score=33.92 Aligned_cols=336 Identities=16% Similarity=0.184 Sum_probs=179.6
Q ss_pred HHHHHHHHHHHHhhcC---CcHHHHHHHHHHhhhhhhhhhcchHHHHHHHHHHHHhh----cCC--CchhHHHHHHHHHH
Q 005489 265 LIKSYLRSTLFMLNQA---TDSEILAFSLNRLRTSIVFFAAFPLLIRRLIKIAVHLW----ATG--EETVSFHSFLILQD 335 (694)
Q Consensus 265 liKsyl~sll~LL~~l---td~~~l~~vL~~l~~l~py~~~f~kl~k~llK~lv~lW----st~--~e~vrv~AFl~Lr~ 335 (694)
..+..+-++++.|..+ .|.+....+|..+.. +....|+++|..+..++.+- ... ++.+|..|--+|-.
T Consensus 199 ~~~~llP~~l~vl~~~i~~~d~~~a~~~l~~l~E---l~e~~pk~l~~~l~~ii~~~l~Ia~n~~l~~~~R~~ALe~ivs 275 (1075)
T KOG2171|consen 199 KFRDLLPSLLNVLQEVIQDGDDDAAKSALEALIE---LLESEPKLLRPHLSQIIQFSLEIAKNKELENSIRHLALEFLVS 275 (1075)
T ss_pred HHHHHhHHHHHHhHhhhhccchHHHHHHHHHHHH---HHhhchHHHHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHH
Confidence 3344445555555444 445566666666554 55778888888777777654 333 35799988777766
Q ss_pred HHhccCcchHHHHHHHHHHHHHhhcccCCccchhhhHHHHHHHHHHhc-----------CC-cchhhHHHHHHHHHHHHH
Q 005489 336 VASGFSSDCFDLCLIKMYKAFIGHCKFAEPALFKHLQFLRNSFVELCS-----------QD-LLRSSNKAKVSINNLSRI 403 (694)
Q Consensus 336 la~~~~~~~le~~LK~~Y~ayv~n~k~t~~~tlp~Infm~N~~~EL~~-----------ld-~~~sYq~AF~YIRQLAih 403 (694)
++...| ..||.-.+-.-+.+--+--+.+|+-. -| .+.-|.+|=.-|=.||.|
T Consensus 276 ~~e~Ap----------------~~~k~~~~~~~~lv~~~l~~mte~~~D~ew~~~d~~ded~~~~~~~~A~~~lDrlA~~ 339 (1075)
T KOG2171|consen 276 LSEYAP----------------AMCKKLALLGHTLVPVLLAMMTEEEDDDEWSNEDDLDEDDEETPYRAAEQALDRLALH 339 (1075)
T ss_pred HHHhhH----------------HHhhhchhhhccHHHHHHHhcCCcccchhhccccccccccccCcHHHHHHHHHHHHhc
Confidence 554321 11222221122222222233333221 12 356899999999999999
Q ss_pred HHHhhh-hhh---hhhhhhcccchhHhHHHHHHHHHcccCCCCCcchhhHHHHHHHhhhhcccCCCcccchHHHHHHHHH
Q 005489 404 LQLGLQ-TKK---KEAVKKICSWQYANCIDLWVTYISHCIHDYDLQPLLYIIIQIINGMATLFPGPRYLPLRCKCIEWLN 479 (694)
Q Consensus 404 LRna~~-~k~---Ke~~k~VYNWQfi~sL~lWs~Vls~~~~~s~L~pLiYPLvQVi~G~irLiPt~ry~PLRfh~ir~L~ 479 (694)
|=.... .-- -+.+-.=-+|+|-|+-=+=-.|++.-|++ .+.+.+-+++++++.-++= |.+| -|.-++-++-
T Consensus 340 L~g~~v~p~~~~~l~~~l~S~~w~~R~AaL~Als~i~EGc~~-~m~~~l~~Il~~Vl~~l~D-phpr---Vr~AA~naig 414 (1075)
T KOG2171|consen 340 LGGKQVLPPLFEALEAMLQSTEWKERHAALLALSVIAEGCSD-VMIGNLPKILPIVLNGLND-PHPR---VRYAALNAIG 414 (1075)
T ss_pred CChhhehHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHcccHH-HHHHHHHHHHHHHHhhcCC-CCHH---HHHHHHHHHH
Confidence 874322 111 13344446999999987777777766643 5777888888877764432 6665 3556666666
Q ss_pred HHHhccCcce------echhHHHHhhccccccCC--CCCCCCCCcccccccchhhh------------------cchhhH
Q 005489 480 HLSSSSGIFI------PVTSLMLDVLEYKVSKEV--GKPGKDFNFSSAVKLPKHWL------------------KSRNFR 533 (694)
Q Consensus 480 ~Ls~~t~~fI------Pl~p~LleiL~~~~~K~~--~~~~k~~df~~~Lk~~k~~l------------------~s~~yq 533 (694)
++|..=...| =+.|.|+.++++...-+- ....--++|. -.++++.+ +++..|
T Consensus 415 Q~stdl~p~iqk~~~e~l~~aL~~~ld~~~~~rV~ahAa~al~nf~--E~~~~~~l~pYLd~lm~~~l~~L~~~~~~~v~ 492 (1075)
T KOG2171|consen 415 QMSTDLQPEIQKKHHERLPPALIALLDSTQNVRVQAHAAAALVNFS--EECDKSILEPYLDGLMEKKLLLLLQSSKPYVQ 492 (1075)
T ss_pred hhhhhhcHHHHHHHHHhccHHHHHHhcccCchHHHHHHHHHHHHHH--HhCcHHHHHHHHHHHHHHHHHHHhcCCchhHH
Confidence 6554322211 134567777776432110 0000001111 11122111 223333
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCccccchhHHHHHHHhhhhhcccHHHHHHHHHHHHHHHHhHHHHHHhhcCCCCCCCCHH
Q 005489 534 EDCVFSAIELLSAHFAQWSYHISFPELATIPLIHLRKFQEKSDVESLRRVVKRFIDVVEQNIEFVKKKRDEVAFSPNDQQ 613 (694)
Q Consensus 534 d~lie~~~eLL~e~la~~S~sIAFPEL~~P~i~~LKrf~K~~k~~~~~~~lK~LidkIeens~fI~~kR~~v~F~p~d~~ 613 (694)
+.++..+.. +..+.--.|-.++--++-.|++|+.++... -.+.|-.|.-+.+.-|...=.+-.|.|--..
T Consensus 493 e~vvtaIas------vA~AA~~~F~pY~d~~Mp~L~~~L~n~~~~----d~r~LrgktmEcisli~~AVGke~F~~~a~e 562 (1075)
T KOG2171|consen 493 EQAVTAIAS------VADAAQEKFIPYFDRLMPLLKNFLQNADDK----DLRELRGKTMECLSLIARAVGKEKFLPLAEE 562 (1075)
T ss_pred HHHHHHHHH------HHHHHhhhhHhHHHHHHHHHHHHHhCCCch----hhHHHHhhHHHHHHHHHHHhhhhhhhHhHHH
Confidence 333322111 222334456666656677899999887753 3445555666666666666656668887543
Q ss_pred HHHHHHHhh--hcCCCCchHHHHHH
Q 005489 614 SVEAFLQLE--KCSGNTPFTQYYRS 636 (694)
Q Consensus 614 ~V~~Fl~~~--~~~~~tPL~~y~~~ 636 (694)
=+.--.... -....-|+..|.-+
T Consensus 563 liqll~~~~~~~~~~dd~~~sy~~~ 587 (1075)
T KOG2171|consen 563 LIQLLLELQGSDQDDDDPLRSYMIA 587 (1075)
T ss_pred HHHHHHhhcccchhhccccHHHHHH
Confidence 333332220 11345677777654
No 32
>PHA02734 coat protein; Provisional
Probab=49.29 E-value=59 Score=31.13 Aligned_cols=68 Identities=15% Similarity=0.235 Sum_probs=48.9
Q ss_pred hHHHHHHHHHHHHHHHHHHhhcCCccccchhHHHHHHHhhhhhcccHHHHHHHHHHHHHHHHhHHHHHHhhc
Q 005489 532 FREDCVFSAIELLSAHFAQWSYHISFPELATIPLIHLRKFQEKSDVESLRRVVKRFIDVVEQNIEFVKKKRD 603 (694)
Q Consensus 532 yqd~lie~~~eLL~e~la~~S~sIAFPEL~~P~i~~LKrf~K~~k~~~~~~~lK~LidkIeens~fI~~kR~ 603 (694)
++..-...++.+|..| ++.-|+|||+++ =+.-....++.+-.+.....++.+|..|++-.+=.+.+-.
T Consensus 7 kKgdYagg~~kiL~~F---~~G~iGyPevsL-RLAGEEAn~~~~G~e~~k~aIHeiIK~IreA~kp~rn~g~ 74 (149)
T PHA02734 7 KKGDYAGGAAKILDGF---EAGQLGFPEVSL-KLAGEEANARKAGDANAKAAIHAIIKMIKDAMKPLRNKGK 74 (149)
T ss_pred cchhHHHHHHHHHHHH---HcCCCCCceeeh-hhhhhHhhhcccChHHHHHHHHHHHHHHHHHhhhhhhcCC
Confidence 3344455677899887 467899999984 3344555566667778889999999999988776665543
No 33
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=49.12 E-value=10 Score=47.69 Aligned_cols=19 Identities=16% Similarity=0.076 Sum_probs=15.0
Q ss_pred CCcccchHHHHHHHHHHHH
Q 005489 464 GPRYLPLRCKCIEWLNHLS 482 (694)
Q Consensus 464 t~ry~PLRfh~ir~L~~Ls 482 (694)
+...+|-|+.+-+-++.++
T Consensus 2294 ~LamlPhklkla~efini~ 2312 (3015)
T KOG0943|consen 2294 CLAMLPHKLKLAAEFINIM 2312 (3015)
T ss_pred eeeccchHHHHHHHHHHHh
Confidence 4577888888888888876
No 34
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=48.38 E-value=16 Score=44.99 Aligned_cols=22 Identities=14% Similarity=0.224 Sum_probs=10.7
Q ss_pred hhhcchH-HHHHHHHHHHHhhcC
Q 005489 299 FFAAFPL-LIRRLIKIAVHLWAT 320 (694)
Q Consensus 299 y~~~f~k-l~k~llK~lv~lWst 320 (694)
|+=++.. ..+..|+-+..|..+
T Consensus 214 YIEA~KqshV~~Ai~gv~niy~~ 236 (1024)
T KOG1999|consen 214 YIEADKQSHVKEAIEGVRNIYAN 236 (1024)
T ss_pred EEEechhHHHHHHHhhhhhheec
Confidence 4444332 345555555555554
No 35
>COG5101 CRM1 Importin beta-related nuclear transport receptor [Nuclear structure / Intracellular trafficking and secretion]
Probab=47.64 E-value=2.6e+02 Score=33.87 Aligned_cols=66 Identities=11% Similarity=0.069 Sum_probs=39.3
Q ss_pred HHhhcCCcHHHHHHHHHHhhhhhhhhhcchHHHHHHHHHHHHhhcC---CCchhHHHHHHHHHHHHhccCcch
Q 005489 275 FMLNQATDSEILAFSLNRLRTSIVFFAAFPLLIRRLIKIAVHLWAT---GEETVSFHSFLILQDVASGFSSDC 344 (694)
Q Consensus 275 ~LL~~ltd~~~l~~vL~~l~~l~py~~~f~kl~k~llK~lv~lWst---~~e~vrv~AFl~Lr~la~~~~~~~ 344 (694)
+.|+.-.+++++..+|.++...+.|+- +---|..-++.+-++ +-.++|+++.-||-.++.....+.
T Consensus 199 qiLE~~~~~SLi~ATLesllrfl~wiP----l~yIfeTnIieLv~~~f~s~pd~r~~tl~CLtEi~~L~~~pq 267 (1053)
T COG5101 199 QILEYSRDESLIEATLESLLRFLEWIP----LDYIFETNIIELVLEHFNSMPDTRVATLSCLTEIVDLGRHPQ 267 (1053)
T ss_pred HHHHhcCChHHHHHHHHHHHHHHhhCc----hhHHHHHHHHHHHHHHhccCCchhHHHHHHHHHHHhhccCcc
Confidence 556667889999998888765333321 112233333444333 224578888889888887654333
No 36
>PF09026 CENP-B_dimeris: Centromere protein B dimerisation domain; InterPro: IPR015115 Centromere protein B (CENP-B) interacts with centromeric heterochromatin in chromosomes and binds to a specific subset of alphoid satellite DNA, called the CENP-B box. CENP-B may organise arrays of centromere satellite DNA into a higher order structure, which then directs centromere formation and kinetochore assembly in mammalian chromosomes. The CENP-B dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation []. ; GO: 0003677 DNA binding, 0003682 chromatin binding, 0006355 regulation of transcription, DNA-dependent, 0000775 chromosome, centromeric region, 0005634 nucleus; PDB: 1UFI_A.
Probab=47.22 E-value=6.3 Score=35.93 Aligned_cols=8 Identities=13% Similarity=0.169 Sum_probs=0.0
Q ss_pred CCCCCCCC
Q 005489 64 LSEDSNCL 71 (694)
Q Consensus 64 ~~~~~~~~ 71 (694)
.++|.+..
T Consensus 34 ddee~de~ 41 (101)
T PF09026_consen 34 DDEEEDEV 41 (101)
T ss_dssp --------
T ss_pred cccccccc
Confidence 33333333
No 37
>PF08167 RIX1: rRNA processing/ribosome biogenesis
Probab=46.49 E-value=1.2e+02 Score=29.71 Aligned_cols=83 Identities=16% Similarity=0.259 Sum_probs=58.4
Q ss_pred chhhHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHhhhhhhhhhcchHHHHHH--------HHHHHHhhcCCCchhHHHHH
Q 005489 259 WKTVRPLIKSYLRSTLFMLNQATDSEILAFSLNRLRTSIVFFAAFPLLIRRL--------IKIAVHLWATGEETVSFHSF 330 (694)
Q Consensus 259 w~kl~~liKsyl~sll~LL~~ltd~~~l~~vL~~l~~l~py~~~f~kl~k~l--------lK~lv~lWst~~e~vrv~AF 330 (694)
|..+..--..++..++.+|++-....+...++..+..++.+...+|-+.|++ +..++.+-.. ..+...+.
T Consensus 58 ~e~l~~~~~~W~~~Ll~~L~~~~~~~~~~~ai~~L~~l~~~~~~~p~l~Rei~tp~l~~~i~~ll~l~~~--~~~~~~~l 135 (165)
T PF08167_consen 58 WEILLSHGSQWLRALLSILEKPDPPSVLEAAIITLTRLFDLIRGKPTLTREIATPNLPKFIQSLLQLLQD--SSCPETAL 135 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhcCCCchHHHHhhccHHHHHHHHHHHHhc--cccHHHHH
Confidence 6667667778899999999997778889999999999999999999988775 3333433332 23444444
Q ss_pred HHHHHHHhccCcc
Q 005489 331 LILQDVASGFSSD 343 (694)
Q Consensus 331 l~Lr~la~~~~~~ 343 (694)
-+|..+...+|.+
T Consensus 136 ~~L~~ll~~~ptt 148 (165)
T PF08167_consen 136 DALATLLPHHPTT 148 (165)
T ss_pred HHHHHHHHHCCcc
Confidence 4555555555443
No 38
>PTZ00415 transmission-blocking target antigen s230; Provisional
Probab=44.87 E-value=17 Score=47.44 Aligned_cols=25 Identities=48% Similarity=0.551 Sum_probs=13.9
Q ss_pred cccCchhhhccCCCCccccCCCCCC
Q 005489 32 IEDMSLEAIFSEDESDEDEGDVDVD 56 (694)
Q Consensus 32 ~~~~~~~~~~~~~~~~~~~~~~~~~ 56 (694)
-+|||-.+-|--||++|+|+++++|
T Consensus 142 eed~~~~~~~~~d~~~~~~~~~~~~ 166 (2849)
T PTZ00415 142 EEDMSPRDNFVIDDDDEDEDEDDDD 166 (2849)
T ss_pred hhhcCcccccccCCccccccccccc
Confidence 4577777777755555433333333
No 39
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=44.07 E-value=2.8e+02 Score=30.73 Aligned_cols=111 Identities=13% Similarity=0.178 Sum_probs=59.8
Q ss_pred HHHHHHHHHhhcCCcHHHHHHHHHHh------hhhhhhhhcchHHHHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhccC
Q 005489 268 SYLRSTLFMLNQATDSEILAFSLNRL------RTSIVFFAAFPLLIRRLIKIAVHLWATGEETVSFHSFLILQDVASGFS 341 (694)
Q Consensus 268 syl~sll~LL~~ltd~~~l~~vL~~l------~~l~py~~~f~kl~k~llK~lv~lWst~~e~vrv~AFl~Lr~la~~~~ 341 (694)
-||.-++.-|-.-++.++-...|.+| ++++|||+.|-. -++.| ++ .
T Consensus 197 ~YF~kvisal~dEs~~~~r~aAl~sLr~dsGlhQLvPYFi~f~~--eqit~----------------------Nl----~ 248 (450)
T COG5095 197 MYFDKVISALLDESDEQTRDAALESLRNDSGLHQLVPYFIHFFN--EQITK----------------------NL----K 248 (450)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCccHHHHHHHHHHHHH--HHHHH----------------------hh----h
Confidence 46666666554446666766677665 469999998853 11111 11 1
Q ss_pred cchHHHHHHHHHHHHHhhc-ccCCccchhhhHHHHHHHHH-HhcCCcchhhHHHHHHHHHHHHHHHHhhh
Q 005489 342 SDCFDLCLIKMYKAFIGHC-KFAEPALFKHLQFLRNSFVE-LCSQDLLRSSNKAKVSINNLSRILQLGLQ 409 (694)
Q Consensus 342 ~~~le~~LK~~Y~ayv~n~-k~t~~~tlp~Infm~N~~~E-L~~ld~~~sYq~AF~YIRQLAihLRna~~ 409 (694)
.-.+=+.+--||.+.++|- -|+.|---..+--.-.|++- =.|-+|+- |-|--+|.+|..|-.-+-
T Consensus 249 nl~~LtTv~~m~~sLL~N~~iFvdPY~hqlmPSilTcliakklg~~p~d---he~~alRd~AA~ll~yV~ 315 (450)
T COG5095 249 NLEKLTTVVMMYSSLLKNKYIFVDPYLHQLMPSILTCLIAKKLGNVPDD---HEHYALRDVAADLLKYVF 315 (450)
T ss_pred hHHHHHHHHHHHHHHhcCCceeecHHHHHHHHHHHHHHHHHHhcCCCcc---hhHHHHHHHHHHHHHHHH
Confidence 1111112235677777764 44554333333333456553 44444443 777788888877765443
No 40
>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=42.97 E-value=80 Score=30.03 Aligned_cols=67 Identities=15% Similarity=0.275 Sum_probs=46.6
Q ss_pred HHHHHhhcCCcHHHHHHHHHHhhhhhhhhhcchHHHHHH-H-HHHHHhhcCCCchhHHHHHHHHHHHHh
Q 005489 272 STLFMLNQATDSEILAFSLNRLRTSIVFFAAFPLLIRRL-I-KIAVHLWATGEETVSFHSFLILQDVAS 338 (694)
Q Consensus 272 sll~LL~~ltd~~~l~~vL~~l~~l~py~~~f~kl~k~l-l-K~lv~lWst~~e~vrv~AFl~Lr~la~ 338 (694)
.|+++|..-+|+.++++++.-|..++.++-.-++++..+ . -.+..+-+.++..||--|-+++.++..
T Consensus 47 ~L~~lL~~s~d~~~laVac~Dig~~vr~~p~gr~ii~~lg~K~~vM~Lm~h~d~eVr~eAL~avQklm~ 115 (119)
T PF11698_consen 47 KLIKLLDKSDDPTTLAVACHDIGEFVRHYPNGRNIIEKLGAKERVMELMNHEDPEVRYEALLAVQKLMV 115 (119)
T ss_dssp HHHHHH-SHHHHHHHHHHHHHHHHHHHH-GGGHHHHHHHSHHHHHHHHTS-SSHHHHHHHHHHHHHHHH
T ss_pred HHHHHHccCCCcceeehhhcchHHHHHHChhHHHHHHhcChHHHHHHHhcCCCHHHHHHHHHHHHHHHH
Confidence 455677666789999999999999888874433333221 1 245677788888899999999998765
No 41
>PF12074 DUF3554: Domain of unknown function (DUF3554); InterPro: IPR022716 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 287 to 356 amino acids in length. This domain is found associated with PF02985 from PFAM.
Probab=42.55 E-value=4.8e+02 Score=28.34 Aligned_cols=210 Identities=12% Similarity=0.013 Sum_probs=98.6
Q ss_pred HHHHHHHHhhcCCcHHHHHHHHHHhhhhhhhhhcchHHHHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhccCcchHHHH
Q 005489 269 YLRSTLFMLNQATDSEILAFSLNRLRTSIVFFAAFPLLIRRLIKIAVHLWATGEETVSFHSFLILQDVASGFSSDCFDLC 348 (694)
Q Consensus 269 yl~sll~LL~~ltd~~~l~~vL~~l~~l~py~~~f~kl~k~llK~lv~lWst~~e~vrv~AFl~Lr~la~~~~~~~le~~ 348 (694)
-...++.++..=++...+...+..+...+.++ -..+.+.+++.+..=.+...-.+|-+-|.++..+.....+.-....
T Consensus 23 i~~~l~~~~~KE~nE~aL~~~l~al~~~~~~~--~~~~~~~~~~~~~kGl~~kk~~vR~~w~~~~~~~~~~~~~~~~~~~ 100 (339)
T PF12074_consen 23 IVQGLSPLLSKESNEAALSALLSALFKHLFFL--SSELPKKVVDAFKKGLKDKKPPVRRAWLLCLGEALWESPNSDSLKF 100 (339)
T ss_pred HHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHh--CcCCCHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHhhccCchHHHH
Confidence 34556666666677777777776666655555 2344455566655533444445888888877776651111111222
Q ss_pred HHHHHHHHHhhcccCCccchhhhHHHHHHHHHHhcCCcchhhHHHHHHHH----------HHHHHHHHhhhhhhhhhh--
Q 005489 349 LIKMYKAFIGHCKFAEPALFKHLQFLRNSFVELCSQDLLRSSNKAKVSIN----------NLSRILQLGLQTKKKEAV-- 416 (694)
Q Consensus 349 LK~~Y~ayv~n~k~t~~~tlp~Infm~N~~~EL~~ld~~~sYq~AF~YIR----------QLAihLRna~~~k~Ke~~-- 416 (694)
...+.-.++...+.+..+.+|.. ....+--||+++- + .....+++....|.+|
T Consensus 101 ~~~~~~~L~~~~~~~~~~p~~~~--------------~~~~~~~a~~~l~~~~~~~~~~~~-~~~~~~~l~~~~kps~ll 165 (339)
T PF12074_consen 101 AEPFLPKLLQSLKEASANPLQSA--------------QNGELVGAYVLLALSSWKLDKIDS-KNISFWSLALDPKPSFLL 165 (339)
T ss_pred HHHHHHHHHHHHHHHHhCCCCcc--------------ccccHHHHHHHHHhccccchhhhh-hhhhhhhhccCCCcchhc
Confidence 22222222222222211111111 1112334444443 1 3333344443333333
Q ss_pred -hhcccc-----hhHhHHHHHHHHHcccCCCCCcchhhHHHHHHHhhhhcccCCCcccchHHHHHHHHHHHHhccCccee
Q 005489 417 -KKICSW-----QYANCIDLWVTYISHCIHDYDLQPLLYIIIQIINGMATLFPGPRYLPLRCKCIEWLNHLSSSSGIFIP 490 (694)
Q Consensus 417 -k~VYNW-----Qfi~sL~lWs~Vls~~~~~s~L~pLiYPLvQVi~G~irLiPt~ry~PLRfh~ir~L~~Ls~~t~~fIP 490 (694)
..||+= -.+..+++-..++..+... ....-..|+-|..+.++-- |+ -=.+.|-+++..|-++.......
T Consensus 166 ~~kvyskl~~~~d~~w~~~al~~~~~~~~~~-~~~~~~~~~~~a~i~ll~s-~~-~~~~vR~~A~~~l~~l~~~~~~~-- 240 (339)
T PF12074_consen 166 SEKVYSKLASEEDLCWLLRALEALLSDHPSE-LSSDKSSAWAQAFIYLLCS-SN-VSWKVRRAALSALKKLYASNPEL-- 240 (339)
T ss_pred CHHHHhccCCHhHHHHHHHHHHHHHhcchhh-hhhhHHHHHHHHHHHHHHc-CC-CCHHHHHHHHHHHHHHHHhChHH--
Confidence 122211 0222334444444433211 1111134455544443321 21 13468999999999998877766
Q ss_pred chhHHHHhhc
Q 005489 491 VTSLMLDVLE 500 (694)
Q Consensus 491 l~p~LleiL~ 500 (694)
+...|++-|.
T Consensus 241 l~~~li~~l~ 250 (339)
T PF12074_consen 241 LSKSLISGLW 250 (339)
T ss_pred HHHHHHHHHH
Confidence 6666666665
No 42
>PF13251 DUF4042: Domain of unknown function (DUF4042)
Probab=42.30 E-value=1.8e+02 Score=29.49 Aligned_cols=81 Identities=17% Similarity=0.186 Sum_probs=65.4
Q ss_pred chhhHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHhh---hhhhhhhcchHHHHHHHHHHHHhhcCCCchhHHHHHHHHHH
Q 005489 259 WKTVRPLIKSYLRSTLFMLNQATDSEILAFSLNRLR---TSIVFFAAFPLLIRRLIKIAVHLWATGEETVSFHSFLILQD 335 (694)
Q Consensus 259 w~kl~~liKsyl~sll~LL~~ltd~~~l~~vL~~l~---~l~py~~~f~kl~k~llK~lv~lWst~~e~vrv~AFl~Lr~ 335 (694)
-.++...|+.-=..+++.|..-++..++..+|+-+. ...||=-.-+.+...+++.+-.+..+.+-++|++++.|+.-
T Consensus 92 S~tLa~~i~~lH~~Ll~~L~~E~~~~~l~q~lK~la~Lv~~tPY~rL~~~ll~~~v~~v~~~l~~~d~~v~v~~l~~~~~ 171 (182)
T PF13251_consen 92 SSTLASMIMELHRGLLLALQAEKSPPVLTQLLKCLAVLVQATPYHRLPPGLLTEVVTQVRPLLRHRDPNVRVAALSCLGA 171 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHccCChhhcCHhHHHHHHHHHHHHHhcCCCcHHHHHHHHHHH
Confidence 356788888888888999988888888888777665 45677766677888888888888888888899999999988
Q ss_pred HHhc
Q 005489 336 VASG 339 (694)
Q Consensus 336 la~~ 339 (694)
+...
T Consensus 172 l~s~ 175 (182)
T PF13251_consen 172 LLSV 175 (182)
T ss_pred HHcC
Confidence 7654
No 43
>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=38.98 E-value=3.6e+02 Score=26.02 Aligned_cols=121 Identities=12% Similarity=0.015 Sum_probs=62.6
Q ss_pred HHHhhcCCcHHHHHHHHHHhhhhhhhhhcchHHHHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhccCcchHHHHHHHHH
Q 005489 274 LFMLNQATDSEILAFSLNRLRTSIVFFAAFPLLIRRLIKIAVHLWATGEETVSFHSFLILQDVASGFSSDCFDLCLIKMY 353 (694)
Q Consensus 274 l~LL~~ltd~~~l~~vL~~l~~l~py~~~f~kl~k~llK~lv~lWst~~e~vrv~AFl~Lr~la~~~~~~~le~~LK~~Y 353 (694)
-.+++.+|. +.+..+...+.. ++..-+...+.+++.++..|-....-+...| .+-.......+.+...++..++
T Consensus 5 ~~~lnkLs~-~n~~~~~~~l~~---~~~~~~~~~~~l~~~i~~~~~~~~~~~~~ya--~L~~~l~~~~~~f~~~ll~~~~ 78 (200)
T smart00543 5 KGLINKLSP-SNFESIIKELLK---LNNSDKNLRKYILELIFEKAVEEPNFIPAYA--RLCALLNAKNPDFGSLLLERLQ 78 (200)
T ss_pred HHHHhhCCH-HHHHHHHHHHHH---HHccCHHHHHHHHHHHHHHHHcCcchHHHHH--HHHHHHHHHHHHHHHHHHHHHH
Confidence 345667774 344444444443 2334467888889998888876554333322 2221111122467777777777
Q ss_pred HHHHhhcccCCccchhhhHHHHHHHHHHhcCCcchhhHHHHHHHHHHH
Q 005489 354 KAFIGHCKFAEPALFKHLQFLRNSFVELCSQDLLRSSNKAKVSINNLS 401 (694)
Q Consensus 354 ~ayv~n~k~t~~~tlp~Infm~N~~~EL~~ld~~~sYq~AF~YIRQLA 401 (694)
..|-+.........+....=..+.++|||....-... ..|..|++|-
T Consensus 79 ~~f~~~~e~~~~~~~~~~~~~i~fl~eL~~~~~i~~~-~i~~~l~~ll 125 (200)
T smart00543 79 EEFEKGLESEEESDKQRRLGLVRFLGELYNFQVLTSK-IILELLKELL 125 (200)
T ss_pred HHHHHHHHHHHHHhhhhHHhHHHHHHHHHHcccCcHH-HHHHHHHHHH
Confidence 7776642222122223333334456788776543222 4555555554
No 44
>KOG2038 consensus CAATT-binding transcription factor/60S ribosomal subunit biogenesis protein [Translation, ribosomal structure and biogenesis; Transcription]
Probab=38.45 E-value=21 Score=43.25 Aligned_cols=11 Identities=18% Similarity=0.205 Sum_probs=6.0
Q ss_pred cccCchhhhcc
Q 005489 32 IEDMSLEAIFS 42 (694)
Q Consensus 32 ~~~~~~~~~~~ 42 (694)
+++|+-|+-=.
T Consensus 869 ~~d~~~D~d~~ 879 (988)
T KOG2038|consen 869 KKDMTSDDDVD 879 (988)
T ss_pred hhccccccccc
Confidence 66665555433
No 45
>KOG1020 consensus Sister chromatid cohesion protein SCC2/Nipped-B [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=37.83 E-value=5.6e+02 Score=34.09 Aligned_cols=240 Identities=18% Similarity=0.177 Sum_probs=111.1
Q ss_pred hhhhhcchHHHHHHHHHHHHhhcCCC-c-hhHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHhhccc--CCccchhhhH
Q 005489 297 IVFFAAFPLLIRRLIKIAVHLWATGE-E-TVSFHSFLILQDVASGFSSDCFDLCLIKMYKAFIGHCKF--AEPALFKHLQ 372 (694)
Q Consensus 297 ~py~~~f~kl~k~llK~lv~lWst~~-e-~vrv~AFl~Lr~la~~~~~~~le~~LK~~Y~ayv~n~k~--t~~~tlp~In 372 (694)
.|=.-+-..++..+.+.+|+-.+... + ++|++|--.|-.|+..........-|-+ ..-=++... -.++..+ +.
T Consensus 616 ~PEWPatE~ILs~Lg~~Lv~~~s~ks~~~sir~asLdlLG~IaarLrkd~v~s~l~~--g~v~~~~~~~s~~~~~~k-~~ 692 (1692)
T KOG1020|consen 616 LPEWPATELILSLLGKLLVHNFSNKSVDVSIRTASLDLLGTIAARLRKDAVLSKLEQ--GSVDRELDQDSEEKHNIK-LI 692 (1692)
T ss_pred CCcCccHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ccchhhhhhcccccccch-hh
Confidence 45555557888999999999998643 3 5888888777776654433332221211 000011111 1223322 44
Q ss_pred HHHHHHHHHhcCCc-chhhHHHHH---HH----HHHHHHHHHhhhhhh-hhhhhhcccchhHhHHHHHHHHHcccCCCCC
Q 005489 373 FLRNSFVELCSQDL-LRSSNKAKV---SI----NNLSRILQLGLQTKK-KEAVKKICSWQYANCIDLWVTYISHCIHDYD 443 (694)
Q Consensus 373 fm~N~~~EL~~ld~-~~sYq~AF~---YI----RQLAihLRna~~~k~-Ke~~k~VYNWQfi~sL~lWs~Vls~~~~~s~ 443 (694)
+.++.+...+.... ..+|...|. || |.++.-.+.+|..++ -++=..+..| .++.+|-+-+.+.- +.
T Consensus 693 ~l~~~Lldfl~~~~~~~~~~~v~~~~fyi~~w~~d~~le~~~~~~~~kd~~s~~~~~~~---~~~el~~~~v~~~~--n~ 767 (1692)
T KOG1020|consen 693 VLQKTLLDFLKSNTEETALSEVYACHFYIAQWYRDTRLETILIMEENKDVDSNEGTHHW---FSFELAYEKVITVE--NE 767 (1692)
T ss_pred hhHHHHHHHHHHhhhccchhhHHHhhHHHHhHHHHHHHHHHHHHHhccCccccccchhH---HHHHHHHHHHhhhH--HH
Confidence 55666666655433 344443332 33 445555556665443 1222233334 34566776666421 11
Q ss_pred cchhhHHHHHHHhhh-hcccC--CCccc--chHHHHHHHHHHHHhccCcceechhHHHHhhccccccCCCCCCCCCCccc
Q 005489 444 LQPLLYIIIQIINGM-ATLFP--GPRYL--PLRCKCIEWLNHLSSSSGIFIPVTSLMLDVLEYKVSKEVGKPGKDFNFSS 518 (694)
Q Consensus 444 L~pLiYPLvQVi~G~-irLiP--t~ry~--PLRfh~ir~L~~Ls~~t~~fIPl~p~LleiL~~~~~K~~~~~~k~~df~~ 518 (694)
++ |=+-+|--+- .+.-| +.+|. -=-.+..+.|..-+.=+..|=|.+.+|+-+|.....+-..+.+|.+ +-
T Consensus 768 ~K---~~~~~Ik~~~~~~~~~~~~s~~~d~~~a~li~~~la~~r~f~~sfD~yLk~Il~~l~e~~ialRtkAlKcl--S~ 842 (1692)
T KOG1020|consen 768 LK---YILSKIKDKEKSGRGPKLNSRFADDDDAKLIVFYLAHARSFSQSFDPYLKLILSVLGENAIALRTKALKCL--SM 842 (1692)
T ss_pred HH---HHHHHhcchhhhccCcCCCCccccchhHHHHHHHHHhhhHHHHhhHHHHHHHHHHhcCchHHHHHHHHHHH--HH
Confidence 11 1111111110 00001 11111 1123444555554455556666666666666643221111122221 12
Q ss_pred ccccchhhhcchhhHHHH-----------HHHHHHHHHHHHH
Q 005489 519 AVKLPKHWLKSRNFREDC-----------VFSAIELLSAHFA 549 (694)
Q Consensus 519 ~Lk~~k~~l~s~~yqd~l-----------ie~~~eLL~e~la 549 (694)
.+-+++..|..+..|.+| -+.+++|++.|..
T Consensus 843 ive~Dp~vL~~~dvq~~Vh~R~~DssasVREAaldLvGrfvl 884 (1692)
T KOG1020|consen 843 IVEADPSVLSRPDVQEAVHGRLNDSSASVREAALDLVGRFVL 884 (1692)
T ss_pred HHhcChHhhcCHHHHHHHHHhhccchhHHHHHHHHHHhhhhh
Confidence 334444444444444443 4567788886654
No 46
>COG4547 CobT Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]
Probab=36.73 E-value=42 Score=38.65 Aligned_cols=27 Identities=26% Similarity=0.384 Sum_probs=10.6
Q ss_pred cCchhhhccCCCCccccCCCCCCCCCC
Q 005489 34 DMSLEAIFSEDESDEDEGDVDVDDSGS 60 (694)
Q Consensus 34 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 (694)
.|.+..-+|+|+-.+++++.++|+.++
T Consensus 215 sm~~ae~~~~d~~~ed~de~d~~d~~p 241 (620)
T COG4547 215 SMDMAEETGDDGIEEDADEEDGDDDQP 241 (620)
T ss_pred ccccccccCCCcCCCCccccccccCCC
Confidence 334444444443333333333333333
No 47
>KOG0262 consensus RNA polymerase I, large subunit [Transcription]
Probab=36.25 E-value=52 Score=41.98 Aligned_cols=73 Identities=5% Similarity=-0.069 Sum_probs=36.4
Q ss_pred hHHHHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHhhcccCCccchhhhHHHHHHHHHHhc
Q 005489 304 PLLIRRLIKIAVHLWATGEETVSFHSFLILQDVASGFSSDCFDLCLIKMYKAFIGHCKFAEPALFKHLQFLRNSFVELCS 383 (694)
Q Consensus 304 ~kl~k~llK~lv~lWst~~e~vrv~AFl~Lr~la~~~~~~~le~~LK~~Y~ayv~n~k~t~~~tlp~Infm~N~~~EL~~ 383 (694)
.-..+.+++-+.++++.=.=+|. +|.|....+. .++.+.|+.|=|.---.+ |-|..
T Consensus 1532 EAar~~Iv~Ev~~VF~vYGIsVd------~RHLsLiADY----MTf~G~y~pfnR~Gm~~s--sSP~q------------ 1587 (1640)
T KOG0262|consen 1532 EAARNAIVNEVNNVFKVYGISVD------IRHLSLIADY----MTFEGGYQPFNRMGMESS--SSPLQ------------ 1587 (1640)
T ss_pred HHHHHHHHHHHHHhhhheeeeec------HHHHHHHHHH----HhhccccccccccccccC--CChhH------------
Confidence 33446667777777765221111 2333332222 245677777766553332 33321
Q ss_pred CCcchhhHHHHHHHHHHHHH
Q 005489 384 QDLLRSSNKAKVSINNLSRI 403 (694)
Q Consensus 384 ld~~~sYq~AF~YIRQLAih 403 (694)
..+|..++-|++|-|.+
T Consensus 1588 ---kMsFETt~~Fl~~Aa~~ 1604 (1640)
T KOG0262|consen 1588 ---KMSFETTCQFLKQAALF 1604 (1640)
T ss_pred ---hhhHHHHHHHHHHHHhc
Confidence 23566667777776643
No 48
>KOG1062 consensus Vesicle coat complex AP-1, gamma subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=35.21 E-value=5.3e+02 Score=32.01 Aligned_cols=197 Identities=17% Similarity=0.207 Sum_probs=106.5
Q ss_pred HHHHhCCcCCCCCccccccCCCCcchhhHHHHHHHHHHHHHH---------h-hcCC------cHHHHHHHHHHhhhhhh
Q 005489 235 FREMLGISSNCKRDTILGLKNNSKWKTVRPLIKSYLRSTLFM---------L-NQAT------DSEILAFSLNRLRTSIV 298 (694)
Q Consensus 235 l~~~l~~k~~~~k~~~~~~~~~~kw~kl~~liKsyl~sll~L---------L-~~lt------d~~~l~~vL~~l~~l~p 298 (694)
+-++||++.+-|...-+++..+.++.-=| --||...+.| | +++. +.=++.+.|+.+..
T Consensus 60 Yi~MLGypahFGqieclKLias~~f~dKR---iGYLaamLlLdE~qdvllLltNslknDL~s~nq~vVglAL~alg~--- 133 (866)
T KOG1062|consen 60 YIHMLGYPAHFGQIECLKLIASDNFLDKR---IGYLAAMLLLDERQDLLLLLTNSLKNDLNSSNQYVVGLALCALGN--- 133 (866)
T ss_pred HHHHhCCCccchhhHHHHHhcCCCchHHH---HHHHHHHHHhccchHHHHHHHHHHHhhccCCCeeehHHHHHHhhc---
Confidence 34899999875543334444455442211 1466655433 2 1111 11255666666665
Q ss_pred hhhcchHHHHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHhhcccCCccchhhhHHHHHHH
Q 005489 299 FFAAFPLLIRRLIKIAVHLWATGEETVSFHSFLILQDVASGFSSDCFDLCLIKMYKAFIGHCKFAEPALFKHLQFLRNSF 378 (694)
Q Consensus 299 y~~~f~kl~k~llK~lv~lWst~~e~vrv~AFl~Lr~la~~~~~~~le~~LK~~Y~ayv~n~k~t~~~tlp~Infm~N~~ 378 (694)
++.|-++|.+.-.+.++.....+-+|=-|-+|.-++.+.-| +.++..+-..- +.+ +.|..++ -+..+. -+
T Consensus 134 --i~s~EmardlapeVe~Ll~~~~~~irKKA~Lca~r~irK~P-~l~e~f~~~~~-~lL-~ek~hGV-L~~~l~----l~ 203 (866)
T KOG1062|consen 134 --ICSPEMARDLAPEVERLLQHRDPYIRKKAALCAVRFIRKVP-DLVEHFVIAFR-KLL-CEKHHGV-LIAGLH----LI 203 (866)
T ss_pred --cCCHHHhHHhhHHHHHHHhCCCHHHHHHHHHHHHHHHHcCc-hHHHHhhHHHH-HHH-hhcCCce-eeeHHH----HH
Confidence 56789999999999999999888899888888777766543 33333222211 111 1222211 111111 13
Q ss_pred HHHhcCCcc-hhhHHHHHHHHHHHHHHHHhhhhhhhhhhhhcccch-----hHhH--HHHHHHHHcccCCCCCcchhhHH
Q 005489 379 VELCSQDLL-RSSNKAKVSINNLSRILQLGLQTKKKEAVKKICSWQ-----YANC--IDLWVTYISHCIHDYDLQPLLYI 450 (694)
Q Consensus 379 ~EL~~ld~~-~sYq~AF~YIRQLAihLRna~~~k~Ke~~k~VYNWQ-----fi~s--L~lWs~Vls~~~~~s~L~pLiYP 450 (694)
.|||.++++ .+|-.- -.++|-..||+-.+. .|..=|+.+ |+|+ |++ -++|.+.- ..-..+.+-
T Consensus 204 ~e~c~~~~~~l~~fr~--l~~~lV~iLk~l~~~----~yspeydv~gi~dPFLQi~iLrl-LriLGq~d--~daSd~M~D 274 (866)
T KOG1062|consen 204 TELCKISPDALSYFRD--LVPSLVKILKQLTNS----GYSPEYDVHGISDPFLQIRILRL-LRILGQND--ADASDLMND 274 (866)
T ss_pred HHHHhcCHHHHHHHHH--HHHHHHHHHHHHhcC----CCCCccCccCCCchHHHHHHHHH-HHHhcCCC--ccHHHHHHH
Confidence 577877653 333222 668888899988775 333334433 5555 444 35555432 122223322
Q ss_pred -HHHHHh
Q 005489 451 -IIQIIN 456 (694)
Q Consensus 451 -LvQVi~ 456 (694)
|.||+.
T Consensus 275 iLaqvat 281 (866)
T KOG1062|consen 275 ILAQVAT 281 (866)
T ss_pred HHHHHHh
Confidence 567765
No 49
>PF04826 Arm_2: Armadillo-like; InterPro: IPR006911 This entry consists of mammalian proteins of unknown function.
Probab=35.03 E-value=1.5e+02 Score=31.50 Aligned_cols=76 Identities=17% Similarity=0.211 Sum_probs=54.9
Q ss_pred hHHHHHHHHHHHHHHhhcC-CcHHHHHHHHHHhhhhhhhhhcchHHHHHHHHHHHHhhcCCCchhHHHHHHHHHHHHh
Q 005489 262 VRPLIKSYLRSTLFMLNQA-TDSEILAFSLNRLRTSIVFFAAFPLLIRRLIKIAVHLWATGEETVSFHSFLILQDVAS 338 (694)
Q Consensus 262 l~~liKsyl~sll~LL~~l-td~~~l~~vL~~l~~l~py~~~f~kl~k~llK~lv~lWst~~e~vrv~AFl~Lr~la~ 338 (694)
-+..|+.|+.-++..+..- -|+.+....|+-|.++.. --.+..+....+-.++++|++|++.+|+.+--+|-+++.
T Consensus 87 n~~~Ik~~i~~Vc~~~~s~~lns~~Q~agLrlL~nLtv-~~~~~~~l~~~i~~ll~LL~~G~~~~k~~vLk~L~nLS~ 163 (254)
T PF04826_consen 87 NQEQIKMYIPQVCEETVSSPLNSEVQLAGLRLLTNLTV-TNDYHHMLANYIPDLLSLLSSGSEKTKVQVLKVLVNLSE 163 (254)
T ss_pred hHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHccCC-CcchhhhHHhhHHHHHHHHHcCChHHHHHHHHHHHHhcc
Confidence 3556889998888765443 467777778888887531 222345667788899999999999888877777777655
No 50
>KOG2393 consensus Transcription initiation factor IIF, large subunit (RAP74) [Transcription]
Probab=34.30 E-value=37 Score=39.61 Aligned_cols=6 Identities=0% Similarity=0.014 Sum_probs=2.7
Q ss_pred CCCCCC
Q 005489 131 FRNENA 136 (694)
Q Consensus 131 F~~~~~ 136 (694)
|+++|.
T Consensus 336 ~desDe 341 (555)
T KOG2393|consen 336 SDESDE 341 (555)
T ss_pred cccccc
Confidence 444443
No 51
>PTZ00429 beta-adaptin; Provisional
Probab=33.63 E-value=1e+03 Score=29.50 Aligned_cols=32 Identities=9% Similarity=0.131 Sum_probs=20.1
Q ss_pred HHHHHHHHhhcCCCchhHHHHHHHHHHHHhccC
Q 005489 309 RLIKIAVHLWATGEETVSFHSFLILQDVASGFS 341 (694)
Q Consensus 309 ~llK~lv~lWst~~e~vrv~AFl~Lr~la~~~~ 341 (694)
++-+.++.| .++...+|..+.-.|+.|+...|
T Consensus 298 rl~~pLv~L-~ss~~eiqyvaLr~I~~i~~~~P 329 (746)
T PTZ00429 298 RVNTALLTL-SRRDAETQYIVCKNIHALLVIFP 329 (746)
T ss_pred HHHHHHHHh-hCCCccHHHHHHHHHHHHHHHCH
Confidence 344555667 44555678777777777777664
No 52
>KOG1241 consensus Karyopherin (importin) beta 1 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=32.55 E-value=3.1e+02 Score=33.77 Aligned_cols=96 Identities=16% Similarity=0.224 Sum_probs=59.3
Q ss_pred CcHHHHHHHHHHhhhhhhhhh-cchH-HHH-HHHHHHHHhhcCCCchhHHHHHHHHHHHHhccC---cchHHHHHHHHHH
Q 005489 281 TDSEILAFSLNRLRTSIVFFA-AFPL-LIR-RLIKIAVHLWATGEETVSFHSFLILQDVASGFS---SDCFDLCLIKMYK 354 (694)
Q Consensus 281 td~~~l~~vL~~l~~l~py~~-~f~k-l~k-~llK~lv~lWst~~e~vrv~AFl~Lr~la~~~~---~~~le~~LK~~Y~ 354 (694)
|+..+=-..++.|...+-|.- -|.+ .-| -++..+++.|..++..++++||-||.+|+..+= .++++..|-.+|.
T Consensus 186 ~s~~vRLaa~~aL~nsLef~~~nF~~E~ern~iMqvvcEatq~~d~~i~~aa~~ClvkIm~LyY~~m~~yM~~alfaitl 265 (859)
T KOG1241|consen 186 TSAAVRLAALNALYNSLEFTKANFNNEMERNYIMQVVCEATQSPDEEIQVAAFQCLVKIMSLYYEFMEPYMEQALFAITL 265 (859)
T ss_pred CchhHHHHHHHHHHHHHHHHHHhhccHhhhceeeeeeeecccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444445566666555544 2222 223 355688899999999999999999999998651 2344444444444
Q ss_pred HHHhhcccCC-ccchhhhHHHHHHHH
Q 005489 355 AFIGHCKFAE-PALFKHLQFLRNSFV 379 (694)
Q Consensus 355 ayv~n~k~t~-~~tlp~Infm~N~~~ 379 (694)
+-++ ..+ .-.+..|.|-.+-.-
T Consensus 266 ~amk---s~~deValQaiEFWstice 288 (859)
T KOG1241|consen 266 AAMK---SDNDEVALQAIEFWSTICE 288 (859)
T ss_pred HHHc---CCcHHHHHHHHHHHHHHHH
Confidence 4444 332 246778888775443
No 53
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=31.83 E-value=47 Score=41.29 Aligned_cols=24 Identities=17% Similarity=0.099 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHhhhcCChhHhHhh
Q 005489 98 LELENKKKKLSRLKAKDPGFSKFL 121 (694)
Q Consensus 98 ~e~~~hk~~L~~LkekDPEFyKyL 121 (694)
+...--++-+..|+..||--|.=|
T Consensus 959 D~f~~f~~~i~~lq~~d~~~yq~l 982 (1010)
T KOG1991|consen 959 DPFQLFKEAITNLQSSDAVRYQKL 982 (1010)
T ss_pred chHHHHHHHHHhhhccChHHHHHH
Confidence 345566788888888888877533
No 54
>PHA02458 A protein A*; Reviewed
Probab=31.01 E-value=98 Score=32.66 Aligned_cols=49 Identities=14% Similarity=0.158 Sum_probs=39.0
Q ss_pred chHHHHHHHHHHHHHhhcccCCccchhhhHHHHHHHHHHhcC--CcchhhHHH
Q 005489 343 DCFDLCLIKMYKAFIGHCKFAEPALFKHLQFLRNSFVELCSQ--DLLRSSNKA 393 (694)
Q Consensus 343 ~~le~~LK~~Y~ayv~n~k~t~~~tlp~Infm~N~~~EL~~l--d~~~sYq~A 393 (694)
+-+-.|+|+.|+ ||.+|.....-+.+-++.-.|++||.-+ |..--||+.
T Consensus 200 tkmal~~kk~fr--ir~sr~~gm~l~smahls~~~liqlt~~~~d~tp~~qil 250 (341)
T PHA02458 200 TKMALLPKKLFR--IRMSRNFGMKLLSMAHLSAECLIQLTQVGYDVTPFNNIL 250 (341)
T ss_pred hhHhhchHHHHH--hhhhhhcccchhhhhhhhHHHHHHHHhcccCcchHHHHH
Confidence 447788999887 7889988888888889999999999776 444457753
No 55
>PF03353 Lin-8: Ras-mediated vulval-induction antagonist; InterPro: IPR005020 This is a family of Caenorhabditis elegans proteins of unknown function.
Probab=30.49 E-value=7.3e+02 Score=26.88 Aligned_cols=102 Identities=14% Similarity=0.148 Sum_probs=66.4
Q ss_pred HHHHHHHHHHHHHHHhhcCCccccchhHHH--HHHHhhhhhcccHHHHHHHHHHHHHHHHhHHHHH-HhhcCCCCCCCCH
Q 005489 536 CVFSAIELLSAHFAQWSYHISFPELATIPL--IHLRKFQEKSDVESLRRVVKRFIDVVEQNIEFVK-KKRDEVAFSPNDQ 612 (694)
Q Consensus 536 lie~~~eLL~e~la~~S~sIAFPEL~~P~i--~~LKrf~K~~k~~~~~~~lK~LidkIeens~fI~-~kR~~v~F~p~d~ 612 (694)
+-.-++.++..+=.+|.+....+.-.+..+ ..-+|.-+-..+..++..++.--+.|+..+.... .+| .+.
T Consensus 24 ~kk~il~~i~~~p~lw~~~~~~~~~~~~~v~v~vy~Rtg~~~~~~~i~~~~~~aK~~Lr~~l~~~I~~~~-------l~~ 96 (313)
T PF03353_consen 24 LKKVILSEIEKFPELWKKKSRVPNEEWEEVAVEVYKRTGKLVSVKHIRSIFKNAKDSLRRRLRKCIKKKK-------LSP 96 (313)
T ss_pred HHHHHHHHHhcChHhhhccCCccHHHHHHHHHHHHHHHhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHcC-------CCH
Confidence 445567888888888987777555444433 2456655555566666666666666666655533 332 334
Q ss_pred HHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHHHH
Q 005489 613 QSVEAFLQLEKCSGNTPFTQYYRSVMEKAASRSLI 647 (694)
Q Consensus 613 ~~V~~Fl~~~~~~~~tPL~~y~~~~~~~~~~r~~~ 647 (694)
.+++..|. .|+--|.-+||....+..|.+.|-
T Consensus 97 ~~~E~~L~---~W~~Y~~~rfyR~~~~~~E~~lR~ 128 (313)
T PF03353_consen 97 EETEEKLW---KWELYPFIRFYREYLKEFEAELRK 128 (313)
T ss_pred HHHHHHHH---cCCccchhHHHHHHHHHHHHHHHH
Confidence 67788875 499999999999988777655443
No 56
>KOG3064 consensus RNA-binding nuclear protein (MAK16) containing a distinct C4 Zn-finger [RNA processing and modification]
Probab=30.38 E-value=31 Score=36.83 Aligned_cols=10 Identities=30% Similarity=0.547 Sum_probs=4.1
Q ss_pred HHHHHHHHHh
Q 005489 100 LENKKKKLSR 109 (694)
Q Consensus 100 ~~~hk~~L~~ 109 (694)
++.||..-.+
T Consensus 259 ~Ee~K~~~k~ 268 (303)
T KOG3064|consen 259 IEENKKESKK 268 (303)
T ss_pred HHHhhhhhhh
Confidence 3444444333
No 57
>KOG1163 consensus Casein kinase (serine/threonine/tyrosine protein kinase) [Signal transduction mechanisms]
Probab=29.37 E-value=74 Score=34.30 Aligned_cols=57 Identities=23% Similarity=0.393 Sum_probs=41.9
Q ss_pred HHHHHhccCcchHHHHHHHHHHHHHhhcccCCccchhhhHHHHHHHHHHhcCCcchhhHHHHHHHHHHHHHHHHhhhhhh
Q 005489 333 LQDVASGFSSDCFDLCLIKMYKAFIGHCKFAEPALFKHLQFLRNSFVELCSQDLLRSSNKAKVSINNLSRILQLGLQTKK 412 (694)
Q Consensus 333 Lr~la~~~~~~~le~~LK~~Y~ayv~n~k~t~~~tlp~Infm~N~~~EL~~ld~~~sYq~AF~YIRQLAihLRna~~~k~ 412 (694)
+..+|.-+|..| .||..|.|+-+|-..- -+.|||||=..|++.++.
T Consensus 245 ie~LC~G~P~EF------~myl~Y~R~L~F~E~P--------------------------dy~ylrqlFriLfr~ln~-- 290 (341)
T KOG1163|consen 245 IEVLCKGFPAEF------AMYLNYCRGLGFEEKP--------------------------DYMYLRQLFRILFRTLNH-- 290 (341)
T ss_pred HHHHhCCCcHHH------HHHHHHHhhcCCCCCC--------------------------cHHHHHHHHHHHHhhccc--
Confidence 445677777655 4899999999996322 267999999999998875
Q ss_pred hhhhhhcccchhH
Q 005489 413 KEAVKKICSWQYA 425 (694)
Q Consensus 413 Ke~~k~VYNWQfi 425 (694)
.+--+|.|-..
T Consensus 291 --~~d~iyDW~~l 301 (341)
T KOG1163|consen 291 --QYDYIYDWTML 301 (341)
T ss_pred --cCCeEeeHHHH
Confidence 45567887543
No 58
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=28.00 E-value=1.2e+02 Score=25.97 Aligned_cols=32 Identities=3% Similarity=0.123 Sum_probs=28.0
Q ss_pred cccHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 005489 163 LLTSSAINSWCHLVKEQHNASAFISLLNAYRA 194 (694)
Q Consensus 163 ~lT~~~v~~W~~~l~~~~s~~alr~ll~AFra 194 (694)
.||.+||+.--.++-.+||-+-++.+..+.+.
T Consensus 31 pine~mir~M~~QMG~kpSekqi~Q~m~~mk~ 62 (64)
T PF03672_consen 31 PINEKMIRAMMMQMGRKPSEKQIKQMMRSMKN 62 (64)
T ss_pred CCCHHHHHHHHHHhCCCccHHHHHHHHHHHHh
Confidence 48999999999999889999999999887664
No 59
>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=27.69 E-value=5.5e+02 Score=24.61 Aligned_cols=81 Identities=17% Similarity=0.149 Sum_probs=48.2
Q ss_pred HHHHhhcCCcHHHHHHHHHHhhhhhhhhhc-chHHHHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhccCcchHHHHHHH
Q 005489 273 TLFMLNQATDSEILAFSLNRLRTSIVFFAA-FPLLIRRLIKIAVHLWATGEETVSFHSFLILQDVASGFSSDCFDLCLIK 351 (694)
Q Consensus 273 ll~LL~~ltd~~~l~~vL~~l~~l~py~~~-f~kl~k~llK~lv~lWst~~e~vrv~AFl~Lr~la~~~~~~~le~~LK~ 351 (694)
+-.+|+.+|+..+ ..+...+.. +... -+...+.+++.++..|......+.+.|=+| ..+....+..|...++..
T Consensus 4 v~~~lnklt~~n~-~~~~~~l~~---~~~~~~~~~~~~i~~~i~~~a~~~~~~~~~~a~l~-~~l~~~~~~~f~~~ll~~ 78 (209)
T PF02854_consen 4 VRGILNKLTPSNF-ESIIDELIK---LNWSDDPETLKEIVKLIFEKAVEEPNFSPLYARLC-AALNSRFPSEFRSLLLNR 78 (209)
T ss_dssp HHHHHHHCSSTTH-HHHHHHHHH---HHHHSCHHHHHHHHHHHHHHHHHSGGGHHHHHHHH-HHHHHHCHHHHHHHHHHH
T ss_pred HHHHHHHCCHHHH-HHHHHHHHH---HHhhccHHHHHHHHHHHhhhhhcCchHHHHHHHHH-HHHhccchhhHHHHHHHH
Confidence 3445677774333 223333332 2222 477888888888888877665555444332 224444445788888888
Q ss_pred HHHHHHh
Q 005489 352 MYKAFIG 358 (694)
Q Consensus 352 ~Y~ayv~ 358 (694)
++..|-.
T Consensus 79 ~~~~f~~ 85 (209)
T PF02854_consen 79 CQEEFEE 85 (209)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 8888877
No 60
>PF08595 RXT2_N: RXT2-like, N-terminal; InterPro: IPR013904 The entry represents the N-terminal region of RXT2-like proteins. In Saccharomyces cerevisiae (Baker's yeast), RXT2 has been demonstrated to be involved in conjugation with cellular fusion (mating) and invasive growth []. A high throughput localisation study has localised RXT2 to the nucleus [].
Probab=26.76 E-value=82 Score=31.04 Aligned_cols=30 Identities=23% Similarity=0.256 Sum_probs=19.8
Q ss_pred cccHHHHHHHHHHH-----HhcCChHHHHHHHHHH
Q 005489 163 LLTSSAINSWCHLV-----KEQHNASAFISLLNAY 192 (694)
Q Consensus 163 ~lT~~~v~~W~~~l-----~~~~s~~alr~ll~AF 192 (694)
+.|...+......+ +++.++.-+++|+..|
T Consensus 112 ~f~Sk~L~~La~q~i~~iekEq~~l~~~~kLl~vl 146 (149)
T PF08595_consen 112 TFKSKALSKLALQLIEMIEKEQNSLWRLKKLLEVL 146 (149)
T ss_pred ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555555554433 4778888888988877
No 61
>KOG1943 consensus Beta-tubulin folding cofactor D [Posttranslational modification, protein turnover, chaperones]
Probab=26.69 E-value=1.5e+03 Score=29.30 Aligned_cols=96 Identities=9% Similarity=0.004 Sum_probs=60.6
Q ss_pred HHHHhcCC---cchhhHHHHHHHHHHHHHHHHhhhhhhhhhh-hhcccchhHhHHHHHHHHHcccCCCCCcchhhHHHHH
Q 005489 378 FVELCSQD---LLRSSNKAKVSINNLSRILQLGLQTKKKEAV-KKICSWQYANCIDLWVTYISHCIHDYDLQPLLYIIIQ 453 (694)
Q Consensus 378 ~~EL~~ld---~~~sYq~AF~YIRQLAihLRna~~~k~Ke~~-k~VYNWQfi~sL~lWs~Vls~~~~~s~L~pLiYPLvQ 453 (694)
.++++|+- -..|-|+.|.|+| .++.+.. +-..+ .++ =|++++..+|.++...- ++ ||-+
T Consensus 936 ~vs~ggl~esl~k~a~q~l~e~~R-----~~~~dp~-t~~~~~stl--~~~~~~~l~~eri~~~~-----l~----~l~~ 998 (1133)
T KOG1943|consen 936 VVSLGGLTESLIKLAKQALLEYVR-----DENSDPK-TIGSRDSTL--LQLIEEALLNERIMERF-----LR----PLMI 998 (1133)
T ss_pred HHHhhhhHHHHHHHHHHHHHHHHH-----HhhcCcc-cccchHHHH--HHHHHHHHHHHHhcCcc-----ce----eHHH
Confidence 34455542 2456788888888 3443321 11122 111 26888889999987742 33 4444
Q ss_pred HHhhhhcccCCCcccchHHHHHHHHHHHHhccCcceech
Q 005489 454 IINGMATLFPGPRYLPLRCKCIEWLNHLSSSSGIFIPVT 492 (694)
Q Consensus 454 Vi~G~irLiPt~ry~PLRfh~ir~L~~Ls~~t~~fIPl~ 492 (694)
+... .++-+--+.|+-..++..+.-+..+.+.|.|..
T Consensus 999 ~f~s--~~~~~~~~~~F~~~~~~~~~~~~~~s~~~~~~~ 1035 (1133)
T KOG1943|consen 999 VFNS--LIFLYGEFATFANLMLDSCKTERVSSKKIVKPL 1035 (1133)
T ss_pred Hhcc--hhhhccCcccHHHHHHHHHHHHHHHHhhhcchH
Confidence 4443 445567788888889999998988888888883
No 62
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=26.56 E-value=6.3e+02 Score=24.85 Aligned_cols=97 Identities=12% Similarity=0.081 Sum_probs=62.6
Q ss_pred hhhcchHHHHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHhhcccCCccchhhhH-HHHHH
Q 005489 299 FFAAFPLLIRRLIKIAVHLWATGEETVSFHSFLILQDVASGFSSDCFDLCLIKMYKAFIGHCKFAEPALFKHLQ-FLRNS 377 (694)
Q Consensus 299 y~~~f~kl~k~llK~lv~lWst~~e~vrv~AFl~Lr~la~~~~~~~le~~LK~~Y~ayv~n~k~t~~~tlp~In-fm~N~ 377 (694)
....||.+.-.++..+...-...+..||-.|..+|.++....--..-..++ ..+++-.. ..=|.|. +-+.+
T Consensus 15 L~~r~~~~ve~~~~~l~~~L~D~~~~VR~~al~~Ls~Li~~d~ik~k~~l~----~~~l~~l~----D~~~~Ir~~A~~~ 86 (178)
T PF12717_consen 15 LCIRYPNLVEPYLPNLYKCLRDEDPLVRKTALLVLSHLILEDMIKVKGQLF----SRILKLLV----DENPEIRSLARSF 86 (178)
T ss_pred HHHhCcHHHHhHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCceeehhhhh----HHHHHHHc----CCCHHHHHHHHHH
Confidence 356789999999999999999998999999999999988752111111111 22222111 2223443 55666
Q ss_pred HHHHhcC-CcchhhHHHHHHHHHHHHH
Q 005489 378 FVELCSQ-DLLRSSNKAKVSINNLSRI 403 (694)
Q Consensus 378 ~~EL~~l-d~~~sYq~AF~YIRQLAih 403 (694)
+.|+..- +++.-|++--..|-+|...
T Consensus 87 ~~e~~~~~~~~~i~~~~~e~i~~l~~~ 113 (178)
T PF12717_consen 87 FSELLKKRNPNIIYNNFPELISSLNNC 113 (178)
T ss_pred HHHHHHhccchHHHHHHHHHHHHHhCc
Confidence 7777765 7777777766666665543
No 63
>cd05137 RasGAP_CLA2_BUD2 CLA2/BUD2 functions as a GTPase-activating protein (GAP) for BUD1/RSR1 and is necessary for proper bud-site selection in yeast. BUD2 has sequence similarity to the catalytic domain of RasGAPs, and stimulates the hydrolysis of BUD1-GTP to BUD1-GDP. Elimination of Bud2p activity by mutation causes a random budding pattern with no growth defect. Overproduction of Bud2p also alters the budding pattern.
Probab=26.08 E-value=5.9e+02 Score=28.97 Aligned_cols=36 Identities=14% Similarity=0.130 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHhhcCCCch---hHHHHHHHHHHHHhcc
Q 005489 305 LLIRRLIKIAVHLWATGEET---VSFHSFLILQDVASGF 340 (694)
Q Consensus 305 kl~k~llK~lv~lWst~~e~---vrv~AFl~Lr~la~~~ 340 (694)
.+++.+=+.+-..|...... .-|.+|++||=+|=..
T Consensus 225 ~i~~~lr~~v~~kfpd~~~~~~~~~Vg~FiFLRFicPAI 263 (395)
T cd05137 225 HILKYIRAKLEDRYGDFLRTVVYNSISGFLFLRFFCPAI 263 (395)
T ss_pred HHHHHHHHHHHHHCCCchhhHHHHHHHHHHHHHHhcccc
Confidence 34444444444556654322 3478999999887653
No 64
>KOG3130 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.99 E-value=33 Score=38.70 Aligned_cols=7 Identities=14% Similarity=0.121 Sum_probs=2.9
Q ss_pred cHHHHHH
Q 005489 165 TSSAINS 171 (694)
Q Consensus 165 T~~~v~~ 171 (694)
|.+.|++
T Consensus 330 t~efvee 336 (514)
T KOG3130|consen 330 TLEFVEE 336 (514)
T ss_pred HHHHHhh
Confidence 3344443
No 65
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=25.03 E-value=1.5e+03 Score=28.87 Aligned_cols=222 Identities=12% Similarity=0.147 Sum_probs=118.4
Q ss_pred hhhHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHhh-----hhhhhhhcchHHHHHHHHHHHHhhcC------CCchhHHH
Q 005489 260 KTVRPLIKSYLRSTLFMLNQATDSEILAFSLNRLR-----TSIVFFAAFPLLIRRLIKIAVHLWAT------GEETVSFH 328 (694)
Q Consensus 260 ~kl~~liKsyl~sll~LL~~ltd~~~l~~vL~~l~-----~l~py~~~f~kl~k~llK~lv~lWst------~~e~vrv~ 328 (694)
.++++.|+--...+++|.+.+- .+.++.++..+- .+.||-. -++..+..+.+++--+ +.+.=.++
T Consensus 539 e~~~~hvp~~mq~lL~L~ne~E-nd~Lt~vme~iV~~fseElsPfA~---eL~q~La~~F~k~l~~~~~~~~~~ddk~ia 614 (1010)
T KOG1991|consen 539 EKVSAHVPPIMQELLKLSNEVE-NDDLTNVMEKIVCKFSEELSPFAV---ELCQNLAETFLKVLQTSEDEDESDDDKAIA 614 (1010)
T ss_pred hhHhhhhhHHHHHHHHHHHhcc-hhHHHHHHHHHHHHHHHhhchhHH---HHHHHHHHHHHHHHhccCCCCccchHHHHH
Confidence 4578888888889999988654 444555555442 4566543 2444444444444443 12345678
Q ss_pred HHHHHHHHHhccC----------------cchHHHHHHH----HHH---HHHhh----cccCCccchhhhHHHHHHHHHH
Q 005489 329 SFLILQDVASGFS----------------SDCFDLCLIK----MYK---AFIGH----CKFAEPALFKHLQFLRNSFVEL 381 (694)
Q Consensus 329 AFl~Lr~la~~~~----------------~~~le~~LK~----~Y~---ayv~n----~k~t~~~tlp~Infm~N~~~EL 381 (694)
|-=+||.|.+..- -+.+..+|+. .|. +++.+ +|-++|.-|.....|.+|+.+
T Consensus 615 A~GiL~Ti~Til~s~e~~p~vl~~le~~~l~vi~~iL~~~i~dfyeE~~ei~~~~t~~~~~Isp~mW~ll~li~e~~~~- 693 (1010)
T KOG1991|consen 615 ASGILRTISTILLSLENHPEVLKQLEPIVLPVIGFILKNDITDFYEELLEIVSSLTFLSKEISPIMWGLLELILEVFQD- 693 (1010)
T ss_pred HHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhhhhhhhcccCHHHHHHHHHHHHHHhh-
Confidence 8888888765321 1112222221 111 22222 344677777777777777753
Q ss_pred hcCCcchhhHHHHHHHHHHHHHHHHhhhhhhh-----hhhhhc--------ccc------hhHhHHHHHHHHHcccCCCC
Q 005489 382 CSQDLLRSSNKAKVSINNLSRILQLGLQTKKK-----EAVKKI--------CSW------QYANCIDLWVTYISHCIHDY 442 (694)
Q Consensus 382 ~~ld~~~sYq~AF~YIRQLAihLRna~~~k~K-----e~~k~V--------YNW------Qfi~sL~lWs~Vls~~~~~s 442 (694)
-|+.|.--.+.-|-|-++.-+. ..|..+ .+= -+.+.-++- .||--+|+.
T Consensus 694 ----------~~~dyf~d~~~~l~N~vt~g~~~~~s~~~y~~il~~i~~~~l~~e~~~D~d~~~a~kLl-e~iiL~~kg- 761 (1010)
T KOG1991|consen 694 ----------DGIDYFTDMMPALHNYVTYGTPSLLSNPDYLQILLEIIKKVLTSENGEDSDCESACKLL-EVIILNCKG- 761 (1010)
T ss_pred ----------hhHHHHHHHHHHHhhheeeCchhhhccchHHHHHHHHHHHHHcCCCCchHHHHHHHHHH-HHHHHHhcC-
Confidence 3467777777777777763322 111111 100 011122222 222224455
Q ss_pred CcchhhHHHHHHHhhhhcccCCCcccchHHHHHHHH-----------HHHHhccCcceechhHHHHhhc
Q 005489 443 DLQPLLYIIIQIINGMATLFPGPRYLPLRCKCIEWL-----------NHLSSSSGIFIPVTSLMLDVLE 500 (694)
Q Consensus 443 ~L~pLiYPLvQVi~G~irLiPt~ry~PLRfh~ir~L-----------~~Ls~~t~~fIPl~p~LleiL~ 500 (694)
.+.+-|.|+++++++-++-.+ .=-|+|-.|++.- +++-+..|.-.+.++..+..+.
T Consensus 762 ~~dq~iplf~~~a~~~l~~~~--e~s~~~~~~leVvinalyynP~ltL~iLe~~~~~~~ff~~wf~~~~ 828 (1010)
T KOG1991|consen 762 LLDQYIPLFLELALSRLTREV--ETSELRVMLLEVVINALYYNPKLTLGILENQGFLNNFFTLWFQFIN 828 (1010)
T ss_pred cHhhHhHHHHHHHHHHHhccc--cchHHHHHHHHHHHHHHHcCcHHHHHHHHHcCCcccHHHHHHHHHH
Confidence 778888889998888665543 3345666666543 3344444444454444444443
No 66
>PF12231 Rif1_N: Rap1-interacting factor 1 N terminal; InterPro: IPR022031 This domain family is found in eukaryotes, and is typically between 135 and 146 amino acids in length. Rif1 is a protein which interacts with Rap1 to regulate telomere length. Interaction with telomeres limits their length. The N-terminal region contains many HEAT- and ARMADILLO- type repeats. These are helical folds which form extended curved proteins or RNA interface surfaces.
Probab=24.79 E-value=7.4e+02 Score=27.60 Aligned_cols=164 Identities=13% Similarity=0.093 Sum_probs=84.9
Q ss_pred CcHHHHHHHHHHhh--hhhhhhhcchHHHHHHHHHHHHhhc-CCCchhHHHHHHHHHHHHhccCcchHHHH---HHHHHH
Q 005489 281 TDSEILAFSLNRLR--TSIVFFAAFPLLIRRLIKIAVHLWA-TGEETVSFHSFLILQDVASGFSSDCFDLC---LIKMYK 354 (694)
Q Consensus 281 td~~~l~~vL~~l~--~l~py~~~f~kl~k~llK~lv~lWs-t~~e~vrv~AFl~Lr~la~~~~~~~le~~---LK~~Y~ 354 (694)
++-.++...|.-|. +.=|.++. .....+++.++..+-. -+.-++-.-++.+++++...+|..+.+.+ +.-++.
T Consensus 104 ~~K~i~~~~l~~ls~Q~f~~~~~~-~~~~~~l~~~l~~i~~~~~s~si~~erL~i~~~ll~q~p~~M~~~~~~W~~~l~~ 182 (372)
T PF12231_consen 104 SPKSICTHYLWCLSDQKFSPKIMT-SDRVERLLAALHNIKNRFPSKSIISERLNIYKRLLSQFPQQMIKHADIWFPILFP 182 (372)
T ss_pred CCHHHHHHHHHHHHcCCCCCcccc-hhhHHHHHHHHHHhhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33456665555554 24444444 4456667777777765 35556667778888888888776665543 455566
Q ss_pred HHHhhcccCCccchhhhHHHHHHHHHHhcCCcchhhHHHHHHHHHHHHHHHHhhhhhhhhh---------h-hhccc-ch
Q 005489 355 AFIGHCKFAEPALFKHLQFLRNSFVELCSQDLLRSSNKAKVSINNLSRILQLGLQTKKKEA---------V-KKICS-WQ 423 (694)
Q Consensus 355 ayv~n~k~t~~~tlp~Infm~N~~~EL~~ld~~~sYq~AF~YIRQLAihLRna~~~k~Ke~---------~-k~VYN-WQ 423 (694)
..+.+.+.+..... .+...+.. .++ -=..++..++..++....+. . +.+-+ =.
T Consensus 183 ~l~~~~k~ir~~a~---~l~~~~~~---~l~----------~~~~~s~~~~~~~~~~~~~~~~~~~~~~~L~~mi~~~~~ 246 (372)
T PF12231_consen 183 DLLSSAKDIRTKAI---SLLLEAKK---CLG----------PNKELSKSVLEDLQRSLENGKLIQLYCERLKEMIKSKDE 246 (372)
T ss_pred HHhhcchHHHHHHH---HHHHHHHH---HhC----------hhHHHHHHHHHHhccccccccHHHHHHHHHHHHHhCcCC
Confidence 65555444322211 11111100 011 11233333333333221111 1 11122 34
Q ss_pred hHhHHHHHHHHHcccCCC-CCcchhhHHHHHHHhhhhcc
Q 005489 424 YANCIDLWVTYISHCIHD-YDLQPLLYIIIQIINGMATL 461 (694)
Q Consensus 424 fi~sL~lWs~Vls~~~~~-s~L~pLiYPLvQVi~G~irL 461 (694)
|.+..++|+-++.--... ..--+.+-+..+|.--+.+-
T Consensus 247 ~~~a~~iW~~~i~LL~~~~~~~w~~~n~wL~v~e~cFn~ 285 (372)
T PF12231_consen 247 YKLAMQIWSVVILLLGSSRLDSWEHLNEWLKVPEKCFNS 285 (372)
T ss_pred cchHHHHHHHHHHHhCCchhhccHhHhHHHHHHHHHhcC
Confidence 788899999988743211 33456666777777766655
No 67
>PF07165 DUF1397: Protein of unknown function (DUF1397); InterPro: IPR009832 This entry consists of several insect specific 27 kDa Haemolymph glycoprotein precursors. The function of this family is unknown [].
Probab=24.59 E-value=8e+02 Score=25.41 Aligned_cols=57 Identities=18% Similarity=0.205 Sum_probs=37.3
Q ss_pred cchHHHHHHHHHHHHHhhcccCCccchhh--------hHHHHHHHHHHhcC--Cc--chhhHHHHHHHHH
Q 005489 342 SDCFDLCLIKMYKAFIGHCKFAEPALFKH--------LQFLRNSFVELCSQ--DL--LRSSNKAKVSINN 399 (694)
Q Consensus 342 ~~~le~~LK~~Y~ayv~n~k~t~~~tlp~--------Infm~N~~~EL~~l--d~--~~sYq~AF~YIRQ 399 (694)
...+..|+-+++..| +.....+..++|. +.=+++|+++=+.- ++ ...+..-|.|||.
T Consensus 141 ~~~i~~C~~~~~~~~-~~~~~s~~~~~p~~~~~qC~~l~~~~~Cvv~~Le~C~~~tpani~~~~f~~i~k 209 (213)
T PF07165_consen 141 KDNIQQCANKTFSGY-SDMNISKLMSIPKFGEKQCSDLDNLRSCVVEKLEKCSDPTPANIFDSFFRFIRK 209 (213)
T ss_pred hHHHHHHHHHHHhhc-cccccccccccCcCChHhhhhHHHHHHHHHHHhccCCCCchHHHHHHHHHHHHh
Confidence 566778888888877 3322222234444 67789999966554 33 3448888999986
No 68
>PTZ00479 RAP Superfamily; Provisional
Probab=24.57 E-value=7.1e+02 Score=28.79 Aligned_cols=196 Identities=14% Similarity=0.062 Sum_probs=115.4
Q ss_pred HHHHHHHHHHHHHHhhcCCcHHHHHHHHHHhhhhhhhhhcchHHHHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhccCc
Q 005489 263 RPLIKSYLRSTLFMLNQATDSEILAFSLNRLRTSIVFFAAFPLLIRRLIKIAVHLWATGEETVSFHSFLILQDVASGFSS 342 (694)
Q Consensus 263 ~~liKsyl~sll~LL~~ltd~~~l~~vL~~l~~l~py~~~f~kl~k~llK~lv~lWst~~e~vrv~AFl~Lr~la~~~~~ 342 (694)
..+...++.-+...|.+++..++.. ++..|..+- +-.+.++..+-|.++.-|..=..+-=+-++.++.+|+..-
T Consensus 115 ~efy~~~~~~v~~~L~~fssh~L~~-i~wALsrL~---Ird~~fL~~~ak~vl~r~~~~r~~dl~k~~nslakLg~~~-- 188 (435)
T PTZ00479 115 PEFYEKMLKFVQPLLPNFYSHSLMC-IAWALNRVQ---IRDEAFLSRFAKEVGEKFDDIRTTDLIKICNSLAKLGGYT-- 188 (435)
T ss_pred HHHHHHHHHHHHHHhhhcCccHHHH-HHHHHHhcC---CCcHHHHHHHHHHHHhhccccCchhHHHHHHHHHHhcCCc--
Confidence 4577888888888888888766543 455555433 4558888999999999998743332234456666665532
Q ss_pred chHHHHHHHHHHH-----HHhhcc-cCCccchhhh-H-HHHHHHHHHhcCC----cchhhHHHH---HHHHHHHHHHHHh
Q 005489 343 DCFDLCLIKMYKA-----FIGHCK-FAEPALFKHL-Q-FLRNSFVELCSQD----LLRSSNKAK---VSINNLSRILQLG 407 (694)
Q Consensus 343 ~~le~~LK~~Y~a-----yv~n~k-~t~~~tlp~I-n-fm~N~~~EL~~ld----~~~sYq~AF---~YIRQLAihLRna 407 (694)
..+-..|-..+.+ |-++|| -+++-|+-.. + =|+-.+.|.|+-- -..-||.|| +|||.+.=|+=+.
T Consensus 189 ~~l~k~l~~~~~~rle~~~~~~~r~~i~~it~~~Lf~d~m~~~~ler~s~~~~c~r~~hl~~~y~~aly~rl~~p~v~~~ 268 (435)
T PTZ00479 189 NNLKKFLSEKMVEKLESLFAQDFRNVVNDVTLIHLYDDNTQIYILERFSKMFICARPQHLQQAYKSAVAVRVLLPHVWFQ 268 (435)
T ss_pred HHHHHHHHHHHHHHHhhhcccchhhhcChhhHHHHhhhHHHHHHHHHccccceecccHHHHHHHhhhhhheeechHHHHh
Confidence 2222222223322 233555 2333332111 0 2344566765532 355678999 9999999999888
Q ss_pred hhhhhhhhhhhcccchhHhHHHHHHHHHcccCCCCCcchhhHHHHHHHhhhhcccCCCcccchHHHHHHHHHHHHhccCc
Q 005489 408 LQTKKKEAVKKICSWQYANCIDLWVTYISHCIHDYDLQPLLYIIIQIINGMATLFPGPRYLPLRCKCIEWLNHLSSSSGI 487 (694)
Q Consensus 408 ~~~k~Ke~~k~VYNWQfi~sL~lWs~Vls~~~~~s~L~pLiYPLvQVi~G~irLiPt~ry~PLRfh~ir~L~~Ls~~t~~ 487 (694)
++.+.+.-+ .++|.+=|.. -...|| |++--+-++|..+--.-..
T Consensus 269 Ls~~~r~Fl-----------~r~s~r~i~~---------------------~~~~~S----~~h~dVS~~L~~mGI~H~n 312 (435)
T PTZ00479 269 LSKSVKSFY-----------TRLSMRRIPQ---------------------SLRKPS----PFQWDVSNCLAKLGISHRN 312 (435)
T ss_pred cCHHHHHHH-----------HHHhhccccc---------------------cCCCCc----HHHHHHHHHHHHhCCchhh
Confidence 887655322 1334432221 011222 4444489999988854444
Q ss_pred ceechhHHHHhhc
Q 005489 488 FIPVTSLMLDVLE 500 (694)
Q Consensus 488 fIPl~p~LleiL~ 500 (694)
-+..-||.+||..
T Consensus 313 e~~~Gpf~iDI~~ 325 (435)
T PTZ00479 313 TFYWGCFWIDIGE 325 (435)
T ss_pred heeecCeEEEEec
Confidence 4558999888874
No 69
>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=24.52 E-value=2.5e+02 Score=24.23 Aligned_cols=64 Identities=19% Similarity=0.173 Sum_probs=37.0
Q ss_pred HHHHhhcCCcHHHHHHHHHHhhhhhhhhhcchHH-H-HHHHHHHHHhhcCCCchhHHHHHHHHHHHH
Q 005489 273 TLFMLNQATDSEILAFSLNRLRTSIVFFAAFPLL-I-RRLIKIAVHLWATGEETVSFHSFLILQDVA 337 (694)
Q Consensus 273 ll~LL~~ltd~~~l~~vL~~l~~l~py~~~f~kl-~-k~llK~lv~lWst~~e~vrv~AFl~Lr~la 337 (694)
++.+|.. +++.+...++..|.++....-..+.. . ..+++.++++-.+.+..+|-.|..+|.+++
T Consensus 54 l~~~l~~-~~~~v~~~a~~~L~~l~~~~~~~~~~~~~~g~l~~l~~~l~~~~~~~~~~a~~~l~~l~ 119 (120)
T cd00020 54 LVQLLKS-EDEEVVKAALWALRNLAAGPEDNKLIVLEAGGVPKLVNLLDSSNEDIQKNATGALSNLA 119 (120)
T ss_pred HHHHHhC-CCHHHHHHHHHHHHHHccCcHHHHHHHHHCCChHHHHHHHhcCCHHHHHHHHHHHHHhh
Confidence 3444443 45666666666665543322111111 1 236777888777777778888888888775
No 70
>COG5240 SEC21 Vesicle coat complex COPI, gamma subunit [Intracellular trafficking and secretion]
Probab=23.90 E-value=3.4e+02 Score=32.60 Aligned_cols=120 Identities=12% Similarity=0.061 Sum_probs=71.3
Q ss_pred HHHHHHHHhcCCcchhhHHHHHHH-----------HHHHHHHHHhhhhhhhhhhhhcccchhHhHHHHHHHHHcccCCCC
Q 005489 374 LRNSFVELCSQDLLRSSNKAKVSI-----------NNLSRILQLGLQTKKKEAVKKICSWQYANCIDLWVTYISHCIHDY 442 (694)
Q Consensus 374 m~N~~~EL~~ld~~~sYq~AF~YI-----------RQLAihLRna~~~k~Ke~~k~VYNWQfi~sL~lWs~Vls~~~~~s 442 (694)
.++.++|+|.-+....-||||+-. -|+-..+|--++.+-++.|..| |+..-+.-|++--.+.
T Consensus 224 a~lklv~hf~~n~smknq~a~V~lvr~~~~ll~~n~q~~~q~rpfL~~wls~k~emV----~lE~Ar~v~~~~~~nv--- 296 (898)
T COG5240 224 AQLKLVEHFRGNASMKNQLAGVLLVRATVELLKENSQALLQLRPFLNSWLSDKFEMV----FLEAARAVCALSEENV--- 296 (898)
T ss_pred HHHHHHHHhhcccccccchhheehHHHHHHHHHhChHHHHHHHHHHHHHhcCcchhh----hHHHHHHHHHHHHhcc---
Confidence 467788888888888888888642 2333444444444333333333 2333333333222221
Q ss_pred CcchhhHHHHHHHhhhhcccCCCcccchHHHHHHHHHHHHhccCcceechhHHHHhhcccccc
Q 005489 443 DLQPLLYIIIQIINGMATLFPGPRYLPLRCKCIEWLNHLSSSSGIFIPVTSLMLDVLEYKVSK 505 (694)
Q Consensus 443 ~L~pLiYPLvQVi~G~irLiPt~ry~PLRfh~ir~L~~Ls~~t~~fIPl~p~LleiL~~~~~K 505 (694)
=.++ +|-++.++|.+-+..-.-+||--+|.||+||...---|-+.-.=+|-|-+..+|
T Consensus 297 -~~~~----~~~~vs~L~~fL~s~rv~~rFsA~Riln~lam~~P~kv~vcN~evEsLIsd~Nr 354 (898)
T COG5240 297 -GSQF----VDQTVSSLRTFLKSTRVVLRFSAMRILNQLAMKYPQKVSVCNKEVESLISDENR 354 (898)
T ss_pred -CHHH----HHHHHHHHHHHHhcchHHHHHHHHHHHHHHHhhCCceeeecChhHHHHhhcccc
Confidence 1223 444445556655555577999999999999998877777777777777655443
No 71
>COG3296 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.57 E-value=22 Score=34.17 Aligned_cols=31 Identities=19% Similarity=0.373 Sum_probs=24.9
Q ss_pred chhhHHHHHHHhhhhcccCCCcc-cchHHHHH
Q 005489 445 QPLLYIIIQIINGMATLFPGPRY-LPLRCKCI 475 (694)
Q Consensus 445 ~pLiYPLvQVi~G~irLiPt~ry-~PLRfh~i 475 (694)
--++||||=+|+|++|-..+..| |||.+..|
T Consensus 111 alsi~~lv~ti~a~~Ka~eGq~YryPLtiRfi 142 (143)
T COG3296 111 ALSILSLVLTIIAAIKAYEGQEYRYPLTIRFI 142 (143)
T ss_pred HHHHHHHHHHHHHHHHhhCCceeeeeeEEEee
Confidence 34689999999999999998766 78866543
No 72
>KOG2548 consensus SWAP mRNA splicing regulator [RNA processing and modification]
Probab=23.50 E-value=1e+02 Score=36.07 Aligned_cols=29 Identities=24% Similarity=0.353 Sum_probs=18.2
Q ss_pred hHHHHHHHHHHHHHH---HhhhcCChhHhHhh
Q 005489 93 NQEILLELENKKKKL---SRLKAKDPGFSKFL 121 (694)
Q Consensus 93 n~~~~~e~~~hk~~L---~~LkekDPEFyKyL 121 (694)
.++++.-+.+.|+++ ..|++-|||=-+|-
T Consensus 226 ~g~fv~mlkkdkeea~a~k~lk~~d~eka~lS 257 (653)
T KOG2548|consen 226 YGDFVYMLKKDKEEAKAQKELKKGDPEKAKLS 257 (653)
T ss_pred cchHHHHhhhhHHHHHHHHHHHhcCHHHHhhc
Confidence 345666666665544 45667888877664
No 73
>KOG2171 consensus Karyopherin (importin) beta 3 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=23.42 E-value=9.9e+02 Score=30.78 Aligned_cols=101 Identities=17% Similarity=0.231 Sum_probs=76.3
Q ss_pred HHHHHHHHHHHhhhhhhhhhhhhcccchhHhHHHHHHHHHcccCCCCCcchhhHHHHHHHhhhhcccCCCcccchHHHHH
Q 005489 396 SINNLSRILQLGLQTKKKEAVKKICSWQYANCIDLWVTYISHCIHDYDLQPLLYIIIQIINGMATLFPGPRYLPLRCKCI 475 (694)
Q Consensus 396 YIRQLAihLRna~~~k~Ke~~k~VYNWQfi~sL~lWs~Vls~~~~~s~L~pLiYPLvQVi~G~irLiPt~ry~PLRfh~i 475 (694)
|--.+-=+|++.+.+...+..+.+-. +-+.|+.+-.+.+.+ +...|+.-+|+|+..+.- -.=..---|+|.+.+
T Consensus 513 Y~d~~Mp~L~~~L~n~~~~d~r~Lrg-ktmEcisli~~AVGk----e~F~~~a~eliqll~~~~-~~~~~~dd~~~sy~~ 586 (1075)
T KOG2171|consen 513 YFDRLMPLLKNFLQNADDKDLRELRG-KTMECLSLIARAVGK----EKFLPLAEELIQLLLELQ-GSDQDDDDPLRSYMI 586 (1075)
T ss_pred HHHHHHHHHHHHHhCCCchhhHHHHh-hHHHHHHHHHHHhhh----hhhhHhHHHHHHHHHhhc-ccchhhccccHHHHH
Confidence 66677788999888766455554443 347888888877774 589999999999999876 222345679999999
Q ss_pred HHHHHHHhcc-CcceechhHHHHhhccc
Q 005489 476 EWLNHLSSSS-GIFIPVTSLMLDVLEYK 502 (694)
Q Consensus 476 r~L~~Ls~~t-~~fIPl~p~LleiL~~~ 502 (694)
..--++++-- ..|-|.+|.++.-|-.+
T Consensus 587 ~~warmc~ilg~~F~p~L~~Vmppl~~t 614 (1075)
T KOG2171|consen 587 AFWARMCRILGDDFAPFLPVVMPPLLKT 614 (1075)
T ss_pred HHHHHHHHHhchhhHhHHHHHhHHHHHh
Confidence 9999998765 57999999988776543
No 74
>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=23.17 E-value=3.4e+02 Score=23.37 Aligned_cols=32 Identities=22% Similarity=0.261 Sum_probs=24.4
Q ss_pred HHHHHHHHhhcCCCchhHHHHHHHHHHHHhcc
Q 005489 309 RLIKIAVHLWATGEETVSFHSFLILQDVASGF 340 (694)
Q Consensus 309 ~llK~lv~lWst~~e~vrv~AFl~Lr~la~~~ 340 (694)
..+..++.+-.+++..++..|.-+|.+++...
T Consensus 49 ~~i~~l~~~l~~~~~~v~~~a~~~L~~l~~~~ 80 (120)
T cd00020 49 GGLPALVQLLKSEDEEVVKAALWALRNLAAGP 80 (120)
T ss_pred CChHHHHHHHhCCCHHHHHHHHHHHHHHccCc
Confidence 45556666667777788999999999998754
No 75
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=22.81 E-value=55 Score=41.70 Aligned_cols=18 Identities=22% Similarity=0.386 Sum_probs=11.7
Q ss_pred cccccccc-ccCCCCCccc
Q 005489 665 GQNIVDVR-ANGEKVPEKS 682 (694)
Q Consensus 665 ~~~~~~~~-~~~~~~~~~~ 682 (694)
...--|++ .-||++|.+.
T Consensus 2581 aa~rfd~knfagEGN~sdd 2599 (3015)
T KOG0943|consen 2581 AADRFDFKNFAGEGNPSDD 2599 (3015)
T ss_pred ccccccccCccCCCCCCCC
Confidence 34455666 6788888653
No 76
>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=21.53 E-value=1.7e+02 Score=20.51 Aligned_cols=29 Identities=17% Similarity=0.125 Sum_probs=21.9
Q ss_pred HHHHHHhhcCCCchhHHHHHHHHHHHHhc
Q 005489 311 IKIAVHLWATGEETVSFHSFLILQDVASG 339 (694)
Q Consensus 311 lK~lv~lWst~~e~vrv~AFl~Lr~la~~ 339 (694)
+-.++++-......||.+|..+|-.++..
T Consensus 2 lp~l~~~l~D~~~~VR~~a~~~l~~i~~~ 30 (31)
T PF02985_consen 2 LPILLQLLNDPSPEVRQAAAECLGAIAEH 30 (31)
T ss_dssp HHHHHHHHT-SSHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHcCCCCHHHHHHHHHHHHHHHhh
Confidence 44566677777888999999999988753
No 77
>PF02724 CDC45: CDC45-like protein; InterPro: IPR003874 CDC45 is an essential gene required for initiation of DNA replication in Saccharomyces cerevisiae (cell division control protein 45), forming a complex with MCM5/CDC46. Homologs of CDC45 have been identified in human [], mouse and the smut fungus, Melampsora spp., (tsd2 protein) among others.; GO: 0006270 DNA-dependent DNA replication initiation
Probab=21.40 E-value=1.3e+02 Score=36.17 Aligned_cols=14 Identities=21% Similarity=0.396 Sum_probs=8.0
Q ss_pred HHHHHHHhhccccC
Q 005489 189 LNAYRAACHYGAES 202 (694)
Q Consensus 189 l~AFraA~~~~~e~ 202 (694)
+.+|.-|...+.++
T Consensus 221 ~~~y~La~~l~r~~ 234 (622)
T PF02724_consen 221 VLMYELASSLGRDD 234 (622)
T ss_pred HHHHHHHHHhCCCc
Confidence 44566666665543
No 78
>PF11251 DUF3050: Protein of unknown function (DUF3050); InterPro: IPR024423 This family of proteins has no known function.
Probab=21.11 E-value=6.9e+02 Score=26.53 Aligned_cols=108 Identities=18% Similarity=0.287 Sum_probs=74.1
Q ss_pred HHHHHHHHHhhcC-CcHHHHHHHHHHhhhhhhhh-----hcchHHHHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhccC
Q 005489 268 SYLRSTLFMLNQA-TDSEILAFSLNRLRTSIVFF-----AAFPLLIRRLIKIAVHLWATGEETVSFHSFLILQDVASGFS 341 (694)
Q Consensus 268 syl~sll~LL~~l-td~~~l~~vL~~l~~l~py~-----~~f~kl~k~llK~lv~lWst~~e~vrv~AFl~Lr~la~~~~ 341 (694)
||+-=.+.-+.++ .|+..+...|..++.-.+.. ..-|.-.+.|++.-..+-.++.-....+||.+=|.
T Consensus 80 SHFElYl~AM~e~GAdt~~I~~fl~~~~~g~~v~~Al~~~~~p~~~~~Fv~~Tf~~i~~~~~H~iAAaFtfGRE------ 153 (232)
T PF11251_consen 80 SHFELYLDAMEEVGADTSPIDRFLSLLREGTSVFEALQQADVPEPAKRFVRFTFEIIAEGKPHEIAAAFTFGRE------ 153 (232)
T ss_pred cHHHHHHHHHHHcCCChHHHHHHHHHHHcCCCHHHHHHhcCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHhccc------
Confidence 5555555555555 67777777777777532222 45677889999999999999988888899988775
Q ss_pred cchHHHHHHHHHHHHHhhcccCCccchhhhHH----------------HHHHHHHHhcCCcc
Q 005489 342 SDCFDLCLIKMYKAFIGHCKFAEPALFKHLQF----------------LRNSFVELCSQDLL 387 (694)
Q Consensus 342 ~~~le~~LK~~Y~ayv~n~k~t~~~tlp~Inf----------------m~N~~~EL~~ld~~ 387 (694)
.++=.|+.+++++- ...+..+|...+ -...+.+|||=|+.
T Consensus 154 -----dlIP~MF~~il~~~-~~~~~~~~~f~yYL~RHIElDgdeHgPlA~~ml~~Lcg~D~~ 209 (232)
T PF11251_consen 154 -----DLIPDMFRSILKDL-NIPPGQLPTFRYYLERHIELDGDEHGPLAMQMLEELCGDDPQ 209 (232)
T ss_pred -----cchHHHHHHHHHHh-cCCccccHHHHHHHHhhhhcCCCcchHHHHHHHHHHHCCCHH
Confidence 34445777777766 333455554433 35667888888874
No 79
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification]
Probab=20.74 E-value=1.2e+02 Score=38.15 Aligned_cols=13 Identities=8% Similarity=0.069 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHhc
Q 005489 167 SAINSWCHLVKEQ 179 (694)
Q Consensus 167 ~~v~~W~~~l~~~ 179 (694)
.+.+...+++.++
T Consensus 970 ~~~~~L~~~~~e~ 982 (1128)
T KOG2051|consen 970 QDDEALLKAMHEK 982 (1128)
T ss_pred hHHHHHHHHHhhc
Confidence 4666666666544
No 80
>PF12830 Nipped-B_C: Sister chromatid cohesion C-terminus
Probab=20.43 E-value=8.6e+02 Score=24.26 Aligned_cols=91 Identities=14% Similarity=0.123 Sum_probs=60.1
Q ss_pred HHHHHHHHHHHHHhhcCCcHHHHHHHHHHhhhhhhhhhcchHHHHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhccCcc
Q 005489 264 PLIKSYLRSTLFMLNQATDSEILAFSLNRLRTSIVFFAAFPLLIRRLIKIAVHLWATGEETVSFHSFLILQDVASGFSSD 343 (694)
Q Consensus 264 ~liKsyl~sll~LL~~ltd~~~l~~vL~~l~~l~py~~~f~kl~k~llK~lv~lWst~~e~vrv~AFl~Lr~la~~~~~~ 343 (694)
.++-.|+..++.+. .-++..+-...++-+.-++..=+.+|+. .+-.++.+=++++..+|-.|+-.++.+...+++=
T Consensus 4 ~l~Qryl~~Il~~~-~~~~~~vr~~Al~~l~~il~qGLvnP~~---cvp~lIAL~ts~~~~ir~~A~~~l~~l~eK~~s~ 79 (187)
T PF12830_consen 4 ALVQRYLKNILELC-LSSDDSVRLAALQVLELILRQGLVNPKQ---CVPTLIALETSPNPSIRSRAYQLLKELHEKHESL 79 (187)
T ss_pred HHHHHHHHHHHHHH-hCCCHHHHHHHHHHHHHHHhcCCCChHH---HHhHhhhhhCCCChHHHHHHHHHHHHHHHHhHHH
Confidence 57788999999854 2355555555555555555555556654 3445566667778889999999999999887544
Q ss_pred hHHHHHHHHHHHHHh
Q 005489 344 CFDLCLIKMYKAFIG 358 (694)
Q Consensus 344 ~le~~LK~~Y~ayv~ 358 (694)
+.-....|+=.+|--
T Consensus 80 v~~~~~~gi~~af~~ 94 (187)
T PF12830_consen 80 VESRYSEGIRLAFDY 94 (187)
T ss_pred HHHHHHHHHHHHHHH
Confidence 444445555555443
No 81
>PRK00011 glyA serine hydroxymethyltransferase; Reviewed
Probab=20.16 E-value=47 Score=36.81 Aligned_cols=27 Identities=15% Similarity=0.260 Sum_probs=23.3
Q ss_pred HHhhhcCChhHhHhhhh---cCccccCCCC
Q 005489 107 LSRLKAKDPGFSKFLES---HDKGLKSFRN 133 (694)
Q Consensus 107 L~~LkekDPEFyKyLqe---nD~~LL~F~~ 133 (694)
|.+||+-|||+||-|++ ..++.+++..
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 32 (416)
T PRK00011 3 MDNLAEYDPEIADAIEQELKRQEEHIELIA 32 (416)
T ss_pred chhhhhcCHHHHHHHHHHHHHHhcCeeeec
Confidence 57899999999999987 7788888765
Done!