Query 003294
Match_columns 833
No_of_seqs 191 out of 591
Neff 5.6
Searched_HMMs 46136
Date Thu Mar 28 20:46:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003294.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/003294hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2153 Protein involved in th 100.0 1E-103 3E-108 881.7 44.1 663 1-743 1-694 (704)
2 COG5117 NOC3 Protein involved 100.0 4.3E-86 9.3E-91 713.6 43.8 589 22-707 19-653 (657)
3 KOG2038 CAATT-binding transcri 100.0 4.2E-65 9.2E-70 576.4 32.4 460 181-737 209-755 (988)
4 COG5593 Nucleic-acid-binding p 100.0 4.3E-46 9.3E-51 408.6 24.3 437 181-709 99-579 (821)
5 PF03914 CBF: CBF/Mak21 family 100.0 3.7E-33 8E-38 277.8 14.4 153 546-703 2-164 (164)
6 KOG2154 Predicted nucleolar pr 100.0 7.4E-27 1.6E-31 256.2 32.0 226 490-741 252-481 (505)
7 PF07540 NOC3p: Nucleolar comp 99.9 5.2E-28 1.1E-32 219.7 10.4 94 179-272 1-95 (95)
8 KOG2153 Protein involved in th 99.3 2.8E-09 6E-14 122.8 29.6 112 590-706 588-699 (704)
9 KOG2038 CAATT-binding transcri 90.9 2.6 5.6E-05 51.4 12.8 114 489-643 469-584 (988)
10 PF05918 API5: Apoptosis inhib 88.9 16 0.00035 43.9 17.4 57 282-340 72-128 (556)
11 PTZ00429 beta-adaptin; Provisi 88.6 76 0.0016 39.8 27.2 58 282-339 153-210 (746)
12 PF12348 CLASP_N: CLASP N term 88.5 15 0.00033 38.0 15.3 106 268-376 91-204 (228)
13 PF12717 Cnd1: non-SMC mitotic 87.0 2 4.4E-05 43.6 7.5 55 283-339 2-56 (178)
14 PF10508 Proteasom_PSMB: Prote 81.8 21 0.00044 42.5 13.8 105 266-376 75-187 (503)
15 PTZ00429 beta-adaptin; Provisi 81.1 1E+02 0.0022 38.8 19.7 86 286-378 49-134 (746)
16 PF12755 Vac14_Fab1_bd: Vacuol 79.5 5.4 0.00012 37.0 6.3 52 287-339 7-58 (97)
17 PF02985 HEAT: HEAT repeat; I 76.6 4.9 0.00011 29.1 4.1 29 309-337 1-29 (31)
18 PF12530 DUF3730: Protein of u 72.6 1.3E+02 0.0028 32.1 15.4 159 194-376 12-183 (234)
19 cd00020 ARM Armadillo/beta-cat 70.1 25 0.00054 31.6 8.2 110 202-336 7-119 (120)
20 PF01602 Adaptin_N: Adaptin N 68.1 19 0.00041 42.0 8.7 176 194-376 106-294 (526)
21 KOG1824 TATA-binding protein-i 66.7 1E+02 0.0022 39.4 14.3 59 280-338 144-204 (1233)
22 KOG2956 CLIP-associating prote 66.5 1.9E+02 0.0041 34.4 15.7 148 158-338 280-436 (516)
23 PF10508 Proteasom_PSMB: Prote 65.7 2.2E+02 0.0048 33.9 16.9 54 286-339 55-108 (503)
24 PF08569 Mo25: Mo25-like; Int 63.4 1.2E+02 0.0026 34.5 13.4 86 264-354 202-295 (335)
25 PF14664 RICTOR_N: Rapamycin-i 62.8 60 0.0013 37.3 11.1 154 185-339 3-178 (371)
26 KOG1059 Vesicle coat complex A 62.3 25 0.00055 43.2 8.1 93 273-373 301-396 (877)
27 PF01602 Adaptin_N: Adaptin N 60.4 11 0.00023 44.0 4.7 88 282-376 92-179 (526)
28 PF12348 CLASP_N: CLASP N term 58.8 31 0.00067 35.8 7.4 88 284-376 68-158 (228)
29 PF08623 TIP120: TATA-binding 57.0 31 0.00066 35.4 6.7 55 284-339 42-96 (169)
30 PF12755 Vac14_Fab1_bd: Vacuol 55.7 33 0.00071 31.8 6.2 63 271-337 27-96 (97)
31 KOG1222 Kinesin associated pro 54.9 1.5E+02 0.0033 35.2 12.4 74 306-383 302-379 (791)
32 cd00020 ARM Armadillo/beta-cat 54.6 9.3 0.0002 34.5 2.4 57 283-339 21-80 (120)
33 PF13513 HEAT_EZ: HEAT-like re 53.1 20 0.00044 28.8 3.9 51 285-335 3-55 (55)
34 PF02671 PAH: Paired amphipath 52.7 16 0.00034 29.1 3.1 36 267-302 2-37 (47)
35 PF11791 Aconitase_B_N: Aconit 52.6 48 0.001 33.5 7.0 83 286-372 20-102 (154)
36 PF08167 RIX1: rRNA processing 52.5 1.1E+02 0.0023 31.0 9.7 123 509-647 19-148 (165)
37 PF12765 Cohesin_HEAT: HEAT re 47.8 30 0.00064 27.2 3.8 42 291-332 1-42 (42)
38 PF12717 Cnd1: non-SMC mitotic 46.9 1.3E+02 0.0029 30.4 9.5 56 282-338 38-93 (178)
39 KOG1020 Sister chromatid cohes 46.5 2.5E+02 0.0054 37.8 13.5 132 203-339 817-962 (1692)
40 cd03569 VHS_Hrs_Vps27p VHS dom 45.8 78 0.0017 31.3 7.4 46 319-367 96-141 (142)
41 PF13646 HEAT_2: HEAT repeats; 45.2 64 0.0014 27.8 6.1 48 280-335 11-58 (88)
42 KOG2259 Uncharacterized conser 44.7 59 0.0013 39.8 7.3 86 286-378 390-475 (823)
43 KOG1020 Sister chromatid cohes 43.9 97 0.0021 41.3 9.4 74 260-333 805-880 (1692)
44 PF12530 DUF3730: Protein of u 43.6 3.7E+02 0.008 28.6 12.7 114 187-333 106-228 (234)
45 PF05804 KAP: Kinesin-associat 39.9 1.3E+02 0.0028 37.6 9.5 75 308-382 290-364 (708)
46 PF08167 RIX1: rRNA processing 39.9 2.7E+02 0.0059 28.0 10.5 76 263-341 59-147 (165)
47 PF12719 Cnd3: Nuclear condens 39.7 1.1E+02 0.0025 33.5 8.3 58 282-339 77-145 (298)
48 PF03224 V-ATPase_H_N: V-ATPas 38.7 17 0.00036 40.2 1.7 111 268-380 106-229 (312)
49 KOG3771 Amphiphysin [Intracell 38.6 3.7E+02 0.008 31.9 12.3 35 546-580 191-225 (460)
50 KOG1967 DNA repair/transcripti 38.0 56 0.0012 41.3 6.0 65 270-334 949-1021(1030)
51 PF12830 Nipped-B_C: Sister ch 33.7 1.2E+02 0.0027 31.1 7.0 66 270-340 7-77 (187)
52 PF05918 API5: Apoptosis inhib 33.0 2.3E+02 0.0049 34.5 9.8 146 192-376 49-201 (556)
53 PF09324 DUF1981: Domain of un 32.3 1.2E+02 0.0025 27.5 5.7 41 299-339 8-49 (86)
54 cd03568 VHS_STAM VHS domain fa 32.2 1.4E+02 0.003 29.7 6.7 83 289-376 20-104 (144)
55 PF11277 Med24_N: Mediator com 30.9 9.7E+02 0.021 31.4 15.2 84 216-305 87-170 (990)
56 PF14664 RICTOR_N: Rapamycin-i 30.9 79 0.0017 36.3 5.5 87 286-379 85-176 (371)
57 KOG2171 Karyopherin (importin) 30.7 8.1E+02 0.018 32.2 14.3 151 183-333 366-545 (1075)
58 PF00514 Arm: Armadillo/beta-c 29.8 96 0.0021 23.5 4.1 28 308-335 12-39 (41)
59 cd03569 VHS_Hrs_Vps27p VHS dom 29.2 1.4E+02 0.0029 29.7 6.1 83 289-376 24-108 (142)
60 PF07540 NOC3p: Nucleolar comp 28.7 90 0.002 29.1 4.4 47 290-338 8-55 (95)
61 PRK14140 heat shock protein Gr 27.5 2.9E+02 0.0063 29.0 8.4 22 259-280 114-135 (191)
62 COG5098 Chromosome condensatio 26.6 3.2E+02 0.007 34.1 9.4 69 307-376 345-413 (1128)
63 KOG1062 Vesicle coat complex A 26.5 1.4E+03 0.031 29.1 17.1 63 308-376 103-169 (866)
64 cd03567 VHS_GGA VHS domain fam 25.3 2.5E+02 0.0055 27.8 7.2 50 288-339 20-69 (139)
65 PRK14148 heat shock protein Gr 24.2 5.4E+02 0.012 27.2 9.6 23 258-280 116-138 (195)
66 smart00185 ARM Armadillo/beta- 23.9 1E+02 0.0022 22.6 3.3 29 308-336 12-40 (41)
67 PF10274 ParcG: Parkin co-regu 23.7 5.6E+02 0.012 26.8 9.5 85 269-357 36-125 (183)
68 KOG2259 Uncharacterized conser 23.4 9E+02 0.02 30.3 12.3 57 176-232 384-440 (823)
69 COG5218 YCG1 Chromosome conden 23.0 6E+02 0.013 31.3 10.6 77 261-337 39-120 (885)
70 PF02985 HEAT: HEAT repeat; I 23.0 1.4E+02 0.0031 21.4 3.8 28 204-231 2-29 (31)
71 PLN00094 aconitate hydratase 2 22.9 6E+02 0.013 32.7 11.1 79 286-367 92-170 (938)
72 KOG0212 Uncharacterized conser 22.9 8.4E+02 0.018 30.0 11.8 69 270-338 166-238 (675)
73 PF12074 DUF3554: Domain of un 22.6 1.1E+03 0.024 26.3 17.3 69 287-358 180-253 (339)
74 PF03224 V-ATPase_H_N: V-ATPas 22.3 3.2E+02 0.0069 30.2 8.1 115 262-376 50-177 (312)
75 PF04118 Dopey_N: Dopey, N-ter 21.2 3.7E+02 0.008 30.2 8.3 68 494-581 95-164 (307)
76 KOG2025 Chromosome condensatio 21.0 6E+02 0.013 32.0 10.3 78 260-337 33-114 (892)
77 KOG1077 Vesicle coat complex A 20.9 4.8E+02 0.01 32.7 9.4 170 509-705 105-331 (938)
78 PF13251 DUF4042: Domain of un 20.5 4.1E+02 0.009 27.6 7.9 57 283-339 116-176 (182)
No 1
>KOG2153 consensus Protein involved in the nuclear export of pre-ribosomes [Translation, ribosomal structure and biogenesis; Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.5e-103 Score=881.68 Aligned_cols=663 Identities=35% Similarity=0.514 Sum_probs=562.6
Q ss_pred Ccc-cccccccCCCCCCCCCCccccccCchhhHHhhhcccchhhhhccCcchhhhhhhcc----hH----HHhhhhhhhh
Q 003294 1 MGK-KQKQKIILPPELPPEILEDEIEVSDEDLQFVSENRDYAGFVSRLDTHSITKHVTRV----AD----KRLRKTSVLK 71 (833)
Q Consensus 1 ~~~-~~~~~~~~~~~~~~~~~~~~~~~sd~d~~f~~~~~~~~~f~~~ld~~~~~~~~~~~----~~----~r~~~~~~~~ 71 (833)
||. ++|+++|.||.+||+.-......|++|..+.+++..|+.+++++|...++...... +| ++.+++.-..
T Consensus 1 ~~~~~~k~~~~k~~~~~~~~k~~~~qf~~~~~k~~k~~~~~~~~~s~~~~~~~n~k~~~~~~~~ee~~~e~~~~~~~l~~ 80 (704)
T KOG2153|consen 1 KKSNRRKQAVIKPKKLPLSVKRNNSQFSDEDRKTRKKGTDYAREVSQLDIAAFNNKCGSLVMTEEEDEDEEREKRKILDL 80 (704)
T ss_pred CCCCcchhhccCCccCChhHHHHhhhhhhhhHHHHhhhhHHHHHhhhhhHHhhcccccccccCCcccccccchhhhhhhh
Confidence 566 78889999999999999999999999999999999999999999999887755443 22 2323222222
Q ss_pred hccccCCCCCCCCCCCccCCCCcccccCC------CCCCCCCCCCccCCCCCCCCCCchhhhhhHHHHHHHHhhhhHHHh
Q 003294 72 ENEDKGLQLDPVDALPVKTLDGKLYYRTR------PKPENGGDENEVGEGEKDGGGNEGIIKLTKAERRAKLKKSKKEAK 145 (833)
Q Consensus 72 ~~~~~~~~~~~~~~lp~k~~~g~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 145 (833)
.+--..+..+|++..|.+++||..+|++. |++... |..+. ....+++.-|+ -++.+-++.+.+++
T Consensus 81 ~k~~~~~~~~~~s~~ee~~~d~~~~~~~e~~ye~~pr~~~~-~~k~~-~~~lpIk~k~~-------~~~~~~k~~e~~~~ 151 (704)
T KOG2153|consen 81 KKSNGEILTRPLSSDEEKTLDGKKHYRTEQDYEKLPRKEQD-AEKEL-LELLPIKNKDP-------VRRQKAKKEERESD 151 (704)
T ss_pred ccccchhhccccccCcccCccccccchhHHHHhhccccccc-hHHhh-hhcCccccCCc-------cchhhhcccccccc
Confidence 22224556778899999999999998753 333222 22222 44566665554 23334344444443
Q ss_pred HhccCCCChh--hhhccchHHHHHhhhhcCCHHHHHHHHHHHHHHHHHHHHhCHHHhHHHHHHHHHHhhccChhhHHHHH
Q 003294 146 KEGKKLSKPE--EAEQAPQVAVLAEVKEDLTAEELFESKKCKLAELGMALLADPESNIKSLKEMLQIARDDNPSISKLGF 223 (833)
Q Consensus 146 ~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~~~KdkIAaL~~~IledPe~ni~~Lk~L~~m~~~~~~~vrkLAi 223 (833)
+...+.++++ +.++.|++++.++++++|++++.|++.|.+||++|+.|++||+.|++.|.+|+.||.+.++.++++++
T Consensus 152 ~~eed~~~e~~~e~de~~~~~~ea~~~e~l~~~~~i~n~K~kIA~l~s~llenPE~N~~~L~~l~eml~s~n~~~~Kl~~ 231 (704)
T KOG2153|consen 152 DDEEDLDEEDSDEDDETPNAAEEAEIKEELPREEKIENKKEKIASLCSKLLENPEENLKKLKELFEMLDSQNPKAKKLAL 231 (704)
T ss_pred cchhcccchhccccccccCHHHHhhcchhcchHHHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHhhhchHHHHHHH
Confidence 3333333222 47889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhhcCCCCCCCCchhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCc--------chHHHHHHHHHH
Q 003294 224 LSLLAVFKDIIPGYRIRLPTEKELEMKVSKEVKKMRFYESTLLSAYKAYLQKLIASEKQP--------VFHQVVVRCICN 295 (833)
Q Consensus 224 lSL~~VFkDIlP~YrIR~lte~E~~~kvsKev~~lr~fE~~Ll~~Y~~yLq~Le~l~~~~--------~l~~~Avkclc~ 295 (833)
+||++||+|||||||||++|+.|+.++++|+|+.+|.||++|+++|.+|||.|+.+.++. ++.++|++|+|+
T Consensus 232 lSLlaVFKDIiP~YkIR~lte~Ek~~k~sKev~klr~yE~~Ll~~Yk~ylQkLe~~vK~~~~~~~~~v~l~~vav~c~~~ 311 (704)
T KOG2153|consen 232 LSLLAVFKDIIPGYKIRPLTEKEKRTKLSKEVLKLREYEQALLKQYKSYLQKLEQFVKDLSLRTPQQVSLAQVAVQCACE 311 (704)
T ss_pred HHHHHHHHhhcccceecccHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999998887 678999999999
Q ss_pred HhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhccccCCCCccHHHHHHHHHHhhhhcCCCCCHHHHHHhhc
Q 003294 296 LLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHVKVKNCQLHPDFVEVFMS 375 (833)
Q Consensus 296 LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D~~~~Ge~sleiVr~I~~~vK~k~~~v~p~vl~~fL~ 375 (833)
|+..+|||||++||+.++|+.++++...++..||.+++.+|.+|. .|.+|+.+||.|+.++|.++|+|+|+++.||++
T Consensus 312 Ll~a~pHFN~~~kiv~l~vr~in~~~~~~s~~~i~t~k~lf~~D~--~g~~sl~~Vr~i~~llK~rn~~v~~~~~~~~ls 389 (704)
T KOG2153|consen 312 LLEAVPHFNLRQKIVKLVVRLINDPGRPVSSGCIQTIKTLFENDN--GGSGSLAIVRIINSLLKTRNYEVLPDMITTFLS 389 (704)
T ss_pred HHHhhhhccHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhcCCC--ccchhHHHHHHHHHHhhhhcccchhhHHHHHHh
Confidence 999999999999999999999999999999999999999999994 899999999999999999999999999999999
Q ss_pred ccccccccccCCCcchhhhhhhhcccccccccchhhHHHHHHHHHHHHHHHhHHHHHHHHHhhccCCCHHHHhhhhHHHH
Q 003294 376 LSFDEDLQRREVPDDKSKVKNKKNNKRKSIEEPSQLQQNERKKNKKELMLKTREEVAAEYKAASLAPDVMEKRRMQTETI 455 (833)
Q Consensus 376 Lr~~e~l~~~~~~~~~~~~K~kk~kkrk~~e~~~~ls~~~~KK~kKel~~K~~kele~El~Eaea~~d~~er~K~qteiL 455 (833)
|+++++....+.++.....+.++.+ +...++++++||+ +|.+.++++|+++++|.++.+++.++|||||
T Consensus 390 Lri~ed~~~k~ke~~~k~~~~k~~k-----~k~~~lskK~RK~------kKe~~ki~rE~reaea~e~aeek~k~~sEiL 458 (704)
T KOG2153|consen 390 LRIDEDQTKKDKEDEKKQKNKKSSK-----KKLSSLSKKERKR------KKERNKIEREMREAEAEESAEEKMKKQSEIL 458 (704)
T ss_pred cchhhhccchhhhccchhhhHHHHH-----HHHhhccHHHHHH------HHHHHHHHHHhhhhhccccHHHHHHHHHHHH
Confidence 9999988876654442111111111 1223567777663 4457899999999999999999999999999
Q ss_pred HHHHHHHHHHHhhhccccccccccccccCCCCCCCccchHHHHhhhhhccccCChhhHHHHHHHHHHHhcCCCCCCCCCC
Q 003294 456 SAVFETYFRILKHTMMFTAVSSEANASSIGGASGAHPLLAPCLKGLGKFSHLIDLDYIGDLMNYLKRLAGGGSSNDGPSQ 535 (833)
Q Consensus 456 ~~vF~iYFRILK~~~~~~~~~~~~~~~a~p~a~~~s~LL~~vLeGL~KfaHlIN~df~~DLl~vL~~Li~~~~~~~~~~~ 535 (833)
++||.|||||||... -+ +|+++|+||++|+|+||++|++||+.+|+.++..
T Consensus 459 kiVFtiYFrILkn~~-------------------~t-ll~~vlEGlakf~h~invef~~dll~vlk~ll~d--------- 509 (704)
T KOG2153|consen 459 KIVFTIYFRILKNDR-------------------YT-LLGAVLEGLAKFAHLINVEFLGDLLKVLKELLED--------- 509 (704)
T ss_pred HHHHHHHHHHHhcch-------------------hh-HHHHHHhhHHHHhhhccHHHhhhHHHHHHHHHHh---------
Confidence 999999999999983 34 9999999999999999999999999999999965
Q ss_pred CCCCccchhhHHHHHHHHHHHHhhccccccCChHHHHHHHHHhhhccCCCCCh--HHHHHHHHHHHhhcccCCcHHHHHH
Q 003294 536 KNSNHLTVTERLRCCIVAFRVMRNNLDALNVDLQDFFVQLYNLILEYRPGRDQ--GEVLAEALKIMLCDDRQHDMQKAAA 613 (833)
Q Consensus 536 ~~~~~ls~~~~L~ci~taf~LL~~~g~alnvD~~rFY~~LY~~L~~~~~~~~~--~~~ll~~L~~~L~~~~~~~~~RVAA 613 (833)
+.++++++|+|++|||.||+|||+.+|+|+..||.+||++|++++.+.+. ...+++|++.+|.++++ ++.+|.+
T Consensus 510 ---~~~~~re~l~cvqtaf~IlS~qg~~lniD~~~fv~~lY~~l~~~~~~~~~~~~~~ilr~~d~~~~k~r~-~v~~~~~ 585 (704)
T KOG2153|consen 510 ---IELSYREALLCVQTAFCILSGQGEKLNIDLGKFVDHLYKMLFPMNLGPDDDGFAIILRLLDPLLIKIRK-PVVNVIT 585 (704)
T ss_pred ---hhHHHHHHHHHHHHHHHhhhccceeeccCHHHHHHHHHHHhcccccCCCcchHHHHHHHhhHhhhhhhh-hHHHHHH
Confidence 46899999999999999999999999999999999999999998877643 34688999999988776 4555999
Q ss_pred HHHHHHHHHhcCChHHHHHHHHHHHHHHhhccccccccccccCCCCcccCCCCCCCCCCCCCCCCCCchhHHHHHHHhhC
Q 003294 614 FVKRLATFSLSIGSAESMAALVTLKNLLQKNIKCRNLLENDAGGGSVSGSISIYQPYAMDPNLSGALASVLWEINLLSKH 693 (833)
Q Consensus 614 FiKRLl~~sL~~p~~~ala~L~lI~~Ll~~~P~l~~LLe~e~~~~~v~g~~~~Ydp~~~DPe~~nA~~S~LWEL~lL~~H 693 (833)
|++||+++++|+-+...+ +.+..++.++.|..|++.+. |+||++.++.|||+.+++
T Consensus 586 ~~~~Ll~~~~h~~~~s~~----~s~~~~~~fsk~~~~~~~~~------------------pe~~s~a~~al~e~~l~r-- 641 (704)
T KOG2153|consen 586 KMERLLKCSLHVFFNSKL----ISKYRDIEFSKRLNLLDSET------------------PEYCSIASLALFEKLLLR-- 641 (704)
T ss_pred HHHHHHHHHHHHhhcccc----hHHHHHHHhhhhhhhhhccC------------------ccccccccHHHHHHHHHh--
Confidence 999999999998876655 77888999999999987651 999999999999999999
Q ss_pred cChHHHHHHHHhhcC-C---CCCCccccCCCChHHHHHhcccccccccCCCCCc
Q 003294 694 YHPSISTAASSIAGM-N---SAHNQVYHAILSPQQAFMDLLLERESFNSKSDTQ 743 (833)
Q Consensus 694 yHPsV~~~A~~i~~~-~---~~~~~~~l~~~~p~e~~~~~~~~~~~f~p~~~~~ 743 (833)
|||.|+.||.++.-+ + ++..+|++|+.+..+||+. +..+|.|||+||.|
T Consensus 642 y~~~~~~~a~~~~~G~~~~~~~a~~p~~s~~sa~~L~~~-~~~~~~~~P~v~~~ 694 (704)
T KOG2153|consen 642 YHPISRLMASEIAIGVGATGEGALPPELSNLSAAELFEQ-DLLEMHYNPTVPLS 694 (704)
T ss_pred cchHHHHHHHHHhhcCCccCcCCCCccccCchHHHHhhh-HHHHhccCCCCCch
Confidence 999999999999433 3 3456899999999999999 99999999999964
No 2
>COG5117 NOC3 Protein involved in the nuclear export of pre-ribosomes [Translation, ribosomal structure and biogenesis / Intracellular trafficking and secretion]
Probab=100.00 E-value=4.3e-86 Score=713.63 Aligned_cols=589 Identities=26% Similarity=0.391 Sum_probs=479.3
Q ss_pred cccccCchhhHHhhhcccchhhhhccCcchhhhhhhcchHHHhhhhhhhhhccccCCCCCC----------CCCCCccCC
Q 003294 22 DEIEVSDEDLQFVSENRDYAGFVSRLDTHSITKHVTRVADKRLRKTSVLKENEDKGLQLDP----------VDALPVKTL 91 (833)
Q Consensus 22 ~~~~~sd~d~~f~~~~~~~~~f~~~ld~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~----------~~~lp~k~~ 91 (833)
.+.|+|.+|++||++|++- +++.| .+..|++- --+||+|||+.| +++|||||-
T Consensus 19 ~e~E~t~~d~~~F~~~PED-----------l~k~~-----IY~~K~SS-~DEEEQDYEl~PR~s~S~~n~~~~~LPIK~~ 81 (657)
T COG5117 19 AERELTQEDIEFFNENPED-----------LGKKV-----IYDLKKSS-SDEEEQDYELRPRVSSSWNNESYNRLPIKTK 81 (657)
T ss_pred hhhhhHHHHHHHHhcChhh-----------cCchh-----eeecccCC-cchhhcccccccccccccccchhccCCcccC
Confidence 6788999999999997754 33333 44444442 344689999988 889999996
Q ss_pred CCcccccCCCCCCCCCCCCccCCCCCCCCCCchhhhhhHHHHHHHHhhhhHHHhHhccCCCChhhhhccchHHHHHhhhh
Q 003294 92 DGKLYYRTRPKPENGGDENEVGEGEKDGGGNEGIIKLTKAERRAKLKKSKKEAKKEGKKLSKPEEAEQAPQVAVLAEVKE 171 (833)
Q Consensus 92 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 171 (833)
| .++ .+..++.+...+.++++.+..|.. ..+|.+...+. .+..+
T Consensus 82 ~-~V~----~~v~~~eE~~~e~e~E~~~~~DS~----------------------------~~DE~~~~~eE---~k~~~ 125 (657)
T COG5117 82 D-NVV----ADVNNGEEFLSESESEASLEIDSD----------------------------IKDEKQKSLEE---QKIAP 125 (657)
T ss_pred c-chh----ehhhchhcccCcchhhhhhccccc----------------------------ccccccchhhh---hhcCC
Confidence 6 333 233333332222222222222211 00011111111 22466
Q ss_pred cCCHHHHHHHHHHHHHHHHHHHHhCHHHhHHHHHHHHHHhhccChhhHHHHHHHHHHHHhhhcCCCCCCCCchhhhhhhh
Q 003294 172 DLTAEELFESKKCKLAELGMALLADPESNIKSLKEMLQIARDDNPSISKLGFLSLLAVFKDIIPGYRIRLPTEKELEMKV 251 (833)
Q Consensus 172 ~l~~~~~~~~~KdkIAaL~~~IledPe~ni~~Lk~L~~m~~~~~~~vrkLAilSL~~VFkDIlP~YrIR~lte~E~~~kv 251 (833)
+.+.+++|.+.|++||.+|..|+|+|++|++.+.+++.|..+..+.++++.|+||++||++|||||||||++|.|+.+|+
T Consensus 126 e~P~kqqi~~~Ke~ia~~~tki~EePeeNl~~~~~vf~mi~S~~~~~kk~s~LsLl~VFk~IIPgYkIRpL~e~Eq~~K~ 205 (657)
T COG5117 126 EIPVKQQIDSEKERIASICTKIIEEPEENLGMMEEVFSMITSMAEKAKKVSYLSLLKVFKAIIPGYKIRPLKEEEQMVKD 205 (657)
T ss_pred CCChHHHHHhHHHHHHHHHHHHHhChHHHHHHHHHHHHHhcccchhhhhhhHHHHHHHHHHhCccccccccchHHhhhhh
Confidence 77788999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCc--------chHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCCC-cH
Q 003294 252 SKEVKKMRFYESTLLSAYKAYLQKLIASEKQP--------VFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQ-DV 322 (833)
Q Consensus 252 sKev~~lr~fE~~Ll~~Y~~yLq~Le~l~~~~--------~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~-~~ 322 (833)
||||..+|+||++|++||..||+.|+...+++ ++.++|++|+|+|+....||||++.+++++++....+ .+
T Consensus 206 skev~~l~~yeqsLl~~Y~~yi~tl~~~~k~~S~~~~~Q~SL~~vA~~~~~eli~~asHFN~~~kvfsl~lR~i~~~t~r 285 (657)
T COG5117 206 SKEVLHLKDYEQSLLRWYTSYIKTLVDDVKDESTLDETQSSLYQVAYISLCELIQHASHFNCTDKVFSLVLRGILGTTKR 285 (657)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCccccchhhHHHHHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHhhCCCCC
Confidence 99999999999999999999999999998765 5789999999999999999999999999999998765 46
Q ss_pred HHHHHHHHHHHHHhccccCCCCccHHHHHHHHHHhhhhcCCCCCHHHHHHhhcccccccccccCCCcchhhhhhhhcccc
Q 003294 323 VVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHVKVKNCQLHPDFVEVFMSLSFDEDLQRREVPDDKSKVKNKKNNKR 402 (833)
Q Consensus 323 ~Va~~c~~aL~~Lf~~D~~~~Ge~sleiVr~I~~~vK~k~~~v~p~vl~~fL~Lr~~e~l~~~~~~~~~~~~K~kk~kkr 402 (833)
.++..||++|.++|..| ..|.+++++++..+.+.|.+||+|-|.|++.||++.+..+..+...-+.++...+|+. +
T Consensus 286 p~s~~ii~t~ks~leeD--~~G~~sl~~~~i~~~l~k~rN~~vle~vld~~ls~n~L~D~~~~~k~w~~n~~~~k~~--K 361 (657)
T COG5117 286 PVSMLIIDTIKSKLEED--CTGKTSLVATVIDQMLDKERNPLVLEYVLDIPLSDNSLRDEEKARKYWEANKPVSKRE--K 361 (657)
T ss_pred chHHHHHHHHHHHhccc--ccCceeEEeehHHHHHHhhhCchhHHHHHhccchhhhhhhhhhhHHhhhcCCcchhhh--h
Confidence 67889999999999999 6899999999999999999999999999999999977655543332222221111111 1
Q ss_pred cccccchhhHHHHHHHHHHHHHHHhHHHHHHHHHhhccCCCHHHHhhhhHHHHHHHHHHHHHHHhhhccccccccccccc
Q 003294 403 KSIEEPSQLQQNERKKNKKELMLKTREEVAAEYKAASLAPDVMEKRRMQTETISAVFETYFRILKHTMMFTAVSSEANAS 482 (833)
Q Consensus 403 k~~e~~~~ls~~~~KK~kKel~~K~~kele~El~Eaea~~d~~er~K~qteiL~~vF~iYFRILK~~~~~~~~~~~~~~~ 482 (833)
|. .-+|+++.|| +.|++..++.||++|++.+..+++.|+|+|||+.||.+||.|||..
T Consensus 362 Kd---~~hlsKK~RK------~~KE~~~I~~Emr~ae~i~~a~e~eknqseIlkiif~~Yf~vLk~~------------- 419 (657)
T COG5117 362 KD---IFHLSKKLRK------IEKERLRIQSEMRDAEDIEEAIEEEKNQSEILKIIFRLYFMVLKGD------------- 419 (657)
T ss_pred cc---hhhhhHHHHH------HHHHHHHHHHHhhhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhcc-------------
Confidence 22 2345544443 3566789999999999999999999999999999999999999996
Q ss_pred cCCCCCCCccchHHHHhhhhhccccCChhhHHHHHHHHHHHhcCCCCCCCCCCCCCCccchhhHHHHHHHHHHHHhhcc-
Q 003294 483 SIGGASGAHPLLAPCLKGLGKFSHLIDLDYIGDLMNYLKRLAGGGSSNDGPSQKNSNHLTVTERLRCCIVAFRVMRNNL- 561 (833)
Q Consensus 483 a~p~a~~~s~LL~~vLeGL~KfaHlIN~df~~DLl~vL~~Li~~~~~~~~~~~~~~~~ls~~~~L~ci~taf~LL~~~g- 561 (833)
.-.+++.||+||.||.|+||++|++||+++|+.|+... ...+ ...-..+++|+||++||.|.+.++
T Consensus 420 -------~k~lig~vleGl~k~~~~~n~eflGD~Levl~eL~~d~-----~~dk-~ss~a~r~alLcI~tAF~i~S~t~y 486 (657)
T COG5117 420 -------RKDLIGYVLEGLVKYRKIINPEFLGDLLEVLYELLNDN-----PLDK-ISSDARRQALLCILTAFEIASATLY 486 (657)
T ss_pred -------hHHHHHHHHHHHHHHHhhcCHHHHhHHHHHHHHHHcCC-----chhh-hhHHHHHHHHHHhhHHHHHhhhhhh
Confidence 34689999999999999999999999999999999541 1011 112237899999999999998753
Q ss_pred ccccCChHHHHHHHHHhhhccCCCC--------------------------ChHHHHHHHHHHHhhcccCCcHHHHHHHH
Q 003294 562 DALNVDLQDFFVQLYNLILEYRPGR--------------------------DQGEVLAEALKIMLCDDRQHDMQKAAAFV 615 (833)
Q Consensus 562 ~alnvD~~rFY~~LY~~L~~~~~~~--------------------------~~~~~ll~~L~~~L~~~~~~~~~RVAAFi 615 (833)
...|+|++.|...||++++++.... ...++|+.|++++|+++++....|..+|-
T Consensus 487 gk~n~Dl~~fVd~lY~~v~p~~l~pD~dLn~k~~RL~DP~~~~~~~~VN~tt~~e~LlK~~~~~Ffksk~~~~~r~~~f~ 566 (657)
T COG5117 487 GKENYDLGGFVDLLYSMVHPMNLEPDADLNLKIKRLKDPDAPSKPFVVNATTDNEELLKIVRLLFFKSKQPVHRRHVIFK 566 (657)
T ss_pred hhccccHHHHHHHHHHHhCcccCCcchhhhhhhhhhcCCcccccCccccccccHHHHHHHHHHHheeccCchHHHHHHHH
Confidence 3579999999999999998653211 23468999999999999999999999999
Q ss_pred HHHHHHHhcCChHHHHHHHHHHHHHHhhccccccccccccCCCCcccCCCCCCCCCCCCCCCCCCchhHHHHHHHhhCcC
Q 003294 616 KRLATFSLSIGSAESMAALVTLKNLLQKNIKCRNLLENDAGGGSVSGSISIYQPYAMDPNLSGALASVLWEINLLSKHYH 695 (833)
Q Consensus 616 KRLl~~sL~~p~~~ala~L~lI~~Ll~~~P~l~~LLe~e~~~~~v~g~~~~Ydp~~~DPe~~nA~~S~LWEL~lL~~HyH 695 (833)
|||+.+|.|.|..++.++|.++..|+.+||.|..|.-.+..-| .|.|+|..+||+.+|..+++|||-.+|.+||+
T Consensus 567 krl~~c~s~~pe~~~~ail~~~~kl~~rys~~s~l~~sE~~ig-----~g~~~~~~~nP~~SN~~tA~l~e~fLlk~hy~ 641 (657)
T COG5117 567 KRLLYCCSRSPEEFKGAILDISAKLDIRYSDCSNLKCSEFDIG-----AGNVDSIPSNPDLSNSSTAVLFEYFLLKQHYS 641 (657)
T ss_pred HHHHHHHccChHHHHHHHHHHHHHHHhhhhhccCccCchhhcC-----CcccccCCCCcccCCchhHHHHHHHHHHhhcC
Confidence 9999999999999999999999999999999999997654322 23899999999999999999999999999999
Q ss_pred hHHHHHHHHhhc
Q 003294 696 PSISTAASSIAG 707 (833)
Q Consensus 696 PsV~~~A~~i~~ 707 (833)
|.|.+-|+.++.
T Consensus 642 P~Vsq~~k~L~~ 653 (657)
T COG5117 642 PAVSQSAKELLK 653 (657)
T ss_pred HHhHHHHHHHHh
Confidence 999999999864
No 3
>KOG2038 consensus CAATT-binding transcription factor/60S ribosomal subunit biogenesis protein [Translation, ribosomal structure and biogenesis; Transcription]
Probab=100.00 E-value=4.2e-65 Score=576.39 Aligned_cols=460 Identities=22% Similarity=0.342 Sum_probs=366.4
Q ss_pred HHHHHHHHHHHHHHhCHHHhHHHHHHHHHHhhccChhhHHHHHHHHHHHHh-hhcCCCCCCCCchhhh----hhhhhHHH
Q 003294 181 SKKCKLAELGMALLADPESNIKSLKEMLQIARDDNPSISKLGFLSLLAVFK-DIIPGYRIRLPTEKEL----EMKVSKEV 255 (833)
Q Consensus 181 ~~KdkIAaL~~~IledPe~ni~~Lk~L~~m~~~~~~~vrkLAilSL~~VFk-DIlP~YrIR~lte~E~----~~kvsKev 255 (833)
.+.|+|+|++++|+++|.||+++|.+|+++|.++..+.+-.|+-+|.+||. ++||.+++|++++... .+++.+.+
T Consensus 209 T~~DkitA~~LlvqesPvh~lk~lEtLls~c~KKsk~~a~~~l~~LkdlfI~~LLPdRKLk~f~qrp~~~l~~~~~~~k~ 288 (988)
T KOG2038|consen 209 TLTDKITAMTLLVQESPVHNLKSLETLLSSCKKKSKRDALQALPALKDLFINGLLPDRKLKYFSQRPLLELTNKRLRDKI 288 (988)
T ss_pred cchhhhHHHHHhhcccchhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHhccCcchhhHHHhhChhhhccccccccce
Confidence 568999999999999999999999999999999999999999999999997 6999999988877532 35677888
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCc--chHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Q 003294 256 KKMRFYESTLLSAYKAYLQKLIASEKQP--VFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIK 333 (833)
Q Consensus 256 ~~lr~fE~~Ll~~Y~~yLq~Le~l~~~~--~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~ 333 (833)
+.+||||+.|+..|++||+.|+.++++| .++..|++.++.||+++|++++ |||.++||+|||++.+|++.+.+.|.
T Consensus 289 Ll~WyfE~~LK~ly~rfievLe~lS~D~L~~vk~raL~ti~~lL~~kPEqE~--~LL~~lVNKlGDpqnKiaskAsylL~ 366 (988)
T KOG2038|consen 289 LLMWYFEHELKILYFRFIEVLEELSKDPLEEVKKRALKTIYDLLTNKPEQEN--NLLVLLVNKLGDPQNKIASKASYLLE 366 (988)
T ss_pred ehHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHhCCcHHHH--HHHHHHHHhcCCcchhhhhhHHHHHH
Confidence 9999999999999999999999999998 4689999999999999999999 99999999999999999999999999
Q ss_pred HHhccccCCCCccHHHHHHHHHH-----------------h-hhhcCCCCCHHHHHHhhcccccccccccCCCcchhhhh
Q 003294 334 SLFTNEGKHGGVATVEAVRLIAN-----------------H-VKVKNCQLHPDFVEVFMSLSFDEDLQRREVPDDKSKVK 395 (833)
Q Consensus 334 ~Lf~~D~~~~Ge~sleiVr~I~~-----------------~-vK~k~~~v~p~vl~~fL~Lr~~e~l~~~~~~~~~~~~K 395 (833)
.|+..||+|.+.++-||+|.+.+ | +..++-.|...++.+|++| |+..+.+.+.++. |
T Consensus 367 ~L~~~HPnMK~Vvi~EIer~~FRpn~~~ra~Yyav~fLnQ~~Lshke~dvAnrLi~iYF~l-Fk~l~~~~~~d~~----k 441 (988)
T KOG2038|consen 367 GLLAKHPNMKIVVIDEIERLAFRPNVSERAHYYAVIFLNQMKLSHKESDVANRLISIYFSL-FKTLVGKKDKDNR----K 441 (988)
T ss_pred HHHhhCCcceeehHHHHHHHHcccCccccceeehhhhhhhhHhccchHHHHHHHHHHHHHH-HHHHHHhhhhhhh----h
Confidence 99999999999998888888655 2 2334445777788999998 8776665443221 1
Q ss_pred hhhcc-cccccccchhhHHHHHHHHHHHHHHHhHHHHHHHHHhhccCCCHHHHhhhhHHHHHHHHHHHHHHHhhhccccc
Q 003294 396 NKKNN-KRKSIEEPSQLQQNERKKNKKELMLKTREEVAAEYKAASLAPDVMEKRRMQTETISAVFETYFRILKHTMMFTA 474 (833)
Q Consensus 396 ~kk~k-krk~~e~~~~ls~~~~KK~kKel~~K~~kele~El~Eaea~~d~~er~K~qteiL~~vF~iYFRILK~~~~~~~ 474 (833)
..|+- +.| +-.|+.++ +++.. ++ -.-.++.+|.+|.
T Consensus 442 ~~k~~~k~k----------ks~k~~k~-------e~~~~-----e~------~~e~nsrllSAlL--------------- 478 (988)
T KOG2038|consen 442 DDKGAAKKK----------KSNKKDKK-------EEVST-----ES------PIELNSRLLSALL--------------- 478 (988)
T ss_pred cccchhhcc----------cccccchh-------hhhcc-----cc------hhhhhHHHHHHHH---------------
Confidence 11110 000 00111111 12211 11 1123556666654
Q ss_pred cccccccccCCCCCCCccchHHHHhhhhhccccCChhhHHHHHHHHHHHhcCCCCCCCCCCCCCCccchhhHHHHHHHHH
Q 003294 475 VSSEANASSIGGASGAHPLLAPCLKGLGKFSHLIDLDYIGDLMNYLKRLAGGGSSNDGPSQKNSNHLTVTERLRCCIVAF 554 (833)
Q Consensus 475 ~~~~~~~~a~p~a~~~s~LL~~vLeGL~KfaHlIN~df~~DLl~vL~~Li~~~~~~~~~~~~~~~~ls~~~~L~ci~taf 554 (833)
||||||||||..++..+...+.+|++.+|..|++ +++++++.+|
T Consensus 479 ---TGvNRAfPfaq~~ddk~~~~~~tLFkl~HssNFN---------------------------------TsVQaLmLlf 522 (988)
T KOG2038|consen 479 ---TGVNRAFPFAQTADDKLEEQMKTLFKLTHSSNFN---------------------------------TSVQALMLLF 522 (988)
T ss_pred ---hcccccCCcccCchHHHHHHhHHHHHHHhhcccc---------------------------------hhHHHHHHHH
Confidence 5999999999999999999999999999998754 4566666666
Q ss_pred HHHhhccccccCChHHHHHHHHHhhhccCCCC-ChHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHhcCChHHHHHH
Q 003294 555 RVMRNNLDALNVDLQDFFVQLYNLILEYRPGR-DQGEVLAEALKIMLCDDRQHDMQKAAAFVKRLATFSLSIGSAESMAA 633 (833)
Q Consensus 555 ~LL~~~g~alnvD~~rFY~~LY~~L~~~~~~~-~~~~~ll~~L~~~L~~~~~~~~~RVAAFiKRLl~~sL~~p~~~ala~ 633 (833)
++... ..+-++|||++||+.|++++... +...|++++|...+ .-+.++.||+||||||+|+|++.+|+++||+
T Consensus 523 Qvs~~----~~~vSDRyY~aLY~kLLdP~l~~sSKq~m~LnLlyksl--K~D~ni~RV~AFvKRlLQVa~~q~P~~i~G~ 596 (988)
T KOG2038|consen 523 QVSKK----NDYVSDRYYRALYRKLLDPRLMNSSKQAMFLNLLYKSL--KEDINIQRVRAFVKRLLQVAVQQQPPFICGI 596 (988)
T ss_pred HHHHh----hhhhHHHHHHHHHHHhcCcccCchHHHHHHHHHHHHHH--HhhhhHHHHHHHHHHHHHHHHhcCCchhHhH
Confidence 66654 35669999999999999988765 44568888776544 2377999999999999999999999999999
Q ss_pred HHHHHHHHhhccccccccccccC-----C---------------------C------Cc---------------------
Q 003294 634 LVTLKNLLQKNIKCRNLLENDAG-----G---------------------G------SV--------------------- 660 (833)
Q Consensus 634 L~lI~~Ll~~~P~l~~LLe~e~~-----~---------------------~------~v--------------------- 660 (833)
|+++++|++..|.++.|+.+... + + |+
T Consensus 597 l~Llsel~Karp~l~~lv~~~~~~D~e~dv~~~~e~DD~deek~vd~Dke~~~vdk~~~e~~~~e~ds~s~k~E~~~~~~ 676 (988)
T KOG2038|consen 597 LFLLSELLKARPTLRKLVVNSEDIDPEEDVVAQMENDDVDEEKKVDLDKEGKEVDKNGVEEEVEEEDSVSEKKEDLDKKK 676 (988)
T ss_pred HHHHHHHHHhcchHHHHhhCCcccChhhhhhhhhcccccchhhhccccccceeecccccccccccccccccchhhhhhhh
Confidence 99999999999999999843210 0 0 00
Q ss_pred ------ccCCCCCCCCCCCCCCCCCCchhHHHHHHHhhCcChHHHHHHHHhhcCCCCCCccccCCCChHHHHHhccccc-
Q 003294 661 ------SGSISIYQPYAMDPNLSGALASVLWEINLLSKHYHPSISTAASSIAGMNSAHNQVYHAILSPQQAFMDLLLER- 733 (833)
Q Consensus 661 ------~g~~~~Ydp~~~DPe~~nA~~S~LWEL~lL~~HyHPsV~~~A~~i~~~~~~~~~~~l~~~~p~e~~~~~~~~~- 733 (833)
+|..++|||..|||.||||..||||||..|.+||||+|+.||..+..+...++. ..|+.+|+..-+..
T Consensus 677 ~d~~~~~~~~~~YD~r~R~P~f~nAd~tslWEl~~ls~HfHPSVa~~Akall~G~~i~y~-----g~~L~dfTL~~FLDr 751 (988)
T KOG2038|consen 677 VDPIGARGAKTPYDPRKRNPLFCNADHTSLWELLLLSKHFHPSVATFAKALLEGEEIQYG-----GPPLNDFTLMAFLDR 751 (988)
T ss_pred ccccccccCCCCCCcccCCccccCCccchHHHHHHHhhhcCchHHHHHHHHhcCceeecC-----CCchhHHHHHHHHHH
Confidence 123468999999999999999999999999999999999999999988887762 44677776555532
Q ss_pred cccc
Q 003294 734 ESFN 737 (833)
Q Consensus 734 ~~f~ 737 (833)
=.|+
T Consensus 752 F~yR 755 (988)
T KOG2038|consen 752 FAYR 755 (988)
T ss_pred HHhc
Confidence 2454
No 4
>COG5593 Nucleic-acid-binding protein possibly involved in ribosomal biogenesis [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.3e-46 Score=408.64 Aligned_cols=437 Identities=20% Similarity=0.235 Sum_probs=317.6
Q ss_pred HHHHHHHHHHHHHHhCHHHhHHHHHHHHHHhhccChhhHHHHHHHHHHHHhh-hcCCCCCCCCchhh-hhhhhhHHHHHH
Q 003294 181 SKKCKLAELGMALLADPESNIKSLKEMLQIARDDNPSISKLGFLSLLAVFKD-IIPGYRIRLPTEKE-LEMKVSKEVKKM 258 (833)
Q Consensus 181 ~~KdkIAaL~~~IledPe~ni~~Lk~L~~m~~~~~~~vrkLAilSL~~VFkD-IlP~YrIR~lte~E-~~~kvsKev~~l 258 (833)
..+|+|++++++|+++|.||.++|++|+++|.++.+.+.--++-.|..+|.. ++|.+++|.+..+. +.+.|.+-++++
T Consensus 99 T~~DrIsalTLLVq~sP~h~~k~letLls~C~kksrn~a~q~l~~lKDLfi~gllp~rklry~k~q~~lsk~v~~k~l~~ 178 (821)
T COG5593 99 TVKDRISALTLLVQRSPSHNAKNLETLLSFCEKKSRNVAYQVLKNLKDLFISGLLPNRKLRYFKNQPGLSKEVQNKYLKQ 178 (821)
T ss_pred chhhhhhhhHhhhccCcchHHHHHHHHHHHHhcccccHHHHHHHHHHHHHhcccCcchhhHhhhcCcchhhhhcchHHHH
Confidence 4699999999999999999999999999999999999988889999999986 99999999987653 335566777999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCcc--hHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHh
Q 003294 259 RFYESTLLSAYKAYLQKLIASEKQPV--FHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLF 336 (833)
Q Consensus 259 r~fE~~Ll~~Y~~yLq~Le~l~~~~~--l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf 336 (833)
|+||+.|++.|..||+.||.+++||. .+.+.|+.+++||.+.|++++ |||.+.||+|||.+.+|++++.+.|-+|=
T Consensus 179 ~~fesflk~l~fr~levle~ls~d~i~~Vk~qvv~~VydLL~a~peqe~--nLl~L~INKlGDk~~kvsskasY~ilkLe 256 (821)
T COG5593 179 RIFESFLKNLRFRVLEVLEVLSHDPIQYVKKQVVRLVYDLLEARPEQEV--NLLHLFINKLGDKRDKVSSKASYVILKLE 256 (821)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHhcChHHHH--HHHHHHHHhhccchhhhhhhhhHHHHHHH
Confidence 99999999999999999999999995 578899999999999999999 99999999999999999999999998886
Q ss_pred ccccCCCCccHHHHHHHHHHhh----------------------hhcCCCCCHHHHHHhhcccccc---cccccCCCcch
Q 003294 337 TNEGKHGGVATVEAVRLIANHV----------------------KVKNCQLHPDFVEVFMSLSFDE---DLQRREVPDDK 391 (833)
Q Consensus 337 ~~D~~~~Ge~sleiVr~I~~~v----------------------K~k~~~v~p~vl~~fL~Lr~~e---~l~~~~~~~~~ 391 (833)
..+ +|+..+ |+..|.++. +.+.-.|...++.+|+++ |.. .+.+.+.-+..
T Consensus 257 ~~h---P~mk~V-V~d~Iedf~f~pn~~~~s~yyalitLnqt~l~~~e~~van~lv~vyf~~-f~kfl~n~~ke~~~~s~ 331 (821)
T COG5593 257 LLH---PGMKEV-VLDGIEDFYFKPNDLFRSRYYALITLNQTELENREKAVANKLVKVYFSI-FRKFLENIPKEHRVNSN 331 (821)
T ss_pred hcC---CchhHH-HHhhhhHheeccccccceeeeeehhhHHHHHhhhHHHHHHHHHHHHHHH-HHHHHhcCchhhcccch
Confidence 665 555432 334444332 233344566677788776 432 22221110000
Q ss_pred -hhhhhhhcccccccccchhhHHHHHHHHHHHHHHHhHHHHHHHHHhhccCCCHHHHhhhhHHHHHHHHHHHHHHHhhhc
Q 003294 392 -SKVKNKKNNKRKSIEEPSQLQQNERKKNKKELMLKTREEVAAEYKAASLAPDVMEKRRMQTETISAVFETYFRILKHTM 470 (833)
Q Consensus 392 -~~~K~kk~kkrk~~e~~~~ls~~~~KK~kKel~~K~~kele~El~Eaea~~d~~er~K~qteiL~~vF~iYFRILK~~~ 470 (833)
..+|..++-+ |+. + ..|..| ..+.++|+ +++....+|.
T Consensus 332 ~leek~~~~~~-Knk----~-----s~K~~k--~e~~rkev-------------------~~eknS~~~s---------- 370 (821)
T COG5593 332 ILEEKLVIGLG-KNK----G-----SEKICK--TEIIRKEV-------------------HTEKNSFYGS---------- 370 (821)
T ss_pred hHHHHHHhhhc-cCC----C-----Cccccc--HHHHHHHH-------------------HHhhhhHHHH----------
Confidence 0112211100 010 0 001111 12223333 2233333321
Q ss_pred cccccccccccccCCCCCCCccchHHHHhhhhhccccCChhhHHHHHHHHHHHhcCCCCCCCCCCCCCCccchhhHHHHH
Q 003294 471 MFTAVSSEANASSIGGASGAHPLLAPCLKGLGKFSHLIDLDYIGDLMNYLKRLAGGGSSNDGPSQKNSNHLTVTERLRCC 550 (833)
Q Consensus 471 ~~~~~~~~~~~~a~p~a~~~s~LL~~vLeGL~KfaHlIN~df~~DLl~vL~~Li~~~~~~~~~~~~~~~~ls~~~~L~ci 550 (833)
+-++|+||++|||..++..+..++++|+|++|..+++ ++.+++
T Consensus 371 ----avLtG~nRa~pfa~l~~~~~~~Hm~tlfkith~~~fn---------------------------------ts~qal 413 (821)
T COG5593 371 ----AVLTGCNRAGPFALLFRNAVKSHMMTLFKITHEFLFN---------------------------------TSEQAL 413 (821)
T ss_pred ----HHHhcccccCchhhhhHHHHHHHHHHHHhhhhhhhhh---------------------------------HHHHHH
Confidence 2246999999999999999999999999999987643 223333
Q ss_pred HHHHHHHhhccccccCChHHHHHHHHHhhhccCCCC--ChHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHhcCC-h
Q 003294 551 IVAFRVMRNNLDALNVDLQDFFVQLYNLILEYRPGR--DQGEVLAEALKIMLCDDRQHDMQKAAAFVKRLATFSLSIG-S 627 (833)
Q Consensus 551 ~taf~LL~~~g~alnvD~~rFY~~LY~~L~~~~~~~--~~~~~ll~~L~~~L~~~~~~~~~RVAAFiKRLl~~sL~~p-~ 627 (833)
+.+++.. -..-+|.+|||+.||..|++++... +++.+ +++|...| +-+.++.||-||+||++|+|-+|. +
T Consensus 414 mli~q~~----~~~~l~SdryY~~lYesl~dprls~ssKqgiy-lnllykSL--~vd~nV~rv~af~kr~lQv~S~w~~~ 486 (821)
T COG5593 414 MLIDQEF----YRFLLDSDRYYTPLYESLIDPRLSESSKQGIY-LNLLYKSL--RVDTNVHRVDAFRKRALQVISGWMVL 486 (821)
T ss_pred HHHHHHH----HHHhhccchhhhhHHHHHhhhhhhcccccchh-HHHHHHHH--HHhcCchHHHHHHHHHHHHhhccccC
Confidence 3333332 2345789999999999999987655 45543 34444333 124579999999999999976543 3
Q ss_pred HHHHHHHHHHHHHHhhccccccccccccCCC----Ccc-------cCCCCCCCCCCCCCCCCCCchhHHHHHHHhhCcCh
Q 003294 628 AESMAALVTLKNLLQKNIKCRNLLENDAGGG----SVS-------GSISIYQPYAMDPNLSGALASVLWEINLLSKHYHP 696 (833)
Q Consensus 628 ~~ala~L~lI~~Ll~~~P~l~~LLe~e~~~~----~v~-------g~~~~Ydp~~~DPe~~nA~~S~LWEL~lL~~HyHP 696 (833)
++.-|....+.+|...-|.+++||.|.+.+- .++ +.-..||.+.|||.|+||..|||||++.+-+||||
T Consensus 487 p~~tg~f~~l~ql~~a~~~lk~l~tn~~vd~e~e~d~~eeq~dkd~krkeydgrkrdpk~anae~s~lwei~~finhfhp 566 (821)
T COG5593 487 PFDTGDFMSLLQLEMACGDLKNLLTNTPVDYEYESDAEEEQGDKDIKRKEYDGRKRDPKFANAEKSSLWEINNFINHFHP 566 (821)
T ss_pred CccchHHHHHHHHHHHhHHHHHHhcCCCcccccccchhhhhcccchhhhhccCcccCcccccccccchhhhhhhhhhccc
Confidence 4455666667888889999999997654221 111 12236999999999999999999999999999999
Q ss_pred HHHHHHHHhhcCC
Q 003294 697 SISTAASSIAGMN 709 (833)
Q Consensus 697 sV~~~A~~i~~~~ 709 (833)
+|..+|.....+.
T Consensus 567 tv~~~a~a~v~ge 579 (821)
T COG5593 567 TVKTYANAYVTGE 579 (821)
T ss_pred HHHHHHHHhhhhh
Confidence 9999999885444
No 5
>PF03914 CBF: CBF/Mak21 family; InterPro: IPR005612 This domain is present in the CAATT-binding protein which is essential for growth and necessary for 60S ribosomal subunit biogenesis. Other proteins containing this domain stimulate transcription from the HSP70 promoter.
Probab=100.00 E-value=3.7e-33 Score=277.78 Aligned_cols=153 Identities=33% Similarity=0.574 Sum_probs=131.5
Q ss_pred HHHHHHHHHHHHhhccccccCChHHHHHHHHHhhhccCCCC--ChHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHh
Q 003294 546 RLRCCIVAFRVMRNNLDALNVDLQDFFVQLYNLILEYRPGR--DQGEVLAEALKIMLCDDRQHDMQKAAAFVKRLATFSL 623 (833)
Q Consensus 546 ~L~ci~taf~LL~~~g~alnvD~~rFY~~LY~~L~~~~~~~--~~~~~ll~~L~~~L~~~~~~~~~RVAAFiKRLl~~sL 623 (833)
+++|+.++|++++++ |+|+++||++||++|+++.... ++..+|++||+.+| ++++++..||+||||||+|+|+
T Consensus 2 ~i~al~~l~~l~~~~----n~d~~~FY~~LY~~L~~p~~~~~~~~~~~~l~lL~~~l-~~~~~~~~rvaAFiKRLl~~sl 76 (164)
T PF03914_consen 2 CIQALFLLFQLLSGQ----NIDLDRFYRALYSLLLDPELFSSSDKSALLLNLLDKSL-KSDHLPIQRVAAFIKRLLQLSL 76 (164)
T ss_pred HHHHHHHHHHHHHcC----CCcHHHHHHHHHHHHcchhhccccchHHHHHHHHHHHH-cccCCcHHHHHHHHHHHHHHHH
Confidence 466777777788874 9999999999999997544322 34567999999998 6678899999999999999999
Q ss_pred cCChHHHHHHHHHHHHHHhhccccccccccccCCC--Cc------ccCCCCCCCCCCCCCCCCCCchhHHHHHHHhhCcC
Q 003294 624 SIGSAESMAALVTLKNLLQKNIKCRNLLENDAGGG--SV------SGSISIYQPYAMDPNLSGALASVLWEINLLSKHYH 695 (833)
Q Consensus 624 ~~p~~~ala~L~lI~~Ll~~~P~l~~LLe~e~~~~--~v------~g~~~~Ydp~~~DPe~~nA~~S~LWEL~lL~~HyH 695 (833)
++||++++++|.+|++|+++||.|+.|++++...+ |+ .+..+.|+|+.+||++|||.+|+||||.+|++|||
T Consensus 77 ~~~~~~~~~~L~~i~~ll~~~p~l~~ll~~~~~~~~~~~~~~~~~~~~~~~Y~p~~~dP~~~~a~~s~lWEL~lL~~H~h 156 (164)
T PF03914_consen 77 HLPPSFALAILALIRKLLKRHPNLKSLLDNEEKKADSGSEEEDEEDKSEDKYDPEKRDPEFSNALASSLWELNLLRNHYH 156 (164)
T ss_pred cCCHHHHHHHHHHHHHHHHHCHHHHHHhcCCccccccchhhcccccccccccCcCCCCHhHcCCchhHHHHHHHHHHCCC
Confidence 99999999999999999999999999998776431 11 12345999999999999999999999999999999
Q ss_pred hHHHHHHH
Q 003294 696 PSISTAAS 703 (833)
Q Consensus 696 PsV~~~A~ 703 (833)
|+|+++|+
T Consensus 157 P~V~~~A~ 164 (164)
T PF03914_consen 157 PSVRQFAR 164 (164)
T ss_pred cHHHHHhC
Confidence 99999984
No 6
>KOG2154 consensus Predicted nucleolar protein involved in ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=99.96 E-value=7.4e-27 Score=256.24 Aligned_cols=226 Identities=23% Similarity=0.231 Sum_probs=173.1
Q ss_pred CccchHHHHhhhhh--ccccCChhhHHHHHHHHHHHhcCCCCCCCCCCCCCCccchhhHHHHHHHHHHHHhhccccccCC
Q 003294 490 AHPLLAPCLKGLGK--FSHLIDLDYIGDLMNYLKRLAGGGSSNDGPSQKNSNHLTVTERLRCCIVAFRVMRNNLDALNVD 567 (833)
Q Consensus 490 ~s~LL~~vLeGL~K--faHlIN~df~~DLl~vL~~Li~~~~~~~~~~~~~~~~ls~~~~L~ci~taf~LL~~~g~alnvD 567 (833)
+..+...+|-++-+ ..|++...-+-|.+.--.+-++ + .-+|+++..+|.||+. +|++
T Consensus 252 s~~lykkil~vih~rvip~l~~P~kl~DFLtdsyd~~~-------------g----~vslLALngLF~Lm~k----hNle 310 (505)
T KOG2154|consen 252 SLKLYKKILLVIHKRVIPHLISPTKLMDFLTDSYDDIG-------------G----VVSLLALNGLFILMTK----HNLE 310 (505)
T ss_pred cHHHHHHHHHHHHHHHhHhhcChHHHHHHHHHHHhccC-------------C----chhHHHHhHHHHHHHH----cCCC
Confidence 55667777777777 7788887655555544433111 1 2358889999999986 6999
Q ss_pred hHHHHHHHHHhhhccCCCCChHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhcccc
Q 003294 568 LQDFFVQLYNLILEYRPGRDQGEVLAEALKIMLCDDRQHDMQKAAAFVKRLATFSLSIGSAESMAALVTLKNLLQKNIKC 647 (833)
Q Consensus 568 ~~rFY~~LY~~L~~~~~~~~~~~~ll~~L~~~L~~~~~~~~~RVAAFiKRLl~~sL~~p~~~ala~L~lI~~Ll~~~P~l 647 (833)
|+.||..||+++.+--.+.+....|++++|++| .+.|+|.+-||||+|||+++||..||..++.++.+|.+|+++||.|
T Consensus 311 YP~FY~KLY~Ll~Pslfh~KyRarff~L~D~FL-SSTHLpa~LvAsFlKrLaRlaL~APpeA~~~vipfI~Nll~rHp~c 389 (505)
T KOG2154|consen 311 YPDFYEKLYALLNPSLFHVKYRARFFRLADLFL-SSTHLPAYLVASFLKRLARLALEAPPEAIVIVIPFICNLLRRHPNC 389 (505)
T ss_pred CchHHHHHHHhcCchHHHHHHHHHHHHHHHHHh-hcccchHHHHHHHHHHHHHHhccCCcccchhhHHHHHHHHHhCCch
Confidence 999999999998763333445556889999876 6789999999999999999999999999999999999999999999
Q ss_pred ccccccccCCCCcccCCCCCCCCCCCCCCCCCCchhHHHHHHHhhCcChHHHHHHHHhhcCCC-CCCc-cccCCCChHHH
Q 003294 648 RNLLENDAGGGSVSGSISIYQPYAMDPNLSGALASVLWEINLLSKHYHPSISTAASSIAGMNS-AHNQ-VYHAILSPQQA 725 (833)
Q Consensus 648 ~~LLe~e~~~~~v~g~~~~Ydp~~~DPe~~nA~~S~LWEL~lL~~HyHPsV~~~A~~i~~~~~-~~~~-~~l~~~~p~e~ 725 (833)
+.|++++.+-+ +..++||++..||..++|.+|+||||.+|++||||.|+..|+.|..... ..+. -++-..+-..+
T Consensus 390 ~~lvhr~~~~~---~~~Dpfd~~EtDP~ks~ALeSSLWEL~~Lq~Hy~p~Va~~A~~~~q~~~k~ef~~ed~ld~~y~~l 466 (505)
T KOG2154|consen 390 QPLVHRSHALS---LYDDPFDNDETDPKKSGALESSLWELELLQTHYHPEVAKAASFFNQSLYKPEFGLEDGLDSKYSVL 466 (505)
T ss_pred hhhhccccccc---CCCCCCCCCCCChhhhhhHHHHHHHHHHHHHhhcHHHHHHHHHHhccCccccccCcchhhhhhHHh
Confidence 99999876433 2357999999999999999999999999999999999999999954322 2211 11122444455
Q ss_pred HHhcccccccccCCCC
Q 003294 726 FMDLLLERESFNSKSD 741 (833)
Q Consensus 726 ~~~~~~~~~~f~p~~~ 741 (833)
++. +.++..+++|.+
T Consensus 467 ~d~-el~~kgk~~p~l 481 (505)
T KOG2154|consen 467 QDG-ELSRKGKRFPPL 481 (505)
T ss_pred hcc-hhhcccCCCCCc
Confidence 554 556666654433
No 7
>PF07540 NOC3p: Nucleolar complex-associated protein; InterPro: IPR011501 Nucleolar complex-associated protein (Noc3p, Q07896 from SWISSPROT) is conserved in eukaryotes and plays essential roles in replication and rRNA processing in Saccharomyces cerevisiae [].
Probab=99.95 E-value=5.2e-28 Score=219.66 Aligned_cols=94 Identities=53% Similarity=0.808 Sum_probs=91.6
Q ss_pred HHHHHHHHHHHHHHHHhCHHHhHHHHHHHHHHhhcc-ChhhHHHHHHHHHHHHhhhcCCCCCCCCchhhhhhhhhHHHHH
Q 003294 179 FESKKCKLAELGMALLADPESNIKSLKEMLQIARDD-NPSISKLGFLSLLAVFKDIIPGYRIRLPTEKELEMKVSKEVKK 257 (833)
Q Consensus 179 ~~~~KdkIAaL~~~IledPe~ni~~Lk~L~~m~~~~-~~~vrkLAilSL~~VFkDIlP~YrIR~lte~E~~~kvsKev~~ 257 (833)
|+++|.+||.+|+.|++|||+|++.|++|+.||.+. +.+|++|||+||++||+||+||||||++|++|+.+|+||||++
T Consensus 1 i~~~K~~IA~l~~~ile~PE~ni~~lk~l~~~~~~~~~~~v~kLa~lSl~~VFkDIiPgYrIR~~te~e~~~kvsKev~~ 80 (95)
T PF07540_consen 1 IEEAKEEIASLASSILEDPEENIGSLKRLLKLCESKVDVTVRKLAILSLLAVFKDIIPGYRIRPLTEKEKKEKVSKEVRK 80 (95)
T ss_pred ChHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHhhcCCCcccCCCChHHhhhhHHHHHHH
Confidence 468999999999999999999999999999999999 9999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHH
Q 003294 258 MRFYESTLLSAYKAY 272 (833)
Q Consensus 258 lr~fE~~Ll~~Y~~y 272 (833)
+|.||++|+++|+.|
T Consensus 81 lr~~E~~Ll~~Y~~y 95 (95)
T PF07540_consen 81 LRDFEQSLLKNYQKY 95 (95)
T ss_pred HHHHHHHHHHHhhcC
Confidence 999999999999987
No 8
>KOG2153 consensus Protein involved in the nuclear export of pre-ribosomes [Translation, ribosomal structure and biogenesis; Intracellular trafficking, secretion, and vesicular transport]
Probab=99.27 E-value=2.8e-09 Score=122.76 Aligned_cols=112 Identities=22% Similarity=0.307 Sum_probs=97.6
Q ss_pred HHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhccccccccccccCCCCcccCCCCCCC
Q 003294 590 EVLAEALKIMLCDDRQHDMQKAAAFVKRLATFSLSIGSAESMAALVTLKNLLQKNIKCRNLLENDAGGGSVSGSISIYQP 669 (833)
Q Consensus 590 ~~ll~~L~~~L~~~~~~~~~RVAAFiKRLl~~sL~~p~~~ala~L~lI~~Ll~~~P~l~~LLe~e~~~~~v~g~~~~Ydp 669 (833)
.+|+.|...+|..+.-.+.+|..+|-||+..++.+.|...+++.++++..+|-+|+.+..++..+..-| .+.|.+
T Consensus 588 ~~Ll~~~~h~~~~s~~~s~~~~~~fsk~~~~~~~~~pe~~s~a~~al~e~~l~ry~~~~~~~a~~~~~G-----~~~~~~ 662 (704)
T KOG2153|consen 588 ERLLKCSLHVFFNSKLISKYRDIEFSKRLNLLDSETPEYCSIASLALFEKLLLRYHPISRLMASEIAIG-----VGATGE 662 (704)
T ss_pred HHHHHHHHHHhhcccchHHHHHHHhhhhhhhhhccCccccccccHHHHHHHHHhcchHHHHHHHHHhhc-----CCccCc
Confidence 468888888887777889999999999999999999999999999999999988998888775554222 237999
Q ss_pred CCCCCCCCCCCchhHHHHHHHhhCcChHHHHHHHHhh
Q 003294 670 YAMDPNLSGALASVLWEINLLSKHYHPSISTAASSIA 706 (833)
Q Consensus 670 ~~~DPe~~nA~~S~LWEL~lL~~HyHPsV~~~A~~i~ 706 (833)
.+.+|+.+|..++.|||-.+|..||+|+|..-++++.
T Consensus 663 ~a~~p~~s~~sa~~L~~~~~~~~~~~P~v~~~~kql~ 699 (704)
T KOG2153|consen 663 GALPPELSNLSAAELFEQDLLEMHYNPTVPLSLKQLY 699 (704)
T ss_pred CCCCccccCchHHHHhhhHHHHhccCCCCCchHHHHH
Confidence 9999999999999999999999999999998877764
No 9
>KOG2038 consensus CAATT-binding transcription factor/60S ribosomal subunit biogenesis protein [Translation, ribosomal structure and biogenesis; Transcription]
Probab=90.94 E-value=2.6 Score=51.44 Aligned_cols=114 Identities=22% Similarity=0.204 Sum_probs=73.0
Q ss_pred CCccchHHHHhhhhhccccC--ChhhHHHHHHHHHHHhcCCCCCCCCCCCCCCccchhhHHHHHHHHHHHHhhccccccC
Q 003294 489 GAHPLLAPCLKGLGKFSHLI--DLDYIGDLMNYLKRLAGGGSSNDGPSQKNSNHLTVTERLRCCIVAFRVMRNNLDALNV 566 (833)
Q Consensus 489 ~~s~LL~~vLeGL~KfaHlI--N~df~~DLl~vL~~Li~~~~~~~~~~~~~~~~ls~~~~L~ci~taf~LL~~~g~alnv 566 (833)
.+|++|+++|.|++|..++. +-+-+...|.+|+.|.+ +..+++.++|+.||.+ +.+
T Consensus 469 ~nsrllSAlLTGvNRAfPfaq~~ddk~~~~~~tLFkl~H------------------ssNFNTsVQaLmLlfQ---vs~- 526 (988)
T KOG2038|consen 469 LNSRLLSALLTGVNRAFPFAQTADDKLEEQMKTLFKLTH------------------SSNFNTSVQALMLLFQ---VSK- 526 (988)
T ss_pred hhHHHHHHHHhcccccCCcccCchHHHHHHhHHHHHHHh------------------hcccchhHHHHHHHHH---HHH-
Confidence 47899999999999966654 44578888888988875 4699999999999975 111
Q ss_pred ChHHHHHHHHHhhhccCCCCChHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHhh
Q 003294 567 DLQDFFVQLYNLILEYRPGRDQGEVLAEALKIMLCDDRQHDMQKAAAFVKRLATFSLSIGSAESMAALVTLKNLLQK 643 (833)
Q Consensus 567 D~~rFY~~LY~~L~~~~~~~~~~~~ll~~L~~~L~~~~~~~~~RVAAFiKRLl~~sL~~p~~~ala~L~lI~~Ll~~ 643 (833)
...|.+ ..++++|+.-|+..+-.+....+-|+.=|. =||-... .+--.=++++.|+|.
T Consensus 527 -~~~~vS----------------DRyY~aLY~kLLdP~l~~sSKq~m~LnLly-kslK~D~-ni~RV~AFvKRlLQV 584 (988)
T KOG2038|consen 527 -KNDYVS----------------DRYYRALYRKLLDPRLMNSSKQAMFLNLLY-KSLKEDI-NIQRVRAFVKRLLQV 584 (988)
T ss_pred -hhhhhH----------------HHHHHHHHHHhcCcccCchHHHHHHHHHHH-HHHHhhh-hHHHHHHHHHHHHHH
Confidence 122222 234455543333334455666666766444 3444443 234445778888775
No 10
>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=88.91 E-value=16 Score=43.88 Aligned_cols=57 Identities=16% Similarity=0.212 Sum_probs=41.7
Q ss_pred CcchHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhcccc
Q 003294 282 QPVFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEG 340 (833)
Q Consensus 282 ~~~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D~ 340 (833)
|..++..|++-+-.|-...|+ +-..+.-+|+..|.+-+......|..+|.+||+.|+
T Consensus 72 d~~iR~~aik~lp~~ck~~~~--~v~kvaDvL~QlL~tdd~~E~~~v~~sL~~ll~~d~ 128 (556)
T PF05918_consen 72 DVQIRKQAIKGLPQLCKDNPE--HVSKVADVLVQLLQTDDPVELDAVKNSLMSLLKQDP 128 (556)
T ss_dssp SHHHHHHHHHHGGGG--T--T---HHHHHHHHHHHTT---HHHHHHHHHHHHHHHHH-H
T ss_pred cHHHHHHHHHhHHHHHHhHHH--HHhHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcCc
Confidence 446888899999888888887 455999999999998887888899999999999985
No 11
>PTZ00429 beta-adaptin; Provisional
Probab=88.65 E-value=76 Score=39.81 Aligned_cols=58 Identities=12% Similarity=0.080 Sum_probs=36.6
Q ss_pred CcchHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhccc
Q 003294 282 QPVFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNE 339 (833)
Q Consensus 282 ~~~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D 339 (833)
+|..+..|+-|+..|....|+--....++..+...|.|++..|..-|+.+|.++-..+
T Consensus 153 ~pYVRKtAalai~Kly~~~pelv~~~~~~~~L~~LL~D~dp~Vv~nAl~aL~eI~~~~ 210 (746)
T PTZ00429 153 DPYVRKTAAMGLGKLFHDDMQLFYQQDFKKDLVELLNDNNPVVASNAAAIVCEVNDYG 210 (746)
T ss_pred CHHHHHHHHHHHHHHHhhCcccccccchHHHHHHHhcCCCccHHHHHHHHHHHHHHhC
Confidence 4556777788888877766654112234444555567777777777777777775443
No 12
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=88.52 E-value=15 Score=38.04 Aligned_cols=106 Identities=13% Similarity=0.226 Sum_probs=69.3
Q ss_pred HHHHHHHHHHHhcCCc--chHHHHHHHHHHHhhcCCCCchHHHH-HHHHHHHhCCCcHHHHHHHHHHHHHHhccccCCCC
Q 003294 268 AYKAYLQKLIASEKQP--VFHQVVVRCICNLLDAVPHFNCCEIL-LEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHGG 344 (833)
Q Consensus 268 ~Y~~yLq~Le~l~~~~--~l~~~Avkclc~LL~~~PhFNf~~nL-L~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D~~~~G 344 (833)
+...|+..|.....++ .++..|..|+..+....+ +...+ +..+...+.+++..++..|+..+..++...+....
T Consensus 91 ~~~~~l~~Ll~~~~~~~~~i~~~a~~~L~~i~~~~~---~~~~~~~~~l~~~~~~Kn~~vR~~~~~~l~~~l~~~~~~~~ 167 (228)
T PF12348_consen 91 YADILLPPLLKKLGDSKKFIREAANNALDAIIESCS---YSPKILLEILSQGLKSKNPQVREECAEWLAIILEKWGSDSS 167 (228)
T ss_dssp HHHHHHHHHHHGGG---HHHHHHHHHHHHHHHTTS----H--HHHHHHHHHHTT-S-HHHHHHHHHHHHHHHTT-----G
T ss_pred HHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHCC---cHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHccchHh
Confidence 3445666665554443 578889999999998777 33355 88999999999999999999999999988641011
Q ss_pred ccH-----HHHHHHHHHhhhhcCCCCCHHHHHHhhcc
Q 003294 345 VAT-----VEAVRLIANHVKVKNCQLHPDFVEVFMSL 376 (833)
Q Consensus 345 e~s-----leiVr~I~~~vK~k~~~v~p~vl~~fL~L 376 (833)
... -.++..|.+.+...+..|+...-.+|..+
T Consensus 168 ~l~~~~~~~~l~~~l~~~l~D~~~~VR~~Ar~~~~~l 204 (228)
T PF12348_consen 168 VLQKSAFLKQLVKALVKLLSDADPEVREAARECLWAL 204 (228)
T ss_dssp GG--HHHHHHHHHHHHHHHTSS-HHHHHHHHHHHHHH
T ss_pred hhcccchHHHHHHHHHHHCCCCCHHHHHHHHHHHHHH
Confidence 111 24677777777777766776667777665
No 13
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=87.05 E-value=2 Score=43.62 Aligned_cols=55 Identities=20% Similarity=0.280 Sum_probs=48.6
Q ss_pred cchHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhccc
Q 003294 283 PVFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNE 339 (833)
Q Consensus 283 ~~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D 339 (833)
|.++.-|+-|+|+|....|. .-+..+..+...|.|+++.|+..|+.+|..|+.+|
T Consensus 2 ~~vR~n~i~~l~DL~~r~~~--~ve~~~~~l~~~L~D~~~~VR~~al~~Ls~Li~~d 56 (178)
T PF12717_consen 2 PSVRNNAIIALGDLCIRYPN--LVEPYLPNLYKCLRDEDPLVRKTALLVLSHLILED 56 (178)
T ss_pred HHHHHHHHHHHHHHHHhCcH--HHHhHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcC
Confidence 55778899999999999994 66688889999999999999999999999999887
No 14
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=81.78 E-value=21 Score=42.48 Aligned_cols=105 Identities=14% Similarity=0.295 Sum_probs=65.8
Q ss_pred HHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhhcCCC-----CchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhcccc
Q 003294 266 LSAYKAYLQKLIASEKQPVFHQVVVRCICNLLDAVPH-----FNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEG 340 (833)
Q Consensus 266 l~~Y~~yLq~Le~l~~~~~l~~~Avkclc~LL~~~Ph-----FNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D~ 340 (833)
...|..||+..-.. .++..+..|++.++.++..... -+ .+++..|+..+++++..|+..|+.+|..+.+..
T Consensus 75 ~~~~~~~L~~gL~h-~~~~Vr~l~l~~l~~~~~~~~~~~~~~~~--~~l~~~i~~~L~~~d~~Va~~A~~~L~~l~~~~- 150 (503)
T PF10508_consen 75 LPQYQPFLQRGLTH-PSPKVRRLALKQLGRIARHSEGAAQLLVD--NELLPLIIQCLRDPDLSVAKAAIKALKKLASHP- 150 (503)
T ss_pred HHHHHHHHHHHhcC-CCHHHHHHHHHHHHHHhcCCHHHHHHhcC--ccHHHHHHHHHcCCcHHHHHHHHHHHHHHhCCc-
Confidence 45555555554332 2356778888877777654432 22 378999999999999999999999999999764
Q ss_pred CCCCccHH---HHHHHHHHhhhhcCCCCCHHHHHHhhcc
Q 003294 341 KHGGVATV---EAVRLIANHVKVKNCQLHPDFVEVFMSL 376 (833)
Q Consensus 341 ~~~Ge~sl---eiVr~I~~~vK~k~~~v~p~vl~~fL~L 376 (833)
.|...+ .++..+.+++...+-.++-++++++-.+
T Consensus 151 --~~~~~l~~~~~~~~L~~l~~~~~~~vR~Rv~el~v~i 187 (503)
T PF10508_consen 151 --EGLEQLFDSNLLSKLKSLMSQSSDIVRCRVYELLVEI 187 (503)
T ss_pred --hhHHHHhCcchHHHHHHHHhccCHHHHHHHHHHHHHH
Confidence 232221 1255666665442333444455554443
No 15
>PTZ00429 beta-adaptin; Provisional
Probab=81.10 E-value=1e+02 Score=38.78 Aligned_cols=86 Identities=16% Similarity=0.110 Sum_probs=51.1
Q ss_pred HHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhccccCCCCccHHHHHHHHHHhhhhcCCCC
Q 003294 286 HQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHVKVKNCQL 365 (833)
Q Consensus 286 ~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D~~~~Ge~sleiVr~I~~~vK~k~~~v 365 (833)
+.-|++.+..++..=- + -..++.-||+.+.+.+-.+..+|+-.+....+.++ +..+-+|..+.+=+...|.-|
T Consensus 49 kk~alKkvIa~mt~G~--D-vS~LF~dVvk~~~S~d~elKKLvYLYL~~ya~~~p----elalLaINtl~KDl~d~Np~I 121 (746)
T PTZ00429 49 KKAAVKRIIANMTMGR--D-VSYLFVDVVKLAPSTDLELKKLVYLYVLSTARLQP----EKALLAVNTFLQDTTNSSPVV 121 (746)
T ss_pred HHHHHHHHHHHHHCCC--C-chHHHHHHHHHhCCCCHHHHHHHHHHHHHHcccCh----HHHHHHHHHHHHHcCCCCHHH
Confidence 4445555555543221 2 24688888999999999999999999988876542 333334444444344444344
Q ss_pred CHHHHHHhhcccc
Q 003294 366 HPDFVEVFMSLSF 378 (833)
Q Consensus 366 ~p~vl~~fL~Lr~ 378 (833)
+.-.|.++-+++.
T Consensus 122 RaLALRtLs~Ir~ 134 (746)
T PTZ00429 122 RALAVRTMMCIRV 134 (746)
T ss_pred HHHHHHHHHcCCc
Confidence 4444555555544
No 16
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=79.50 E-value=5.4 Score=37.02 Aligned_cols=52 Identities=15% Similarity=0.193 Sum_probs=40.7
Q ss_pred HHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhccc
Q 003294 287 QVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNE 339 (833)
Q Consensus 287 ~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D 339 (833)
.+++..++.-|... --+|.+.|+..|++.++|.+.+||..+|++|..+.+.-
T Consensus 7 li~Laa~ai~l~~~-~~~~l~~Il~pVL~~~~D~d~rVRy~AcEaL~ni~k~~ 58 (97)
T PF12755_consen 7 LIGLAAVAIALGKD-ISKYLDEILPPVLKCFDDQDSRVRYYACEALYNISKVA 58 (97)
T ss_pred HHHHHHHHHHchHh-HHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHH
Confidence 34555555555544 33466799999999999999999999999999998763
No 17
>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=76.61 E-value=4.9 Score=29.11 Aligned_cols=29 Identities=17% Similarity=0.304 Sum_probs=25.0
Q ss_pred HHHHHHHHhCCCcHHHHHHHHHHHHHHhc
Q 003294 309 LLEVVVRNLGSQDVVVRKLCCATIKSLFT 337 (833)
Q Consensus 309 LL~~lV~kLg~~~~~Va~~c~~aL~~Lf~ 337 (833)
|+..++..++|++..||..++.+|..+.+
T Consensus 1 llp~l~~~l~D~~~~VR~~a~~~l~~i~~ 29 (31)
T PF02985_consen 1 LLPILLQLLNDPSPEVRQAAAECLGAIAE 29 (31)
T ss_dssp HHHHHHHHHT-SSHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHcCCCCHHHHHHHHHHHHHHHh
Confidence 57788999999999999999999998865
No 18
>PF12530 DUF3730: Protein of unknown function (DUF3730) ; InterPro: IPR022542 This domain is found in eukaryotes, and is typically between 220 and 262 amino acids in length.
Probab=72.57 E-value=1.3e+02 Score=32.12 Aligned_cols=159 Identities=18% Similarity=0.195 Sum_probs=94.8
Q ss_pred HhCHHHhHHHHHHHHHHhhccChhhHHHHHHHHHHHHhhhcCCCCCCCCchhhhhhhhhHHHHHHHHHHHHHHHHHHHHH
Q 003294 194 LADPESNIKSLKEMLQIARDDNPSISKLGFLSLLAVFKDIIPGYRIRLPTEKELEMKVSKEVKKMRFYESTLLSAYKAYL 273 (833)
Q Consensus 194 ledPe~ni~~Lk~L~~m~~~~~~~vrkLAilSL~~VFkDIlP~YrIR~lte~E~~~kvsKev~~lr~fE~~Ll~~Y~~yL 273 (833)
..+|..-...|+.|-.+|..++ ....+++..|..+=.. -.... ..-.-.-+..+|.=+...- .||
T Consensus 12 ~~~~~~~~~~L~~L~~l~~~~~-~~~~~v~~~L~~L~~~----~~~~~------~~~~~rLl~~lw~~~~r~f----~~L 76 (234)
T PF12530_consen 12 ISDPELQLPLLEALPSLACHKN-VCVPPVLQTLVSLVEQ----GSLEL------RYVALRLLTLLWKANDRHF----PFL 76 (234)
T ss_pred CCChHHHHHHHHHHHHHhccCc-cchhHHHHHHHHHHcC----CchhH------HHHHHHHHHHHHHhCchHH----HHH
Confidence 4688888899999999998886 5555555554444110 00000 0001122334454444322 455
Q ss_pred HHHHHh---------cCCcchHHHHH---HHHHHHhhcCCCCchHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHHhcccc
Q 003294 274 QKLIAS---------EKQPVFHQVVV---RCICNLLDAVPHFNCCEILLEVVVRNL-GSQDVVVRKLCCATIKSLFTNEG 340 (833)
Q Consensus 274 q~Le~l---------~~~~~l~~~Av---kclc~LL~~~PhFNf~~nLL~~lV~kL-g~~~~~Va~~c~~aL~~Lf~~D~ 340 (833)
+.+... ..+....+.-+ .++.++-...|+ ....++..+...| ++.++.++..|.++|..|+..+-
T Consensus 77 ~~~L~~~~~r~~~~~~~~~~~~~~~i~~a~s~~~ic~~~p~--~g~~ll~~ls~~L~~~~~~~~~alale~l~~Lc~~~v 154 (234)
T PF12530_consen 77 QPLLLLLILRIPSSFSSKDEFWECLISIAASIRDICCSRPD--HGVDLLPLLSGCLNQSCDEVAQALALEALAPLCEAEV 154 (234)
T ss_pred HHHHHHHHhhcccccCCCcchHHHHHHHHHHHHHHHHhChh--hHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHhh
Confidence 533322 11222222222 355566666777 7889999999999 88888999999999999997652
Q ss_pred CCCCccHHHHHHHHHHhhhhcCCCCCHHHHHHhhcc
Q 003294 341 KHGGVATVEAVRLIANHVKVKNCQLHPDFVEVFMSL 376 (833)
Q Consensus 341 ~~~Ge~sleiVr~I~~~vK~k~~~v~p~vl~~fL~L 376 (833)
+++...-.-+.+.-++..+|.++..+.++
T Consensus 155 -------vd~~s~w~vl~~~l~~~~rp~v~~~l~~l 183 (234)
T PF12530_consen 155 -------VDFYSAWKVLQKKLSLDYRPLVLKSLCSL 183 (234)
T ss_pred -------ccHHHHHHHHHHhcCCccchHHHHHHHHH
Confidence 23333333333334788999999866655
No 19
>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=70.09 E-value=25 Score=31.61 Aligned_cols=110 Identities=13% Similarity=0.084 Sum_probs=70.9
Q ss_pred HHHHHHHHHhhccChhhHHHHHHHHHHHHhhhcCCCCCCCCchhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 003294 202 KSLKEMLQIARDDNPSISKLGFLSLLAVFKDIIPGYRIRLPTEKELEMKVSKEVKKMRFYESTLLSAYKAYLQKLIASEK 281 (833)
Q Consensus 202 ~~Lk~L~~m~~~~~~~vrkLAilSL~~VFkDIlP~YrIR~lte~E~~~kvsKev~~lr~fE~~Ll~~Y~~yLq~Le~l~~ 281 (833)
+.+..|+.++.+.+..++.-|+.+|..+..+- +. ..... .+.+. +..+++.|. ..
T Consensus 7 ~~i~~l~~~l~~~~~~~~~~a~~~l~~l~~~~----------~~-----~~~~~-----~~~~~---i~~l~~~l~--~~ 61 (120)
T cd00020 7 GGLPALVSLLSSSDENVQREAAWALSNLSAGN----------ND-----NIQAV-----VEAGG---LPALVQLLK--SE 61 (120)
T ss_pred CChHHHHHHHHcCCHHHHHHHHHHHHHHhcCC----------HH-----HHHHH-----HHCCC---hHHHHHHHh--CC
Confidence 45677888888888788888888877775441 10 00010 11111 222222222 13
Q ss_pred CcchHHHHHHHHHHHhhcCCC---CchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHh
Q 003294 282 QPVFHQVVVRCICNLLDAVPH---FNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLF 336 (833)
Q Consensus 282 ~~~l~~~Avkclc~LL~~~Ph---FNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf 336 (833)
++.++..|+.+++.|....|. .-....++..++..|++.+..++..++.+|..|.
T Consensus 62 ~~~v~~~a~~~L~~l~~~~~~~~~~~~~~g~l~~l~~~l~~~~~~~~~~a~~~l~~l~ 119 (120)
T cd00020 62 DEEVVKAALWALRNLAAGPEDNKLIVLEAGGVPKLVNLLDSSNEDIQKNATGALSNLA 119 (120)
T ss_pred CHHHHHHHHHHHHHHccCcHHHHHHHHHCCChHHHHHHHhcCCHHHHHHHHHHHHHhh
Confidence 567888999999999876542 1122357899999999999999999999998875
No 20
>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=68.11 E-value=19 Score=41.99 Aligned_cols=176 Identities=15% Similarity=0.193 Sum_probs=98.7
Q ss_pred HhCHHHhHHHHHHHHHHhhccChhhHHHHHHHHHHHHh---hhcCCCCC-----CCCchhhhhhhhhHHHHHHHHH---H
Q 003294 194 LADPESNIKSLKEMLQIARDDNPSISKLGFLSLLAVFK---DIIPGYRI-----RLPTEKELEMKVSKEVKKMRFY---E 262 (833)
Q Consensus 194 ledPe~ni~~Lk~L~~m~~~~~~~vrkLAilSL~~VFk---DIlP~YrI-----R~lte~E~~~kvsKev~~lr~f---E 262 (833)
+.+|+--=.-+..+..++.+.++.||+-|++++..+|+ |++|.. + +.+.+....+ +.--+..+... +
T Consensus 106 i~~~~~~~~l~~~v~~ll~~~~~~VRk~A~~~l~~i~~~~p~~~~~~-~~~~l~~lL~d~~~~V-~~~a~~~l~~i~~~~ 183 (526)
T PF01602_consen 106 IRTPEMAEPLIPDVIKLLSDPSPYVRKKAALALLKIYRKDPDLVEDE-LIPKLKQLLSDKDPSV-VSAALSLLSEIKCND 183 (526)
T ss_dssp H-SHHHHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCHCCHHGG-HHHHHHHHTTHSSHHH-HHHHHHHHHHHHCTH
T ss_pred hcccchhhHHHHHHHHHhcCCchHHHHHHHHHHHHHhccCHHHHHHH-HHHHHhhhccCCcchh-HHHHHHHHHHHccCc
Confidence 33666655566677777888899999999999999997 455543 2 1223222111 11222333333 3
Q ss_pred HHHHHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhcccc
Q 003294 263 STLLSAYKAYLQKLIASEK--QPVFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEG 340 (833)
Q Consensus 263 ~~Ll~~Y~~yLq~Le~l~~--~~~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D~ 340 (833)
+........++..|.++.. +|-....+++++..+....|+......++..+.+.+.+.+..|...|+.++..+...+.
T Consensus 184 ~~~~~~~~~~~~~L~~~l~~~~~~~q~~il~~l~~~~~~~~~~~~~~~~i~~l~~~l~s~~~~V~~e~~~~i~~l~~~~~ 263 (526)
T PF01602_consen 184 DSYKSLIPKLIRILCQLLSDPDPWLQIKILRLLRRYAPMEPEDADKNRIIEPLLNLLQSSSPSVVYEAIRLIIKLSPSPE 263 (526)
T ss_dssp HHHTTHHHHHHHHHHHHHTCCSHHHHHHHHHHHTTSTSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSSSHH
T ss_pred chhhhhHHHHHHHhhhcccccchHHHHHHHHHHHhcccCChhhhhHHHHHHHHHHHhhccccHHHHHHHHHHHHhhcchH
Confidence 3322333344455544423 33445566777776654444433114699999999988888888777777776654431
Q ss_pred CCCCccHHHHHHHHHHhhhhcCCCCCHHHHHHhhcc
Q 003294 341 KHGGVATVEAVRLIANHVKVKNCQLHPDFVEVFMSL 376 (833)
Q Consensus 341 ~~~Ge~sleiVr~I~~~vK~k~~~v~p~vl~~fL~L 376 (833)
.--.++..+.+++...+.++.=-+++++..+
T Consensus 264 -----~~~~~~~~L~~lL~s~~~nvr~~~L~~L~~l 294 (526)
T PF01602_consen 264 -----LLQKAINPLIKLLSSSDPNVRYIALDSLSQL 294 (526)
T ss_dssp -----HHHHHHHHHHHHHTSSSHHHHHHHHHHHHHH
T ss_pred -----HHHhhHHHHHHHhhcccchhehhHHHHHHHh
Confidence 2223666677776544433333334444443
No 21
>KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only]
Probab=66.70 E-value=1e+02 Score=39.37 Aligned_cols=59 Identities=19% Similarity=0.262 Sum_probs=45.9
Q ss_pred cCCcchHHHHHHHHHHHhhcCCCC--chHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhcc
Q 003294 280 EKQPVFHQVVVRCICNLLDAVPHF--NCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTN 338 (833)
Q Consensus 280 ~~~~~l~~~Avkclc~LL~~~PhF--Nf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~ 338 (833)
+.....+-.++..||+.|...-.+ ||+.-|+..+++.|+++...|+.++|.+|..|...
T Consensus 144 e~~sai~~e~lDil~d~lsr~g~ll~~fh~~il~~l~~ql~s~R~aVrKkai~~l~~la~~ 204 (1233)
T KOG1824|consen 144 EDVSAIKCEVLDILADVLSRFGTLLPNFHLSILKCLLPQLQSPRLAVRKKAITALGHLASS 204 (1233)
T ss_pred ccchhhHHHHHHHHHHHHHhhcccCcchHHHHHHHHhhcccChHHHHHHHHHHHHHHHHHh
Confidence 333345667788899998865332 47789999999999999999999999888876543
No 22
>KOG2956 consensus CLIP-associating protein [General function prediction only]
Probab=66.48 E-value=1.9e+02 Score=34.35 Aligned_cols=148 Identities=18% Similarity=0.192 Sum_probs=93.0
Q ss_pred hccchHHHHHhhhhcCCHHHHHHHHHHHHHHHHHHHHhCHH-----HhHHHHHHHHHHhhc-cChhhHHHHHHHHHHHHh
Q 003294 158 EQAPQVAVLAEVKEDLTAEELFESKKCKLAELGMALLADPE-----SNIKSLKEMLQIARD-DNPSISKLGFLSLLAVFK 231 (833)
Q Consensus 158 ~~~~~~~~~~~~~~~l~~~~~~~~~KdkIAaL~~~IledPe-----~ni~~Lk~L~~m~~~-~~~~vrkLAilSL~~VFk 231 (833)
..-+|++.+......++.-|+.++.+.-++.|-..+.++-. +-=.-|..++....+ .+..+++||+..|.+..+
T Consensus 280 ~~~~~~~~v~~~l~~~~g~e~a~~~k~alsel~~m~~e~sfsvWeq~f~~iL~~l~EvL~d~~~~~~k~laLrvL~~ml~ 359 (516)
T KOG2956|consen 280 NSVDQSALVADLLKEISGSERASERKEALSELPKMLCEGSFSVWEQHFAEILLLLLEVLSDSEDEIIKKLALRVLREMLT 359 (516)
T ss_pred CCcchhHHHHHHHHhccCccchhHHHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHH
Confidence 34456777777888888889999999999999999999943 333345566666666 788999999988777632
Q ss_pred hhcCCCCCCCCchhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCc--chHHHHHHHHHHHhhc-CCCCchHHH
Q 003294 232 DIIPGYRIRLPTEKELEMKVSKEVKKMRFYESTLLSAYKAYLQKLIASEKQP--VFHQVVVRCICNLLDA-VPHFNCCEI 308 (833)
Q Consensus 232 DIlP~YrIR~lte~E~~~kvsKev~~lr~fE~~Ll~~Y~~yLq~Le~l~~~~--~l~~~Avkclc~LL~~-~PhFNf~~n 308 (833)
.+......|-|.. -.++|+ ..+++ ..-.+|..|+..+|.+ .|..+- .|
T Consensus 360 ------------~Q~~~l~DstE~a------------i~K~Le----aa~ds~~~v~~~Aeed~~~~las~~P~~~I-~~ 410 (516)
T KOG2956|consen 360 ------------NQPARLFDSTEIA------------ICKVLE----AAKDSQDEVMRVAEEDCLTTLASHLPLQCI-VN 410 (516)
T ss_pred ------------hchHhhhchHHHH------------HHHHHH----HHhCCchhHHHHHHHHHHHHHHhhCchhHH-HH
Confidence 1111112222221 112222 23333 3445566666666654 465442 33
Q ss_pred HHHHHHHHhCCCcHHHHHHHHHHHHHHhcc
Q 003294 309 LLEVVVRNLGSQDVVVRKLCCATIKSLFTN 338 (833)
Q Consensus 309 LL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~ 338 (833)
|-.+++ .-|...+.+|+..+..||+.
T Consensus 411 i~~~Il----t~D~~~~~~~iKm~Tkl~e~ 436 (516)
T KOG2956|consen 411 ISPLIL----TADEPRAVAVIKMLTKLFER 436 (516)
T ss_pred HhhHHh----cCcchHHHHHHHHHHHHHhh
Confidence 333333 36788888999999999975
No 23
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=65.72 E-value=2.2e+02 Score=33.92 Aligned_cols=54 Identities=15% Similarity=0.162 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhccc
Q 003294 286 HQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNE 339 (833)
Q Consensus 286 ~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D 339 (833)
-..++.++..+|...+--.--.++...+...|.++++.|+..||.+|..+....
T Consensus 55 v~~~~~iL~~~l~~~~~~~l~~~~~~~L~~gL~h~~~~Vr~l~l~~l~~~~~~~ 108 (503)
T PF10508_consen 55 VELICDILKRLLSALSPDSLLPQYQPFLQRGLTHPSPKVRRLALKQLGRIARHS 108 (503)
T ss_pred HHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhcCC
Confidence 345566677777666444435688899999999999999999999999887653
No 24
>PF08569 Mo25: Mo25-like; InterPro: IPR013878 Mo25-like proteins are involved in both polarised growth and cytokinesis. In fission yeast Mo25 is localised alternately to the spindle pole body and to the site of cell division in a cell cycle dependent manner [, ]. ; PDB: 2WTK_A 1UPK_A 3GNI_A 1UPL_A.
Probab=63.35 E-value=1.2e+02 Score=34.46 Aligned_cols=86 Identities=14% Similarity=0.157 Sum_probs=60.2
Q ss_pred HHHHHHHHHHHHHHHhcCCcc--hHHHHHHHHHHHhhcCCCCchH------HHHHHHHHHHhCCCcHHHHHHHHHHHHHH
Q 003294 264 TLLSAYKAYLQKLIASEKQPV--FHQVVVRCICNLLDAVPHFNCC------EILLEVVVRNLGSQDVVVRKLCCATIKSL 335 (833)
Q Consensus 264 ~Ll~~Y~~yLq~Le~l~~~~~--l~~~Avkclc~LL~~~PhFNf~------~nLL~~lV~kLg~~~~~Va~~c~~aL~~L 335 (833)
.|...|..|.+....+-..++ .+.++++.+.+||...++|+.. .+-|.++.+.|.|+++.|+.-+-+.+ .+
T Consensus 202 fl~~n~d~ff~~~~~Ll~s~NYvtkrqslkLL~ellldr~n~~vm~~yi~~~~nLkl~M~lL~d~sk~Iq~eAFhvF-Kv 280 (335)
T PF08569_consen 202 FLSNNYDRFFQKYNKLLESSNYVTKRQSLKLLGELLLDRSNFNVMTRYISSPENLKLMMNLLRDKSKNIQFEAFHVF-KV 280 (335)
T ss_dssp HHHHTHHHHHHHHHHHCT-SSHHHHHHHHHHHHHHHHSGGGHHHHHHHTT-HHHHHHHHHHTT-S-HHHHHHHHHHH-HH
T ss_pred HHHHHHHHHHHHHHHHccCCCeEeehhhHHHHHHHHHchhHHHHHHHHHCCHHHHHHHHHHhcCcchhhhHHHHHHH-HH
Confidence 357888888888888866554 5899999999999999998863 35678999999999999887665555 45
Q ss_pred hccccCCCCccHHHHHHHH
Q 003294 336 FTNEGKHGGVATVEAVRLI 354 (833)
Q Consensus 336 f~~D~~~~Ge~sleiVr~I 354 (833)
|-.-| ..+-.|+..+
T Consensus 281 FVANp----~K~~~I~~iL 295 (335)
T PF08569_consen 281 FVANP----NKPPPIVDIL 295 (335)
T ss_dssp HHH-S----S-BHHHHHHH
T ss_pred HHhCC----CCChHHHHHH
Confidence 55433 2344455444
No 25
>PF14664 RICTOR_N: Rapamycin-insensitive companion of mTOR, N-term
Probab=62.76 E-value=60 Score=37.26 Aligned_cols=154 Identities=16% Similarity=0.147 Sum_probs=91.4
Q ss_pred HHHHHHHHHHhCH----HHhHH-HHHHHHHHhhccChhhHHHHHHHHHHHHhh----------hcCCCCCCCCch-----
Q 003294 185 KLAELGMALLADP----ESNIK-SLKEMLQIARDDNPSISKLGFLSLLAVFKD----------IIPGYRIRLPTE----- 244 (833)
Q Consensus 185 kIAaL~~~IledP----e~ni~-~Lk~L~~m~~~~~~~vrkLAilSL~~VFkD----------IlP~YrIR~lte----- 244 (833)
+...|+..+..+| +-.+. ...++..|+-..+..||-.|+.-+--++.| =+|-|=||.+.-
T Consensus 3 ~~N~Lv~l~~~~p~l~~~~~~~~~~~~i~~~lL~~~~~vraa~yRilRy~i~d~~~l~~~~~l~id~~ii~SL~~~~~~~ 82 (371)
T PF14664_consen 3 KANDLVDLLKRHPTLKYDLVLSFFGERIQCMLLSDSKEVRAAGYRILRYLISDEESLQILLKLHIDIFIIRSLDRDNKND 82 (371)
T ss_pred hHHHHHHHHHhCchhhhhhhHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHHcCHHHHHHHHHcCCchhhHhhhcccCCCh
Confidence 4556777777788 33333 334444444444466665555444333333 234555555532
Q ss_pred hhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCCCcH
Q 003294 245 KELEMKVSKEVKKMRFYESTLLSAYKAYLQKLIASEK--QPVFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDV 322 (833)
Q Consensus 245 ~E~~~kvsKev~~lr~fE~~Ll~~Y~~yLq~Le~l~~--~~~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~ 322 (833)
.|..+ .=|=+.++.++.++-...=..-++.|.++.. +..++.+|+..+|||+...|+-=++.+-+..+++.+.+..-
T Consensus 83 ~ER~Q-ALkliR~~l~~~~~~~~~~~~vvralvaiae~~~D~lr~~cletL~El~l~~P~lv~~~gG~~~L~~~l~d~~~ 161 (371)
T PF14664_consen 83 VEREQ-ALKLIRAFLEIKKGPKEIPRGVVRALVAIAEHEDDRLRRICLETLCELALLNPELVAECGGIRVLLRALIDGSF 161 (371)
T ss_pred HHHHH-HHHHHHHHHHhcCCcccCCHHHHHHHHHHHhCCchHHHHHHHHHHHHHHhhCHHHHHHcCCHHHHHHHHHhccH
Confidence 12111 0011222222211221122344555555543 34699999999999999999987777888999999988665
Q ss_pred HHHHHHHHHHHHHhccc
Q 003294 323 VVRKLCCATIKSLFTNE 339 (833)
Q Consensus 323 ~Va~~c~~aL~~Lf~~D 339 (833)
.++..|+.++-.++...
T Consensus 162 ~~~~~l~~~lL~lLd~p 178 (371)
T PF14664_consen 162 SISESLLDTLLYLLDSP 178 (371)
T ss_pred hHHHHHHHHHHHHhCCc
Confidence 69999999999999654
No 26
>KOG1059 consensus Vesicle coat complex AP-3, delta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=62.35 E-value=25 Score=43.16 Aligned_cols=93 Identities=13% Similarity=0.213 Sum_probs=69.6
Q ss_pred HHHHHHh--cCCcchHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhccccCCCCccHHHH
Q 003294 273 LQKLIAS--EKQPVFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHGGVATVEA 350 (833)
Q Consensus 273 Lq~Le~l--~~~~~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D~~~~Ge~slei 350 (833)
+|.|..+ ..|++++=.++-||..++..||-+=. .=-.+|++-|.|.|..|+..+++.+......+. -.+|
T Consensus 301 vqKLr~fiedsDqNLKYlgLlam~KI~ktHp~~Vq--a~kdlIlrcL~DkD~SIRlrALdLl~gmVskkN------l~eI 372 (877)
T KOG1059|consen 301 VQKLRIFIEDSDQNLKYLGLLAMSKILKTHPKAVQ--AHKDLILRCLDDKDESIRLRALDLLYGMVSKKN------LMEI 372 (877)
T ss_pred HHHHhhhhhcCCccHHHHHHHHHHHHhhhCHHHHH--HhHHHHHHHhccCCchhHHHHHHHHHHHhhhhh------HHHH
Confidence 4444444 35788999999999999999998766 556889999999999999999999988887762 2467
Q ss_pred HHH-HHHhhhhcCCCCCHHHHHHh
Q 003294 351 VRL-IANHVKVKNCQLHPDFVEVF 373 (833)
Q Consensus 351 Vr~-I~~~vK~k~~~v~p~vl~~f 373 (833)
|+. +.+++++-+-+++.+++...
T Consensus 373 Vk~LM~~~~~ae~t~yrdell~~I 396 (877)
T KOG1059|consen 373 VKTLMKHVEKAEGTNYRDELLTRI 396 (877)
T ss_pred HHHHHHHHHhccchhHHHHHHHHH
Confidence 754 45555666556666655443
No 27
>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=60.41 E-value=11 Score=44.04 Aligned_cols=88 Identities=15% Similarity=0.266 Sum_probs=61.2
Q ss_pred CcchHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhccccCCCCccHHHHHHHHHHhhhhc
Q 003294 282 QPVFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHVKVK 361 (833)
Q Consensus 282 ~~~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D~~~~Ge~sleiVr~I~~~vK~k 361 (833)
++..+..|++|+|.+- .| +....++..|.+.+.|+++.|+..++-++..+++.++.. +.-.++..+.+++...
T Consensus 92 n~~~~~lAL~~l~~i~--~~--~~~~~l~~~v~~ll~~~~~~VRk~A~~~l~~i~~~~p~~---~~~~~~~~l~~lL~d~ 164 (526)
T PF01602_consen 92 NPYIRGLALRTLSNIR--TP--EMAEPLIPDVIKLLSDPSPYVRKKAALALLKIYRKDPDL---VEDELIPKLKQLLSDK 164 (526)
T ss_dssp SHHHHHHHHHHHHHH---SH--HHHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCHCC---HHGGHHHHHHHHTTHS
T ss_pred CHHHHHHHHhhhhhhc--cc--chhhHHHHHHHHHhcCCchHHHHHHHHHHHHHhccCHHH---HHHHHHHHHhhhccCC
Confidence 4457888999999976 23 355688999999999999999999999999999987532 1111577777777666
Q ss_pred CCCCCHHHHHHhhcc
Q 003294 362 NCQLHPDFVEVFMSL 376 (833)
Q Consensus 362 ~~~v~p~vl~~fL~L 376 (833)
+..|.-.++.++..+
T Consensus 165 ~~~V~~~a~~~l~~i 179 (526)
T PF01602_consen 165 DPSVVSAALSLLSEI 179 (526)
T ss_dssp SHHHHHHHHHHHHHH
T ss_pred cchhHHHHHHHHHHH
Confidence 644444444444444
No 28
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=58.75 E-value=31 Score=35.78 Aligned_cols=88 Identities=16% Similarity=0.323 Sum_probs=56.6
Q ss_pred chHHHHHHHHHHHhhc-CCCCc-hHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhccccCCCCccHHHH-HHHHHHhhhh
Q 003294 284 VFHQVVVRCICNLLDA-VPHFN-CCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHGGVATVEA-VRLIANHVKV 360 (833)
Q Consensus 284 ~l~~~Avkclc~LL~~-~PhFN-f~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D~~~~Ge~slei-Vr~I~~~vK~ 360 (833)
.+...|+.|+..|... ..+|. |-+.++..++.++|++...|+..+..+|..++..- + ..-.+ +..+....+.
T Consensus 68 ~v~~~A~~~l~~l~~~l~~~~~~~~~~~l~~Ll~~~~~~~~~i~~~a~~~L~~i~~~~---~--~~~~~~~~~l~~~~~~ 142 (228)
T PF12348_consen 68 KVSKTACQLLSDLARQLGSHFEPYADILLPPLLKKLGDSKKFIREAANNALDAIIESC---S--YSPKILLEILSQGLKS 142 (228)
T ss_dssp -HHHHHHHHHHHHHHHHGGGGHHHHHHHHHHHHHGGG---HHHHHHHHHHHHHHHTTS------H--HHHHHHHHHHTT-
T ss_pred HHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHC---C--cHHHHHHHHHHHHHhC
Confidence 3556667776666432 23464 66789999999999999999999999999999863 2 11123 7777777777
Q ss_pred cCCCCCHHHHHHhhcc
Q 003294 361 KNCQLHPDFVEVFMSL 376 (833)
Q Consensus 361 k~~~v~p~vl~~fL~L 376 (833)
++..++..++.++..+
T Consensus 143 Kn~~vR~~~~~~l~~~ 158 (228)
T PF12348_consen 143 KNPQVREECAEWLAII 158 (228)
T ss_dssp S-HHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHH
Confidence 7766666666655443
No 29
>PF08623 TIP120: TATA-binding protein interacting (TIP20); InterPro: IPR013932 TIP120 (also known as cullin-associated and neddylation-dissociated protein 1) is a TATA binding protein interacting protein that enhances transcription []. ; PDB: 4A0C_A 1U6G_C.
Probab=56.97 E-value=31 Score=35.44 Aligned_cols=55 Identities=18% Similarity=0.254 Sum_probs=45.1
Q ss_pred chHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhccc
Q 003294 284 VFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNE 339 (833)
Q Consensus 284 ~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D 339 (833)
.++..|.-||+.||...++----..++..|+..|+| +..|...|+-.|..+....
T Consensus 42 elRK~ayE~lytlLd~~~~~~~~~~~~~~v~~GL~D-~~DIk~L~~~~l~kl~~~~ 96 (169)
T PF08623_consen 42 ELRKAAYECLYTLLDTCLSRIDISEFLDRVEAGLKD-EHDIKMLCHLMLSKLAQLA 96 (169)
T ss_dssp HHHHHHHHHHHHHHHSTCSSS-HHHHHHHHHHTTSS--HHHHHHHHHHHHHHHHS-
T ss_pred HHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHhhcCC-cHHHHHHHHHHHHHHHHhC
Confidence 368999999999999877766567889999999999 9999999999998886554
No 30
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=55.74 E-value=33 Score=31.85 Aligned_cols=63 Identities=14% Similarity=0.247 Sum_probs=45.2
Q ss_pred HHHHHHHHhcCC--cchHHHHHHHHHHHhhcC-----CCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhc
Q 003294 271 AYLQKLIASEKQ--PVFHQVVVRCICNLLDAV-----PHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFT 337 (833)
Q Consensus 271 ~yLq~Le~l~~~--~~l~~~Avkclc~LL~~~-----PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~ 337 (833)
..++-+..+-.| +..+-.|..+++.+.... |||| .|+..+...+.|+++.|++- ++.|-.|++
T Consensus 27 ~Il~pVL~~~~D~d~rVRy~AcEaL~ni~k~~~~~~l~~f~---~IF~~L~kl~~D~d~~Vr~~-a~~Ld~llk 96 (97)
T PF12755_consen 27 EILPPVLKCFDDQDSRVRYYACEALYNISKVARGEILPYFN---EIFDALCKLSADPDENVRSA-AELLDRLLK 96 (97)
T ss_pred HHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHcCCchhHHHH-HHHHHHHhc
Confidence 344444444444 457888889998887643 4555 89999999999999999864 466767765
No 31
>KOG1222 consensus Kinesin associated protein KAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=54.89 E-value=1.5e+02 Score=35.23 Aligned_cols=74 Identities=19% Similarity=0.268 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhccccCCCCccHHHHHHHHHHhhhhcCCCCCHHH----HHHhhccccccc
Q 003294 306 CEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHVKVKNCQLHPDF----VEVFMSLSFDED 381 (833)
Q Consensus 306 ~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D~~~~Ge~sleiVr~I~~~vK~k~~~v~p~v----l~~fL~Lr~~e~ 381 (833)
|.||+.++|.-|...+-..-..++.-|..|=--+.+..-+....||..+-++. . --||++ +..++.+.|+..
T Consensus 302 rkniV~mLVKaLdr~n~~Ll~lv~~FLkKLSIf~eNK~~M~~~~iveKL~klf---p-~~h~dL~~~tl~LlfNlSFD~g 377 (791)
T KOG1222|consen 302 RKNIVAMLVKALDRSNSSLLTLVIKFLKKLSIFDENKIVMEQNGIVEKLLKLF---P-IQHPDLRKATLMLLFNLSFDSG 377 (791)
T ss_pred HHhHHHHHHHHHcccchHHHHHHHHHHHHhhhhccchHHHHhccHHHHHHHhc---C-CCCHHHHHHHHHHhhhcccccc
Confidence 45777777777766554444444444443221121112222233444444443 1 235554 566778888765
Q ss_pred cc
Q 003294 382 LQ 383 (833)
Q Consensus 382 l~ 383 (833)
+.
T Consensus 378 lr 379 (791)
T KOG1222|consen 378 LR 379 (791)
T ss_pred cc
Confidence 53
No 32
>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=54.64 E-value=9.3 Score=34.47 Aligned_cols=57 Identities=18% Similarity=0.065 Sum_probs=43.6
Q ss_pred cchHHHHHHHHHHHhhcCC---CCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhccc
Q 003294 283 PVFHQVVVRCICNLLDAVP---HFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNE 339 (833)
Q Consensus 283 ~~l~~~Avkclc~LL~~~P---hFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D 339 (833)
+..+..|+.|+..+-...| .+=...+.+..+++.|++++..++..|+.+|..+....
T Consensus 21 ~~~~~~a~~~l~~l~~~~~~~~~~~~~~~~i~~l~~~l~~~~~~v~~~a~~~L~~l~~~~ 80 (120)
T cd00020 21 ENVQREAAWALSNLSAGNNDNIQAVVEAGGLPALVQLLKSEDEEVVKAALWALRNLAAGP 80 (120)
T ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHCCChHHHHHHHhCCCHHHHHHHHHHHHHHccCc
Confidence 4677888888888765422 11123378899999999999999999999999998653
No 33
>PF13513 HEAT_EZ: HEAT-like repeat; PDB: 2Z5J_A 2OT8_B 2Z5O_A 2H4M_A 2QMR_A 1QBK_B 2Z5M_A 2Z5K_A 2Z5N_A 1GCJ_B ....
Probab=53.14 E-value=20 Score=28.78 Aligned_cols=51 Identities=18% Similarity=0.246 Sum_probs=35.8
Q ss_pred hHHHHHHHHHHHhhcCCCC--chHHHHHHHHHHHhCCCcHHHHHHHHHHHHHH
Q 003294 285 FHQVVVRCICNLLDAVPHF--NCCEILLEVVVRNLGSQDVVVRKLCCATIKSL 335 (833)
Q Consensus 285 l~~~Avkclc~LL~~~PhF--Nf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~L 335 (833)
.+..|+.++-.+....|+. .|...++..+++.|.|++..|+..+|.+|.+|
T Consensus 3 vR~~A~~aLg~l~~~~~~~~~~~~~~~~~~L~~~L~d~~~~VR~~A~~aLg~l 55 (55)
T PF13513_consen 3 VRRAAAWALGRLAEGCPELLQPYLPELLPALIPLLQDDDDSVRAAAAWALGNL 55 (55)
T ss_dssp HHHHHHHHHHCTTTTTHHHHHHHHHHHHHHHHHHTTSSSHHHHHHHHHHHHCH
T ss_pred HHHHHHHHHhhHhcccHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHhcC
Confidence 4555666665433222211 15568999999999999999999999999764
No 34
>PF02671 PAH: Paired amphipathic helix repeat; InterPro: IPR003822 This family contains the paired amphipathic helix (PAH) repeat. The family contains the eukaryotic Sin3 proteins, which have at least three PAH domains (PAH1, PAH2, and PAH3). Sin3 proteins are components of a co-repressor complex that silences transcription, playing important roles in the transition between proliferation and differentiation. Sin3 proteins are recruited to the DNA by various DNA-binding transcription factors such as the Mad family of repressors, Mnt/Rox, PLZF, MeCP2, p53, REST/NRSF, MNFbeta, Sp1, TGIF and Ume6 []. Sin3 acts as a scaffold protein that in turn recruits histone-binding proteins RbAp46/RbAp48 and histone deacetylases HDAC1/HDAC2, which deacetylate the core histones resulting in a repressed state of the chromatin []. The PAH domains are protein-protein interaction domains through which Sin3 fulfils its role as a scaffold. The PAH2 domain of Sin3 can interact with a wide range of unrelated and structurally diverse transcription factors that bind using different interaction motifs. For example, the Sin3 PAH2 domain can interact with the unrelated Mad and HBP1 factors using alternative interaction motifs that involve binding in opposite helical orientations [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1S5Q_B 2L9S_B 1G1E_B 1S5R_B 2CR7_A 2CZY_A 2LD7_B 2RMR_A 2RMS_A 1PD7_A ....
Probab=52.71 E-value=16 Score=29.05 Aligned_cols=36 Identities=22% Similarity=0.374 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHhcCCcchHHHHHHHHHHHhhcCCC
Q 003294 267 SAYKAYLQKLIASEKQPVFHQVVVRCICNLLDAVPH 302 (833)
Q Consensus 267 ~~Y~~yLq~Le~l~~~~~l~~~Avkclc~LL~~~Ph 302 (833)
..|..||+.|....+...-....+..+..||..+|+
T Consensus 2 ~~Y~~FL~il~~y~~~~~~~~~v~~~v~~Ll~~hpd 37 (47)
T PF02671_consen 2 EVYNEFLKILNDYKKGRISRSEVIEEVSELLRGHPD 37 (47)
T ss_dssp HHHHHHHHHHHHHHCTCSCHHHHHHHHHHHTTT-HH
T ss_pred hHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHccCHH
Confidence 479999999999888665566678889999999883
No 35
>PF11791 Aconitase_B_N: Aconitate B N-terminal domain; InterPro: IPR015933 Aconitase (aconitate hydratase; 4.2.1.3 from EC) is an iron-sulphur protein that contains a [4Fe-4S]-cluster and catalyses the interconversion of isocitrate and citrate via a cis-aconitate intermediate. Aconitase functions in both the TCA and glyoxylate cycles, however unlike the majority of iron-sulphur proteins that function as electron carriers, the [4Fe-4S]-cluster of aconitase reacts directly with an enzyme substrate. In eukaryotes there is a cytosolic form (cAcn) and a mitochondrial form (mAcn) of the enzyme. In bacteria there are also 2 forms, aconitase A (AcnA) and B (AcnB). Several aconitases are known to be multi-functional enzymes with a second non-catalytic, but essential function that arises when the cellular environment changes, such as when iron levels drop [, ]. Eukaryotic cAcn and mAcn, and bacterial AcnA have the same domain organisation, consisting of three N-terminal alpha/beta/alpha domains, a linker region, followed by a C-terminal 'swivel' domain with a beta/beta/alpha structure (1-2-3-linker-4), although mAcn is small than cAcn. However, bacterial AcnB has a different organisation: it contains an N-terminal HEAT-like domain, followed by the 'swivel' domain, then the three alpha/beta/alpha domains (HEAT-4-1-2-3) []. Below is a description of some of the multi-functional activities associated with different aconitases. Eukaryotic mAcn catalyses the second step of the mitochondrial TCA cycle, which is important for energy production, providing high energy electrons in the form of NADH and FADH2 to the mitochondrial oxidative phosphorylation pathway []. The TCA cycle also provides precursors for haem and amino acid production. This enzyme has a second, non-catalytic but essential role in mitochondrial DNA (mtDNA) maintenance: mAcn acts to stabilise mtDNA, forming part of mtDNA protein-DNA complexes known as nucleoids. mAcn is thought to reversibly model nucleoids to directly influence mitochondrial gene expression in response to changes in the cellular environment. Therefore, mAcn can influence the expression of components of the oxidative phosphorylation pathway encoded in mtDNA. Eukaryotic cAcn enzyme balances the amount of citrate and isocitrate in the cytoplasm, which in turn creates a balance between the amount of NADPH generated from isocitrate by isocitrate dehydrogenase with the amount of acetyl-CoA generated from citrate by citrate lyase. Fatty acid synthesis requires both NADPH and acetyl-CoA, as do other metabolic processes, including the need for NADPH to combat oxidative stress. The enzymatic form of cAcn predominates when iron levels are normal, but if they drop sufficiently to cause the disassembly of the [4Fe-4S]-cluster, then cAcn undergoes a conformational change from a compact enzyme to a more open L-shaped protein known as iron regulatory protein 1 (IRP1; or IRE-binding protein 1, IREBP1) [, ]. As IRP1, the catalytic site and the [4Fe-4S]-cluster are lost, and two new RNA-binding sites appear. IRP1 functions in the post-transcriptional regulation of genes involved in iron metabolism - it binds to mRNA iron-responsive elements (IRE), 30-nucleotide stem-loop structures at the 3' or 5' end of specific transcripts. Transcripts containing an IRE include ferritin L and H subunits (iron storage), transferrin (iron plasma chaperone), transferrin receptor (iron uptake into cells), ferroportin (iron exporter), mAcn, succinate dehydrogenase, erythroid aminolevulinic acid synthetase (tetrapyrrole biosynthesis), among others. If the IRE is in the 5'-UTR of the transcript (e.g. in ferritin mRNA), then IRP1-binding prevents its translation by blocking the transcript from binding to the ribosome. If the IRE is in the 3'-UTR of the transcript (e.g. transferrin receptor), then IRP1-binding protects it from endonuclease degradation, thereby prolonging the half-life of the transcript and enabling it to be translated []. IRP2 is another IRE-binding protein that binds to the same transcripts as IRP1. However, since IRP1 is predominantly in the enzymatic cAcn form, it is IRP2 that acts as the major metabolic regulator that maintains iron homeostasis []. Although IRP2 is homologous to IRP1, IRP2 lacks aconitase activity, and is known only to have a single function in the post-transcriptional regulation of iron metabolism genes []. In iron-replete cells, IRP2 activity is regulated primarily by iron-dependent degradation through the ubiquitin-proteasomal system. Bacterial AcnB is also known to be multi-functional. In addition to its role in the TCA cycle, AcnB was shown to be a post-transcriptional regulator of gene expression in Escherichia coli and Salmonella enterica [, ]. In S. enterica, AcnB initiates a regulatory cascade controlling flagella biosynthesis through an interaction with the ftsH transcript, an alternative RNA polymerase sigma factor. This binding lowers the intracellular concentration of FtsH protease, which in turn enhances the amount of RNA polymerase sigma32 factor (normally degraded by FtsH protease), and sigma32 then increases the synthesis of chaperone DnaK, which in turn promotes the synthesis of the flagellar protein FliC. AcnB regulates the synthesis of other proteins as well, such as superoxide dismutase (SodA) and other enzymes involved in oxidative stress. This entry represents the N-terminal HEAT-like domain, which is present in bacterial aconitase (AcnB), but not in AcnA or eukaryotic cAcn/IRP2 or mAcn. This domain is multi-helical, forming two curved layers in a right-handed alpha-alpha superhelix. HEAT-like domains are usually implicated in protein-protein interactions. The HEAT-like domain and the 'swivel' domain that follows it were shown to be sufficient for dimerisation and for AcnB binding to mRNA. An iron-mediated dimerisation mechanism may be responsible for switching AcnB between its catalytic and regulatory roles, as dimerisation requires iron while mRNA binding is inhibited by iron. More information about these proteins can be found at Protein of the Month: Aconitase [].; GO: 0003994 aconitate hydratase activity, 0006099 tricarboxylic acid cycle; PDB: 1L5J_B.
Probab=52.60 E-value=48 Score=33.54 Aligned_cols=83 Identities=13% Similarity=0.166 Sum_probs=55.8
Q ss_pred HHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhccccCCCCccHHHHHHHHHHhhhhcCCCC
Q 003294 286 HQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHVKVKNCQL 365 (833)
Q Consensus 286 ~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D~~~~Ge~sleiVr~I~~~vK~k~~~v 365 (833)
...=+..+|+||..-|.- ....|+.+++++..---+..+..=..-|..+.+.+...+.-...++|+++..|+ -+|||
T Consensus 20 ~a~Qt~~lielLk~~~~~-~~~~lldLL~~RV~PGVD~AA~VKA~FL~~ia~g~~~~~~Is~~~Av~LLGtM~--GGYNV 96 (154)
T PF11791_consen 20 NAEQTAELIELLKNPPAG-EEAFLLDLLTNRVPPGVDEAAYVKAEFLAAIAKGEISSPLISPAEAVELLGTML--GGYNV 96 (154)
T ss_dssp -HHHHHHHHHHHHS--TT--HHHHHHHHHHSS--TT-HHHHHHHHHHHHHHTTSS-BTTB-HHHHHHHHTTS---SSTTH
T ss_pred CHHHHHHHHHHHhCCCCc-cHHHHHHHHHhcCCCCCChHHHHHHHHHHHHHcCCccCCCcCHHHHHHHHhhcc--CCCcH
Confidence 344477899999988854 346799999999976555666555678888888876666666778999999887 67888
Q ss_pred CHHHHHH
Q 003294 366 HPDFVEV 372 (833)
Q Consensus 366 ~p~vl~~ 372 (833)
.| +|+.
T Consensus 97 ~~-LI~~ 102 (154)
T PF11791_consen 97 QP-LIDL 102 (154)
T ss_dssp HH-HHHG
T ss_pred HH-HHHH
Confidence 77 4443
No 36
>PF08167 RIX1: rRNA processing/ribosome biogenesis
Probab=52.49 E-value=1.1e+02 Score=30.99 Aligned_cols=123 Identities=15% Similarity=0.115 Sum_probs=62.4
Q ss_pred ChhhHHHHHHHHHHHhcCCCCCCCCCCCCCCccchhhHHHHHHHHHHHHhhc--cccccCChHHHHHHHHHhhhccCCCC
Q 003294 509 DLDYIGDLMNYLKRLAGGGSSNDGPSQKNSNHLTVTERLRCCIVAFRVMRNN--LDALNVDLQDFFVQLYNLILEYRPGR 586 (833)
Q Consensus 509 N~df~~DLl~vL~~Li~~~~~~~~~~~~~~~~ls~~~~L~ci~taf~LL~~~--g~alnvD~~rFY~~LY~~L~~~~~~~ 586 (833)
+-.-++.++.-+..++.+.. ...+. +.++....+-.+ .+.+--....|++.|+..|-...+..
T Consensus 19 ~~~~l~~l~~ri~~LL~s~~--------------~~~rw-~G~~Ll~~~~~~~~~e~l~~~~~~W~~~Ll~~L~~~~~~~ 83 (165)
T PF08167_consen 19 SKSALHKLVTRINSLLQSKS--------------AYSRW-AGLCLLKVTVEQCSWEILLSHGSQWLRALLSILEKPDPPS 83 (165)
T ss_pred CHHHHHHHHHHHHHHhCCCC--------------hhhHH-HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHcCCCCHH
Confidence 44567778888888886511 11111 222222222111 12222225677788888876532221
Q ss_pred ChHHHHHHHHHHHhhcccCC-cH--HHHHHHHHHHHHHHhcCCh--HHHHHHHHHHHHHHhhcccc
Q 003294 587 DQGEVLAEALKIMLCDDRQH-DM--QKAAAFVKRLATFSLSIGS--AESMAALVTLKNLLQKNIKC 647 (833)
Q Consensus 587 ~~~~~ll~~L~~~L~~~~~~-~~--~RVAAFiKRLl~~sL~~p~--~~ala~L~lI~~Ll~~~P~l 647 (833)
. ......+|..+|-..++. +. +-+.-.+..+.+.++.... .....+|..+..+|+.||.+
T Consensus 84 ~-~~~ai~~L~~l~~~~~~~p~l~Rei~tp~l~~~i~~ll~l~~~~~~~~~~l~~L~~ll~~~ptt 148 (165)
T PF08167_consen 84 V-LEAAIITLTRLFDLIRGKPTLTREIATPNLPKFIQSLLQLLQDSSCPETALDALATLLPHHPTT 148 (165)
T ss_pred H-HHHHHHHHHHHHHHhcCCCchHHHHhhccHHHHHHHHHHHHhccccHHHHHHHHHHHHHHCCcc
Confidence 1 123345555554322222 21 2233444555555544433 55677899999999999964
No 37
>PF12765 Cohesin_HEAT: HEAT repeat associated with sister chromatid cohesion
Probab=47.80 E-value=30 Score=27.25 Aligned_cols=42 Identities=12% Similarity=0.279 Sum_probs=34.8
Q ss_pred HHHHHHhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHH
Q 003294 291 RCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATI 332 (833)
Q Consensus 291 kclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL 332 (833)
||+..++..-|..=....++..+...|.|++..|+..|.+.|
T Consensus 1 k~l~~iv~~dp~ll~~~~v~~~i~~rl~D~s~~VR~aav~ll 42 (42)
T PF12765_consen 1 KALSSIVEKDPTLLDSSDVQSAIIRRLSDSSPSVREAAVDLL 42 (42)
T ss_pred ChHHHHHhcCccccchHHHHHHHHHHhcCCChHHHHHHHHHC
Confidence 467777888887777779999999999999999998877653
No 38
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=46.91 E-value=1.3e+02 Score=30.42 Aligned_cols=56 Identities=13% Similarity=0.207 Sum_probs=45.9
Q ss_pred CcchHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhcc
Q 003294 282 QPVFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTN 338 (833)
Q Consensus 282 ~~~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~ 338 (833)
++..+..|+.|+..|+..-.- -.+..++..++..+.|+++.|++.+...+.++...
T Consensus 38 ~~~VR~~al~~Ls~Li~~d~i-k~k~~l~~~~l~~l~D~~~~Ir~~A~~~~~e~~~~ 93 (178)
T PF12717_consen 38 DPLVRKTALLVLSHLILEDMI-KVKGQLFSRILKLLVDENPEIRSLARSFFSELLKK 93 (178)
T ss_pred CHHHHHHHHHHHHHHHHcCce-eehhhhhHHHHHHHcCCCHHHHHHHHHHHHHHHHh
Confidence 456899999999999876432 23456767778888999999999999999999987
No 39
>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=46.47 E-value=2.5e+02 Score=37.77 Aligned_cols=132 Identities=13% Similarity=0.212 Sum_probs=83.8
Q ss_pred HHHHHHHHhhccChhhHHHHHHHHHHHHhhhcCCCCCCCCchhhhhh-------hhhHHHHHH-----HHHHHHHHHHHH
Q 003294 203 SLKEMLQIARDDNPSISKLGFLSLLAVFKDIIPGYRIRLPTEKELEM-------KVSKEVKKM-----RFYESTLLSAYK 270 (833)
Q Consensus 203 ~Lk~L~~m~~~~~~~vrkLAilSL~~VFkDIlP~YrIR~lte~E~~~-------kvsKev~~l-----r~fE~~Ll~~Y~ 270 (833)
.|+-++..+.+....+|--||-.|-.+ ..+=|.-..|+--+..-.. -|...++-| -.+++..-++|
T Consensus 817 yLk~Il~~l~e~~ialRtkAlKclS~i-ve~Dp~vL~~~dvq~~Vh~R~~DssasVREAaldLvGrfvl~~~e~~~qyY- 894 (1692)
T KOG1020|consen 817 YLKLILSVLGENAIALRTKALKCLSMI-VEADPSVLSRPDVQEAVHGRLNDSSASVREAALDLVGRFVLSIPELIFQYY- 894 (1692)
T ss_pred HHHHHHHHhcCchHHHHHHHHHHHHHH-HhcChHhhcCHHHHHHHHHhhccchhHHHHHHHHHHhhhhhccHHHHHHHH-
Confidence 566677777766667777777665554 3333444444322111111 122222211 12344333333
Q ss_pred HHHHHHHHhcCCc--chHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhccc
Q 003294 271 AYLQKLIASEKQP--VFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNE 339 (833)
Q Consensus 271 ~yLq~Le~l~~~~--~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D 339 (833)
+.+..--.|+ +.+.-+++.+|+.-.+.|-|+-...+..-++.+.+|-...|..++++++..+--..
T Consensus 895 ---~~i~erIlDtgvsVRKRvIKIlrdic~e~pdf~~i~~~cakmlrRv~DEEg~I~kLv~etf~klWF~p 962 (1692)
T KOG1020|consen 895 ---DQIIERILDTGVSVRKRVIKILRDICEETPDFSKIVDMCAKMLRRVNDEEGNIKKLVRETFLKLWFTP 962 (1692)
T ss_pred ---HHHHhhcCCCchhHHHHHHHHHHHHHHhCCChhhHHHHHHHHHHHhccchhHHHHHHHHHHHHHhccC
Confidence 3333333444 57899999999999999999999999999999999977779999999999876543
No 40
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=45.80 E-value=78 Score=31.35 Aligned_cols=46 Identities=11% Similarity=0.047 Sum_probs=34.2
Q ss_pred CCcHHHHHHHHHHHHHHhccccCCCCccHHHHHHHHHHhhhhcCCCCCH
Q 003294 319 SQDVVVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHVKVKNCQLHP 367 (833)
Q Consensus 319 ~~~~~Va~~c~~aL~~Lf~~D~~~~Ge~sleiVr~I~~~vK~k~~~v~p 367 (833)
..+..|..+|+..|...=.. ..|+..+..+..+.+.++++||.++|
T Consensus 96 ~~~~~Vk~kil~li~~W~~~---f~~~~~l~~i~~~y~~L~~~G~~FP~ 141 (142)
T cd03569 96 TKNEEVRQKILELIQAWALA---FRNKPQLKYVVDTYQILKAEGHKFPE 141 (142)
T ss_pred cCCHHHHHHHHHHHHHHHHH---hCCCcccHHHHHHHHHHHHcCCCCCC
Confidence 56788888888888765432 23445567888999999999998765
No 41
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A.
Probab=45.18 E-value=64 Score=27.82 Aligned_cols=48 Identities=15% Similarity=0.285 Sum_probs=38.2
Q ss_pred cCCcchHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHH
Q 003294 280 EKQPVFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSL 335 (833)
Q Consensus 280 ~~~~~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~L 335 (833)
..++..+..|+.+++++ . ....+..++..+.|++..|+..++.+|..+
T Consensus 11 ~~~~~vr~~a~~~L~~~-------~-~~~~~~~L~~~l~d~~~~vr~~a~~aL~~i 58 (88)
T PF13646_consen 11 DPDPQVRAEAARALGEL-------G-DPEAIPALIELLKDEDPMVRRAAARALGRI 58 (88)
T ss_dssp SSSHHHHHHHHHHHHCC-------T-HHHHHHHHHHHHTSSSHHHHHHHHHHHHCC
T ss_pred CCCHHHHHHHHHHHHHc-------C-CHhHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence 34456788889998833 1 347899999999999999999999999865
No 42
>KOG2259 consensus Uncharacterized conserved protein [Function unknown]
Probab=44.69 E-value=59 Score=39.84 Aligned_cols=86 Identities=16% Similarity=0.247 Sum_probs=67.7
Q ss_pred HHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhccccCCCCccHHHHHHHHHHhhhhcCCCC
Q 003294 286 HQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHVKVKNCQL 365 (833)
Q Consensus 286 ~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D~~~~Ge~sleiVr~I~~~vK~k~~~v 365 (833)
+..||-++|.|-.+.|-|- ..-|..+|..++|-...|+-.|+.+++.+-.+ +.+--+.++.|...+...+.+|
T Consensus 390 R~AAV~Sl~~La~ssP~FA--~~aldfLvDMfNDE~~~VRL~ai~aL~~Is~~-----l~i~eeql~~il~~L~D~s~dv 462 (823)
T KOG2259|consen 390 RRAAVASLCSLATSSPGFA--VRALDFLVDMFNDEIEVVRLKAIFALTMISVH-----LAIREEQLRQILESLEDRSVDV 462 (823)
T ss_pred HHHHHHHHHHHHcCCCCcH--HHHHHHHHHHhccHHHHHHHHHHHHHHHHHHH-----heecHHHHHHHHHHHHhcCHHH
Confidence 7889999999999999965 59999999999999999999999999888654 4566677888887776666566
Q ss_pred CHHHHHHhhcccc
Q 003294 366 HPDFVEVFMSLSF 378 (833)
Q Consensus 366 ~p~vl~~fL~Lr~ 378 (833)
+..+.+.|=..++
T Consensus 463 Re~l~elL~~~~~ 475 (823)
T KOG2259|consen 463 REALRELLKNARV 475 (823)
T ss_pred HHHHHHHHHhcCC
Confidence 6655554444443
No 43
>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=43.91 E-value=97 Score=41.31 Aligned_cols=74 Identities=14% Similarity=0.259 Sum_probs=54.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCc--chHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Q 003294 260 FYESTLLSAYKAYLQKLIASEKQP--VFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIK 333 (833)
Q Consensus 260 ~fE~~Ll~~Y~~yLq~Le~l~~~~--~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~ 333 (833)
.+-..+.+.|-.||..+......+ .++..|++|+..+...-|.-=-+......|-.+++|..-.|++.+.+.+.
T Consensus 805 a~~r~f~~sfD~yLk~Il~~l~e~~ialRtkAlKclS~ive~Dp~vL~~~dvq~~Vh~R~~DssasVREAaldLvG 880 (1692)
T KOG1020|consen 805 AHARSFSQSFDPYLKLILSVLGENAIALRTKALKCLSMIVEADPSVLSRPDVQEAVHGRLNDSSASVREAALDLVG 880 (1692)
T ss_pred HhhhHHHHhhHHHHHHHHHHhcCchHHHHHHHHHHHHHHHhcChHhhcCHHHHHHHHHhhccchhHHHHHHHHHHh
Confidence 344557888999999998876554 57899999999988887766666666677777777777666666665555
No 44
>PF12530 DUF3730: Protein of unknown function (DUF3730) ; InterPro: IPR022542 This domain is found in eukaryotes, and is typically between 220 and 262 amino acids in length.
Probab=43.60 E-value=3.7e+02 Score=28.64 Aligned_cols=114 Identities=16% Similarity=0.215 Sum_probs=71.9
Q ss_pred HHHHHHHHhCHHHhHHHHHHHHHHh-hccChhhHHHHHHHHHHHHhhhcCCCCCCCCchhhhhhhhhHHHHHHHHHHHHH
Q 003294 187 AELGMALLADPESNIKSLKEMLQIA-RDDNPSISKLGFLSLLAVFKDIIPGYRIRLPTEKELEMKVSKEVKKMRFYESTL 265 (833)
Q Consensus 187 AaL~~~IledPe~ni~~Lk~L~~m~-~~~~~~vrkLAilSL~~VFkDIlP~YrIR~lte~E~~~kvsKev~~lr~fE~~L 265 (833)
+++...+..+|++-...+..|.+++ ...+..++-+|+.++..++ +...
T Consensus 106 ~s~~~ic~~~p~~g~~ll~~ls~~L~~~~~~~~~alale~l~~Lc-------------------------------~~~v 154 (234)
T PF12530_consen 106 ASIRDICCSRPDHGVDLLPLLSGCLNQSCDEVAQALALEALAPLC-------------------------------EAEV 154 (234)
T ss_pred HHHHHHHHhChhhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHH-------------------------------HHhh
Confidence 4777778889999888999999999 7888899999999999987 3334
Q ss_pred HHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhhcCCCC--------chHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Q 003294 266 LSAYKAYLQKLIASEKQPVFHQVVVRCICNLLDAVPHF--------NCCEILLEVVVRNLGSQDVVVRKLCCATIK 333 (833)
Q Consensus 266 l~~Y~~yLq~Le~l~~~~~l~~~Avkclc~LL~~~PhF--------Nf~~nLL~~lV~kLg~~~~~Va~~c~~aL~ 333 (833)
+..|..+--...++..+ .+..-++.+|+|+.-.|+- .+-.+++..+=+...+.+..++..+.++..
T Consensus 155 vd~~s~w~vl~~~l~~~--~rp~v~~~l~~l~~l~~~~~~~~e~~~~~~~~~l~~lW~~~~~~~~~~~~~~~~~~~ 228 (234)
T PF12530_consen 155 VDFYSAWKVLQKKLSLD--YRPLVLKSLCSLFALVPQGAVDSEEYEELKRQILQLLWEYTSSSDVNVASQWTSVRL 228 (234)
T ss_pred ccHHHHHHHHHHhcCCc--cchHHHHHHHHHHHHhccccCChhhhhHHHHHHHHHHHhhccccccchHHHHHHHHH
Confidence 44444443222333222 2333445566665443322 233467777777777766655554444433
No 45
>PF05804 KAP: Kinesin-associated protein (KAP)
Probab=39.94 E-value=1.3e+02 Score=37.62 Aligned_cols=75 Identities=19% Similarity=0.235 Sum_probs=43.0
Q ss_pred HHHHHHHHHhCCCcHHHHHHHHHHHHHHhccccCCCCccHHHHHHHHHHhhhhcCCCCCHHHHHHhhcccccccc
Q 003294 308 ILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHVKVKNCQLHPDFVEVFMSLSFDEDL 382 (833)
Q Consensus 308 nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D~~~~Ge~sleiVr~I~~~vK~k~~~v~p~vl~~fL~Lr~~e~l 382 (833)
+++.++|..|...+..+--.|...|..|=-...+...++...+|..|.+++...+-.+-..++..+++|.|+..+
T Consensus 290 ~iV~~Lv~~Ldr~n~ellil~v~fLkkLSi~~ENK~~m~~~giV~kL~kLl~s~~~~l~~~aLrlL~NLSfd~~~ 364 (708)
T PF05804_consen 290 GIVSLLVKCLDRENEELLILAVTFLKKLSIFKENKDEMAESGIVEKLLKLLPSENEDLVNVALRLLFNLSFDPEL 364 (708)
T ss_pred CCHHHHHHHHcCCCHHHHHHHHHHHHHHcCCHHHHHHHHHcCCHHHHHHHhcCCCHHHHHHHHHHHHHhCcCHHH
Confidence 677777877776666655555555554432111112223334666677777665545555566777777776544
No 46
>PF08167 RIX1: rRNA processing/ribosome biogenesis
Probab=39.85 E-value=2.7e+02 Score=28.00 Aligned_cols=76 Identities=14% Similarity=0.278 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHHHHHHhcCC--c-chHHHHHHHH---HHHhhcCCCCchHH-------HHHHHHHHHhCCCcHHHHHHHH
Q 003294 263 STLLSAYKAYLQKLIASEKQ--P-VFHQVVVRCI---CNLLDAVPHFNCCE-------ILLEVVVRNLGSQDVVVRKLCC 329 (833)
Q Consensus 263 ~~Ll~~Y~~yLq~Le~l~~~--~-~l~~~Avkcl---c~LL~~~PhFNf~~-------nLL~~lV~kLg~~~~~Va~~c~ 329 (833)
+.|.+.|..+++.|...-.+ + .....|+.++ +.++...|++- |+ .+++.+++.+.+ ..+...|+
T Consensus 59 e~l~~~~~~W~~~Ll~~L~~~~~~~~~~~ai~~L~~l~~~~~~~p~l~-Rei~tp~l~~~i~~ll~l~~~--~~~~~~~l 135 (165)
T PF08167_consen 59 EILLSHGSQWLRALLSILEKPDPPSVLEAAIITLTRLFDLIRGKPTLT-REIATPNLPKFIQSLLQLLQD--SSCPETAL 135 (165)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhcCCCchH-HHHhhccHHHHHHHHHHHHhc--cccHHHHH
Confidence 34667777777777665332 2 3445555555 45556777763 22 234444554443 34455777
Q ss_pred HHHHHHhccccC
Q 003294 330 ATIKSLFTNEGK 341 (833)
Q Consensus 330 ~aL~~Lf~~D~~ 341 (833)
++|..++..+++
T Consensus 136 ~~L~~ll~~~pt 147 (165)
T PF08167_consen 136 DALATLLPHHPT 147 (165)
T ss_pred HHHHHHHHHCCc
Confidence 788888777653
No 47
>PF12719 Cnd3: Nuclear condensing complex subunits, C-term domain
Probab=39.73 E-value=1.1e+02 Score=33.52 Aligned_cols=58 Identities=12% Similarity=0.157 Sum_probs=46.1
Q ss_pred CcchHHHHHHHHHHHhhcCCC-----------CchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhccc
Q 003294 282 QPVFHQVVVRCICNLLDAVPH-----------FNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNE 339 (833)
Q Consensus 282 ~~~l~~~Avkclc~LL~~~Ph-----------FNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D 339 (833)
++.++.+|+++++++|..+.. -+....++.++...+.+.++.++..+++.+..||-.+
T Consensus 77 ~~~v~~~al~~l~Dll~~~g~~~~~~~~~~~~~~~~~~l~~~l~~~l~~~~~~~~~~a~EGl~KLlL~~ 145 (298)
T PF12719_consen 77 DEEVKITALKALFDLLLTHGIDIFDSESDNDESVDSKSLLKILTKFLDSENPELQAIAVEGLCKLLLSG 145 (298)
T ss_pred CHHHHHHHHHHHHHHHHHcCchhccchhccCccchHhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhcC
Confidence 667899999999999987642 1234578888888888888888888888888888664
No 48
>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=38.69 E-value=17 Score=40.23 Aligned_cols=111 Identities=15% Similarity=0.180 Sum_probs=63.0
Q ss_pred HHHHHHHHHHHhcCCcchHHHHHHHHHHHhhcCCCCchH--HHHHHHHHHHhCC----CcHHHHHHHHHHHHHHhccccC
Q 003294 268 AYKAYLQKLIASEKQPVFHQVVVRCICNLLDAVPHFNCC--EILLEVVVRNLGS----QDVVVRKLCCATIKSLFTNEGK 341 (833)
Q Consensus 268 ~Y~~yLq~Le~l~~~~~l~~~Avkclc~LL~~~PhFNf~--~nLL~~lV~kLg~----~~~~Va~~c~~aL~~Lf~~D~~ 341 (833)
.|..|++.+.+ .|......|.+++..|+...+..... ..++..+++.+.+ .+..+...|+.++..|++.+.-
T Consensus 106 ~~~~fl~ll~~--~D~~i~~~a~~iLt~Ll~~~~~~~~~~~~~~l~~ll~~L~~~l~~~~~~~~~~av~~L~~LL~~~~~ 183 (312)
T PF03224_consen 106 PYSPFLKLLDR--NDSFIQLKAAFILTSLLSQGPKRSEKLVKEALPKLLQWLSSQLSSSDSELQYIAVQCLQNLLRSKEY 183 (312)
T ss_dssp -HHHHHHH-S---SSHHHHHHHHHHHHHHHTSTTT--HHHHHHHHHHHHHHHH-TT-HHHH---HHHHHHHHHHHTSHHH
T ss_pred hHHHHHHHhcC--CCHHHHHHHHHHHHHHHHcCCccccchHHHHHHHHHHHHHHhhcCCCcchHHHHHHHHHHHhCcchh
Confidence 78888885443 37778899999999999999888774 2455666655544 4455568899999999987631
Q ss_pred CCCccHHHHHHHHHHhhh-------hcCCCCCHHHHHHhhcccccc
Q 003294 342 HGGVATVEAVRLIANHVK-------VKNCQLHPDFVEVFMSLSFDE 380 (833)
Q Consensus 342 ~~Ge~sleiVr~I~~~vK-------~k~~~v~p~vl~~fL~Lr~~e 380 (833)
..-...-..|..+.+.++ .-+.++.-.++-|+.-|.|..
T Consensus 184 R~~f~~~~~v~~l~~iL~~~~~~~~~~~~Ql~Y~~ll~lWlLSF~~ 229 (312)
T PF03224_consen 184 RQVFWKSNGVSPLFDILRKQATNSNSSGIQLQYQALLCLWLLSFEP 229 (312)
T ss_dssp HHHHHTHHHHHHHHHHHH---------HHHHHHHHHHHHHHHTTSH
T ss_pred HHHHHhcCcHHHHHHHHHhhcccCCCCchhHHHHHHHHHHHHhcCH
Confidence 111111224444444441 111222233456777777764
No 49
>KOG3771 consensus Amphiphysin [Intracellular trafficking, secretion, and vesicular transport]
Probab=38.59 E-value=3.7e+02 Score=31.87 Aligned_cols=35 Identities=14% Similarity=0.350 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHhhccccccCChHHHHHHHHHhhh
Q 003294 546 RLRCCIVAFRVMRNNLDALNVDLQDFFVQLYNLIL 580 (833)
Q Consensus 546 ~L~ci~taf~LL~~~g~alnvD~~rFY~~LY~~L~ 580 (833)
++-|.+..|+-|+.-..++.-+.+.||..||.++.
T Consensus 191 Rv~f~vp~Fqsl~~~q~vf~~Emskl~~~L~~v~~ 225 (460)
T KOG3771|consen 191 RVGFFVPTFQSLFNLQLVFHKEMSKLYKNLYDVLD 225 (460)
T ss_pred hhhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34466667776665444444456666777777654
No 50
>KOG1967 consensus DNA repair/transcription protein Mms19 [Replication, recombination and repair; Transcription]
Probab=38.05 E-value=56 Score=41.30 Aligned_cols=65 Identities=17% Similarity=0.316 Sum_probs=52.0
Q ss_pred HHHHHHHHHhcCCc-----chHHHHHHHHHHHhhcCCCC---chHHHHHHHHHHHhCCCcHHHHHHHHHHHHH
Q 003294 270 KAYLQKLIASEKQP-----VFHQVVVRCICNLLDAVPHF---NCCEILLEVVVRNLGSQDVVVRKLCCATIKS 334 (833)
Q Consensus 270 ~~yLq~Le~l~~~~-----~l~~~Avkclc~LL~~~PhF---Nf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~ 334 (833)
-.++-.+-.+++++ ..+..|++||-.|....||= -|+...++.+++-|+|+-+.||..|.++=..
T Consensus 949 ~Tlvp~lLsls~~~~n~~~~VR~~ALqcL~aL~~~~P~~~l~~fr~~Vl~al~k~LdDkKRlVR~eAv~tR~~ 1021 (1030)
T KOG1967|consen 949 STLVPYLLSLSSDNDNNMMVVREDALQCLNALTRRLPTKSLLSFRPLVLRALIKILDDKKRLVRKEAVDTRQN 1021 (1030)
T ss_pred hHHHHHHHhcCCCCCcchhHHHHHHHHHHHHHhccCCCcccccccHHHHHHhhhccCcHHHHHHHHHHHHhhh
Confidence 34555555566554 35899999999999988884 4899999999999999999999998877543
No 51
>PF12830 Nipped-B_C: Sister chromatid cohesion C-terminus
Probab=33.66 E-value=1.2e+02 Score=31.10 Aligned_cols=66 Identities=12% Similarity=0.210 Sum_probs=52.9
Q ss_pred HHHHHHHHHh--cCCcchHHHHHHHHHHHhh---cCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhcccc
Q 003294 270 KAYLQKLIAS--EKQPVFHQVVVRCICNLLD---AVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEG 340 (833)
Q Consensus 270 ~~yLq~Le~l--~~~~~l~~~Avkclc~LL~---~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D~ 340 (833)
|.|+..+-.+ ..+...+..|++++--.+. .+|- .-+..+|-..+|++..|+..+...+..++..++
T Consensus 7 Qryl~~Il~~~~~~~~~vr~~Al~~l~~il~qGLvnP~-----~cvp~lIAL~ts~~~~ir~~A~~~l~~l~eK~~ 77 (187)
T PF12830_consen 7 QRYLKNILELCLSSDDSVRLAALQVLELILRQGLVNPK-----QCVPTLIALETSPNPSIRSRAYQLLKELHEKHE 77 (187)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhcCCCChH-----HHHhHhhhhhCCCChHHHHHHHHHHHHHHHHhH
Confidence 4566666554 4566789999998887775 4665 678899999999999999999999999998863
No 52
>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=32.98 E-value=2.3e+02 Score=34.50 Aligned_cols=146 Identities=23% Similarity=0.260 Sum_probs=77.5
Q ss_pred HHHhCHHHhHHHHHHHHHHhhccChhhHHHHHHHHHHHHhhhcCCCCCCCCchhhhhhhhhHHHHHHHHHHHHHHHHHHH
Q 003294 192 ALLADPESNIKSLKEMLQIARDDNPSISKLGFLSLLAVFKDIIPGYRIRLPTEKELEMKVSKEVKKMRFYESTLLSAYKA 271 (833)
Q Consensus 192 ~IledPe~ni~~Lk~L~~m~~~~~~~vrkLAilSL~~VFkDIlP~YrIR~lte~E~~~kvsKev~~lr~fE~~Ll~~Y~~ 271 (833)
-...-|...=.++..++++|++.|..||+-||-.|-.+.+|- |. -++|=
T Consensus 49 ffk~FP~l~~~Ai~a~~DLcEDed~~iR~~aik~lp~~ck~~-~~-------------~v~kv----------------- 97 (556)
T PF05918_consen 49 FFKHFPDLQEEAINAQLDLCEDEDVQIRKQAIKGLPQLCKDN-PE-------------HVSKV----------------- 97 (556)
T ss_dssp HHCC-GGGHHHHHHHHHHHHT-SSHHHHHHHHHHGGGG--T---T--------------HHHH-----------------
T ss_pred HHhhChhhHHHHHHHHHHHHhcccHHHHHHHHHhHHHHHHhH-HH-------------HHhHH-----------------
Confidence 345678888899999999999999999999998887776661 11 11211
Q ss_pred HHHHHHHh--cCCcchHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhC---CCcHHHHHHHHHHHHHHhccccCCCCcc
Q 003294 272 YLQKLIAS--EKQPVFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLG---SQDVVVRKLCCATIKSLFTNEGKHGGVA 346 (833)
Q Consensus 272 yLq~Le~l--~~~~~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg---~~~~~Va~~c~~aL~~Lf~~D~~~~Ge~ 346 (833)
...|..+ +-++.=..+.-+++.+||...|. .-|+.+...+. ..++.|+..|+.-|..-+..-+ ....
T Consensus 98 -aDvL~QlL~tdd~~E~~~v~~sL~~ll~~d~k-----~tL~~lf~~i~~~~~~de~~Re~~lkFl~~kl~~l~--~~~~ 169 (556)
T PF05918_consen 98 -ADVLVQLLQTDDPVELDAVKNSLMSLLKQDPK-----GTLTGLFSQIESSKSGDEQVRERALKFLREKLKPLK--PELL 169 (556)
T ss_dssp -HHHHHHHTT---HHHHHHHHHHHHHHHHH-HH-----HHHHHHHHHHH---HS-HHHHHHHHHHHHHHGGGS---TTTS
T ss_pred -HHHHHHHHhcccHHHHHHHHHHHHHHHhcCcH-----HHHHHHHHHHHhcccCchHHHHHHHHHHHHHHhhCc--HHHh
Confidence 1111111 11222233344566667766663 33333333333 3467788999988877666542 2334
Q ss_pred H--HHHHHHHHHhhhhcCCCCCHHHHHHhhcc
Q 003294 347 T--VEAVRLIANHVKVKNCQLHPDFVEVFMSL 376 (833)
Q Consensus 347 s--leiVr~I~~~vK~k~~~v~p~vl~~fL~L 376 (833)
+ -|+.+.|...+|+-=-.|...=.+.|+.+
T Consensus 170 ~p~~E~e~~i~~~ikkvL~DVTaeEF~l~m~l 201 (556)
T PF05918_consen 170 TPQKEMEEFIVDEIKKVLQDVTAEEFELFMSL 201 (556)
T ss_dssp ---HHHHHHHHHHHHHHCTT--HHHHHHHHHH
T ss_pred hchHHHHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence 4 45555555554432234666555555554
No 53
>PF09324 DUF1981: Domain of unknown function (DUF1981); InterPro: IPR015403 This domain is functionally uncharacterised and found in various plant and yeast protein transport proteins. It is noramlly associated with and C-termianl to the SEC7 domain. The SEC7 domain was named after the first protein found to contain such a region []. It has been shown to be linked with guanine nucleotide exchange function [, ].
Probab=32.25 E-value=1.2e+02 Score=27.53 Aligned_cols=41 Identities=17% Similarity=0.249 Sum_probs=35.3
Q ss_pred cCCCCchHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHHhccc
Q 003294 299 AVPHFNCCEILLEVVVRNL-GSQDVVVRKLCCATIKSLFTNE 339 (833)
Q Consensus 299 ~~PhFNf~~nLL~~lV~kL-g~~~~~Va~~c~~aL~~Lf~~D 339 (833)
..|||+|...+|.=...-+ ..++..|+.++.+||.+++...
T Consensus 8 El~~~~fQ~~fL~Pf~~i~~~~~~~~vre~il~ci~qil~~~ 49 (86)
T PF09324_consen 8 ELSNFNFQKDFLKPFEYIMSNNPSIDVRELILECILQILQSR 49 (86)
T ss_pred cccccHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHHh
Confidence 5789999999999888875 4468899999999999999875
No 54
>cd03568 VHS_STAM VHS domain family, STAM subfamily; members include STAM (Signal Transducing Adaptor Molecule), EAST (EGFR-associated protein with SH3 and TAM domains) and Hbp (Hrs-binding protein). Collectively, they are referred to as STAM. All STAMs have at their N-termini a VHS domain, which is involved in cytokine-mediated intracellular signal transduction and has a superhelical structure similar to the structure of ARM (Armadillo) repeats, followed by a SH3 (Src homology 3) domain, a well-established protein-protein interaction domain. At the C-termini of most vertebrate STAMS, an ITAM (Immunoreceptor Tyrosine-based Activation) motif is present, which mediates the binding of HRS (hepatocyte growth factor-regulated tyrosine kinase substrate) in endocytic and exocytic machineries.
Probab=32.17 E-value=1.4e+02 Score=29.75 Aligned_cols=83 Identities=18% Similarity=0.296 Sum_probs=55.6
Q ss_pred HHHHHHHHhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhccccC--CCCccHHHHHHHHHHhhhhcCCCCC
Q 003294 289 VVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGK--HGGVATVEAVRLIANHVKVKNCQLH 366 (833)
Q Consensus 289 Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D~~--~~Ge~sleiVr~I~~~vK~k~~~v~ 366 (833)
.+--+|+++.+.+ +-....+..|..+|+++++.|.-.++..|..+.+|=+. |...++-+.+..+.+++..+ .+
T Consensus 20 ~il~icD~I~~~~--~~~k~a~ral~KRl~~~n~~v~l~AL~LLe~~vkNCG~~fh~evask~Fl~eL~kl~~~~---~~ 94 (144)
T cd03568 20 LILDVCDKVKSDE--NGAKDCLKAIMKRLNHKDPNVQLRALTLLDACAENCGKRFHQEVASRDFTQELKKLINDR---VH 94 (144)
T ss_pred HHHHHHHHHhcCC--ccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHCCHHHHHHHhhHHHHHHHHHHhccc---CC
Confidence 4456899998874 56679999999999999999999999999999988421 01122333444555555443 55
Q ss_pred HHHHHHhhcc
Q 003294 367 PDFVEVFMSL 376 (833)
Q Consensus 367 p~vl~~fL~L 376 (833)
+.|-+-.|.+
T Consensus 95 ~~Vk~kil~l 104 (144)
T cd03568 95 PTVKEKLREV 104 (144)
T ss_pred HHHHHHHHHH
Confidence 5554444443
No 55
>PF11277 Med24_N: Mediator complex subunit 24 N-terminal; InterPro: IPR021429 This subunit of the Mediator complex appears to be conserved only from insects to humans. It is essential for correct retinal development in fish. Subunit composition of the mediator contributes to the control of differentiation in the vertebrate CNS as there are divergent functions of the mediator subunits Crsp34/Med27, Trap100/Med24, and Crsp150/Med14 [].
Probab=30.88 E-value=9.7e+02 Score=31.35 Aligned_cols=84 Identities=18% Similarity=0.223 Sum_probs=54.7
Q ss_pred hhhHHHHHHHHHHHHhhhcCCCCCCCCchhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Q 003294 216 PSISKLGFLSLLAVFKDIIPGYRIRLPTEKELEMKVSKEVKKMRFYESTLLSAYKAYLQKLIASEKQPVFHQVVVRCICN 295 (833)
Q Consensus 216 ~~vrkLAilSL~~VFkDIlP~YrIR~lte~E~~~kvsKev~~lr~fE~~Ll~~Y~~yLq~Le~l~~~~~l~~~Avkclc~ 295 (833)
.--+-..+.+|++++.+++|+-.=|.-.|+ .. +.+. +..--+||++.|..|++.+......+.-.+.-++..|.
T Consensus 87 ~f~k~~c~~~ll~~l~~~~~~~sC~gk~EE--~i-L~~A---lls~v~WLL~~~~~~l~~~~e~~~~~~~~e~~l~~~~~ 160 (990)
T PF11277_consen 87 DFSKPHCINALLELLESIIDGLSCRGKAEE--CI-LCRA---LLSLVHWLLQCYEYSLEKLRENNELSAEQEEILEKCCQ 160 (990)
T ss_pred ccchhHHHHHHHHHHHHhcCCcccCCcchH--HH-HHHH---HHHHHHHHHHHHHHHHHHHhhcCCCcchHHHHHHHHHH
Confidence 344567899999999999998776665543 33 5555 56677899999999999986554423223333444444
Q ss_pred HhhcCCCCch
Q 003294 296 LLDAVPHFNC 305 (833)
Q Consensus 296 LL~~~PhFNf 305 (833)
+|..--+-.|
T Consensus 161 ~L~~i~~s~f 170 (990)
T PF11277_consen 161 RLEKILESTF 170 (990)
T ss_pred HHHHHHcCch
Confidence 4444434344
No 56
>PF14664 RICTOR_N: Rapamycin-insensitive companion of mTOR, N-term
Probab=30.87 E-value=79 Score=36.29 Aligned_cols=87 Identities=15% Similarity=0.259 Sum_probs=63.4
Q ss_pred HHHHHHHHHHHhhc--CCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhccccCC---CCccHHHHHHHHHHhhhh
Q 003294 286 HQVVVRCICNLLDA--VPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKH---GGVATVEAVRLIANHVKV 360 (833)
Q Consensus 286 ~~~Avkclc~LL~~--~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D~~~---~Ge~sleiVr~I~~~vK~ 360 (833)
+++|++.+-.++.- .| -++...+++.+|.-..++++..+..|.++|.++.-.+|.. .| .++.+.+.+-.
T Consensus 85 R~QALkliR~~l~~~~~~-~~~~~~vvralvaiae~~~D~lr~~cletL~El~l~~P~lv~~~g-----G~~~L~~~l~d 158 (371)
T PF14664_consen 85 REQALKLIRAFLEIKKGP-KEIPRGVVRALVAIAEHEDDRLRRICLETLCELALLNPELVAECG-----GIRVLLRALID 158 (371)
T ss_pred HHHHHHHHHHHHHhcCCc-ccCCHHHHHHHHHHHhCCchHHHHHHHHHHHHHHhhCHHHHHHcC-----CHHHHHHHHHh
Confidence 67898877777654 22 2345599999999999999999999999999998887631 12 23444444444
Q ss_pred cCCCCCHHHHHHhhccccc
Q 003294 361 KNCQLHPDFVEVFMSLSFD 379 (833)
Q Consensus 361 k~~~v~p~vl~~fL~Lr~~ 379 (833)
..+.+++.++.+||++ ++
T Consensus 159 ~~~~~~~~l~~~lL~l-Ld 176 (371)
T PF14664_consen 159 GSFSISESLLDTLLYL-LD 176 (371)
T ss_pred ccHhHHHHHHHHHHHH-hC
Confidence 4456888889999998 54
No 57
>KOG2171 consensus Karyopherin (importin) beta 3 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=30.68 E-value=8.1e+02 Score=32.20 Aligned_cols=151 Identities=19% Similarity=0.271 Sum_probs=98.1
Q ss_pred HHHHHHHHHHHHhCHHHhHHHHHHHHHHhh----ccChhhHHHHHHHHHHHHhhhcCCCC----CCCC-------chhh-
Q 003294 183 KCKLAELGMALLADPESNIKSLKEMLQIAR----DDNPSISKLGFLSLLAVFKDIIPGYR----IRLP-------TEKE- 246 (833)
Q Consensus 183 KdkIAaL~~~IledPe~ni~~Lk~L~~m~~----~~~~~vrkLAilSL~~VFkDIlP~Yr----IR~l-------te~E- 246 (833)
+.=+=+|+...-..+.+=++.|..++.|+- +.+++||-.|..++..+=.|+.|..- =+.+ +..+
T Consensus 366 ~AaL~Als~i~EGc~~~m~~~l~~Il~~Vl~~l~DphprVr~AA~naigQ~stdl~p~iqk~~~e~l~~aL~~~ld~~~~ 445 (1075)
T KOG2171|consen 366 HAALLALSVIAEGCSDVMIGNLPKILPIVLNGLNDPHPRVRYAALNAIGQMSTDLQPEIQKKHHERLPPALIALLDSTQN 445 (1075)
T ss_pred HHHHHHHHHHHcccHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHhhhhhhcHHHHHHHHHhccHHHHHHhcccCc
Confidence 333445566667778888899999998874 45689999999998888778877421 1111 1110
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH-----h--cCCcchHHHHHHHHHHHhhcC--CCCchHHHHHHHHHHHh
Q 003294 247 LEMKVSKEVKKMRFYESTLLSAYKAYLQKLIA-----S--EKQPVFHQVVVRCICNLLDAV--PHFNCCEILLEVVVRNL 317 (833)
Q Consensus 247 ~~~kvsKev~~lr~fE~~Ll~~Y~~yLq~Le~-----l--~~~~~l~~~Avkclc~LL~~~--PhFNf~~nLL~~lV~kL 317 (833)
-.+....-...+-.+|...+..-..||.-|.. + +..+..++.|+..+...-.+. +---|.+.++-.+.+.|
T Consensus 446 ~rV~ahAa~al~nf~E~~~~~~l~pYLd~lm~~~l~~L~~~~~~~v~e~vvtaIasvA~AA~~~F~pY~d~~Mp~L~~~L 525 (1075)
T KOG2171|consen 446 VRVQAHAAAALVNFSEECDKSILEPYLDGLMEKKLLLLLQSSKPYVQEQAVTAIASVADAAQEKFIPYFDRLMPLLKNFL 525 (1075)
T ss_pred hHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHhhhhHhHHHHHHHHHHHHH
Confidence 11222334566788899999999999988765 1 234457788888777775433 12224568999999988
Q ss_pred CCCc----HHHHHHHHHHHH
Q 003294 318 GSQD----VVVRKLCCATIK 333 (833)
Q Consensus 318 g~~~----~~Va~~c~~aL~ 333 (833)
...+ ...+-+|.+|+.
T Consensus 526 ~n~~~~d~r~LrgktmEcis 545 (1075)
T KOG2171|consen 526 QNADDKDLRELRGKTMECLS 545 (1075)
T ss_pred hCCCchhhHHHHhhHHHHHH
Confidence 7655 234445455543
No 58
>PF00514 Arm: Armadillo/beta-catenin-like repeat; InterPro: IPR000225 The armadillo (Arm) repeat is an approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila melanogaster segment polarity gene armadillo involved in signal transduction through wingless. Animal Arm-repeat proteins function in various processes, including intracellular signalling and cytoskeletal regulation, and include such proteins as beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumour suppressor protein, and the nuclear transport factor importin-alpha, amongst others []. A subset of these proteins is conserved across eukaryotic kingdoms. In higher plants, some Arm-repeat proteins function in intracellular signalling like their mammalian counterparts, while others have novel functions []. The 3-dimensional fold of an armadillo repeat is known from the crystal structure of beta-catenin, where the 12 repeats form a superhelix of alpha helices with three helices per unit []. The cylindrical structure features a positively charged grove, which presumably interacts with the acidic surfaces of the known interaction partners of beta-catenin.; GO: 0005515 protein binding; PDB: 2Z6G_A 1IQ1_C 3RZX_A 2C1M_A 3BTR_C 3OQS_A 3TPO_A 1IAL_A 1Q1S_C 1PJM_B ....
Probab=29.75 E-value=96 Score=23.51 Aligned_cols=28 Identities=21% Similarity=0.110 Sum_probs=25.3
Q ss_pred HHHHHHHHHhCCCcHHHHHHHHHHHHHH
Q 003294 308 ILLEVVVRNLGSQDVVVRKLCCATIKSL 335 (833)
Q Consensus 308 nLL~~lV~kLg~~~~~Va~~c~~aL~~L 335 (833)
+.+..+|..|.+.+..|...|+.+|..|
T Consensus 12 g~i~~Lv~ll~~~~~~v~~~a~~al~nl 39 (41)
T PF00514_consen 12 GGIPPLVQLLKSPDPEVQEEAAWALGNL 39 (41)
T ss_dssp THHHHHHHHTTSSSHHHHHHHHHHHHHH
T ss_pred ccHHHHHHHHcCCCHHHHHHHHHHHHHH
Confidence 6788899999999999999999999876
No 59
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=29.19 E-value=1.4e+02 Score=29.67 Aligned_cols=83 Identities=17% Similarity=0.230 Sum_probs=55.0
Q ss_pred HHHHHHHHhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhccccC--CCCccHHHHHHHHHHhhhhcCCCCC
Q 003294 289 VVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGK--HGGVATVEAVRLIANHVKVKNCQLH 366 (833)
Q Consensus 289 Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D~~--~~Ge~sleiVr~I~~~vK~k~~~v~ 366 (833)
.+--+|+++.+.+. -....+..+..+|.++++.+.-.+...|..+.+|=+. |.-.++-+.+..+.+++.. ..+
T Consensus 24 ~ileicD~In~~~~--~~k~a~ral~krl~~~n~~vql~AL~LLe~~vkNCG~~fh~evas~~fl~~l~~l~~~---~~~ 98 (142)
T cd03569 24 SILEICDMIRSKDV--QPKYAMRALKKRLLSKNPNVQLYALLLLESCVKNCGTHFHDEVASREFMDELKDLIKT---TKN 98 (142)
T ss_pred HHHHHHHHHhCCCC--CHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHCCHHHHHHHhhHHHHHHHHHHHcc---cCC
Confidence 45669999988764 5679999999999999999999999999999988310 0011222333444444432 455
Q ss_pred HHHHHHhhcc
Q 003294 367 PDFVEVFMSL 376 (833)
Q Consensus 367 p~vl~~fL~L 376 (833)
+.|.+-.|.+
T Consensus 99 ~~Vk~kil~l 108 (142)
T cd03569 99 EEVRQKILEL 108 (142)
T ss_pred HHHHHHHHHH
Confidence 6555444444
No 60
>PF07540 NOC3p: Nucleolar complex-associated protein; InterPro: IPR011501 Nucleolar complex-associated protein (Noc3p, Q07896 from SWISSPROT) is conserved in eukaryotes and plays essential roles in replication and rRNA processing in Saccharomyces cerevisiae [].
Probab=28.68 E-value=90 Score=29.10 Aligned_cols=47 Identities=23% Similarity=0.318 Sum_probs=40.5
Q ss_pred HHHHHHHhhcCCCCchHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHhcc
Q 003294 290 VRCICNLLDAVPHFNCCEILLEVVVRNLGSQ-DVVVRKLCCATIKSLFTN 338 (833)
Q Consensus 290 vkclc~LL~~~PhFNf~~nLL~~lV~kLg~~-~~~Va~~c~~aL~~Lf~~ 338 (833)
+-.+|..+.+.|+-|. ..|..+.....+. +..|+.+|.-++..+|++
T Consensus 8 IA~l~~~ile~PE~ni--~~lk~l~~~~~~~~~~~v~kLa~lSl~~VFkD 55 (95)
T PF07540_consen 8 IASLASSILEDPEENI--GSLKRLLKLCESKVDVTVRKLAILSLLAVFKD 55 (95)
T ss_pred HHHHHHHHHHCHHHHH--HHHHHHHHHHhccchHHHHHHHHHHHHHHHhh
Confidence 4578888999999888 7788888888887 888999999999999985
No 61
>PRK14140 heat shock protein GrpE; Provisional
Probab=27.53 E-value=2.9e+02 Score=29.00 Aligned_cols=22 Identities=9% Similarity=0.007 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhc
Q 003294 259 RFYESTLLSAYKAYLQKLIASE 280 (833)
Q Consensus 259 r~fE~~Ll~~Y~~yLq~Le~l~ 280 (833)
..|=.++...|+.|++.|+++.
T Consensus 114 ~~i~~Gv~mi~k~l~~~L~k~G 135 (191)
T PRK14140 114 KSLLKGVEMVHRQLLEALKKEG 135 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHCC
Confidence 4566788889999999988763
No 62
>COG5098 Chromosome condensation complex Condensin, subunit D2 [Chromatin structure and dynamics / Cell division and chromosome partitioning]
Probab=26.58 E-value=3.2e+02 Score=34.13 Aligned_cols=69 Identities=16% Similarity=0.276 Sum_probs=52.1
Q ss_pred HHHHHHHHHHhCCCcHHHHHHHHHHHHHHhccccCCCCccHHHHHHHHHHhhhhcCCCCCHHHHHHhhcc
Q 003294 307 EILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHVKVKNCQLHPDFVEVFMSL 376 (833)
Q Consensus 307 ~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D~~~~Ge~sleiVr~I~~~vK~k~~~v~p~vl~~fL~L 376 (833)
+.|+.+++.++.|..+.++.++++.+..+|.-..+.+|. .-++.+++-+-+..|.--|+.+.+..|-.|
T Consensus 345 ~~Lv~ll~ERl~D~~py~RtKalqv~~kifdl~sk~~~~-r~ev~~lv~r~lqDrss~VRrnaikl~SkL 413 (1128)
T COG5098 345 NDLVGLLVERLSDTYPYTRTKALQVLEKIFDLNSKTVGR-RHEVIRLVGRRLQDRSSVVRRNAIKLCSKL 413 (1128)
T ss_pred HHHHHHHHHHhhccchHHHHHHHHHHHHHHhCcccccch-HHHHHHHHHHHhhhhhHHHHHHHHHHHHHH
Confidence 478999999999999999999999999999876656653 345667666666566666777777665443
No 63
>KOG1062 consensus Vesicle coat complex AP-1, gamma subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=26.55 E-value=1.4e+03 Score=29.09 Aligned_cols=63 Identities=11% Similarity=0.135 Sum_probs=40.4
Q ss_pred HHHHHHHH----HhCCCcHHHHHHHHHHHHHHhccccCCCCccHHHHHHHHHHhhhhcCCCCCHHHHHHhhcc
Q 003294 308 ILLEVVVR----NLGSQDVVVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHVKVKNCQLHPDFVEVFMSL 376 (833)
Q Consensus 308 nLL~~lV~----kLg~~~~~Va~~c~~aL~~Lf~~D~~~~Ge~sleiVr~I~~~vK~k~~~v~p~vl~~fL~L 376 (833)
.++.+++| -|++++..|.-++.-+|..++... +.-++.-.|.++++.++-.|+-+++-|...+
T Consensus 103 dvllLltNslknDL~s~nq~vVglAL~alg~i~s~E------mardlapeVe~Ll~~~~~~irKKA~Lca~r~ 169 (866)
T KOG1062|consen 103 DLLLLLTNSLKNDLNSSNQYVVGLALCALGNICSPE------MARDLAPEVERLLQHRDPYIRKKAALCAVRF 169 (866)
T ss_pred HHHHHHHHHHHhhccCCCeeehHHHHHHhhccCCHH------HhHHhhHHHHHHHhCCCHHHHHHHHHHHHHH
Confidence 55555555 556677777778888888887654 2233444445555556666777777777666
No 64
>cd03567 VHS_GGA VHS domain family, GGA subfamily; GGA (Golgi-localized, Gamma-ear-containing, Arf-binding) comprise a subfamily of ubiquitously expressed, monomeric, motif-binding cargo/clathrin adaptor proteins. The VHS domain has a superhelical structure similar to the structure of the ARM (Armadillo) repeats and is present at the N-termini of proteins. GGA proteins have a multidomain structure consisting of an N-terminal VHS domain linked by a short proline-rich linker to a GAT (GGA and TOM) domain, which is followed by a long flexible linker to the C-terminal appendage, GAE (gamma-adaptin ear) domain. The VHS domain of GGA proteins binds to the acidic-cluster dileucine (DxxLL) motif found on the cytoplasmic tails of cargo proteins trafficked between the trans-Golgi network and the endosomal system.
Probab=25.27 E-value=2.5e+02 Score=27.82 Aligned_cols=50 Identities=8% Similarity=0.214 Sum_probs=42.6
Q ss_pred HHHHHHHHHhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhccc
Q 003294 288 VVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNE 339 (833)
Q Consensus 288 ~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D 339 (833)
..+--+|+++.+.|. -...-+..+..+|+++++.|+-.++..|..+.+|=
T Consensus 20 ~~ileicD~In~~~~--~~k~a~rai~krl~~~n~~v~l~AL~LLe~~vkNC 69 (139)
T cd03567 20 EAIQAFCEQINKEPE--GPQLAVRLLAHKIQSPQEKEALQALTVLEACMKNC 69 (139)
T ss_pred HHHHHHHHHHHcCCc--cHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHc
Confidence 356778999988774 55689999999999999999999999999999884
No 65
>PRK14148 heat shock protein GrpE; Provisional
Probab=24.16 E-value=5.4e+02 Score=27.16 Aligned_cols=23 Identities=9% Similarity=-0.060 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Q 003294 258 MRFYESTLLSAYKAYLQKLIASE 280 (833)
Q Consensus 258 lr~fE~~Ll~~Y~~yLq~Le~l~ 280 (833)
...|-.++.-.|++|++.|++..
T Consensus 116 ~~~l~~Gv~mi~k~l~~vL~k~G 138 (195)
T PRK14148 116 AIAMKEGIELTAKMLVDILKKNG 138 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCC
Confidence 35578899999999999998863
No 66
>smart00185 ARM Armadillo/beta-catenin-like repeats. Approx. 40 amino acid repeat. Tandem repeats form superhelix of helices that is proposed to mediate interaction of beta-catenin with its ligands. Involved in transducing the Wingless/Wnt signal. In plakoglobin arm repeats bind alpha-catenin and N-cadherin.
Probab=23.86 E-value=1e+02 Score=22.56 Aligned_cols=29 Identities=28% Similarity=0.115 Sum_probs=23.1
Q ss_pred HHHHHHHHHhCCCcHHHHHHHHHHHHHHh
Q 003294 308 ILLEVVVRNLGSQDVVVRKLCCATIKSLF 336 (833)
Q Consensus 308 nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf 336 (833)
+.+..++..|++.+..+...++.+|+.|-
T Consensus 12 g~i~~L~~ll~~~~~~i~~~a~~aL~nl~ 40 (41)
T smart00185 12 GGLPALVELLKSEDEEVVKEAAWALSNLS 40 (41)
T ss_pred CCHHHHHHHHcCCCHHHHHHHHHHHHHHc
Confidence 35777888888888888888888888763
No 67
>PF10274 ParcG: Parkin co-regulated protein; InterPro: IPR019399 This family of proteins is transcribed anti-sense along the DNA to the Parkin gene product and the two appear to be transcribed under the same promoter. The protein has predicted alpha-helical and beta-sheet domains which suggest its function is in the ubiquitin/proteasome system []. Mutations in parkin are the genetic cause of early-onset and autosomal recessive juvenile parkinsonism.
Probab=23.72 E-value=5.6e+02 Score=26.82 Aligned_cols=85 Identities=20% Similarity=0.188 Sum_probs=54.8
Q ss_pred HHHHHHHHHHh--cCCcchHHHHHHHHHHHhhc-CCCCc--hHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhccccCCC
Q 003294 269 YKAYLQKLIAS--EKQPVFHQVVVRCICNLLDA-VPHFN--CCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHG 343 (833)
Q Consensus 269 Y~~yLq~Le~l--~~~~~l~~~Avkclc~LL~~-~PhFN--f~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D~~~~ 343 (833)
|..||-.+-.. +.+..++-+|.+.+.+||.. .++-= .-..|+.-+-+-|++++..|...|+.+|+.|....+ +-
T Consensus 36 y~~~Lpif~dGL~Et~~Py~flA~~g~~dll~~~~~~kilPvlPqLI~plk~AL~tr~~~V~~~~L~~Lq~Lv~~~~-~v 114 (183)
T PF10274_consen 36 YHHYLPIFFDGLRETEHPYRFLARQGIKDLLERGGGEKILPVLPQLIIPLKRALNTRDPEVFCATLKALQQLVTSSD-MV 114 (183)
T ss_pred hhhHHHHHHhhhhccCccHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHhhh-hh
Confidence 55666665443 34556888999999999998 22100 011334444567899999999999999999977653 45
Q ss_pred CccHHHHHHHHHHh
Q 003294 344 GVATVEAVRLIANH 357 (833)
Q Consensus 344 Ge~sleiVr~I~~~ 357 (833)
|++ .|--..++
T Consensus 115 G~a---LvPyyrqL 125 (183)
T PF10274_consen 115 GEA---LVPYYRQL 125 (183)
T ss_pred hHH---HHHHHHHH
Confidence 543 45444433
No 68
>KOG2259 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.38 E-value=9e+02 Score=30.29 Aligned_cols=57 Identities=14% Similarity=0.288 Sum_probs=50.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhCHHHhHHHHHHHHHHhhccChhhHHHHHHHHHHHHhh
Q 003294 176 EELFESKKCKLAELGMALLADPESNIKSLKEMLQIARDDNPSISKLGFLSLLAVFKD 232 (833)
Q Consensus 176 ~~~~~~~KdkIAaL~~~IledPe~ni~~Lk~L~~m~~~~~~~vrkLAilSL~~VFkD 232 (833)
.|-.+=.+.-++++|++.++.|-...++|+-|++|.++....||-.|+-+|..+-.-
T Consensus 384 DEf~EVR~AAV~Sl~~La~ssP~FA~~aldfLvDMfNDE~~~VRL~ai~aL~~Is~~ 440 (823)
T KOG2259|consen 384 DEFYEVRRAAVASLCSLATSSPGFAVRALDFLVDMFNDEIEVVRLKAIFALTMISVH 440 (823)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHH
Confidence 355677888999999999999999999999999999999999999999999887443
No 69
>COG5218 YCG1 Chromosome condensation complex Condensin, subunit G [Chromatin structure and dynamics / Cell division and chromosome partitioning]
Probab=22.97 E-value=6e+02 Score=31.34 Aligned_cols=77 Identities=14% Similarity=0.143 Sum_probs=58.4
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCcchHHHHHHHH----HHHhhcCCC-CchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHH
Q 003294 261 YESTLLSAYKAYLQKLIASEKQPVFHQVVVRCI----CNLLDAVPH-FNCCEILLEVVVRNLGSQDVVVRKLCCATIKSL 335 (833)
Q Consensus 261 fE~~Ll~~Y~~yLq~Le~l~~~~~l~~~Avkcl----c~LL~~~Ph-FNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~L 335 (833)
+++++-.++-.-+..+..+.+.+++..-.++.+ -.++..-|+ -.+-.-++.-+++++.+++.+|+..||..|.-+
T Consensus 39 t~~~f~~~flr~vn~IL~~Kk~~si~dRil~fl~~f~~Y~~~~dpeg~~~V~~~~~h~lRg~eskdk~VR~r~lqila~~ 118 (885)
T COG5218 39 TAHEFSEEFLRVVNTILACKKNPSIPDRILSFLKRFFEYDMPDDPEGEELVAGTFYHLLRGTESKDKKVRKRSLQILALL 118 (885)
T ss_pred HHHhhHHHHHHHHHHhhccccCCCcHHHHHHHHHHHHHhcCCCChhhhHHHHHHHHHHHhcccCcchhHHHHHHHHHHHH
Confidence 666666666667777777888887655444433 336778888 677778888999999999999999999988766
Q ss_pred hc
Q 003294 336 FT 337 (833)
Q Consensus 336 f~ 337 (833)
..
T Consensus 119 ~d 120 (885)
T COG5218 119 SD 120 (885)
T ss_pred HH
Confidence 53
No 70
>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=22.95 E-value=1.4e+02 Score=21.36 Aligned_cols=28 Identities=25% Similarity=0.329 Sum_probs=22.8
Q ss_pred HHHHHHHhhccChhhHHHHHHHHHHHHh
Q 003294 204 LKEMLQIARDDNPSISKLGFLSLLAVFK 231 (833)
Q Consensus 204 Lk~L~~m~~~~~~~vrkLAilSL~~VFk 231 (833)
|..|++++.+.+..||..|..+|..+.+
T Consensus 2 lp~l~~~l~D~~~~VR~~a~~~l~~i~~ 29 (31)
T PF02985_consen 2 LPILLQLLNDPSPEVRQAAAECLGAIAE 29 (31)
T ss_dssp HHHHHHHHT-SSHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHcCCCCHHHHHHHHHHHHHHHh
Confidence 4568889999999999999999888754
No 71
>PLN00094 aconitate hydratase 2; Provisional
Probab=22.93 E-value=6e+02 Score=32.74 Aligned_cols=79 Identities=11% Similarity=0.114 Sum_probs=58.4
Q ss_pred HHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhccccCCCCccHHHHHHHHHHhhhhcCCCC
Q 003294 286 HQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHVKVKNCQL 365 (833)
Q Consensus 286 ~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~D~~~~Ge~sleiVr~I~~~vK~k~~~v 365 (833)
...-+..+|+||.+-|+- ....|+.+++++..---+..+..=..-|..+.+.+...+.-....+|+++.-|+ -+|||
T Consensus 92 ~~~q~~~~~~ll~~~~~~-~~~~~~~l~~~rv~pgvd~aa~vka~fl~~i~~g~~~~~~i~~~~a~~llg~m~--ggynv 168 (938)
T PLN00094 92 DAKQVSELIAQLEAPKSE-DADRLVDLLVNRVPPGVDEAAYVKASWLAAVAKGETRSPLISRARAVEILGTMQ--GGYNI 168 (938)
T ss_pred CHHHHHHHHHHhcCCCCc-cHHHHHHHHhhCCCCCCChHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHhhcc--CCCcH
Confidence 344467899999988875 467799999999876555555555567788887776556556677899988886 57887
Q ss_pred CH
Q 003294 366 HP 367 (833)
Q Consensus 366 ~p 367 (833)
.|
T Consensus 169 ~~ 170 (938)
T PLN00094 169 SP 170 (938)
T ss_pred HH
Confidence 76
No 72
>KOG0212 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.92 E-value=8.4e+02 Score=29.95 Aligned_cols=69 Identities=16% Similarity=0.185 Sum_probs=48.1
Q ss_pred HHHHHHHH-HhcCCcchHHHHHHHHHHHhhcCCCCc---hHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhcc
Q 003294 270 KAYLQKLI-ASEKQPVFHQVVVRCICNLLDAVPHFN---CCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTN 338 (833)
Q Consensus 270 ~~yLq~Le-~l~~~~~l~~~Avkclc~LL~~~PhFN---f~~nLL~~lV~kLg~~~~~Va~~c~~aL~~Lf~~ 338 (833)
..|+..|. ++.....+..+.+-.=...|.+.|.++ |-..++-.+.+.|||+.+.|+..|-.++.++++.
T Consensus 166 ~~~ipLL~eriy~~n~~tR~flv~Wl~~Lds~P~~~m~~yl~~~ldGLf~~LsD~s~eVr~~~~t~l~~fL~e 238 (675)
T KOG0212|consen 166 PEFIPLLRERIYVINPMTRQFLVSWLYVLDSVPDLEMISYLPSLLDGLFNMLSDSSDEVRTLTDTLLSEFLAE 238 (675)
T ss_pred HHHHHHHHHHHhcCCchHHHHHHHHHHHHhcCCcHHHHhcchHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHH
Confidence 35666663 333223344444444456677788764 5678899999999999999999998888887765
No 73
>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=22.63 E-value=1.1e+03 Score=26.26 Aligned_cols=69 Identities=14% Similarity=0.161 Sum_probs=51.9
Q ss_pred HHHHHHHHHHhhcCCCCchH---HHHHHHHHHHhCCC--cHHHHHHHHHHHHHHhccccCCCCccHHHHHHHHHHhh
Q 003294 287 QVVVRCICNLLDAVPHFNCC---EILLEVVVRNLGSQ--DVVVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHV 358 (833)
Q Consensus 287 ~~Avkclc~LL~~~PhFNf~---~nLL~~lV~kLg~~--~~~Va~~c~~aL~~Lf~~D~~~~Ge~sleiVr~I~~~v 358 (833)
...+++++.++..+++..-. .-+-+.+|..+.++ ...||..|+.+++.++..++ +.++-.++..+.+.+
T Consensus 180 ~w~~~al~~~~~~~~~~~~~~~~~~~~~a~i~ll~s~~~~~~vR~~A~~~l~~l~~~~~---~~l~~~li~~l~~~l 253 (339)
T PF12074_consen 180 CWLLRALEALLSDHPSELSSDKSSAWAQAFIYLLCSSNVSWKVRRAALSALKKLYASNP---ELLSKSLISGLWKWL 253 (339)
T ss_pred HHHHHHHHHHHhcchhhhhhhHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHhCh---HHHHHHHHHHHHHHH
Confidence 34678888888888764433 44788899999888 89999999999999999863 445555666665554
No 74
>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=22.32 E-value=3.2e+02 Score=30.22 Aligned_cols=115 Identities=17% Similarity=0.098 Sum_probs=57.4
Q ss_pred HHHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhhcCCCCch--HH-------HHHHHHHHHhCCCcHHHHHHHHHHH
Q 003294 262 ESTLLSAYKAYLQKLIASEKQPVFHQVVVRCICNLLDAVPHFNC--CE-------ILLEVVVRNLGSQDVVVRKLCCATI 332 (833)
Q Consensus 262 E~~Ll~~Y~~yLq~Le~l~~~~~l~~~Avkclc~LL~~~PhFNf--~~-------nLL~~lV~kLg~~~~~Va~~c~~aL 332 (833)
+.....+=.-|+..|.....++...+..+..+.+||...|.+-- .. .....+++.++.+|..|...++..+
T Consensus 50 ~~~~~~~~~~~l~lL~~~~~~~d~v~yvL~li~dll~~~~~~~~~~~~~~~~~~~~~~~~fl~ll~~~D~~i~~~a~~iL 129 (312)
T PF03224_consen 50 EEDGDQYASLFLNLLNKLSSNDDTVQYVLTLIDDLLSDDPSRVELFLELAKQDDSDPYSPFLKLLDRNDSFIQLKAAFIL 129 (312)
T ss_dssp ------------HHHHHH---HHHHHHHHHHHHHHHH-SSSSHHHHHHHHH-TTH--HHHHHHH-S-SSHHHHHHHHHHH
T ss_pred HhchhhHHHHHHHHHHHccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHhcccccchhHHHHHHHhcCCCHHHHHHHHHHH
Confidence 44444444466666666644455667788899999999996431 00 1445566777888999999999999
Q ss_pred HHHhccccCCCCccHHHHHHHHHHhhhh----cCCCCCHHHHHHhhcc
Q 003294 333 KSLFTNEGKHGGVATVEAVRLIANHVKV----KNCQLHPDFVEVFMSL 376 (833)
Q Consensus 333 ~~Lf~~D~~~~Ge~sleiVr~I~~~vK~----k~~~v~p~vl~~fL~L 376 (833)
..++...+...-...-+++..+.++++. .+.++..-++.+|-.|
T Consensus 130 t~Ll~~~~~~~~~~~~~~l~~ll~~L~~~l~~~~~~~~~~av~~L~~L 177 (312)
T PF03224_consen 130 TSLLSQGPKRSEKLVKEALPKLLQWLSSQLSSSDSELQYIAVQCLQNL 177 (312)
T ss_dssp HHHHTSTTT--HHHHHHHHHHHHHHHH-TT-HHHH---HHHHHHHHHH
T ss_pred HHHHHcCCccccchHHHHHHHHHHHHHHhhcCCCcchHHHHHHHHHHH
Confidence 9999887421110011455555555543 2333333344554444
No 75
>PF04118 Dopey_N: Dopey, N-terminal; InterPro: IPR007249 DopA is the founding member of the Dopey family and is required for correct cell morphology and spatiotemporal organisation of multicellular structures in the filamentous fungus Emericella nidulans (Aspergillus nidulans). DopA homologues are found in mammals. Saccharomyces cerevisiae DOP1 is essential for viability and, affects cellular morphogenesis [].
Probab=21.20 E-value=3.7e+02 Score=30.23 Aligned_cols=68 Identities=15% Similarity=0.217 Sum_probs=42.5
Q ss_pred hHHHHhhhhhccccCChhhHHHHHHHHHHHhcCCCCCCCCCCCCCCccchhhHHHHHHHHH--HHHhhccccccCChHHH
Q 003294 494 LAPCLKGLGKFSHLIDLDYIGDLMNYLKRLAGGGSSNDGPSQKNSNHLTVTERLRCCIVAF--RVMRNNLDALNVDLQDF 571 (833)
Q Consensus 494 L~~vLeGL~KfaHlIN~df~~DLl~vL~~Li~~~~~~~~~~~~~~~~ls~~~~L~ci~taf--~LL~~~g~alnvD~~rF 571 (833)
+.-.+-||.-|.+..++..-..+++.+.+.+- ++...|..++-+| .+|-|- .=+-+.+
T Consensus 95 l~i~~~GLfpl~~~asi~Vkp~lL~i~e~~~l----------------pL~~~L~p~l~~li~slLpGL----ede~sE~ 154 (307)
T PF04118_consen 95 LPIYSPGLFPLFSYASIQVKPQLLDIYEKYYL----------------PLGPALRPCLKGLILSLLPGL----EDEGSEF 154 (307)
T ss_pred cHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhc----------------CccHHHHHHHHHHHHHhcccc----ccCCchH
Confidence 44557888888888787777888888888662 3333555555444 334442 2235677
Q ss_pred HHHHHHhhhc
Q 003294 572 FVQLYNLILE 581 (833)
Q Consensus 572 Y~~LY~~L~~ 581 (833)
|...+.+|..
T Consensus 155 ~~~~~~ll~~ 164 (307)
T PF04118_consen 155 FDRTLKLLDK 164 (307)
T ss_pred HHHHHHHHHH
Confidence 7777766644
No 76
>KOG2025 consensus Chromosome condensation complex Condensin, subunit G [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=21.00 E-value=6e+02 Score=31.96 Aligned_cols=78 Identities=9% Similarity=0.116 Sum_probs=54.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhhcC----CCCchHHHHHHHHHHHhCCCcHHHHHHHHHHHHHH
Q 003294 260 FYESTLLSAYKAYLQKLIASEKQPVFHQVVVRCICNLLDAV----PHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSL 335 (833)
Q Consensus 260 ~fE~~Ll~~Y~~yLq~Le~l~~~~~l~~~Avkclc~LL~~~----PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~aL~~L 335 (833)
.+++.+-.++-+||..+.-..+.++...-.++.+.....+. |+=.+-+-++..+.+.+-+++..|+..||..|..|
T Consensus 33 ~t~~~F~eeflr~vn~il~vkKresi~dRIl~fla~fv~sl~q~d~e~DlV~~~f~hlLRg~Eskdk~VRfrvlqila~l 112 (892)
T KOG2025|consen 33 LTAHEFSEEFLRVVNYILLVKKRESIPDRILSFLARFVESLPQLDKEEDLVAGTFYHLLRGTESKDKKVRFRVLQILALL 112 (892)
T ss_pred hhHhhhHHHHHHHHHHheeeccCCCcHHHHHHHHHHHHHhhhccCchhhHHHHHHHHHHhcccCcchhHHHHHHHHHHHH
Confidence 34555666666777766666666666555555555555544 44445556677778888899999999999999888
Q ss_pred hc
Q 003294 336 FT 337 (833)
Q Consensus 336 f~ 337 (833)
.-
T Consensus 113 ~d 114 (892)
T KOG2025|consen 113 SD 114 (892)
T ss_pred hc
Confidence 75
No 77
>KOG1077 consensus Vesicle coat complex AP-2, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.86 E-value=4.8e+02 Score=32.73 Aligned_cols=170 Identities=18% Similarity=0.176 Sum_probs=0.0
Q ss_pred ChhhHHHHHHHHHH-HhcCCCCCCCCCCCCCCccchhhHHHHHHHHHHHHhhccccccCChHHHHHHHHHhhhccCCCCC
Q 003294 509 DLDYIGDLMNYLKR-LAGGGSSNDGPSQKNSNHLTVTERLRCCIVAFRVMRNNLDALNVDLQDFFVQLYNLILEYRPGRD 587 (833)
Q Consensus 509 N~df~~DLl~vL~~-Li~~~~~~~~~~~~~~~~ls~~~~L~ci~taf~LL~~~g~alnvD~~rFY~~LY~~L~~~~~~~~ 587 (833)
|-|++.-.++.+++ |... +..-+.-+|||+. ||-..++-.++|.-+..+--..+
T Consensus 105 n~dl~klvin~iknDL~sr------------n~~fv~LAL~~I~-------------niG~re~~ea~~~DI~KlLvS~~ 159 (938)
T KOG1077|consen 105 NSDLMKLVINSIKNDLSSR------------NPTFVCLALHCIA-------------NIGSREMAEAFADDIPKLLVSGS 159 (938)
T ss_pred chHHHHHHHHHHHhhhhcC------------CcHHHHHHHHHHH-------------hhccHhHHHHhhhhhHHHHhCCc
Q ss_pred hHHHH----HHHHHHHhhcccCCcHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhcccc----------------
Q 003294 588 QGEVL----AEALKIMLCDDRQHDMQKAAAFVKRLATFSLSIGSAESMAALVTLKNLLQKNIKC---------------- 647 (833)
Q Consensus 588 ~~~~l----l~~L~~~L~~~~~~~~~RVAAFiKRLl~~sL~~p~~~ala~L~lI~~Ll~~~P~l---------------- 647 (833)
...++ .-||-.+| ++..+..+..-.+-|++.+-=-..-+.+.++..+|-.|.+++|.-
T Consensus 160 ~~~~vkqkaALclL~L~--r~spDl~~~~~W~~riv~LL~D~~~gv~ta~~sLi~~lvk~~p~~yk~~~~~avs~L~riv 237 (938)
T KOG1077|consen 160 SMDYVKQKAALCLLRLF--RKSPDLVNPGEWAQRIVHLLDDQHMGVVTAATSLIEALVKKNPESYKTCLPLAVSRLSRIV 237 (938)
T ss_pred chHHHHHHHHHHHHHHH--hcCccccChhhHHHHHHHHhCccccceeeehHHHHHHHHHcCCHHHhhhHHHHHHHHHHHH
Q ss_pred -------------------------cccccccc-CCCCccc----------CCCCCCCCCCCCCCCCCCchhHHHHHHHh
Q 003294 648 -------------------------RNLLENDA-GGGSVSG----------SISIYQPYAMDPNLSGALASVLWEINLLS 691 (833)
Q Consensus 648 -------------------------~~LLe~e~-~~~~v~g----------~~~~Ydp~~~DPe~~nA~~S~LWEL~lL~ 691 (833)
+.|.-.+. .|.++-+ ....=-|...+|.++||.++.|+|...|.
T Consensus 238 ~~~~t~~qdYTyy~vP~PWL~vKl~rlLq~~p~~~D~~~r~~l~evl~~iLnk~~~~~~~k~vq~~na~naVLFeaI~l~ 317 (938)
T KOG1077|consen 238 VVVGTSLQDYTYYFVPAPWLQVKLLRLLQIYPTPEDPSTRARLNEVLERILNKAQEPPKSKKVQHSNAKNAVLFEAISLA 317 (938)
T ss_pred hhcccchhhceeecCCChHHHHHHHHHHHhCCCCCCchHHHHHHHHHHHHHhccccCccccchHhhhhHHHHHHHHHHHH
Q ss_pred hCcChHHHHHHHHh
Q 003294 692 KHYHPSISTAASSI 705 (833)
Q Consensus 692 ~HyHPsV~~~A~~i 705 (833)
-|++|+=..+.+..
T Consensus 318 ~h~D~e~~ll~~~~ 331 (938)
T KOG1077|consen 318 IHLDSEPELLSRAV 331 (938)
T ss_pred HHcCCcHHHHHHHH
No 78
>PF13251 DUF4042: Domain of unknown function (DUF4042)
Probab=20.55 E-value=4.1e+02 Score=27.58 Aligned_cols=57 Identities=25% Similarity=0.327 Sum_probs=41.4
Q ss_pred cchHHHHHHHHHHHhhcCCCCchHHHHHHHHHH----HhCCCcHHHHHHHHHHHHHHhccc
Q 003294 283 PVFHQVVVRCICNLLDAVPHFNCCEILLEVVVR----NLGSQDVVVRKLCCATIKSLFTNE 339 (833)
Q Consensus 283 ~~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~----kLg~~~~~Va~~c~~aL~~Lf~~D 339 (833)
+..-...++|+..|..+-|+-.....|+.-+|+ .+.+.|..|+-.+.-++..|+...
T Consensus 116 ~~~l~q~lK~la~Lv~~tPY~rL~~~ll~~~v~~v~~~l~~~d~~v~v~~l~~~~~l~s~~ 176 (182)
T PF13251_consen 116 PPVLTQLLKCLAVLVQATPYHRLPPGLLTEVVTQVRPLLRHRDPNVRVAALSCLGALLSVQ 176 (182)
T ss_pred cHHHHHHHHHHHHHHccCChhhcCHhHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCC
Confidence 345567899999999999988877777776665 455666666666666666666554
Done!