Query 003141
Match_columns 844
No_of_seqs 203 out of 591
Neff 5.7
Searched_HMMs 46136
Date Thu Mar 28 17:48:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003141.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/003141hhsearch_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-106 2E-111 907.8 45.1 639 1-754 1-694 (704)
2 COG5117 NOC3 Protein involved 100.0 2.7E-90 5.8E-95 746.7 44.0 599 22-718 19-653 (657)
3 KOG2038 CAATT-binding transcri 100.0 1.6E-64 3.5E-69 572.2 29.8 455 192-742 209-748 (988)
4 COG5593 Nucleic-acid-binding p 100.0 1.9E-46 4.1E-51 411.7 24.9 445 193-729 100-588 (821)
5 PF03914 CBF: CBF/Mak21 family 100.0 3.3E-33 7.1E-38 278.7 14.5 153 557-714 2-164 (164)
6 KOG2154 Predicted nucleolar pr 100.0 3.3E-26 7.2E-31 251.4 31.9 226 501-752 252-481 (505)
7 PF07540 NOC3p: Nucleolar comp 100.0 2E-28 4.4E-33 222.5 10.5 94 190-283 1-95 (95)
8 KOG2153 Protein involved in th 99.1 3.6E-08 7.8E-13 113.9 30.3 112 601-717 588-699 (704)
9 KOG2038 CAATT-binding transcri 89.5 4.5 9.8E-05 49.5 13.3 114 500-654 469-584 (988)
10 PF12348 CLASP_N: CLASP N term 89.4 13 0.00027 38.8 15.5 105 280-387 92-204 (228)
11 PTZ00429 beta-adaptin; Provisi 88.0 84 0.0018 39.5 26.9 59 292-350 152-210 (746)
12 PF12717 Cnd1: non-SMC mitotic 86.5 2.3 4.9E-05 43.3 7.5 55 294-350 2-56 (178)
13 PF05918 API5: Apoptosis inhib 84.7 35 0.00075 41.2 17.0 57 293-351 72-128 (556)
14 PTZ00429 beta-adaptin; Provisi 80.0 1.8E+02 0.0038 36.8 21.6 87 297-390 49-135 (746)
15 PF10508 Proteasom_PSMB: Prote 79.1 28 0.00061 41.4 13.8 105 277-387 75-187 (503)
16 PF02985 HEAT: HEAT repeat; I 78.1 4.4 9.6E-05 29.4 4.3 29 320-348 1-29 (31)
17 PF13513 HEAT_EZ: HEAT-like re 74.7 2.5 5.4E-05 34.3 2.4 51 296-346 3-55 (55)
18 PF12530 DUF3730: Protein of u 73.9 1.1E+02 0.0025 32.6 15.4 159 205-387 12-183 (234)
19 cd00020 ARM Armadillo/beta-cat 73.1 20 0.00043 32.4 8.3 110 213-347 7-119 (120)
20 PF01602 Adaptin_N: Adaptin N 72.9 13 0.00028 43.5 8.8 176 205-387 106-294 (526)
21 PF12755 Vac14_Fab1_bd: Vacuol 71.8 17 0.00037 33.7 7.5 52 298-350 7-58 (97)
22 PF14664 RICTOR_N: Rapamycin-i 68.3 42 0.00091 38.6 11.2 154 196-350 3-178 (371)
23 KOG1824 TATA-binding protein-i 67.4 1E+02 0.0023 39.3 14.6 55 295-349 148-204 (1233)
24 PF12348 CLASP_N: CLASP N term 65.6 20 0.00044 37.2 7.5 88 295-387 68-158 (228)
25 KOG1059 Vesicle coat complex A 64.0 23 0.0005 43.5 8.2 94 283-384 300-396 (877)
26 KOG1222 Kinesin associated pro 63.2 81 0.0018 37.4 12.0 74 317-394 302-379 (791)
27 PF10508 Proteasom_PSMB: Prote 63.0 2.9E+02 0.0063 33.0 17.3 54 297-350 55-108 (503)
28 PF08569 Mo25: Mo25-like; Int 61.4 1.4E+02 0.003 33.9 13.5 76 275-351 202-285 (335)
29 cd00020 ARM Armadillo/beta-cat 59.6 11 0.00023 34.2 3.6 57 294-350 21-80 (120)
30 PF11791 Aconitase_B_N: Aconit 58.6 34 0.00074 34.5 7.1 83 297-383 20-102 (154)
31 PF08623 TIP120: TATA-binding 58.1 31 0.00067 35.4 6.9 54 296-350 43-96 (169)
32 PF08167 RIX1: rRNA processing 57.1 82 0.0018 31.8 9.8 79 579-658 65-148 (165)
33 PF01602 Adaptin_N: Adaptin N 56.9 75 0.0016 37.2 10.9 55 291-346 125-179 (526)
34 PF12765 Cohesin_HEAT: HEAT re 54.5 20 0.00043 28.2 3.9 42 302-343 1-42 (42)
35 PF02671 PAH: Paired amphipath 53.6 15 0.00033 29.2 3.1 36 278-313 2-37 (47)
36 KOG2956 CLIP-associating prote 53.5 4.6E+02 0.01 31.3 16.1 145 172-349 283-436 (516)
37 PF05804 KAP: Kinesin-associat 53.3 57 0.0012 40.7 9.4 75 319-393 290-364 (708)
38 KOG1020 Sister chromatid cohes 53.3 2.9E+02 0.0062 37.3 15.5 132 214-350 817-962 (1692)
39 KOG2259 Uncharacterized conser 51.1 42 0.00091 41.0 7.4 86 297-389 390-475 (823)
40 PF12530 DUF3730: Protein of u 49.8 3.5E+02 0.0076 28.9 13.8 114 198-344 106-228 (234)
41 PF12717 Cnd1: non-SMC mitotic 49.8 1.1E+02 0.0023 31.2 9.4 56 293-349 38-93 (178)
42 KOG1824 TATA-binding protein-i 49.0 7.3E+02 0.016 32.3 20.7 92 275-372 565-663 (1233)
43 PF13646 HEAT_2: HEAT repeats; 47.4 52 0.0011 28.5 5.9 48 291-346 11-58 (88)
44 KOG1967 DNA repair/transcripti 45.2 37 0.0008 42.8 6.0 66 280-345 948-1021(1030)
45 KOG1020 Sister chromatid cohes 44.2 91 0.002 41.6 9.3 74 271-344 805-880 (1692)
46 KOG3771 Amphiphysin [Intracell 43.1 2.9E+02 0.0062 32.8 12.3 35 557-591 191-225 (460)
47 PF12755 Vac14_Fab1_bd: Vacuol 42.5 1.4E+02 0.0029 27.8 8.0 66 282-348 27-96 (97)
48 cd03568 VHS_STAM VHS domain fa 42.4 79 0.0017 31.5 6.9 83 300-387 20-104 (144)
49 PF08167 RIX1: rRNA processing 40.3 2.7E+02 0.006 28.0 10.6 76 274-352 59-147 (165)
50 cd03569 VHS_Hrs_Vps27p VHS dom 40.0 1.7E+02 0.0037 29.0 8.8 46 330-378 96-141 (142)
51 PF12460 MMS19_C: RNAPII trans 39.6 5.7E+02 0.012 29.6 14.4 131 204-350 263-396 (415)
52 PF03224 V-ATPase_H_N: V-ATPas 39.5 17 0.00037 40.2 1.9 169 203-392 48-230 (312)
53 PF12719 Cnd3: Nuclear condens 38.8 1.2E+02 0.0026 33.4 8.4 58 293-350 77-145 (298)
54 KOG1077 Vesicle coat complex A 38.2 1.6E+02 0.0035 36.6 9.6 37 680-716 295-331 (938)
55 PRK14140 heat shock protein Gr 37.2 1.6E+02 0.0035 30.9 8.4 22 270-291 114-135 (191)
56 KOG0212 Uncharacterized conser 35.4 3.9E+02 0.0084 32.7 11.9 69 281-349 166-238 (675)
57 cd03567 VHS_GGA VHS domain fam 33.2 1.6E+02 0.0034 29.3 7.3 50 299-350 20-69 (139)
58 cd03569 VHS_Hrs_Vps27p VHS dom 32.6 1.2E+02 0.0026 30.1 6.4 83 300-387 24-108 (142)
59 PF11277 Med24_N: Mediator com 32.1 8.8E+02 0.019 31.8 15.1 96 228-331 88-183 (990)
60 PF12830 Nipped-B_C: Sister ch 30.9 1.6E+02 0.0034 30.3 7.2 66 281-351 7-77 (187)
61 PF09324 DUF1981: Domain of un 30.9 1.4E+02 0.0029 27.1 5.9 41 310-350 8-49 (86)
62 PF00514 Arm: Armadillo/beta-c 30.5 91 0.002 23.6 4.1 28 319-346 12-39 (41)
63 PF05918 API5: Apoptosis inhib 30.5 3.4E+02 0.0073 33.1 10.7 148 203-387 49-201 (556)
64 PF14664 RICTOR_N: Rapamycin-i 29.6 85 0.0018 36.1 5.4 87 297-390 85-176 (371)
65 PF02985 HEAT: HEAT repeat; I 28.2 1E+02 0.0023 22.1 3.8 28 215-242 2-29 (31)
66 PF00790 VHS: VHS domain; Int 26.9 1.4E+02 0.0029 29.3 5.7 84 299-384 24-113 (140)
67 KOG1077 Vesicle coat complex A 26.5 3E+02 0.0066 34.4 9.3 83 292-380 341-424 (938)
68 PLN00094 aconitate hydratase 2 26.4 4.6E+02 0.01 33.7 11.1 80 296-378 91-170 (938)
69 PF12074 DUF3554: Domain of un 26.2 1.7E+02 0.0036 32.8 7.0 69 298-369 180-253 (339)
70 PF07540 NOC3p: Nucleolar comp 26.2 1.1E+02 0.0024 28.6 4.5 48 301-350 8-56 (95)
71 KOG4204 Histone deacetylase co 26.1 8.5E+02 0.019 26.3 12.6 120 190-312 19-180 (231)
72 PRK09238 bifunctional aconitat 25.5 3.5E+02 0.0076 34.5 9.9 100 280-384 2-106 (835)
73 KOG2171 Karyopherin (importin) 24.9 1.3E+02 0.0028 39.0 6.2 63 283-346 349-416 (1075)
74 smart00185 ARM Armadillo/beta- 24.2 99 0.0021 22.6 3.3 29 319-347 12-40 (41)
75 KOG2023 Nuclear transport rece 23.9 3.3E+02 0.0071 33.9 8.8 116 214-350 129-246 (885)
76 PF10274 ParcG: Parkin co-regu 23.8 5.7E+02 0.012 26.7 9.7 85 280-368 36-125 (183)
77 PRK14148 heat shock protein Gr 23.6 5.7E+02 0.012 27.0 9.8 23 269-291 116-138 (195)
78 PF05327 RRN3: RNA polymerase 23.5 1.4E+03 0.03 27.8 18.2 130 454-633 268-398 (563)
79 COG5218 YCG1 Chromosome conden 22.5 6.4E+02 0.014 31.1 10.7 78 272-349 39-121 (885)
80 cd03561 VHS VHS domain family; 22.3 6E+02 0.013 24.6 9.1 51 298-350 18-68 (133)
81 KOG2759 Vacuolar H+-ATPase V1 21.7 2.3E+02 0.0051 33.2 6.9 109 277-394 154-271 (442)
82 TIGR00117 acnB aconitate hydra 21.1 5.2E+02 0.011 33.1 10.1 83 298-384 24-106 (844)
83 PF03224 V-ATPase_H_N: V-ATPas 20.7 3.6E+02 0.0077 29.9 8.1 114 272-387 49-177 (312)
84 KOG2259 Uncharacterized conser 20.4 1.1E+03 0.023 29.7 12.1 56 188-243 385-440 (823)
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=1.1e-106 Score=907.80 Aligned_cols=639 Identities=36% Similarity=0.518 Sum_probs=543.7
Q ss_pred Ccc-cccccccCCCCCCCCCCcccccCChhhHHHHHhhcccccccccccccccccccccc----c---------------
Q 003141 1 MGK-KQKQKIILPPELPPEILEDEIEVSDEDLQFVSENRDYAGFVSRLDTHSITKHVTRV----A--------------- 60 (844)
Q Consensus 1 ~~~-~~~~~~~~~~~~~~~~~~~~~~~~d~D~~~~~~~~~~~~f~~~~~~~~~~~~~~~~----~--------------- 60 (844)
||. ++|+++|.||.+||+.-......+++|....+++..++.+++.++..-+....++. +
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 78889999999999999999999999999999999999999888765443321110 0
Q ss_pred ----------CCCchh-----------HHHHHHhhhhhhhhhccccccCCCCCCCCCCCcccCCCeeeeccCCCCCCCCC
Q 003141 61 ----------DVKEDD-----------LEALYEKRLRKTSVLKENEDKGLQLDPVDALPVKTLDGKLYYRTRPKPENGGD 119 (844)
Q Consensus 61 ----------~~~~~~-----------~e~~YE~~~r~~~~~~~~~~~~~~~~~~~~LPiK~~~G~i~~~~~~~~~~~~~ 119 (844)
..++++ .|++||++||+.+.+ +++. +++||||++||.+ ++..+++..+.+
T Consensus 81 ~k~~~~~~~~~~s~~ee~~~d~~~~~~~e~~ye~~pr~~~~~-~k~~-------~~~lpIk~k~~~~-~~~~k~~e~~~~ 151 (704)
T KOG2153|consen 81 KKSNGEILTRPLSSDEEKTLDGKKHYRTEQDYEKLPRKEQDA-EKEL-------LELLPIKNKDPVR-RQKAKKEERESD 151 (704)
T ss_pred ccccchhhccccccCcccCccccccchhHHHHhhccccccch-HHhh-------hhcCccccCCccc-hhhhcccccccc
Confidence 112333 599999999988765 4433 7999999988766 454433322211
Q ss_pred CCccCCCCCCCCCCchhhhhhHHHHHHHHhhhhHHHhHhcccCCCchhhhccchHHHHHhhhhcCCHHHHHHHHHHHHHH
Q 003141 120 ENEVGEGEKDGGGNEGIIKLTKAERRAKLKKSKKEAKKEGKKLSKPEEAEQAPQVAVLAEVKEDLTAEELFESKKCKLAE 199 (844)
Q Consensus 120 ~~~~~~~~~~~~~~~~~~~~~k~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~e~~~~~kdkIAa 199 (844)
.+|+ +..++.+ .++++.+.+++.++.++++++++.|++.|.+||+
T Consensus 152 ~~ee--d~~~e~~---------------------------------~e~de~~~~~~ea~~~e~l~~~~~i~n~K~kIA~ 196 (704)
T KOG2153|consen 152 DDEE--DLDEEDS---------------------------------DEDDETPNAAEEAEIKEELPREEKIENKKEKIAS 196 (704)
T ss_pred cchh--cccchhc---------------------------------cccccccCHHHHhhcchhcchHHHHHHHHHHHHH
Confidence 1111 1000000 0123456667778899999999999999999999
Q ss_pred HHHHHHhCHHHhHHHHHHHHHHhhccChhhHHHHHHHHHHHHhhhcCCCCCCCCchhhhhhhhhHHHHHHHHHHHHHHHH
Q 003141 200 LGMALLADPESNIKSLKEMLQIARDDNPSISKLGFLSLLAVFKDIIPGYRIRLPTEKELEMKVSKEVKKMRFYESTLLSA 279 (844)
Q Consensus 200 L~~~I~edPe~ni~~Lk~L~~m~~~k~~~vrkLAilSL~~VFkDIlP~YrIR~lte~E~~~kvsKev~~lr~fE~~Ll~~ 279 (844)
+|+.|++||+.|++.|.+|+.||.+.+++++|++++||++||||||||||||++|+.|+.++++|+|+++|.||++|+++
T Consensus 197 l~s~llenPE~N~~~L~~l~eml~s~n~~~~Kl~~lSLlaVFKDIiP~YkIR~lte~Ek~~k~sKev~klr~yE~~Ll~~ 276 (704)
T KOG2153|consen 197 LCSKLLENPEENLKKLKELFEMLDSQNPKAKKLALLSLLAVFKDIIPGYKIRPLTEKEKRTKLSKEVLKLREYEQALLKQ 276 (704)
T ss_pred HHHHHHhCHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHhhcccceecccHHHHhcccccHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhcCCc--------chHHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhcc
Q 003141 280 YKAYLQKLIASEKQP--------VFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEG 351 (844)
Q Consensus 280 Y~~yLq~Le~l~k~~--------~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D~ 351 (844)
|++|||.|+.+.++. ++.++|++|+|+|+..+|||||++||+.++|+.++++...++..||.+++.+|.+|.
T Consensus 277 Yk~ylQkLe~~vK~~~~~~~~~v~l~~vav~c~~~Ll~a~pHFN~~~kiv~l~vr~in~~~~~~s~~~i~t~k~lf~~D~ 356 (704)
T KOG2153|consen 277 YKSYLQKLEQFVKDLSLRTPQQVSLAQVAVQCACELLEAVPHFNLRQKIVKLVVRLINDPGRPVSSGCIQTIKTLFENDN 356 (704)
T ss_pred HHHHHHHHHHHHhhhhhcchHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhcCCC
Confidence 999999999998887 578999999999999999999999999999999999999999999999999999994
Q ss_pred CCCCccHHHHHHHHHHhhhhcCCCCCHHHHHHhhcccccccccccCCCcchhhhhhhhhccccccccchhhHHHHHHHHH
Q 003141 352 KHGGVATVEAVRLIANHVKVKNCQLHPDFVEVFMSLSFDEDLQRREVPDDKSKVKNKKNNKRKSIEEPSQLQQNERKKNK 431 (844)
Q Consensus 352 ~~~G~~sleiVr~I~~~vK~k~~~v~p~vl~~fL~Lr~~e~l~~~~~~~~~~~~K~Kk~kkrk~~~~~~~ls~~~~KK~k 431 (844)
.|.+|+.+||.|+.++|.++|+|+|+++.||++|+++++....+.++... .+.++.. .+...+++++.||+
T Consensus 357 --~g~~sl~~Vr~i~~llK~rn~~v~~~~~~~~lsLri~ed~~~k~ke~~~k-~~~~k~~----k~k~~~lskK~RK~-- 427 (704)
T KOG2153|consen 357 --GGSGSLAIVRIINSLLKTRNYEVLPDMITTFLSLRIDEDQTKKDKEDEKK-QKNKKSS----KKKLSSLSKKERKR-- 427 (704)
T ss_pred --ccchhHHHHHHHHHHhhhhcccchhhHHHHHHhcchhhhccchhhhccch-hhhHHHH----HHHHhhccHHHHHH--
Confidence 79999999999999999999999999999999999999888766544321 1111111 11123566666654
Q ss_pred HHHHHHhHHHHHHHHHhhccCCCHHHHhhhhHHHHHHHHHHHHHHHhhhccccccccccccccCCCCCCCccchHHHHhh
Q 003141 432 KELMLKTREEVAAEYKAASLAPDVMEKRRMQTETISAVFETYFRILKHTMMFTAVSSEANASSIGGASGAHPLLAPCLKG 511 (844)
Q Consensus 432 Ke~~~K~~kele~El~Eaea~~d~~er~k~qteiL~~vF~iYFRILK~~~~~~~~~~~~~~ra~p~a~~~s~LL~~vLeG 511 (844)
+|.+.++++|+++|+|.++.+++.++|||||++||.|||||||... -+ +|+++|+|
T Consensus 428 ----kKe~~ki~rE~reaea~e~aeek~k~~sEiLkiVFtiYFrILkn~~-------------------~t-ll~~vlEG 483 (704)
T KOG2153|consen 428 ----KKERNKIEREMREAEAEESAEEKMKKQSEILKIVFTIYFRILKNDR-------------------YT-LLGAVLEG 483 (704)
T ss_pred ----HHHHHHHHHHhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHhcch-------------------hh-HHHHHHhh
Confidence 3447899999999999999999999999999999999999999973 34 99999999
Q ss_pred hhcccccCChhhHHHHHHHHHHHhcCCCCCCCCCCCCCCccchhhHHHHHHHHHHHHhhccccccCChHHHHHHHHHhhh
Q 003141 512 LGKFSHLIDLDYIGDLMNYLKRLAGGGSSNDGPSQKNSNHLTVTERLRCCIVAFRVMRNNLDALNVDLQDFFVQLYNLIL 591 (844)
Q Consensus 512 L~KfaHlIN~df~~DLl~vL~~Li~~~~~~~~~~~~~~~~ls~~~~L~ci~taF~LL~~~g~alniD~~rFY~~LY~~L~ 591 (844)
|++|+|+||++|++||+.||+.++.+ +.++++++|+|++|||.||+|||+.+|||+..||.+||++|+
T Consensus 484 lakf~h~invef~~dll~vlk~ll~d------------~~~~~re~l~cvqtaf~IlS~qg~~lniD~~~fv~~lY~~l~ 551 (704)
T KOG2153|consen 484 LAKFAHLINVEFLGDLLKVLKELLED------------IELSYREALLCVQTAFCILSGQGEKLNIDLGKFVDHLYKMLF 551 (704)
T ss_pred HHHHhhhccHHHhhhHHHHHHHHHHh------------hhHHHHHHHHHHHHHHHhhhccceeeccCHHHHHHHHHHHhc
Confidence 99999999999999999999999975 468999999999999999999999999999999999999999
Q ss_pred ccCCCCCh--HHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHhhccccccccccccCCC
Q 003141 592 EYRPGRDQ--GEVLAEALKIMLCDDRQHDMQKAAAFVKRLATFSLSIGSAESMAALVTLKNLLQKNIKCRNLLENDAGGG 669 (844)
Q Consensus 592 ~~~~~~~~--~~~ll~~L~~~l~~~~~~~~~RvaAFiKRLl~~aL~~p~~~ala~L~li~~Ll~~~P~l~~LLe~e~~~g 669 (844)
+++.+.+. ...+++|++.+|.++++ ++.+|.+|++||+++++|+-+...+ +.+..++.+++|..|++.+
T Consensus 552 ~~~~~~~~~~~~~ilr~~d~~~~k~r~-~v~~~~~~~~~Ll~~~~h~~~~s~~----~s~~~~~~fsk~~~~~~~~---- 622 (704)
T KOG2153|consen 552 PMNLGPDDDGFAIILRLLDPLLIKIRK-PVVNVITKMERLLKCSLHVFFNSKL----ISKYRDIEFSKRLNLLDSE---- 622 (704)
T ss_pred ccccCCCcchHHHHHHHhhHhhhhhhh-hHHHHHHHHHHHHHHHHHHhhcccc----hHHHHHHHhhhhhhhhhcc----
Confidence 98876643 35788999999988776 4555999999999999998887655 7788899999999888765
Q ss_pred CcccCCCCCCCCCCCCCCCCCCchhHHHHHHHhhCcChHHHHHHHHhhcCCC----CCCccccCCCChHHHHHhcccccc
Q 003141 670 SVSGSISIYQPYAMDPNLSGALASVLWEINLLSKHYHPSISTAASSIAGMNS----AHNQVYHAILSPQQAFMDLLLERE 745 (844)
Q Consensus 670 ~vsg~~~~Ydp~~~DPe~~nA~~S~LWEL~lL~~HyHPsV~~~A~~i~~~~~----~~~~~~l~~~~p~e~~~~~~~~~~ 745 (844)
-|+||++.++.|||+.+++ |||.|+.||.++.-+.+ +..+|++|..+..+||+. ++.+|
T Consensus 623 --------------~pe~~s~a~~al~e~~l~r--y~~~~~~~a~~~~~G~~~~~~~a~~p~~s~~sa~~L~~~-~~~~~ 685 (704)
T KOG2153|consen 623 --------------TPEYCSIASLALFEKLLLR--YHPISRLMASEIAIGVGATGEGALPPELSNLSAAELFEQ-DLLEM 685 (704)
T ss_pred --------------CccccccccHHHHHHHHHh--cchHHHHHHHHHhhcCCccCcCCCCccccCchHHHHhhh-HHHHh
Confidence 1999999999999999999 99999999999954432 346899999999999999 99999
Q ss_pred cccCCCCCc
Q 003141 746 SFNSKSDTQ 754 (844)
Q Consensus 746 ~f~p~~~~~ 754 (844)
.|||+||.+
T Consensus 686 ~~~P~v~~~ 694 (704)
T KOG2153|consen 686 HYNPTVPLS 694 (704)
T ss_pred ccCCCCCch
Confidence 999999954
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=2.7e-90 Score=746.73 Aligned_cols=599 Identities=26% Similarity=0.396 Sum_probs=485.0
Q ss_pred ccccCChhhHHHHHhhcccccccccccccccccccccccCCCchhHHHHHHhhhhhhhhhccccccCCCCCCCCCCCccc
Q 003141 22 DEIEVSDEDLQFVSENRDYAGFVSRLDTHSITKHVTRVADVKEDDLEALYEKRLRKTSVLKENEDKGLQLDPVDALPVKT 101 (844)
Q Consensus 22 ~~~~~~d~D~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~e~~YE~~~r~~~~~~~~~~~~~~~~~~~~LPiK~ 101 (844)
-+.|++.+|++||.+|.. .++.+-|-. .+.++||+.||+||.+||+.+.+ ..+ .+++||||+
T Consensus 19 ~e~E~t~~d~~~F~~~PE------Dl~k~~IY~----~K~SS~DEEEQDYEl~PR~s~S~--~n~------~~~~LPIK~ 80 (657)
T COG5117 19 AERELTQEDIEFFNENPE------DLGKKVIYD----LKKSSSDEEEQDYELRPRVSSSW--NNE------SYNRLPIKT 80 (657)
T ss_pred hhhhhHHHHHHHHhcChh------hcCchheee----cccCCcchhhccccccccccccc--ccc------hhccCCccc
Confidence 678889999999999876 333332211 13478999999999999988764 222 278999999
Q ss_pred CCCeeeeccCCCCCCCCCCCccCCCCCCCCCCchhhhhhHHHHHHHHhhhhHHHhHhcccCCCchhhhccchHHHHHhhh
Q 003141 102 LDGKLYYRTRPKPENGGDENEVGEGEKDGGGNEGIIKLTKAERRAKLKKSKKEAKKEGKKLSKPEEAEQAPQVAVLAEVK 181 (844)
Q Consensus 102 ~~G~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 181 (844)
.| .++.... +.++--.+.|++.+++.|... +++ .....+ .++..
T Consensus 81 ~~-~V~~~v~----~~eE~~~e~e~E~~~~~DS~~-------------------~DE---------~~~~~e---E~k~~ 124 (657)
T COG5117 81 KD-NVVADVN----NGEEFLSESESEASLEIDSDI-------------------KDE---------KQKSLE---EQKIA 124 (657)
T ss_pred Cc-chhehhh----chhcccCcchhhhhhcccccc-------------------ccc---------ccchhh---hhhcC
Confidence 55 5543211 111100111111111111000 000 000001 12244
Q ss_pred hcCCHHHHHHHHHHHHHHHHHHHHhCHHHhHHHHHHHHHHhhccChhhHHHHHHHHHHHHhhhcCCCCCCCCchhhhhhh
Q 003141 182 EDLTAEELFESKKCKLAELGMALLADPESNIKSLKEMLQIARDDNPSISKLGFLSLLAVFKDIIPGYRIRLPTEKELEMK 261 (844)
Q Consensus 182 ~~l~~~e~~~~~kdkIAaL~~~I~edPe~ni~~Lk~L~~m~~~k~~~vrkLAilSL~~VFkDIlP~YrIR~lte~E~~~k 261 (844)
++.+.+++|.+.|++||.+|..|+++|++|++.+.+++.|..+..+.++++.++||++||++|||||||||++|.|+.+|
T Consensus 125 ~e~P~kqqi~~~Ke~ia~~~tki~EePeeNl~~~~~vf~mi~S~~~~~kk~s~LsLl~VFk~IIPgYkIRpL~e~Eq~~K 204 (657)
T COG5117 125 PEIPVKQQIDSEKERIASICTKIIEEPEENLGMMEEVFSMITSMAEKAKKVSYLSLLKVFKAIIPGYKIRPLKEEEQMVK 204 (657)
T ss_pred CCCChHHHHHhHHHHHHHHHHHHHhChHHHHHHHHHHHHHhcccchhhhhhhHHHHHHHHHHhCccccccccchHHhhhh
Confidence 55668899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCc--------chHHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCC-c
Q 003141 262 VSKEVKKMRFYESTLLSAYKAYLQKLIASEKQP--------VFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQ-D 332 (844)
Q Consensus 262 vsKev~~lr~fE~~Ll~~Y~~yLq~Le~l~k~~--------~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~-~ 332 (844)
+||||..+|+||++|+.+|..||+.|+...+++ ++.++|++|+|+|+....||||++.+++++++.+..+ -
T Consensus 205 ~skev~~l~~yeqsLl~~Y~~yi~tl~~~~k~~S~~~~~Q~SL~~vA~~~~~eli~~asHFN~~~kvfsl~lR~i~~~t~ 284 (657)
T COG5117 205 DSKEVLHLKDYEQSLLRWYTSYIKTLVDDVKDESTLDETQSSLYQVAYISLCELIQHASHFNCTDKVFSLVLRGILGTTK 284 (657)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCccccchhhHHHHHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHhhCCCC
Confidence 999999999999999999999999999998875 5789999999999999999999999999999998775 3
Q ss_pred HHHHHHHHHHHHHHhhhccCCCCccHHHHHHHHHHhhhhcCCCCCHHHHHHhhcccccccccccCCCcchhhhhhhhhcc
Q 003141 333 VVVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHVKVKNCQLHPDFVEVFMSLSFDEDLQRREVPDDKSKVKNKKNNK 412 (844)
Q Consensus 333 ~~Va~~c~~al~~Lf~~D~~~~G~~sleiVr~I~~~vK~k~~~v~p~vl~~fL~Lr~~e~l~~~~~~~~~~~~K~Kk~kk 412 (844)
+.++..||++|..+|..| ..|.+++++++..+.+.|.+||.|-|.|++.||++.+..+..+...-+.++....|+.
T Consensus 285 rp~s~~ii~t~ks~leeD--~~G~~sl~~~~i~~~l~k~rN~~vle~vld~~ls~n~L~D~~~~~k~w~~n~~~~k~~-- 360 (657)
T COG5117 285 RPVSMLIIDTIKSKLEED--CTGKTSLVATVIDQMLDKERNPLVLEYVLDIPLSDNSLRDEEKARKYWEANKPVSKRE-- 360 (657)
T ss_pred CchHHHHHHHHHHHhccc--ccCceeEEeehHHHHHHhhhCchhHHHHHhccchhhhhhhhhhhHHhhhcCCcchhhh--
Confidence 557889999999999999 5799999999999999999999999999999999988766554333222221111111
Q ss_pred ccccccchhhHHHHHHHHHHHHHHHhHHHHHHHHHhhccCCCHHHHhhhhHHHHHHHHHHHHHHHhhhcccccccccccc
Q 003141 413 RKSIEEPSQLQQNERKKNKKELMLKTREEVAAEYKAASLAPDVMEKRRMQTETISAVFETYFRILKHTMMFTAVSSEANA 492 (844)
Q Consensus 413 rk~~~~~~~ls~~~~KK~kKe~~~K~~kele~El~Eaea~~d~~er~k~qteiL~~vF~iYFRILK~~~~~~~~~~~~~~ 492 (844)
+|. ..+|+++.|| ..|.+..|+.||++|++.++.++++|+|+|||+.||.+||.|||..
T Consensus 361 KKd---~~hlsKK~RK------~~KE~~~I~~Emr~ae~i~~a~e~eknqseIlkiif~~Yf~vLk~~------------ 419 (657)
T COG5117 361 KKD---IFHLSKKLRK------IEKERLRIQSEMRDAEDIEEAIEEEKNQSEILKIIFRLYFMVLKGD------------ 419 (657)
T ss_pred hcc---hhhhhHHHHH------HHHHHHHHHHHhhhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhcc------------
Confidence 122 2466654443 3455789999999999999999999999999999999999999996
Q ss_pred ccCCCCCCCccchHHHHhhhhcccccCChhhHHHHHHHHHHHhcCCCCCCCCCCCCCCccchhhHHHHHHHHHHHHhhcc
Q 003141 493 SSIGGASGAHPLLAPCLKGLGKFSHLIDLDYIGDLMNYLKRLAGGGSSNDGPSQKNSNHLTVTERLRCCIVAFRVMRNNL 572 (844)
Q Consensus 493 ra~p~a~~~s~LL~~vLeGL~KfaHlIN~df~~DLl~vL~~Li~~~~~~~~~~~~~~~~ls~~~~L~ci~taF~LL~~~g 572 (844)
.-.+++.||+||+||.|++|++|++|||+||+.|+.+..-+ + -..-..+++|+||+|||.|.++++
T Consensus 420 --------~k~lig~vleGl~k~~~~~n~eflGD~Levl~eL~~d~~~d-----k-~ss~a~r~alLcI~tAF~i~S~t~ 485 (657)
T COG5117 420 --------RKDLIGYVLEGLVKYRKIINPEFLGDLLEVLYELLNDNPLD-----K-ISSDARRQALLCILTAFEIASATL 485 (657)
T ss_pred --------hHHHHHHHHHHHHHHHhhcCHHHHhHHHHHHHHHHcCCchh-----h-hhHHHHHHHHHHhhHHHHHhhhhh
Confidence 34699999999999999999999999999999999642110 0 112346899999999999998754
Q ss_pred -ccccCChHHHHHHHHHhhhccC--CCC------------------------ChHHHHHHHHHHHhhcccCCcHHHHHHH
Q 003141 573 -DALNVDLQDFFVQLYNLILEYR--PGR------------------------DQGEVLAEALKIMLCDDRQHDMQKAAAF 625 (844)
Q Consensus 573 -~alniD~~rFY~~LY~~L~~~~--~~~------------------------~~~~~ll~~L~~~l~~~~~~~~~RvaAF 625 (844)
...|+|++.|...||++++++. |+. +..++|+.|++++|+++++.+..|..+|
T Consensus 486 ygk~n~Dl~~fVd~lY~~v~p~~l~pD~dLn~k~~RL~DP~~~~~~~~VN~tt~~e~LlK~~~~~Ffksk~~~~~r~~~f 565 (657)
T COG5117 486 YGKENYDLGGFVDLLYSMVHPMNLEPDADLNLKIKRLKDPDAPSKPFVVNATTDNEELLKIVRLLFFKSKQPVHRRHVIF 565 (657)
T ss_pred hhhccccHHHHHHHHHHHhCcccCCcchhhhhhhhhhcCCcccccCccccccccHHHHHHHHHHHheeccCchHHHHHHH
Confidence 4579999999999999998743 211 3457899999999999999999999999
Q ss_pred HHHHHHHHhccChHHHHHHHHHHHHHHhhccccccccccccCCCCcccCCCCCCCCCCCCCCCCCCchhHHHHHHHhhCc
Q 003141 626 VKRLATFSLSIGSAESMAALVTLKNLLQKNIKCRNLLENDAGGGSVSGSISIYQPYAMDPNLSGALASVLWEINLLSKHY 705 (844)
Q Consensus 626 iKRLl~~aL~~p~~~ala~L~li~~Ll~~~P~l~~LLe~e~~~g~vsg~~~~Ydp~~~DPe~~nA~~S~LWEL~lL~~Hy 705 (844)
.|||+.+|.|.|..++.|+|.++..|+.+||.|..|+..+..-| .|.|+|..+||..+|..+++|||-.+|.+||
T Consensus 566 ~krl~~c~s~~pe~~~~ail~~~~kl~~rys~~s~l~~sE~~ig-----~g~~~~~~~nP~~SN~~tA~l~e~fLlk~hy 640 (657)
T COG5117 566 KKRLLYCCSRSPEEFKGAILDISAKLDIRYSDCSNLKCSEFDIG-----AGNVDSIPSNPDLSNSSTAVLFEYFLLKQHY 640 (657)
T ss_pred HHHHHHHHccChHHHHHHHHHHHHHHHhhhhhccCccCchhhcC-----CcccccCCCCcccCCchhHHHHHHHHHHhhc
Confidence 99999999999999999999999999999999999997665322 2389999999999999999999999999999
Q ss_pred ChHHHHHHHHhhc
Q 003141 706 HPSISTAASSIAG 718 (844)
Q Consensus 706 HPsV~~~A~~i~~ 718 (844)
+|.|.+-|+.++.
T Consensus 641 ~P~Vsq~~k~L~~ 653 (657)
T COG5117 641 SPAVSQSAKELLK 653 (657)
T ss_pred CHHhHHHHHHHHh
Confidence 9999999999864
No 3
>KOG2038 consensus CAATT-binding transcription factor/60S ribosomal subunit biogenesis protein [Translation, ribosomal structure and biogenesis; Transcription]
Probab=100.00 E-value=1.6e-64 Score=572.23 Aligned_cols=455 Identities=22% Similarity=0.343 Sum_probs=362.4
Q ss_pred HHHHHHHHHHHHHHhCHHHhHHHHHHHHHHhhccChhhHHHHHHHHHHHHh-hhcCCCCCCCCchhhh----hhhhhHHH
Q 003141 192 SKKCKLAELGMALLADPESNIKSLKEMLQIARDDNPSISKLGFLSLLAVFK-DIIPGYRIRLPTEKEL----EMKVSKEV 266 (844)
Q Consensus 192 ~~kdkIAaL~~~I~edPe~ni~~Lk~L~~m~~~k~~~vrkLAilSL~~VFk-DIlP~YrIR~lte~E~----~~kvsKev 266 (844)
.+.|+|+|++++|+++|.||+++|.+|+++|.++..+.+-.||-+|.+||. ++||.+++|+++.... .+++.+.+
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 368999999999999999999999999999999999999999999999997 6999999988776532 35677889
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCc--chHHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHH
Q 003141 267 KKMRFYESTLLSAYKAYLQKLIASEKQP--VFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIK 344 (844)
Q Consensus 267 ~~lr~fE~~Ll~~Y~~yLq~Le~l~k~~--~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~ 344 (844)
+.+||||+.|+..|++||+.|+.++++| .++..|++.++.||+++|++++ |||.++||+|||++.+|++.+.+.|.
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 HHhhhccCCCCccHHHHHHHHHH-----------------hh-hhcCCCCCHHHHHHhhcccccccccccCCCcchhhhh
Q 003141 345 SLFTNEGKHGGVATVEAVRLIAN-----------------HV-KVKNCQLHPDFVEVFMSLSFDEDLQRREVPDDKSKVK 406 (844)
Q Consensus 345 ~Lf~~D~~~~G~~sleiVr~I~~-----------------~v-K~k~~~v~p~vl~~fL~Lr~~e~l~~~~~~~~~~~~K 406 (844)
.|+..||+|.+.++-+|+|.+-+ |+ ..++-.|...++.+||+| |+..+.+.+.++. |
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 99999999999888888887544 32 334455778889999999 8877765443211 1
Q ss_pred hhhhccccccccchhhHHHHHHHHHHHHHHHhHHHHHHHHHhhccCCCHHHHhhhhHHHHHHHHHHHHHHHhhhcccccc
Q 003141 407 NKKNNKRKSIEEPSQLQQNERKKNKKELMLKTREEVAAEYKAASLAPDVMEKRRMQTETISAVFETYFRILKHTMMFTAV 486 (844)
Q Consensus 407 ~Kk~kkrk~~~~~~~ls~~~~KK~kKe~~~K~~kele~El~Eaea~~d~~er~k~qteiL~~vF~iYFRILK~~~~~~~~ 486 (844)
..|+-.++ ++-.|+.++ ++++. + .-.-.++.+|.+|.
T Consensus 442 ~~k~~~k~---------kks~k~~k~-------e~~~~-----e------~~~e~nsrllSAlL---------------- 478 (988)
T KOG2038|consen 442 DDKGAAKK---------KKSNKKDKK-------EEVST-----E------SPIELNSRLLSALL---------------- 478 (988)
T ss_pred cccchhhc---------ccccccchh-------hhhcc-----c------chhhhhHHHHHHHH----------------
Confidence 11110000 000111111 12211 1 11233566776665
Q ss_pred ccccccccCCCCCCCccchHHHHhhhhcccccCChhhHHHHHHHHHHHhcCCCCCCCCCCCCCCccchhhHHHHHHHHHH
Q 003141 487 SSEANASSIGGASGAHPLLAPCLKGLGKFSHLIDLDYIGDLMNYLKRLAGGGSSNDGPSQKNSNHLTVTERLRCCIVAFR 566 (844)
Q Consensus 487 ~~~~~~ra~p~a~~~s~LL~~vLeGL~KfaHlIN~df~~DLl~vL~~Li~~~~~~~~~~~~~~~~ls~~~~L~ci~taF~ 566 (844)
||||||||||..++..+...+..|++.+|..|++ +++++++.+|+
T Consensus 479 --TGvNRAfPfaq~~ddk~~~~~~tLFkl~HssNFN---------------------------------TsVQaLmLlfQ 523 (988)
T KOG2038|consen 479 --TGVNRAFPFAQTADDKLEEQMKTLFKLTHSSNFN---------------------------------TSVQALMLLFQ 523 (988)
T ss_pred --hcccccCCcccCchHHHHHHhHHHHHHHhhcccc---------------------------------hhHHHHHHHHH
Confidence 5999999999999989999999999999998754 45666666666
Q ss_pred HHhhccccccCChHHHHHHHHHhhhccCCCC-ChHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHhccChHHHHHHH
Q 003141 567 VMRNNLDALNVDLQDFFVQLYNLILEYRPGR-DQGEVLAEALKIMLCDDRQHDMQKAAAFVKRLATFSLSIGSAESMAAL 645 (844)
Q Consensus 567 LL~~~g~alniD~~rFY~~LY~~L~~~~~~~-~~~~~ll~~L~~~l~~~~~~~~~RvaAFiKRLl~~aL~~p~~~ala~L 645 (844)
+... ..+-++|||++||+.|++++.-. +...+++++|.-.+ .-+.++.||+||||||+|+|++.+|+++||+|
T Consensus 524 vs~~----~~~vSDRyY~aLY~kLLdP~l~~sSKq~m~LnLlyksl--K~D~ni~RV~AFvKRlLQVa~~q~P~~i~G~l 597 (988)
T KOG2038|consen 524 VSKK----NDYVSDRYYRALYRKLLDPRLMNSSKQAMFLNLLYKSL--KEDINIQRVRAFVKRLLQVAVQQQPPFICGIL 597 (988)
T ss_pred HHHh----hhhhHHHHHHHHHHHhcCcccCchHHHHHHHHHHHHHH--HhhhhHHHHHHHHHHHHHHHHhcCCchhHhHH
Confidence 6654 34568999999999999987655 44457777765443 13779999999999999999999999999999
Q ss_pred HHHHHHHhhcccccccccccc-----CC---------------------C------Cc----------------------
Q 003141 646 VTLKNLLQKNIKCRNLLENDA-----GG---------------------G------SV---------------------- 671 (844)
Q Consensus 646 ~li~~Ll~~~P~l~~LLe~e~-----~~---------------------g------~v---------------------- 671 (844)
+++++|++..|.++.|+.+.. ++ + |+
T Consensus 598 ~Llsel~Karp~l~~lv~~~~~~D~e~dv~~~~e~DD~deek~vd~Dke~~~vdk~~~e~~~~e~ds~s~k~E~~~~~~~ 677 (988)
T KOG2038|consen 598 FLLSELLKARPTLRKLVVNSEDIDPEEDVVAQMENDDVDEEKKVDLDKEGKEVDKNGVEEEVEEEDSVSEKKEDLDKKKV 677 (988)
T ss_pred HHHHHHHHhcchHHHHhhCCcccChhhhhhhhhcccccchhhhccccccceeecccccccccccccccccchhhhhhhhc
Confidence 999999999999999985321 00 0 00
Q ss_pred -----ccCCCCCCCCCCCCCCCCCCchhHHHHHHHhhCcChHHHHHHHHhhcCCCCCCccccCCCChHHHHHhccc
Q 003141 672 -----SGSISIYQPYAMDPNLSGALASVLWEINLLSKHYHPSISTAASSIAGMNSAHNQVYHAILSPQQAFMDLLL 742 (844)
Q Consensus 672 -----sg~~~~Ydp~~~DPe~~nA~~S~LWEL~lL~~HyHPsV~~~A~~i~~~~~~~~~~~l~~~~p~e~~~~~~~ 742 (844)
+|..++|||..|||.||||..||||||..|.+||||+|+.||..+..+...++. ..|+.+|+..-.
T Consensus 678 d~~~~~~~~~~YD~r~R~P~f~nAd~tslWEl~~ls~HfHPSVa~~Akall~G~~i~y~-----g~~L~dfTL~~F 748 (988)
T KOG2038|consen 678 DPIGARGAKTPYDPRKRNPLFCNADHTSLWELLLLSKHFHPSVATFAKALLEGEEIQYG-----GPPLNDFTLMAF 748 (988)
T ss_pred cccccccCCCCCCcccCCccccCCccchHHHHHHHhhhcCchHHHHHHHHhcCceeecC-----CCchhHHHHHHH
Confidence 123468999999999999999999999999999999999999999998888763 346667765544
No 4
>COG5593 Nucleic-acid-binding protein possibly involved in ribosomal biogenesis [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.9e-46 Score=411.72 Aligned_cols=445 Identities=21% Similarity=0.230 Sum_probs=322.5
Q ss_pred HHHHHHHHHHHHHhCHHHhHHHHHHHHHHhhccChhhHHHHHHHHHHHHhh-hcCCCCCCCCchhh-hhhhhhHHHHHHH
Q 003141 193 KKCKLAELGMALLADPESNIKSLKEMLQIARDDNPSISKLGFLSLLAVFKD-IIPGYRIRLPTEKE-LEMKVSKEVKKMR 270 (844)
Q Consensus 193 ~kdkIAaL~~~I~edPe~ni~~Lk~L~~m~~~k~~~vrkLAilSL~~VFkD-IlP~YrIR~lte~E-~~~kvsKev~~lr 270 (844)
.+|+|++++++|+++|.||.++|++|+++|.++.+.+.--++-.|.++|.. ++|++++|.+..+. +.+.|.+.++++|
T Consensus 100 ~~DrIsalTLLVq~sP~h~~k~letLls~C~kksrn~a~q~l~~lKDLfi~gllp~rklry~k~q~~lsk~v~~k~l~~~ 179 (821)
T COG5593 100 VKDRISALTLLVQRSPSHNAKNLETLLSFCEKKSRNVAYQVLKNLKDLFISGLLPNRKLRYFKNQPGLSKEVQNKYLKQR 179 (821)
T ss_pred hhhhhhhhHhhhccCcchHHHHHHHHHHHHhcccccHHHHHHHHHHHHHhcccCcchhhHhhhcCcchhhhhcchHHHHH
Confidence 799999999999999999999999999999999999988899999999986 99999999887653 3355677789999
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCcc--hHHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhh
Q 003141 271 FYESTLLSAYKAYLQKLIASEKQPV--FHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFT 348 (844)
Q Consensus 271 ~fE~~Ll~~Y~~yLq~Le~l~k~~~--l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~ 348 (844)
+||+.|++.|..||+.||.++++|. ++.+.|+.+++||.+.|++++ |||.+.||+|||.+.+|++++.+.|-+|=.
T Consensus 180 ~fesflk~l~fr~levle~ls~d~i~~Vk~qvv~~VydLL~a~peqe~--nLl~L~INKlGDk~~kvsskasY~ilkLe~ 257 (821)
T COG5593 180 IFESFLKNLRFRVLEVLEVLSHDPIQYVKKQVVRLVYDLLEARPEQEV--NLLHLFINKLGDKRDKVSSKASYVILKLEL 257 (821)
T ss_pred HHHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHhcChHHHH--HHHHHHHHhhccchhhhhhhhhHHHHHHHh
Confidence 9999999999999999999999995 578899999999999999999 999999999999999999999999988877
Q ss_pred hccCCCCccHHHHHHHHHHhh----------------------hhcCCCCCHHHHHHhhcccccccccccCCCcc---h-
Q 003141 349 NEGKHGGVATVEAVRLIANHV----------------------KVKNCQLHPDFVEVFMSLSFDEDLQRREVPDD---K- 402 (844)
Q Consensus 349 ~D~~~~G~~sleiVr~I~~~v----------------------K~k~~~v~p~vl~~fL~Lr~~e~l~~~~~~~~---~- 402 (844)
.+ +|+..+ |+..|.++. +.+.-.|...++.+|+++ |...+..-+.+.. .
T Consensus 258 ~h---P~mk~V-V~d~Iedf~f~pn~~~~s~yyalitLnqt~l~~~e~~van~lv~vyf~~-f~kfl~n~~ke~~~~s~~ 332 (821)
T COG5593 258 LH---PGMKEV-VLDGIEDFYFKPNDLFRSRYYALITLNQTELENREKAVANKLVKVYFSI-FRKFLENIPKEHRVNSNI 332 (821)
T ss_pred cC---CchhHH-HHhhhhHheeccccccceeeeeehhhHHHHHhhhHHHHHHHHHHHHHHH-HHHHHhcCchhhcccchh
Confidence 65 564332 444444432 334445666777888876 5433321111110 0
Q ss_pred hhhhhhhhccccccccchhhHHHHHHHHHHHHHHHhHHHHHHHHHhhccCCCHHHHhhhhHHHHHHHHHHHHHHHhhhcc
Q 003141 403 SKVKNKKNNKRKSIEEPSQLQQNERKKNKKELMLKTREEVAAEYKAASLAPDVMEKRRMQTETISAVFETYFRILKHTMM 482 (844)
Q Consensus 403 ~~~K~Kk~kkrk~~~~~~~ls~~~~KK~kKe~~~K~~kele~El~Eaea~~d~~er~k~qteiL~~vF~iYFRILK~~~~ 482 (844)
...|..++-+ |+ ++ .-|..| ..+.++++ +++....+|.
T Consensus 333 leek~~~~~~-Kn----k~-----s~K~~k--~e~~rkev-------------------~~eknS~~~s----------- 370 (821)
T COG5593 333 LEEKLVIGLG-KN----KG-----SEKICK--TEIIRKEV-------------------HTEKNSFYGS----------- 370 (821)
T ss_pred HHHHHHhhhc-cC----CC-----Cccccc--HHHHHHHH-------------------HHhhhhHHHH-----------
Confidence 1112221100 00 00 001111 12223333 2333333332
Q ss_pred ccccccccccccCCCCCCCccchHHHHhhhhcccccCChhhHHHHHHHHHHHhcCCCCCCCCCCCCCCccchhhHHHHHH
Q 003141 483 FTAVSSEANASSIGGASGAHPLLAPCLKGLGKFSHLIDLDYIGDLMNYLKRLAGGGSSNDGPSQKNSNHLTVTERLRCCI 562 (844)
Q Consensus 483 ~~~~~~~~~~ra~p~a~~~s~LL~~vLeGL~KfaHlIN~df~~DLl~vL~~Li~~~~~~~~~~~~~~~~ls~~~~L~ci~ 562 (844)
+-++|+|||+|||..++..+..++++|+|++|..+++ ++.++++
T Consensus 371 ---avLtG~nRa~pfa~l~~~~~~~Hm~tlfkith~~~fn---------------------------------ts~qalm 414 (821)
T COG5593 371 ---AVLTGCNRAGPFALLFRNAVKSHMMTLFKITHEFLFN---------------------------------TSEQALM 414 (821)
T ss_pred ---HHHhcccccCchhhhhHHHHHHHHHHHHhhhhhhhhh---------------------------------HHHHHHH
Confidence 2236999999999999999999999999999987643 2233333
Q ss_pred HHHHHHhhccccccCChHHHHHHHHHhhhccCCCC--ChHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHhccC-hH
Q 003141 563 VAFRVMRNNLDALNVDLQDFFVQLYNLILEYRPGR--DQGEVLAEALKIMLCDDRQHDMQKAAAFVKRLATFSLSIG-SA 639 (844)
Q Consensus 563 taF~LL~~~g~alniD~~rFY~~LY~~L~~~~~~~--~~~~~ll~~L~~~l~~~~~~~~~RvaAFiKRLl~~aL~~p-~~ 639 (844)
.+++.- -..-+|.+|||+.||..|++++... .++.++ .+|...| +-+..+.||-||+||++|++-+|. ++
T Consensus 415 li~q~~----~~~~l~SdryY~~lYesl~dprls~ssKqgiyl-nllykSL--~vd~nV~rv~af~kr~lQv~S~w~~~p 487 (821)
T COG5593 415 LIDQEF----YRFLLDSDRYYTPLYESLIDPRLSESSKQGIYL-NLLYKSL--RVDTNVHRVDAFRKRALQVISGWMVLP 487 (821)
T ss_pred HHHHHH----HHHhhccchhhhhHHHHHhhhhhhcccccchhH-HHHHHHH--HHhcCchHHHHHHHHHHHHhhccccCC
Confidence 333332 2345779999999999999988755 455443 3444333 124578999999999999976543 44
Q ss_pred HHHHHHHHHHHHHhhccccccccccccCCC----Ccc---c----CCCCCCCCCCCCCCCCCCchhHHHHHHHhhCcChH
Q 003141 640 ESMAALVTLKNLLQKNIKCRNLLENDAGGG----SVS---G----SISIYQPYAMDPNLSGALASVLWEINLLSKHYHPS 708 (844)
Q Consensus 640 ~ala~L~li~~Ll~~~P~l~~LLe~e~~~g----~vs---g----~~~~Ydp~~~DPe~~nA~~S~LWEL~lL~~HyHPs 708 (844)
+.-|....+.+|...-|.+++||.|...+- .++ | --..||...|||.|+||..|||||++.+-+||||+
T Consensus 488 ~~tg~f~~l~ql~~a~~~lk~l~tn~~vd~e~e~d~~eeq~dkd~krkeydgrkrdpk~anae~s~lwei~~finhfhpt 567 (821)
T COG5593 488 FDTGDFMSLLQLEMACGDLKNLLTNTPVDYEYESDAEEEQGDKDIKRKEYDGRKRDPKFANAEKSSLWEINNFINHFHPT 567 (821)
T ss_pred ccchHHHHHHHHHHHhHHHHHHhcCCCcccccccchhhhhcccchhhhhccCcccCcccccccccchhhhhhhhhhcccH
Confidence 556666677888889999999997654221 111 1 12369999999999999999999999999999999
Q ss_pred HHHHHHHhhcCCCCCCccccC
Q 003141 709 ISTAASSIAGMNSAHNQVYHA 729 (844)
Q Consensus 709 V~~~A~~i~~~~~~~~~~~l~ 729 (844)
|..+|+....+...-..|+|+
T Consensus 568 v~~~a~a~v~ge~~i~kp~l~ 588 (821)
T COG5593 568 VKTYANAYVTGEEQIAKPDLG 588 (821)
T ss_pred HHHHHHHhhhhhhhhcCCCcc
Confidence 999999986554322334444
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=3.3e-33 Score=278.73 Aligned_cols=153 Identities=33% Similarity=0.572 Sum_probs=131.5
Q ss_pred HHHHHHHHHHHHhhccccccCChHHHHHHHHHhhhccCCCC--ChHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHh
Q 003141 557 RLRCCIVAFRVMRNNLDALNVDLQDFFVQLYNLILEYRPGR--DQGEVLAEALKIMLCDDRQHDMQKAAAFVKRLATFSL 634 (844)
Q Consensus 557 ~L~ci~taF~LL~~~g~alniD~~rFY~~LY~~L~~~~~~~--~~~~~ll~~L~~~l~~~~~~~~~RvaAFiKRLl~~aL 634 (844)
+++|+.++|+|++++ |+|+++||++||++|+++.... ++..+|++||+.+| ++++++..||+||+|||+|+|+
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 466677777788874 9999999999999997543322 34567999999998 6678899999999999999999
Q ss_pred ccChHHHHHHHHHHHHHHhhccccccccccccCCC--C------cccCCCCCCCCCCCCCCCCCCchhHHHHHHHhhCcC
Q 003141 635 SIGSAESMAALVTLKNLLQKNIKCRNLLENDAGGG--S------VSGSISIYQPYAMDPNLSGALASVLWEINLLSKHYH 706 (844)
Q Consensus 635 ~~p~~~ala~L~li~~Ll~~~P~l~~LLe~e~~~g--~------vsg~~~~Ydp~~~DPe~~nA~~S~LWEL~lL~~HyH 706 (844)
++||++++++|.+|++|+++||.|..|++++...+ | ..+..+.|+|+.+||++|||.+|+||||.+|++|||
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 99999999999999999999999999998876431 1 112345999999999999999999999999999999
Q ss_pred hHHHHHHH
Q 003141 707 PSISTAAS 714 (844)
Q Consensus 707 PsV~~~A~ 714 (844)
|+|+.+|+
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=99.95 E-value=3.3e-26 Score=251.36 Aligned_cols=226 Identities=23% Similarity=0.230 Sum_probs=174.7
Q ss_pred CccchHHHHhhhhc--ccccCChhhHHHHHHHHHHHhcCCCCCCCCCCCCCCccchhhHHHHHHHHHHHHhhccccccCC
Q 003141 501 AHPLLAPCLKGLGK--FSHLIDLDYIGDLMNYLKRLAGGGSSNDGPSQKNSNHLTVTERLRCCIVAFRVMRNNLDALNVD 578 (844)
Q Consensus 501 ~s~LL~~vLeGL~K--faHlIN~df~~DLl~vL~~Li~~~~~~~~~~~~~~~~ls~~~~L~ci~taF~LL~~~g~alniD 578 (844)
+..+...+|-++-+ ..|++...-+-|++.-..+-++ + .-+|+++..+|.||+. +|++
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 45566667777766 6788887666666655554221 1 1358899999999986 7999
Q ss_pred hHHHHHHHHHhhhccCCCCChHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHhhcccc
Q 003141 579 LQDFFVQLYNLILEYRPGRDQGEVLAEALKIMLCDDRQHDMQKAAAFVKRLATFSLSIGSAESMAALVTLKNLLQKNIKC 658 (844)
Q Consensus 579 ~~rFY~~LY~~L~~~~~~~~~~~~ll~~L~~~l~~~~~~~~~RvaAFiKRLl~~aL~~p~~~ala~L~li~~Ll~~~P~l 658 (844)
++.||..||++|.+--...+....|++++|++| .+.|+|.+-||||+|||+++||..||..++.++.+|.+|+++||.|
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 999999999998763334455556889999876 6789999999999999999999999999999999999999999999
Q ss_pred ccccccccCCCCcccCCCCCCCCCCCCCCCCCCchhHHHHHHHhhCcChHHHHHHHHhhcCCCC-CCc-cccCCCChHHH
Q 003141 659 RNLLENDAGGGSVSGSISIYQPYAMDPNLSGALASVLWEINLLSKHYHPSISTAASSIAGMNSA-HNQ-VYHAILSPQQA 736 (844)
Q Consensus 659 ~~LLe~e~~~g~vsg~~~~Ydp~~~DPe~~nA~~S~LWEL~lL~~HyHPsV~~~A~~i~~~~~~-~~~-~~l~~~~p~e~ 736 (844)
+.|++++.+-+ +..++||++..||..++|..|+||||.+|++||||.|+..|+.|...... .+. -++-..+-..+
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 99999886533 34579999999999999999999999999999999999999999543322 221 12222445555
Q ss_pred HHhcccccccccCCCC
Q 003141 737 FMDLLLERESFNSKSD 752 (844)
Q Consensus 737 ~~~~~~~~~~f~p~~~ 752 (844)
++. +.++..+++|.+
T Consensus 467 ~d~-el~~kgk~~p~l 481 (505)
T KOG2154|consen 467 QDG-ELSRKGKRFPPL 481 (505)
T ss_pred hcc-hhhcccCCCCCc
Confidence 555 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=2e-28 Score=222.48 Aligned_cols=94 Identities=53% Similarity=0.808 Sum_probs=91.6
Q ss_pred HHHHHHHHHHHHHHHHhCHHHhHHHHHHHHHHhhcc-ChhhHHHHHHHHHHHHhhhcCCCCCCCCchhhhhhhhhHHHHH
Q 003141 190 FESKKCKLAELGMALLADPESNIKSLKEMLQIARDD-NPSISKLGFLSLLAVFKDIIPGYRIRLPTEKELEMKVSKEVKK 268 (844)
Q Consensus 190 ~~~~kdkIAaL~~~I~edPe~ni~~Lk~L~~m~~~k-~~~vrkLAilSL~~VFkDIlP~YrIR~lte~E~~~kvsKev~~ 268 (844)
|+++|.+||.+|+.|++|||+|++.|++|+.||.+. +.+|++|||+||++||+|||||||||++|++|+.+|+||+|++
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 468899999999999999999999999999999999 8999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHH
Q 003141 269 MRFYESTLLSAYKAY 283 (844)
Q Consensus 269 lr~fE~~Ll~~Y~~y 283 (844)
+|.||++|+++|++|
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=99.14 E-value=3.6e-08 Score=113.90 Aligned_cols=112 Identities=22% Similarity=0.307 Sum_probs=98.5
Q ss_pred HHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHhhccccccccccccCCCCcccCCCCCCC
Q 003141 601 EVLAEALKIMLCDDRQHDMQKAAAFVKRLATFSLSIGSAESMAALVTLKNLLQKNIKCRNLLENDAGGGSVSGSISIYQP 680 (844)
Q Consensus 601 ~~ll~~L~~~l~~~~~~~~~RvaAFiKRLl~~aL~~p~~~ala~L~li~~Ll~~~P~l~~LLe~e~~~g~vsg~~~~Ydp 680 (844)
.+|+.|...+|..++-.+.+|..+|.||+..++.+.|...+++.++++..+|-+|+.+..++..+..-| .|.|.+
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 568888888888887889999999999999999999999999999999999999998888776554322 237999
Q ss_pred CCCCCCCCCCCchhHHHHHHHhhCcChHHHHHHHHhh
Q 003141 681 YAMDPNLSGALASVLWEINLLSKHYHPSISTAASSIA 717 (844)
Q Consensus 681 ~~~DPe~~nA~~S~LWEL~lL~~HyHPsV~~~A~~i~ 717 (844)
.+.+|+.+|..++.|||-.+|..||+|+|..-++++.
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=89.49 E-value=4.5 Score=49.48 Aligned_cols=114 Identities=21% Similarity=0.200 Sum_probs=72.5
Q ss_pred CCccchHHHHhhhhcccccC--ChhhHHHHHHHHHHHhcCCCCCCCCCCCCCCccchhhHHHHHHHHHHHHhhccccccC
Q 003141 500 GAHPLLAPCLKGLGKFSHLI--DLDYIGDLMNYLKRLAGGGSSNDGPSQKNSNHLTVTERLRCCIVAFRVMRNNLDALNV 577 (844)
Q Consensus 500 ~~s~LL~~vLeGL~KfaHlI--N~df~~DLl~vL~~Li~~~~~~~~~~~~~~~~ls~~~~L~ci~taF~LL~~~g~alni 577 (844)
.+|++|+|+|.|++|..++. +-+-+...|.+|+.|.+ ...+++.++|+.||.+ +.+
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 47899999999999955554 34578888888988875 4699999999999986 111
Q ss_pred ChHHHHHHHHHhhhccCCCCChHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHhh
Q 003141 578 DLQDFFVQLYNLILEYRPGRDQGEVLAEALKIMLCDDRQHDMQKAAAFVKRLATFSLSIGSAESMAALVTLKNLLQK 654 (844)
Q Consensus 578 D~~rFY~~LY~~L~~~~~~~~~~~~ll~~L~~~l~~~~~~~~~RvaAFiKRLl~~aL~~p~~~ala~L~li~~Ll~~ 654 (844)
...|.+ ..++++|+.-|+.-+-.+....+-|++=|... |-... .+--+=+|++.|+|.
T Consensus 527 -~~~~vS----------------DRyY~aLY~kLLdP~l~~sSKq~m~LnLlyks-lK~D~-ni~RV~AFvKRlLQV 584 (988)
T KOG2038|consen 527 -KNDYVS----------------DRYYRALYRKLLDPRLMNSSKQAMFLNLLYKS-LKEDI-NIQRVRAFVKRLLQV 584 (988)
T ss_pred -hhhhhH----------------HHHHHHHHHHhcCcccCchHHHHHHHHHHHHH-HHhhh-hHHHHHHHHHHHHHH
Confidence 223332 12344444333333445566667777655543 43333 233445778888774
No 10
>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=89.43 E-value=13 Score=38.78 Aligned_cols=105 Identities=13% Similarity=0.235 Sum_probs=69.1
Q ss_pred HHHHHHHHHHhcCCc--chHHHHHHHHHHHhhcCCCCchHHHH-HHHHHHhhCCCcHHHHHHHHHHHHHHhhhccCCCCc
Q 003141 280 YKAYLQKLIASEKQP--VFHQVVVRCICNLLDAVPHFNCCEIL-LEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHGGV 356 (844)
Q Consensus 280 Y~~yLq~Le~l~k~~--~l~~~Avkclc~LL~~~PhFNf~~nL-L~~lV~kLg~~~~~Va~~c~~al~~Lf~~D~~~~G~ 356 (844)
...|+..|.....++ .++..|..|+..+....+ +...+ +..+...+.++++.++..|+..+..++...+.....
T Consensus 92 ~~~~l~~Ll~~~~~~~~~i~~~a~~~L~~i~~~~~---~~~~~~~~~l~~~~~~Kn~~vR~~~~~~l~~~l~~~~~~~~~ 168 (228)
T PF12348_consen 92 ADILLPPLLKKLGDSKKFIREAANNALDAIIESCS---YSPKILLEILSQGLKSKNPQVREECAEWLAIILEKWGSDSSV 168 (228)
T ss_dssp HHHHHHHHHHGGG---HHHHHHHHHHHHHHHTTS----H--HHHHHHHHHHTT-S-HHHHHHHHHHHHHHHTT-----GG
T ss_pred HHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHCC---cHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHccchHhh
Confidence 445666665554443 578899999999998877 33355 889999999999999999999999999986410111
Q ss_pred cH-----HHHHHHHHHhhhhcCCCCCHHHHHHhhcc
Q 003141 357 AT-----VEAVRLIANHVKVKNCQLHPDFVEVFMSL 387 (844)
Q Consensus 357 ~s-----leiVr~I~~~vK~k~~~v~p~vl~~fL~L 387 (844)
.. -.++..|.+.+...+..|+...-.+|..+
T Consensus 169 l~~~~~~~~l~~~l~~~l~D~~~~VR~~Ar~~~~~l 204 (228)
T PF12348_consen 169 LQKSAFLKQLVKALVKLLSDADPEVREAARECLWAL 204 (228)
T ss_dssp G--HHHHHHHHHHHHHHHTSS-HHHHHHHHHHHHHH
T ss_pred hcccchHHHHHHHHHHHCCCCCHHHHHHHHHHHHHH
Confidence 11 24677777777777767777667777665
No 11
>PTZ00429 beta-adaptin; Provisional
Probab=87.97 E-value=84 Score=39.50 Aligned_cols=59 Identities=12% Similarity=0.075 Sum_probs=41.8
Q ss_pred CCcchHHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhc
Q 003141 292 KQPVFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNE 350 (844)
Q Consensus 292 k~~~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D 350 (844)
.+|..+..|+-|+..|....|+--....++..+...|.|++..|..-|+.+|.++-..+
T Consensus 152 ~~pYVRKtAalai~Kly~~~pelv~~~~~~~~L~~LL~D~dp~Vv~nAl~aL~eI~~~~ 210 (746)
T PTZ00429 152 PDPYVRKTAAMGLGKLFHDDMQLFYQQDFKKDLVELLNDNNPVVASNAAAIVCEVNDYG 210 (746)
T ss_pred CCHHHHHHHHHHHHHHHhhCcccccccchHHHHHHHhcCCCccHHHHHHHHHHHHHHhC
Confidence 34567888999999998887764222244555555678888888888888888876554
No 12
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=86.48 E-value=2.3 Score=43.33 Aligned_cols=55 Identities=22% Similarity=0.296 Sum_probs=48.1
Q ss_pred cchHHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhc
Q 003141 294 PVFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNE 350 (844)
Q Consensus 294 ~~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D 350 (844)
|.++.-|+-|+|+|....| |.-+..+..+...|.|+++.|+..|+.+|..|+.+|
T Consensus 2 ~~vR~n~i~~l~DL~~r~~--~~ve~~~~~l~~~L~D~~~~VR~~al~~Ls~Li~~d 56 (178)
T PF12717_consen 2 PSVRNNAIIALGDLCIRYP--NLVEPYLPNLYKCLRDEDPLVRKTALLVLSHLILED 56 (178)
T ss_pred HHHHHHHHHHHHHHHHhCc--HHHHhHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcC
Confidence 4567889999999999999 455678889999999999999999999999999886
No 13
>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=84.66 E-value=35 Score=41.24 Aligned_cols=57 Identities=16% Similarity=0.219 Sum_probs=41.4
Q ss_pred CcchHHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhcc
Q 003141 293 QPVFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEG 351 (844)
Q Consensus 293 ~~~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D~ 351 (844)
+..++..||+-+-.+-...|++ -..+..+|+..|..-+......|..+|.+||+.|+
T Consensus 72 d~~iR~~aik~lp~~ck~~~~~--v~kvaDvL~QlL~tdd~~E~~~v~~sL~~ll~~d~ 128 (556)
T PF05918_consen 72 DVQIRKQAIKGLPQLCKDNPEH--VSKVADVLVQLLQTDDPVELDAVKNSLMSLLKQDP 128 (556)
T ss_dssp SHHHHHHHHHHGGGG--T--T---HHHHHHHHHHHTT---HHHHHHHHHHHHHHHHH-H
T ss_pred cHHHHHHHHHhHHHHHHhHHHH--HhHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcCc
Confidence 3467888999888888888874 45999999999998888888899999999999995
No 14
>PTZ00429 beta-adaptin; Provisional
Probab=80.00 E-value=1.8e+02 Score=36.77 Aligned_cols=87 Identities=16% Similarity=0.090 Sum_probs=52.5
Q ss_pred HHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhccCCCCccHHHHHHHHHHhhhhcCCCC
Q 003141 297 HQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHVKVKNCQL 376 (844)
Q Consensus 297 ~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D~~~~G~~sleiVr~I~~~vK~k~~~v 376 (844)
+.-|++.+..+...-- --..++.-||+.+.+.+-.+..+|+-.+....+.++ +..+-+|..+.+=+...|.-|
T Consensus 49 kk~alKkvIa~mt~G~---DvS~LF~dVvk~~~S~d~elKKLvYLYL~~ya~~~p----elalLaINtl~KDl~d~Np~I 121 (746)
T PTZ00429 49 KKAAVKRIIANMTMGR---DVSYLFVDVVKLAPSTDLELKKLVYLYVLSTARLQP----EKALLAVNTFLQDTTNSSPVV 121 (746)
T ss_pred HHHHHHHHHHHHHCCC---CchHHHHHHHHHhCCCCHHHHHHHHHHHHHHcccCh----HHHHHHHHHHHHHcCCCCHHH
Confidence 4456666655554331 235688888899999999999999988888866542 333334444444444444444
Q ss_pred CHHHHHHhhccccc
Q 003141 377 HPDFVEVFMSLSFD 390 (844)
Q Consensus 377 ~p~vl~~fL~Lr~~ 390 (844)
+.-.|.++-+++..
T Consensus 122 RaLALRtLs~Ir~~ 135 (746)
T PTZ00429 122 RALAVRTMMCIRVS 135 (746)
T ss_pred HHHHHHHHHcCCcH
Confidence 44455665555443
No 15
>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=79.13 E-value=28 Score=41.42 Aligned_cols=105 Identities=14% Similarity=0.295 Sum_probs=66.0
Q ss_pred HHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhhcCCC-----CchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhcc
Q 003141 277 LSAYKAYLQKLIASEKQPVFHQVVVRCICNLLDAVPH-----FNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEG 351 (844)
Q Consensus 277 l~~Y~~yLq~Le~l~k~~~l~~~Avkclc~LL~~~Ph-----FNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D~ 351 (844)
...|..||+..-.- .++.++..|++.++.++..... -+ .+++..|+..|++++..|+..|+.+|..+....
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 44555555554332 2346778888877777654432 22 378999999999999999999999999999864
Q ss_pred CCCCccHH---HHHHHHHHhhhhcCCCCCHHHHHHhhcc
Q 003141 352 KHGGVATV---EAVRLIANHVKVKNCQLHPDFVEVFMSL 387 (844)
Q Consensus 352 ~~~G~~sl---eiVr~I~~~vK~k~~~v~p~vl~~fL~L 387 (844)
.|...+ .++..+.+++...+-.++-.+++++-.+
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 1256666665443333444455554443
No 16
>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=78.08 E-value=4.4 Score=29.35 Aligned_cols=29 Identities=17% Similarity=0.304 Sum_probs=25.1
Q ss_pred HHHHHHHhhCCCcHHHHHHHHHHHHHHhh
Q 003141 320 LLEVVVRNLGSQDVVVRKLCCATIKSLFT 348 (844)
Q Consensus 320 LL~~lV~kLg~~~~~Va~~c~~al~~Lf~ 348 (844)
|+..++..++|++..||..++.+|..+.+
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 17
>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=74.74 E-value=2.5 Score=34.26 Aligned_cols=51 Identities=18% Similarity=0.216 Sum_probs=36.6
Q ss_pred hHHHHHHHHHHHhhcCCC--CchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHH
Q 003141 296 FHQVVVRCICNLLDAVPH--FNCCEILLEVVVRNLGSQDVVVRKLCCATIKSL 346 (844)
Q Consensus 296 l~~~Avkclc~LL~~~Ph--FNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~L 346 (844)
.+..|+.++-.+....|+ ..|...++..+++.|.|++..|+..+|.+|.+|
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 455666666554332222 125668999999999999999999999999764
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=73.92 E-value=1.1e+02 Score=32.56 Aligned_cols=159 Identities=18% Similarity=0.192 Sum_probs=95.5
Q ss_pred HhCHHHhHHHHHHHHHHhhccChhhHHHHHHHHHHHHhhhcCCCCCCCCchhhhhhhhhHHHHHHHHHHHHHHHHHHHHH
Q 003141 205 LADPESNIKSLKEMLQIARDDNPSISKLGFLSLLAVFKDIIPGYRIRLPTEKELEMKVSKEVKKMRFYESTLLSAYKAYL 284 (844)
Q Consensus 205 ~edPe~ni~~Lk~L~~m~~~k~~~vrkLAilSL~~VFkDIlP~YrIR~lte~E~~~kvsKev~~lr~fE~~Ll~~Y~~yL 284 (844)
..+|..-...|+.|-.+|..++ ....+++..|..+=.. -. .+...-.-.-+..+|.-+...- .||
T Consensus 12 ~~~~~~~~~~L~~L~~l~~~~~-~~~~~v~~~L~~L~~~----~~------~~~~~~~~rLl~~lw~~~~r~f----~~L 76 (234)
T PF12530_consen 12 ISDPELQLPLLEALPSLACHKN-VCVPPVLQTLVSLVEQ----GS------LELRYVALRLLTLLWKANDRHF----PFL 76 (234)
T ss_pred CCChHHHHHHHHHHHHHhccCc-cchhHHHHHHHHHHcC----Cc------hhHHHHHHHHHHHHHHhCchHH----HHH
Confidence 4688888999999999998886 5555555554444110 00 0000011133344555555333 455
Q ss_pred HHHHHh---------cCCcchHHHHH---HHHHHHhhcCCCCchHHHHHHHHHHhh-CCCcHHHHHHHHHHHHHHhhhcc
Q 003141 285 QKLIAS---------EKQPVFHQVVV---RCICNLLDAVPHFNCCEILLEVVVRNL-GSQDVVVRKLCCATIKSLFTNEG 351 (844)
Q Consensus 285 q~Le~l---------~k~~~l~~~Av---kclc~LL~~~PhFNf~~nLL~~lV~kL-g~~~~~Va~~c~~al~~Lf~~D~ 351 (844)
+.+... .......+.-+ .++..+-...|+ ....++..+...| ++.+..+...|+++|..|+..+.
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 11122222222 355666667777 7889999999999 88888899999999999997762
Q ss_pred CCCCccHHHHHHHHHHhhhhcCCCCCHHHHHHhhcc
Q 003141 352 KHGGVATVEAVRLIANHVKVKNCQLHPDFVEVFMSL 387 (844)
Q Consensus 352 ~~~G~~sleiVr~I~~~vK~k~~~v~p~vl~~fL~L 387 (844)
+++...-.-+.+.-++..+|.++..+.++
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 22333333233333888999999866655
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=73.09 E-value=20 Score=32.38 Aligned_cols=110 Identities=13% Similarity=0.084 Sum_probs=71.4
Q ss_pred HHHHHHHHHhhccChhhHHHHHHHHHHHHhhhcCCCCCCCCchhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 003141 213 KSLKEMLQIARDDNPSISKLGFLSLLAVFKDIIPGYRIRLPTEKELEMKVSKEVKKMRFYESTLLSAYKAYLQKLIASEK 292 (844)
Q Consensus 213 ~~Lk~L~~m~~~k~~~vrkLAilSL~~VFkDIlP~YrIR~lte~E~~~kvsKev~~lr~fE~~Ll~~Y~~yLq~Le~l~k 292 (844)
+.+..|+.++.+.+..++.-|+.+|..+..+- +. ..... .+.+. +..+++.|. ..
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 35677888888888888888888877775441 10 00110 11111 222222222 13
Q ss_pred CcchHHHHHHHHHHHhhcCCC---CchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHh
Q 003141 293 QPVFHQVVVRCICNLLDAVPH---FNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLF 347 (844)
Q Consensus 293 ~~~l~~~Avkclc~LL~~~Ph---FNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf 347 (844)
++.++..|+.+++.|....|. .-....++..++..|++.+..++..++.+|..|.
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 557888999999999876542 1122357999999999999999999999998875
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=72.87 E-value=13 Score=43.46 Aligned_cols=176 Identities=15% Similarity=0.193 Sum_probs=98.9
Q ss_pred HhCHHHhHHHHHHHHHHhhccChhhHHHHHHHHHHHHh---hhcCCCCC-----CCCchhhhhhhhhHHHHHHHHH---H
Q 003141 205 LADPESNIKSLKEMLQIARDDNPSISKLGFLSLLAVFK---DIIPGYRI-----RLPTEKELEMKVSKEVKKMRFY---E 273 (844)
Q Consensus 205 ~edPe~ni~~Lk~L~~m~~~k~~~vrkLAilSL~~VFk---DIlP~YrI-----R~lte~E~~~kvsKev~~lr~f---E 273 (844)
+.+|+--=.-+..+..++.+.++.||+-|++++..+|+ |++|.. + +.+.+....+ +.--+..+... +
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 33677655567777788888899999999999999997 455543 2 1223322111 12223333333 3
Q ss_pred HHHHHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhcc
Q 003141 274 STLLSAYKAYLQKLIASEK--QPVFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEG 351 (844)
Q Consensus 274 ~~Ll~~Y~~yLq~Le~l~k--~~~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D~ 351 (844)
+........++..|.++-. +|-+...+++++..+....|+......++..+.+.+.+.+..|...|+.++..+...+.
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 3322333344444444423 33345556666665544433333114689999999988888887777777776655431
Q ss_pred CCCCccHHHHHHHHHHhhhhcCCCCCHHHHHHhhcc
Q 003141 352 KHGGVATVEAVRLIANHVKVKNCQLHPDFVEVFMSL 387 (844)
Q Consensus 352 ~~~G~~sleiVr~I~~~vK~k~~~v~p~vl~~fL~L 387 (844)
.--.++..+.+++...+.++.=-+++++..+
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 1223666666776544433333344544443
No 21
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=71.76 E-value=17 Score=33.73 Aligned_cols=52 Identities=15% Similarity=0.193 Sum_probs=40.4
Q ss_pred HHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhc
Q 003141 298 QVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNE 350 (844)
Q Consensus 298 ~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D 350 (844)
.+++..++.-|... --+|.+.|+..|++-++|++.+||..+|++|..+.+.-
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 34555555555444 23456789999999999999999999999999998864
No 22
>PF14664 RICTOR_N: Rapamycin-insensitive companion of mTOR, N-term
Probab=68.31 E-value=42 Score=38.56 Aligned_cols=154 Identities=16% Similarity=0.148 Sum_probs=92.0
Q ss_pred HHHHHHHHHHhCH----HHhHH-HHHHHHHHhhccChhhHHHHHHHHHHHHhh----------hcCCCCCCCCch-----
Q 003141 196 KLAELGMALLADP----ESNIK-SLKEMLQIARDDNPSISKLGFLSLLAVFKD----------IIPGYRIRLPTE----- 255 (844)
Q Consensus 196 kIAaL~~~I~edP----e~ni~-~Lk~L~~m~~~k~~~vrkLAilSL~~VFkD----------IlP~YrIR~lte----- 255 (844)
+...|+..+..+| +-.+. ...++..|+-..+..||-.|+.-+.-++.| =++-+=||.+.-
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 3456667777777 33333 334444444444465655555544333333 234445555532
Q ss_pred hhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC--cchHHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcH
Q 003141 256 KELEMKVSKEVKKMRFYESTLLSAYKAYLQKLIASEKQ--PVFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDV 333 (844)
Q Consensus 256 ~E~~~kvsKev~~lr~fE~~Ll~~Y~~yLq~Le~l~k~--~~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~ 333 (844)
.|..+ .=|=|+++.++.++-...=..-++.|.++..+ ..++.+|+..+|+|+...|+-=++.+-+..+++.+.+..-
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 11222222233222222224456666665433 3699999999999999999987778888999999998666
Q ss_pred HHHHHHHHHHHHHhhhc
Q 003141 334 VVRKLCCATIKSLFTNE 350 (844)
Q Consensus 334 ~Va~~c~~al~~Lf~~D 350 (844)
.+++.|+.++-.++...
T Consensus 162 ~~~~~l~~~lL~lLd~p 178 (371)
T PF14664_consen 162 SISESLLDTLLYLLDSP 178 (371)
T ss_pred hHHHHHHHHHHHHhCCc
Confidence 69999999999999875
No 23
>KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only]
Probab=67.44 E-value=1e+02 Score=39.33 Aligned_cols=55 Identities=18% Similarity=0.263 Sum_probs=44.1
Q ss_pred chHHHHHHHHHHHhhcCCCC--chHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhh
Q 003141 295 VFHQVVVRCICNLLDAVPHF--NCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTN 349 (844)
Q Consensus 295 ~l~~~Avkclc~LL~~~PhF--Nf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~ 349 (844)
..+-.++..||++|...-.+ ||+.-|+..+++.|+++...|+.++|.+|..|...
T Consensus 148 ai~~e~lDil~d~lsr~g~ll~~fh~~il~~l~~ql~s~R~aVrKkai~~l~~la~~ 204 (1233)
T KOG1824|consen 148 AIKCEVLDILADVLSRFGTLLPNFHLSILKCLLPQLQSPRLAVRKKAITALGHLASS 204 (1233)
T ss_pred hhHHHHHHHHHHHHHhhcccCcchHHHHHHHHhhcccChHHHHHHHHHHHHHHHHHh
Confidence 35666788889988764332 57889999999999999999999999888876543
No 24
>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=65.63 E-value=20 Score=37.20 Aligned_cols=88 Identities=16% Similarity=0.323 Sum_probs=57.9
Q ss_pred chHHHHHHHHHHHhhc-CCCCc-hHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhccCCCCccHHHH-HHHHHHhhhh
Q 003141 295 VFHQVVVRCICNLLDA-VPHFN-CCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHGGVATVEA-VRLIANHVKV 371 (844)
Q Consensus 295 ~l~~~Avkclc~LL~~-~PhFN-f~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D~~~~G~~slei-Vr~I~~~vK~ 371 (844)
.+...|+.|+..|... ..+|. |-+.++..|+.++|++...|+..+..+|..++..- + ..-.+ +..+....+.
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 3556677777666543 33464 66789999999999999999999999999999863 2 11223 7777777888
Q ss_pred cCCCCCHHHHHHhhcc
Q 003141 372 KNCQLHPDFVEVFMSL 387 (844)
Q Consensus 372 k~~~v~p~vl~~fL~L 387 (844)
++..++..++.++..+
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 8777777666665443
No 25
>KOG1059 consensus Vesicle coat complex AP-3, delta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=63.98 E-value=23 Score=43.48 Aligned_cols=94 Identities=13% Similarity=0.211 Sum_probs=69.9
Q ss_pred HHHHHHHh--cCCcchHHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhccCCCCccHHH
Q 003141 283 YLQKLIAS--EKQPVFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHGGVATVE 360 (844)
Q Consensus 283 yLq~Le~l--~k~~~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D~~~~G~~sle 360 (844)
-+|.|..+ ..|++++=+++-||..++..||-+=. .=..++++-|.|.|..|+.++++.+......+. + .+
T Consensus 300 CvqKLr~fiedsDqNLKYlgLlam~KI~ktHp~~Vq--a~kdlIlrcL~DkD~SIRlrALdLl~gmVskkN-----l-~e 371 (877)
T KOG1059|consen 300 CVQKLRIFIEDSDQNLKYLGLLAMSKILKTHPKAVQ--AHKDLILRCLDDKDESIRLRALDLLYGMVSKKN-----L-ME 371 (877)
T ss_pred HHHHHhhhhhcCCccHHHHHHHHHHHHhhhCHHHHH--HhHHHHHHHhccCCchhHHHHHHHHHHHhhhhh-----H-HH
Confidence 34444444 35789999999999999999998765 557889999999999999999999988877762 2 46
Q ss_pred HHHHH-HHhhhhcCCCCCHHHHHHh
Q 003141 361 AVRLI-ANHVKVKNCQLHPDFVEVF 384 (844)
Q Consensus 361 iVr~I-~~~vK~k~~~v~p~vl~~f 384 (844)
||+.+ .+++++-+-+++.+++...
T Consensus 372 IVk~LM~~~~~ae~t~yrdell~~I 396 (877)
T KOG1059|consen 372 IVKTLMKHVEKAEGTNYRDELLTRI 396 (877)
T ss_pred HHHHHHHHHHhccchhHHHHHHHHH
Confidence 77554 4445665556666665443
No 26
>KOG1222 consensus Kinesin associated protein KAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=63.22 E-value=81 Score=37.44 Aligned_cols=74 Identities=19% Similarity=0.270 Sum_probs=38.6
Q ss_pred HHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhccCCCCccHHHHHHHHHHhhhhcCCCCCHHH----HHHhhccccccc
Q 003141 317 CEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHVKVKNCQLHPDF----VEVFMSLSFDED 392 (844)
Q Consensus 317 ~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D~~~~G~~sleiVr~I~~~vK~k~~~v~p~v----l~~fL~Lr~~e~ 392 (844)
|.||+.++|.-|...+-..-..++.-|..|=--+.+..-+....||..+-++.- --||++ +..++.+.|+..
T Consensus 302 rkniV~mLVKaLdr~n~~Ll~lv~~FLkKLSIf~eNK~~M~~~~iveKL~klfp----~~h~dL~~~tl~LlfNlSFD~g 377 (791)
T KOG1222|consen 302 RKNIVAMLVKALDRSNSSLLTLVIKFLKKLSIFDENKIVMEQNGIVEKLLKLFP----IQHPDLRKATLMLLFNLSFDSG 377 (791)
T ss_pred HHhHHHHHHHHHcccchHHHHHHHHHHHHhhhhccchHHHHhccHHHHHHHhcC----CCCHHHHHHHHHHhhhcccccc
Confidence 457888888877766655444555555543222211112222334544444431 225554 566788888765
Q ss_pred cc
Q 003141 393 LQ 394 (844)
Q Consensus 393 l~ 394 (844)
+.
T Consensus 378 lr 379 (791)
T KOG1222|consen 378 LR 379 (791)
T ss_pred cc
Confidence 54
No 27
>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=62.99 E-value=2.9e+02 Score=32.99 Aligned_cols=54 Identities=15% Similarity=0.162 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhc
Q 003141 297 HQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNE 350 (844)
Q Consensus 297 ~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D 350 (844)
-..++.++..+|...+--.--.++...+...|.++++.|+..||.+|..+..+.
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 345556677777765544435688899999999999999999999998887653
No 28
>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=61.45 E-value=1.4e+02 Score=33.95 Aligned_cols=76 Identities=14% Similarity=0.164 Sum_probs=55.9
Q ss_pred HHHHHHHHHHHHHHHhcCCcc--hHHHHHHHHHHHhhcCCCCchH------HHHHHHHHHhhCCCcHHHHHHHHHHHHHH
Q 003141 275 TLLSAYKAYLQKLIASEKQPV--FHQVVVRCICNLLDAVPHFNCC------EILLEVVVRNLGSQDVVVRKLCCATIKSL 346 (844)
Q Consensus 275 ~Ll~~Y~~yLq~Le~l~k~~~--l~~~Avkclc~LL~~~PhFNf~------~nLL~~lV~kLg~~~~~Va~~c~~al~~L 346 (844)
.|...|..|.+....+-..++ .+.++++.+.+||...++|+.. .+-|.++.+.|.|+++.|..-+-+.+ .+
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 357788888888888766554 5899999999999999998863 35678999999999999887665555 45
Q ss_pred hhhcc
Q 003141 347 FTNEG 351 (844)
Q Consensus 347 f~~D~ 351 (844)
|-.-|
T Consensus 281 FVANp 285 (335)
T PF08569_consen 281 FVANP 285 (335)
T ss_dssp HHH-S
T ss_pred HHhCC
Confidence 55433
No 29
>cd00020 ARM Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.
Probab=59.59 E-value=11 Score=34.19 Aligned_cols=57 Identities=18% Similarity=0.061 Sum_probs=44.2
Q ss_pred cchHHHHHHHHHHHhhcCCC---CchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhc
Q 003141 294 PVFHQVVVRCICNLLDAVPH---FNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNE 350 (844)
Q Consensus 294 ~~l~~~Avkclc~LL~~~Ph---FNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D 350 (844)
+..+..|+.|+..+-...|. +=...+.+..+++.|++++..++..|+.+|..+....
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 45788888888887655222 1123388999999999999999999999999997754
No 30
>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=58.62 E-value=34 Score=34.54 Aligned_cols=83 Identities=13% Similarity=0.166 Sum_probs=55.9
Q ss_pred HHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhccCCCCccHHHHHHHHHHhhhhcCCCC
Q 003141 297 HQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHVKVKNCQL 376 (844)
Q Consensus 297 ~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D~~~~G~~sleiVr~I~~~vK~k~~~v 376 (844)
...=+..+|+||..-|.- ...-|+.+++++..---+..+..=..-|..+.+.+...+.-...++|+++..|+ -+|||
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 344477899999998854 345799999999976666666655677888888876566666678999999887 68898
Q ss_pred CHHHHHH
Q 003141 377 HPDFVEV 383 (844)
Q Consensus 377 ~p~vl~~ 383 (844)
.| +|+.
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 4444
No 31
>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=58.05 E-value=31 Score=35.45 Aligned_cols=54 Identities=19% Similarity=0.271 Sum_probs=45.0
Q ss_pred hHHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhc
Q 003141 296 FHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNE 350 (844)
Q Consensus 296 l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D 350 (844)
++..|.-||+.||...++----..++..++..|+| +..|...|+-.|..|....
T Consensus 43 lRK~ayE~lytlLd~~~~~~~~~~~~~~v~~GL~D-~~DIk~L~~~~l~kl~~~~ 96 (169)
T PF08623_consen 43 LRKAAYECLYTLLDTCLSRIDISEFLDRVEAGLKD-EHDIKMLCHLMLSKLAQLA 96 (169)
T ss_dssp HHHHHHHHHHHHHHSTCSSS-HHHHHHHHHHTTSS--HHHHHHHHHHHHHHHHS-
T ss_pred HHHHHHHHHHHHHHHHHHhCCHHHHHHHHHhhcCC-cHHHHHHHHHHHHHHHHhC
Confidence 58999999999999887766567889999999999 9999999999998886654
No 32
>PF08167 RIX1: rRNA processing/ribosome biogenesis
Probab=57.09 E-value=82 Score=31.81 Aligned_cols=79 Identities=15% Similarity=0.103 Sum_probs=44.7
Q ss_pred hHHHHHHHHHhhhccCCCCChHHHHHHHHHHHhhcccCC-cH--HHHHHHHHHHHHHHhccCh--HHHHHHHHHHHHHHh
Q 003141 579 LQDFFVQLYNLILEYRPGRDQGEVLAEALKIMLCDDRQH-DM--QKAAAFVKRLATFSLSIGS--AESMAALVTLKNLLQ 653 (844)
Q Consensus 579 ~~rFY~~LY~~L~~~~~~~~~~~~ll~~L~~~l~~~~~~-~~--~RvaAFiKRLl~~aL~~p~--~~ala~L~li~~Ll~ 653 (844)
...|++.|+..|-...+.... .....+|..+|-..++. +. +-+.-.+..+.+.++.... .....+|..+..+|.
T Consensus 65 ~~~W~~~Ll~~L~~~~~~~~~-~~ai~~L~~l~~~~~~~p~l~Rei~tp~l~~~i~~ll~l~~~~~~~~~~l~~L~~ll~ 143 (165)
T PF08167_consen 65 GSQWLRALLSILEKPDPPSVL-EAAIITLTRLFDLIRGKPTLTREIATPNLPKFIQSLLQLLQDSSCPETALDALATLLP 143 (165)
T ss_pred HHHHHHHHHHHHcCCCCHHHH-HHHHHHHHHHHHHhcCCCchHHHHhhccHHHHHHHHHHHHhccccHHHHHHHHHHHHH
Confidence 567777888887653332211 23345555555332322 21 2234445555555544444 556778999999999
Q ss_pred hcccc
Q 003141 654 KNIKC 658 (844)
Q Consensus 654 ~~P~l 658 (844)
.||.+
T Consensus 144 ~~ptt 148 (165)
T PF08167_consen 144 HHPTT 148 (165)
T ss_pred HCCcc
Confidence 99954
No 33
>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=56.88 E-value=75 Score=37.17 Aligned_cols=55 Identities=13% Similarity=0.188 Sum_probs=46.6
Q ss_pred cCCcchHHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHH
Q 003141 291 EKQPVFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSL 346 (844)
Q Consensus 291 ~k~~~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~L 346 (844)
...|..+..|+-|++.+....|+.=-.. ++..+...|.|++..|..-++.++..+
T Consensus 125 ~~~~~VRk~A~~~l~~i~~~~p~~~~~~-~~~~l~~lL~d~~~~V~~~a~~~l~~i 179 (526)
T PF01602_consen 125 DPSPYVRKKAALALLKIYRKDPDLVEDE-LIPKLKQLLSDKDPSVVSAALSLLSEI 179 (526)
T ss_dssp SSSHHHHHHHHHHHHHHHHHCHCCHHGG-HHHHHHHHTTHSSHHHHHHHHHHHHHH
T ss_pred CCchHHHHHHHHHHHHHhccCHHHHHHH-HHHHHhhhccCCcchhHHHHHHHHHHH
Confidence 3455789999999999999999864433 899999999999999988888999888
No 34
>PF12765 Cohesin_HEAT: HEAT repeat associated with sister chromatid cohesion
Probab=54.55 E-value=20 Score=28.21 Aligned_cols=42 Identities=12% Similarity=0.279 Sum_probs=35.4
Q ss_pred HHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHH
Q 003141 302 RCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATI 343 (844)
Q Consensus 302 kclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al 343 (844)
+|+..++..-|..=....++..+..+|.|++..|+..|.+.|
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 477788888888777789999999999999999998777653
No 35
>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=53.62 E-value=15 Score=29.19 Aligned_cols=36 Identities=22% Similarity=0.374 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHhcCCcchHHHHHHHHHHHhhcCCC
Q 003141 278 SAYKAYLQKLIASEKQPVFHQVVVRCICNLLDAVPH 313 (844)
Q Consensus 278 ~~Y~~yLq~Le~l~k~~~l~~~Avkclc~LL~~~Ph 313 (844)
..|..||+.|....+...-..-.+..+..|+..+|+
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 479999999999988665566678889999999884
No 36
>KOG2956 consensus CLIP-associating protein [General function prediction only]
Probab=53.53 E-value=4.6e+02 Score=31.33 Aligned_cols=145 Identities=18% Similarity=0.179 Sum_probs=86.8
Q ss_pred chHHHHHhhhhcCCHHHHHHHHHHHHHHHHHHHHhCH-----HHhHHHHHHHHHHhhc-cChhhHHHHHHHHHHHHhhhc
Q 003141 172 PQVAVLAEVKEDLTAEELFESKKCKLAELGMALLADP-----ESNIKSLKEMLQIARD-DNPSISKLGFLSLLAVFKDII 245 (844)
Q Consensus 172 ~~~~~~~e~~~~l~~~e~~~~~kdkIAaL~~~I~edP-----e~ni~~Lk~L~~m~~~-k~~~vrkLAilSL~~VFkDIl 245 (844)
++++..+.....++.-|+.++.+.-++.|-..+.++- ++-=.-|..++....+ ++..+++||+..|.+..+
T Consensus 283 ~~~~~v~~~l~~~~g~e~a~~~k~alsel~~m~~e~sfsvWeq~f~~iL~~l~EvL~d~~~~~~k~laLrvL~~ml~--- 359 (516)
T KOG2956|consen 283 DQSALVADLLKEISGSERASERKEALSELPKMLCEGSFSVWEQHFAEILLLLLEVLSDSEDEIIKKLALRVLREMLT--- 359 (516)
T ss_pred chhHHHHHHHHhccCccchhHHHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHH---
Confidence 3455555566667777888888888988888888883 3333345666666666 778888998887777632
Q ss_pred CCCCCCCCchhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCc--chHHHHHHHHHHHhhc-CCCCchHHHHHH
Q 003141 246 PGYRIRLPTEKELEMKVSKEVKKMRFYESTLLSAYKAYLQKLIASEKQP--VFHQVVVRCICNLLDA-VPHFNCCEILLE 322 (844)
Q Consensus 246 P~YrIR~lte~E~~~kvsKev~~lr~fE~~Ll~~Y~~yLq~Le~l~k~~--~l~~~Avkclc~LL~~-~PhFNf~~nLL~ 322 (844)
.+......+-|.. -.++|+ ..+++ ..-.+|..|+..+|.+ .|..+- .||-
T Consensus 360 ---------~Q~~~l~DstE~a------------i~K~Le----aa~ds~~~v~~~Aeed~~~~las~~P~~~I-~~i~- 412 (516)
T KOG2956|consen 360 ---------NQPARLFDSTEIA------------ICKVLE----AAKDSQDEVMRVAEEDCLTTLASHLPLQCI-VNIS- 412 (516)
T ss_pred ---------hchHhhhchHHHH------------HHHHHH----HHhCCchhHHHHHHHHHHHHHHhhCchhHH-HHHh-
Confidence 1111111122211 111222 23333 3445666666666654 565442 3333
Q ss_pred HHHHhhCCCcHHHHHHHHHHHHHHhhh
Q 003141 323 VVVRNLGSQDVVVRKLCCATIKSLFTN 349 (844)
Q Consensus 323 ~lV~kLg~~~~~Va~~c~~al~~Lf~~ 349 (844)
+.+-.-|...+..|++.+..||..
T Consensus 413 ---~~Ilt~D~~~~~~~iKm~Tkl~e~ 436 (516)
T KOG2956|consen 413 ---PLILTADEPRAVAVIKMLTKLFER 436 (516)
T ss_pred ---hHHhcCcchHHHHHHHHHHHHHhh
Confidence 333336777888999999999985
No 37
>PF05804 KAP: Kinesin-associated protein (KAP)
Probab=53.30 E-value=57 Score=40.66 Aligned_cols=75 Identities=19% Similarity=0.235 Sum_probs=46.4
Q ss_pred HHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhccCCCCccHHHHHHHHHHhhhhcCCCCCHHHHHHhhcccccccc
Q 003141 319 ILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHVKVKNCQLHPDFVEVFMSLSFDEDL 393 (844)
Q Consensus 319 nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D~~~~G~~sleiVr~I~~~vK~k~~~v~p~vl~~fL~Lr~~e~l 393 (844)
+++.++|..|...+..+--.|...|..|=-...+...++...+|..|.+++...+-.+-...+..+++|.|+..+
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 778888888877766655555566655432211112233445677777777766655555567778888777544
No 38
>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=53.26 E-value=2.9e+02 Score=37.32 Aligned_cols=132 Identities=13% Similarity=0.202 Sum_probs=85.8
Q ss_pred HHHHHHHHhhccChhhHHHHHHHHHHHHhhhcCCCCCCCCchhhhh-------hhhhHHHHHHH-----HHHHHHHHHHH
Q 003141 214 SLKEMLQIARDDNPSISKLGFLSLLAVFKDIIPGYRIRLPTEKELE-------MKVSKEVKKMR-----FYESTLLSAYK 281 (844)
Q Consensus 214 ~Lk~L~~m~~~k~~~vrkLAilSL~~VFkDIlP~YrIR~lte~E~~-------~kvsKev~~lr-----~fE~~Ll~~Y~ 281 (844)
.|+-++..+.+....+|--||-.|-.+ +.+=|.-..|+--..--. .-|...++-|- .+++ .|.
T Consensus 817 yLk~Il~~l~e~~ialRtkAlKclS~i-ve~Dp~vL~~~dvq~~Vh~R~~DssasVREAaldLvGrfvl~~~e----~~~ 891 (1692)
T KOG1020|consen 817 YLKLILSVLGENAIALRTKALKCLSMI-VEADPSVLSRPDVQEAVHGRLNDSSASVREAALDLVGRFVLSIPE----LIF 891 (1692)
T ss_pred HHHHHHHHhcCchHHHHHHHHHHHHHH-HhcChHhhcCHHHHHHHHHhhccchhHHHHHHHHHHhhhhhccHH----HHH
Confidence 566677777766677777777665555 333344444432111111 11222222221 1333 334
Q ss_pred HHHHHHHHhcCCc--chHHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhc
Q 003141 282 AYLQKLIASEKQP--VFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNE 350 (844)
Q Consensus 282 ~yLq~Le~l~k~~--~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D 350 (844)
+|-+.+..-..|+ +.+.-+++.+|+.-.+.|-|+-...+..-++.+.+|-...|..++++++.++--..
T Consensus 892 qyY~~i~erIlDtgvsVRKRvIKIlrdic~e~pdf~~i~~~cakmlrRv~DEEg~I~kLv~etf~klWF~p 962 (1692)
T KOG1020|consen 892 QYYDQIIERILDTGVSVRKRVIKILRDICEETPDFSKIVDMCAKMLRRVNDEEGNIKKLVRETFLKLWFTP 962 (1692)
T ss_pred HHHHHHHhhcCCCchhHHHHHHHHHHHHHHhCCChhhHHHHHHHHHHHhccchhHHHHHHHHHHHHHhccC
Confidence 4444444444555 47899999999999999999999999999999999988889999999999876554
No 39
>KOG2259 consensus Uncharacterized conserved protein [Function unknown]
Probab=51.14 E-value=42 Score=41.04 Aligned_cols=86 Identities=16% Similarity=0.247 Sum_probs=68.5
Q ss_pred HHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhccCCCCccHHHHHHHHHHhhhhcCCCC
Q 003141 297 HQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHVKVKNCQL 376 (844)
Q Consensus 297 ~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D~~~~G~~sleiVr~I~~~vK~k~~~v 376 (844)
+..||-.+|.|..+.|-|- ..-|..+|..++|-...|+-.|+++++.+-.+ +.+--+.++.|..-+.....+|
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 49999999999999999999999999888664 4566677888877776666666
Q ss_pred CHHHHHHhhcccc
Q 003141 377 HPDFVEVFMSLSF 389 (844)
Q Consensus 377 ~p~vl~~fL~Lr~ 389 (844)
+..+.+.|=..++
T Consensus 463 Re~l~elL~~~~~ 475 (823)
T KOG2259|consen 463 REALRELLKNARV 475 (823)
T ss_pred HHHHHHHHHhcCC
Confidence 6665555544444
No 40
>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=49.79 E-value=3.5e+02 Score=28.85 Aligned_cols=114 Identities=16% Similarity=0.219 Sum_probs=74.7
Q ss_pred HHHHHHHHhCHHHhHHHHHHHHHHh-hccChhhHHHHHHHHHHHHhhhcCCCCCCCCchhhhhhhhhHHHHHHHHHHHHH
Q 003141 198 AELGMALLADPESNIKSLKEMLQIA-RDDNPSISKLGFLSLLAVFKDIIPGYRIRLPTEKELEMKVSKEVKKMRFYESTL 276 (844)
Q Consensus 198 AaL~~~I~edPe~ni~~Lk~L~~m~-~~k~~~vrkLAilSL~~VFkDIlP~YrIR~lte~E~~~kvsKev~~lr~fE~~L 276 (844)
+++...+..+|++-...+..|..++ ...+..++-+|+.++..++ +...
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 4777778889999999999999999 7888899999999999987 4444
Q ss_pred HHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhhcCCC--------CchHHHHHHHHHHhhCCCcHHHHHHHHHHHH
Q 003141 277 LSAYKAYLQKLIASEKQPVFHQVVVRCICNLLDAVPH--------FNCCEILLEVVVRNLGSQDVVVRKLCCATIK 344 (844)
Q Consensus 277 l~~Y~~yLq~Le~l~k~~~l~~~Avkclc~LL~~~Ph--------FNf~~nLL~~lV~kLg~~~~~Va~~c~~al~ 344 (844)
+..|..+--...+++.+ .+..-++.+|+|+.-.|+ -.|..+++..+=+...+.+..++..+..+..
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 55555553333334222 233445567777654443 2234467777777777777665555544443
No 41
>PF12717 Cnd1: non-SMC mitotic condensation complex subunit 1
Probab=49.78 E-value=1.1e+02 Score=31.16 Aligned_cols=56 Identities=13% Similarity=0.207 Sum_probs=45.8
Q ss_pred CcchHHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhh
Q 003141 293 QPVFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTN 349 (844)
Q Consensus 293 ~~~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~ 349 (844)
+|.++..|+.|+..|+..-+- -.+..++..++..+.|+++.|++.+...+.++...
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 456899999999999886332 22456667777888999999999999999999987
No 42
>KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only]
Probab=49.00 E-value=7.3e+02 Score=32.32 Aligned_cols=92 Identities=15% Similarity=0.256 Sum_probs=54.4
Q ss_pred HHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhhcCCCC--chHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhccC
Q 003141 275 TLLSAYKAYLQKLIASEKQPVFHQVVVRCICNLLDAVPHF--NCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGK 352 (844)
Q Consensus 275 ~Ll~~Y~~yLq~Le~l~k~~~l~~~Avkclc~LL~~~PhF--Nf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D~~ 352 (844)
.....|-.-+|.|+.-..|...++.|+.||..++...-.| |+-.+.|-+++.+||.-- .+..+..|+..++-.-
T Consensus 565 ~v~~m~~~tl~rL~a~d~DqeVkeraIscmgq~i~~fgD~l~~eL~~~L~il~eRl~nEi--TRl~AvkAlt~Ia~S~-- 640 (1233)
T KOG1824|consen 565 YVKTMYDCTLQRLKATDSDQEVKERAISCMGQIIANFGDFLGNELPRTLPILLERLGNEI--TRLTAVKALTLIAMSP-- 640 (1233)
T ss_pred hHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHhchh--HHHHHHHHHHHHHhcc--
Confidence 3444555555555555556667899999999888765443 455566777777777522 2334455665555432
Q ss_pred CCCccH-----HHHHHHHHHhhhhc
Q 003141 353 HGGVAT-----VEAVRLIANHVKVK 372 (844)
Q Consensus 353 ~~G~~s-----leiVr~I~~~vK~k 372 (844)
-.++ -++++.|.+.+++.
T Consensus 641 --l~i~l~~~l~~il~~l~~flrK~ 663 (1233)
T KOG1824|consen 641 --LDIDLSPVLTEILPELASFLRKN 663 (1233)
T ss_pred --ceeehhhhHHHHHHHHHHHHHHH
Confidence 1122 24666666666554
No 43
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A.
Probab=47.41 E-value=52 Score=28.49 Aligned_cols=48 Identities=15% Similarity=0.285 Sum_probs=38.1
Q ss_pred cCCcchHHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHH
Q 003141 291 EKQPVFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSL 346 (844)
Q Consensus 291 ~k~~~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~L 346 (844)
..++..+..|+.|++++ . ....+..++..++|++..|+..++.+|..+
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 34456788889999832 1 347899999999999999999999999865
No 44
>KOG1967 consensus DNA repair/transcription protein Mms19 [Replication, recombination and repair; Transcription]
Probab=45.24 E-value=37 Score=42.83 Aligned_cols=66 Identities=17% Similarity=0.338 Sum_probs=53.1
Q ss_pred HHHHHHHHHHhcCCc-----chHHHHHHHHHHHhhcCCC---CchHHHHHHHHHHhhCCCcHHHHHHHHHHHHH
Q 003141 280 YKAYLQKLIASEKQP-----VFHQVVVRCICNLLDAVPH---FNCCEILLEVVVRNLGSQDVVVRKLCCATIKS 345 (844)
Q Consensus 280 Y~~yLq~Le~l~k~~-----~l~~~Avkclc~LL~~~Ph---FNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~ 345 (844)
--.++-.|-.+++++ ..+..|++||-.|....|| .-|+...++.+++-|+|+-+.||..|..+=..
T Consensus 948 ~~Tlvp~lLsls~~~~n~~~~VR~~ALqcL~aL~~~~P~~~l~~fr~~Vl~al~k~LdDkKRlVR~eAv~tR~~ 1021 (1030)
T KOG1967|consen 948 LSTLVPYLLSLSSDNDNNMMVVREDALQCLNALTRRLPTKSLLSFRPLVLRALIKILDDKKRLVRKEAVDTRQN 1021 (1030)
T ss_pred HhHHHHHHHhcCCCCCcchhHHHHHHHHHHHHHhccCCCcccccccHHHHHHhhhccCcHHHHHHHHHHHHhhh
Confidence 334555555666654 3589999999999998998 55899999999999999999999998877443
No 45
>KOG1020 consensus Sister chromatid cohesion protein SCC2/Nipped-B [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=44.17 E-value=91 Score=41.57 Aligned_cols=74 Identities=14% Similarity=0.259 Sum_probs=53.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCc--chHHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHH
Q 003141 271 FYESTLLSAYKAYLQKLIASEKQP--VFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIK 344 (844)
Q Consensus 271 ~fE~~Ll~~Y~~yLq~Le~l~k~~--~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~ 344 (844)
.+-..+...|..||..+......+ .++..|++|+..+...-|.-=-+......|..+++|..-.|++.+.+.+.
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 344557888999999988776554 57899999999988887765555566666666777766666665555554
No 46
>KOG3771 consensus Amphiphysin [Intracellular trafficking, secretion, and vesicular transport]
Probab=43.13 E-value=2.9e+02 Score=32.79 Aligned_cols=35 Identities=14% Similarity=0.350 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHhhccccccCChHHHHHHHHHhhh
Q 003141 557 RLRCCIVAFRVMRNNLDALNVDLQDFFVQLYNLIL 591 (844)
Q Consensus 557 ~L~ci~taF~LL~~~g~alniD~~rFY~~LY~~L~ 591 (844)
++-|.+..|+-|+.-...+.-+.+.||..||.++.
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 34566777777765433444445666777776654
No 47
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=42.52 E-value=1.4e+02 Score=27.84 Aligned_cols=66 Identities=9% Similarity=0.146 Sum_probs=45.3
Q ss_pred HHHHHHHHhcCC--cchHHHHHHHHHHHhhcCCC--CchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhh
Q 003141 282 AYLQKLIASEKQ--PVFHQVVVRCICNLLDAVPH--FNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFT 348 (844)
Q Consensus 282 ~yLq~Le~l~k~--~~l~~~Avkclc~LL~~~Ph--FNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~ 348 (844)
..++-+..+-.| +..+-.|..++..+...... ++|-+.|+..+...+.|++..|++- ++.|-.|++
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 EILPPVLKCFDDQDSRVRYYACEALYNISKVARGEILPYFNEIFDALCKLSADPDENVRSA-AELLDRLLK 96 (97)
T ss_pred HHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCchhHHHH-HHHHHHHhc
Confidence 344444444444 46788899999888764221 2233489999999999999999864 466666665
No 48
>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=42.41 E-value=79 Score=31.47 Aligned_cols=83 Identities=18% Similarity=0.296 Sum_probs=56.3
Q ss_pred HHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhccC--CCCccHHHHHHHHHHhhhhcCCCCC
Q 003141 300 VVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGK--HGGVATVEAVRLIANHVKVKNCQLH 377 (844)
Q Consensus 300 Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D~~--~~G~~sleiVr~I~~~vK~k~~~v~ 377 (844)
.+--+|+++.+.+ +-....+..|..+|+++++.|.-.++..|..+.+|=+. |...++-+.+..+.+++..+ .+
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 4556899999874 56679999999999999999999999999999998421 11123334445555555443 55
Q ss_pred HHHHHHhhcc
Q 003141 378 PDFVEVFMSL 387 (844)
Q Consensus 378 p~vl~~fL~L 387 (844)
+.|-+-.|.+
T Consensus 95 ~~Vk~kil~l 104 (144)
T cd03568 95 PTVKEKLREV 104 (144)
T ss_pred HHHHHHHHHH
Confidence 5554444443
No 49
>PF08167 RIX1: rRNA processing/ribosome biogenesis
Probab=40.33 E-value=2.7e+02 Score=28.03 Aligned_cols=76 Identities=14% Similarity=0.278 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHHHHhcCC--c-chHHHHHHHH---HHHhhcCCCCchHH-------HHHHHHHHhhCCCcHHHHHHHH
Q 003141 274 STLLSAYKAYLQKLIASEKQ--P-VFHQVVVRCI---CNLLDAVPHFNCCE-------ILLEVVVRNLGSQDVVVRKLCC 340 (844)
Q Consensus 274 ~~Ll~~Y~~yLq~Le~l~k~--~-~l~~~Avkcl---c~LL~~~PhFNf~~-------nLL~~lV~kLg~~~~~Va~~c~ 340 (844)
+.|.+.|..+++.|-..-.+ + .....|+.++ +.++...|.+- |+ .+++.+++.+.+ ..+...|+
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 34567777777777665332 2 3445555555 44556677653 22 244555555554 34456778
Q ss_pred HHHHHHhhhccC
Q 003141 341 ATIKSLFTNEGK 352 (844)
Q Consensus 341 ~al~~Lf~~D~~ 352 (844)
.+|..++..+++
T Consensus 136 ~~L~~ll~~~pt 147 (165)
T PF08167_consen 136 DALATLLPHHPT 147 (165)
T ss_pred HHHHHHHHHCCc
Confidence 888888887654
No 50
>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=40.03 E-value=1.7e+02 Score=28.99 Aligned_cols=46 Identities=11% Similarity=0.047 Sum_probs=34.6
Q ss_pred CCcHHHHHHHHHHHHHHhhhccCCCCccHHHHHHHHHHhhhhcCCCCCH
Q 003141 330 SQDVVVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHVKVKNCQLHP 378 (844)
Q Consensus 330 ~~~~~Va~~c~~al~~Lf~~D~~~~G~~sleiVr~I~~~vK~k~~~v~p 378 (844)
..+..|..+|+..|...-.. ..|+..+..|..+.+.++++||.+.|
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 56788888888888765433 23445567889999999999998765
No 51
>PF12460 MMS19_C: RNAPII transcription regulator C-terminal; InterPro: IPR024687 This domain, approximately 60 amino acids in length, is found in the N-terminal region of MMS19 proteins. MMS19 is required for both nucleotide excision repair (NER) and RNA polymerase II (RNAP II) transcription [].
Probab=39.55 E-value=5.7e+02 Score=29.60 Aligned_cols=131 Identities=17% Similarity=0.252 Sum_probs=78.9
Q ss_pred HHhCHHHhHHHHHHHHHHhhccChhhHHHHHHHHHHHHhhhcCCCCCCCCchhhhhhhhhHHHHHHHHHHHHHHHHHHHH
Q 003141 204 LLADPESNIKSLKEMLQIARDDNPSISKLGFLSLLAVFKDIIPGYRIRLPTEKELEMKVSKEVKKMRFYESTLLSAYKAY 283 (844)
Q Consensus 204 I~edPe~ni~~Lk~L~~m~~~k~~~vrkLAilSL~~VFkDIlP~YrIR~lte~E~~~kvsKev~~lr~fE~~Ll~~Y~~y 283 (844)
+..+|.. ...+..|+.+..+ +.+...|-.++.-++.| .|++--+ +-.. +=|-..+.|.|..-+-..-..|
T Consensus 263 ~R~~~~~-~~~~~~L~~lL~~--~~~g~~aA~~f~il~~d-~~~~l~~-----~~~a-~vklLykQR~F~~~~p~L~~~~ 332 (415)
T PF12460_consen 263 MRGHPLA-TELLDKLLELLSS--PELGQQAAKAFGILLSD-SDDVLNK-----ENHA-NVKLLYKQRFFTQVLPKLLEGF 332 (415)
T ss_pred HcCCchH-HHHHHHHHHHhCC--hhhHHHHHHHHhhHhcC-cHHhcCc-----cccc-hhhhHHhHHHHHHHHHHHHHHH
Confidence 3445553 6666677766655 34444555555555555 1221111 1111 1233455677777554432222
Q ss_pred HHHHHHhcCCcchHHHHHHHHHHHhhcCCC---CchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhc
Q 003141 284 LQKLIASEKQPVFHQVVVRCICNLLDAVPH---FNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNE 350 (844)
Q Consensus 284 Lq~Le~l~k~~~l~~~Avkclc~LL~~~Ph---FNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D 350 (844)
=. .+...+...+.+++.+|.+.|. ..+-..|+-+++.-|.-++..+...++++|..++.+.
T Consensus 333 ~~------~~~~~k~~yL~ALs~ll~~vP~~vl~~~l~~LlPLLlqsL~~~~~~v~~s~L~tL~~~l~~~ 396 (415)
T PF12460_consen 333 KE------ADDEIKSNYLTALSHLLKNVPKSVLLPELPTLLPLLLQSLSLPDADVLLSSLETLKMILEEA 396 (415)
T ss_pred hh------cChhhHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcC
Confidence 11 1112456677888889998886 3344678999999999999999999999999998875
No 52
>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=39.48 E-value=17 Score=40.23 Aligned_cols=169 Identities=15% Similarity=0.160 Sum_probs=78.2
Q ss_pred HHHhCHHHhHHHHHHHHHHhhccChhhHHHHHHHHHHHHhhhcCCCCCCCCchhhhhhhhhHHHHHHHHHHHHH-HHHHH
Q 003141 203 ALLADPESNIKSLKEMLQIARDDNPSISKLGFLSLLAVFKDIIPGYRIRLPTEKELEMKVSKEVKKMRFYESTL-LSAYK 281 (844)
Q Consensus 203 ~I~edPe~ni~~Lk~L~~m~~~k~~~vrkLAilSL~~VFkDIlP~YrIR~lte~E~~~kvsKev~~lr~fE~~L-l~~Y~ 281 (844)
.|.++...-.+.+-.|++.+ ..+..+ +..++.++-|++..-.-+ .+ - +..|-..- -..|.
T Consensus 48 ~~~~~~~~~~~~~l~lL~~~-~~~~d~----v~yvL~li~dll~~~~~~--~~---------~---~~~~~~~~~~~~~~ 108 (312)
T PF03224_consen 48 LLEEDGDQYASLFLNLLNKL-SSNDDT----VQYVLTLIDDLLSDDPSR--VE---------L---FLELAKQDDSDPYS 108 (312)
T ss_dssp --------------HHHHHH----HHH----HHHHHHHHHHHHH-SSSS--HH---------H---HHHHHH-TTH--HH
T ss_pred HHHhchhhHHHHHHHHHHHc-cCcHHH----HHHHHHHHHHHHhcCHHH--HH---------H---HHHhcccccchhHH
Confidence 44556656566666777777 222333 344455556655432211 00 0 11111100 01788
Q ss_pred HHHHHHHHhcCCcchHHHHHHHHHHHhhcCCCCchH--HHHHHHHHHhhCC----CcHHHHHHHHHHHHHHhhhccCCCC
Q 003141 282 AYLQKLIASEKQPVFHQVVVRCICNLLDAVPHFNCC--EILLEVVVRNLGS----QDVVVRKLCCATIKSLFTNEGKHGG 355 (844)
Q Consensus 282 ~yLq~Le~l~k~~~l~~~Avkclc~LL~~~PhFNf~--~nLL~~lV~kLg~----~~~~Va~~c~~al~~Lf~~D~~~~G 355 (844)
.|++.|.+- |......|..++..|+...+..... ..++..+++.|.+ .+..+...|+.++..|++.+.-..-
T Consensus 109 ~fl~ll~~~--D~~i~~~a~~iLt~Ll~~~~~~~~~~~~~~l~~ll~~L~~~l~~~~~~~~~~av~~L~~LL~~~~~R~~ 186 (312)
T PF03224_consen 109 PFLKLLDRN--DSFIQLKAAFILTSLLSQGPKRSEKLVKEALPKLLQWLSSQLSSSDSELQYIAVQCLQNLLRSKEYRQV 186 (312)
T ss_dssp HHHHH-S-S--SHHHHHHHHHHHHHHHTSTTT--HHHHHHHHHHHHHHHH-TT-HHHH---HHHHHHHHHHHTSHHHHHH
T ss_pred HHHHHhcCC--CHHHHHHHHHHHHHHHHcCCccccchHHHHHHHHHHHHHHhhcCCCcchHHHHHHHHHHHhCcchhHHH
Confidence 888854432 6678899999999999999888774 2455666555554 4445567899999999987631111
Q ss_pred ccHHHHHHHHHHhhh-------hcCCCCCHHHHHHhhccccccc
Q 003141 356 VATVEAVRLIANHVK-------VKNCQLHPDFVEVFMSLSFDED 392 (844)
Q Consensus 356 ~~sleiVr~I~~~vK-------~k~~~v~p~vl~~fL~Lr~~e~ 392 (844)
...-..|..+.++++ .-+.++.-.++-|+.-|.|...
T Consensus 187 f~~~~~v~~l~~iL~~~~~~~~~~~~Ql~Y~~ll~lWlLSF~~~ 230 (312)
T PF03224_consen 187 FWKSNGVSPLFDILRKQATNSNSSGIQLQYQALLCLWLLSFEPE 230 (312)
T ss_dssp HHTHHHHHHHHHHHH---------HHHHHHHHHHHHHHHTTSHH
T ss_pred HHhcCcHHHHHHHHHhhcccCCCCchhHHHHHHHHHHHHhcCHH
Confidence 111234445555541 1122233334667777877643
No 53
>PF12719 Cnd3: Nuclear condensing complex subunits, C-term domain
Probab=38.79 E-value=1.2e+02 Score=33.41 Aligned_cols=58 Identities=12% Similarity=0.147 Sum_probs=46.1
Q ss_pred CcchHHHHHHHHHHHhhcCCCC-----------chHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhc
Q 003141 293 QPVFHQVVVRCICNLLDAVPHF-----------NCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNE 350 (844)
Q Consensus 293 ~~~l~~~Avkclc~LL~~~PhF-----------Nf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D 350 (844)
++.++.+|++++++++..+..- .....++.++...|.+.++.+...+++.+..||-.+
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 5678999999999999875521 234578888888888888888888888888888865
No 54
>KOG1077 consensus Vesicle coat complex AP-2, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=38.16 E-value=1.6e+02 Score=36.56 Aligned_cols=37 Identities=22% Similarity=0.231 Sum_probs=30.9
Q ss_pred CCCCCCCCCCCCchhHHHHHHHhhCcChHHHHHHHHh
Q 003141 680 PYAMDPNLSGALASVLWEINLLSKHYHPSISTAASSI 716 (844)
Q Consensus 680 p~~~DPe~~nA~~S~LWEL~lL~~HyHPsV~~~A~~i 716 (844)
|...+|.++||.++.|+|...|.-|++|.=..+.+..
T Consensus 295 ~~~k~vq~~na~naVLFeaI~l~~h~D~e~~ll~~~~ 331 (938)
T KOG1077|consen 295 PKSKKVQHSNAKNAVLFEAISLAIHLDSEPELLSRAV 331 (938)
T ss_pred ccccchHhhhhHHHHHHHHHHHHHHcCCcHHHHHHHH
Confidence 5677899999999999999999999998755555443
No 55
>PRK14140 heat shock protein GrpE; Provisional
Probab=37.21 E-value=1.6e+02 Score=30.91 Aligned_cols=22 Identities=9% Similarity=0.007 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhc
Q 003141 270 RFYESTLLSAYKAYLQKLIASE 291 (844)
Q Consensus 270 r~fE~~Ll~~Y~~yLq~Le~l~ 291 (844)
..|=.++...|+.|+..|+++.
T Consensus 114 ~~i~~Gv~mi~k~l~~~L~k~G 135 (191)
T PRK14140 114 KSLLKGVEMVHRQLLEALKKEG 135 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHCC
Confidence 4566888899999999988763
No 56
>KOG0212 consensus Uncharacterized conserved protein [Function unknown]
Probab=35.41 E-value=3.9e+02 Score=32.68 Aligned_cols=69 Identities=16% Similarity=0.188 Sum_probs=48.5
Q ss_pred HHHHHHHHH-hcCCcchHHHHHHHHHHHhhcCCCC---chHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhh
Q 003141 281 KAYLQKLIA-SEKQPVFHQVVVRCICNLLDAVPHF---NCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTN 349 (844)
Q Consensus 281 ~~yLq~Le~-l~k~~~l~~~Avkclc~LL~~~PhF---Nf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~ 349 (844)
..|+..|.. +.-......+.+-.=...|.+.|.+ ||-..++..+.+.|||+.+.|+..|-.++.++++.
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 356666533 2222233444444445667788874 56778899999999999999999999888888775
No 57
>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=33.23 E-value=1.6e+02 Score=29.25 Aligned_cols=50 Identities=8% Similarity=0.214 Sum_probs=42.9
Q ss_pred HHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhc
Q 003141 299 VVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNE 350 (844)
Q Consensus 299 ~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D 350 (844)
..+--+|+++.+.|. -...-+..+..+|+++++.++-.++..|..+.+|=
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 356789999988874 55689999999999999999999999999999884
No 58
>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=32.57 E-value=1.2e+02 Score=30.06 Aligned_cols=83 Identities=17% Similarity=0.230 Sum_probs=55.3
Q ss_pred HHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhccC--CCCccHHHHHHHHHHhhhhcCCCCC
Q 003141 300 VVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGK--HGGVATVEAVRLIANHVKVKNCQLH 377 (844)
Q Consensus 300 Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D~~--~~G~~sleiVr~I~~~vK~k~~~v~ 377 (844)
.+--+|+++.+.+. -....++.|..+|.++++.+.-.+...|..+.+|=+. |.-.++-+.+..+.+++.. ..+
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 55679999988764 4679999999999999999999999999999987311 1111223334444444432 455
Q ss_pred HHHHHHhhcc
Q 003141 378 PDFVEVFMSL 387 (844)
Q Consensus 378 p~vl~~fL~L 387 (844)
+.|-+-.|.+
T Consensus 99 ~~Vk~kil~l 108 (142)
T cd03569 99 EEVRQKILEL 108 (142)
T ss_pred HHHHHHHHHH
Confidence 5555444444
No 59
>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=32.10 E-value=8.8e+02 Score=31.76 Aligned_cols=96 Identities=17% Similarity=0.211 Sum_probs=59.3
Q ss_pred hhHHHHHHHHHHHHhhhcCCCCCCCCchhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHH
Q 003141 228 SISKLGFLSLLAVFKDIIPGYRIRLPTEKELEMKVSKEVKKMRFYESTLLSAYKAYLQKLIASEKQPVFHQVVVRCICNL 307 (844)
Q Consensus 228 ~vrkLAilSL~~VFkDIlP~YrIR~lte~E~~~kvsKev~~lr~fE~~Ll~~Y~~yLq~Le~l~k~~~l~~~Avkclc~L 307 (844)
--|-..+.+|++++.+++|+-.=|.-.|+ .. +.+. +..--.||++.|..|++.+......+.-.+.-+++.|.+
T Consensus 88 f~k~~c~~~ll~~l~~~~~~~sC~gk~EE--~i-L~~A---lls~v~WLL~~~~~~l~~~~e~~~~~~~~e~~l~~~~~~ 161 (990)
T PF11277_consen 88 FSKPHCINALLELLESIIDGLSCRGKAEE--CI-LCRA---LLSLVHWLLQCYEYSLEKLRENNELSAEQEEILEKCCQR 161 (990)
T ss_pred cchhHHHHHHHHHHHHhcCCcccCCcchH--HH-HHHH---HHHHHHHHHHHHHHHHHHHhhcCCCcchHHHHHHHHHHH
Confidence 34556889999999999998766664442 34 6665 566678999999999999865443222233334444444
Q ss_pred hhcCCCCchHHHHHHHHHHhhCCC
Q 003141 308 LDAVPHFNCCEILLEVVVRNLGSQ 331 (844)
Q Consensus 308 L~~~PhFNf~~nLL~~lV~kLg~~ 331 (844)
|..--+-.| +.--+-|.++.++
T Consensus 162 L~~i~~s~f--~~aLL~Iak~ee~ 183 (990)
T PF11277_consen 162 LEKILESTF--LRALLYIAKLEEP 183 (990)
T ss_pred HHHHHcCch--HHHHHHHhhhccH
Confidence 444444444 3333334444443
No 60
>PF12830 Nipped-B_C: Sister chromatid cohesion C-terminus
Probab=30.89 E-value=1.6e+02 Score=30.34 Aligned_cols=66 Identities=12% Similarity=0.210 Sum_probs=52.7
Q ss_pred HHHHHHHHHh--cCCcchHHHHHHHHHHHhh---cCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhcc
Q 003141 281 KAYLQKLIAS--EKQPVFHQVVVRCICNLLD---AVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEG 351 (844)
Q Consensus 281 ~~yLq~Le~l--~k~~~l~~~Avkclc~LL~---~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D~ 351 (844)
|.|+..+-.+ +.+...+..|++++--.+. .+|- .-+-.+|-..+|++..|+..+...+..++..++
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 4566655554 4556789999999888876 3664 678889999999999999999999999999863
No 61
>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=30.86 E-value=1.4e+02 Score=27.10 Aligned_cols=41 Identities=17% Similarity=0.249 Sum_probs=35.4
Q ss_pred cCCCCchHHHHHHHHHHhh-CCCcHHHHHHHHHHHHHHhhhc
Q 003141 310 AVPHFNCCEILLEVVVRNL-GSQDVVVRKLCCATIKSLFTNE 350 (844)
Q Consensus 310 ~~PhFNf~~nLL~~lV~kL-g~~~~~Va~~c~~al~~Lf~~D 350 (844)
..|||+|...+|.=...-+ ..++..|+.++.+||.+++...
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 4567899999999999999975
No 62
>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=30.53 E-value=91 Score=23.65 Aligned_cols=28 Identities=21% Similarity=0.110 Sum_probs=25.4
Q ss_pred HHHHHHHHhhCCCcHHHHHHHHHHHHHH
Q 003141 319 ILLEVVVRNLGSQDVVVRKLCCATIKSL 346 (844)
Q Consensus 319 nLL~~lV~kLg~~~~~Va~~c~~al~~L 346 (844)
+.+..+|..|.+.+..|...|+.+|..|
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 63
>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=30.47 E-value=3.4e+02 Score=33.14 Aligned_cols=148 Identities=23% Similarity=0.257 Sum_probs=76.2
Q ss_pred HHHhCHHHhHHHHHHHHHHhhccChhhHHHHHHHHHHHHhhhcCCCCCCCCchhhhhhhhhHHHHHHHHHHHHHHHHHHH
Q 003141 203 ALLADPESNIKSLKEMLQIARDDNPSISKLGFLSLLAVFKDIIPGYRIRLPTEKELEMKVSKEVKKMRFYESTLLSAYKA 282 (844)
Q Consensus 203 ~I~edPe~ni~~Lk~L~~m~~~k~~~vrkLAilSL~~VFkDIlP~YrIR~lte~E~~~kvsKev~~lr~fE~~Ll~~Y~~ 282 (844)
-...-|...=.+++.++++|++.|..||+-||-.|-.+.+|- |.+ -.|+. +|+ .
T Consensus 49 ffk~FP~l~~~Ai~a~~DLcEDed~~iR~~aik~lp~~ck~~-~~~----------v~kva-DvL---------~----- 102 (556)
T PF05918_consen 49 FFKHFPDLQEEAINAQLDLCEDEDVQIRKQAIKGLPQLCKDN-PEH----------VSKVA-DVL---------V----- 102 (556)
T ss_dssp HHCC-GGGHHHHHHHHHHHHT-SSHHHHHHHHHHGGGG--T---T-----------HHHHH-HHH---------H-----
T ss_pred HHhhChhhHHHHHHHHHHHHhcccHHHHHHHHHhHHHHHHhH-HHH----------HhHHH-HHH---------H-----
Confidence 345678888899999999999999999999998888777661 111 01111 111 0
Q ss_pred HHHHHHHhcCCcchHHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhC---CCcHHHHHHHHHHHHHHhhhccCCCCccH-
Q 003141 283 YLQKLIASEKQPVFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLG---SQDVVVRKLCCATIKSLFTNEGKHGGVAT- 358 (844)
Q Consensus 283 yLq~Le~l~k~~~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg---~~~~~Va~~c~~al~~Lf~~D~~~~G~~s- 358 (844)
|.|- +-++.-..++-+++.+||...|. .-|+.+...+. ..++.|+..|+.-|..-+..-+ ....+
T Consensus 103 --QlL~--tdd~~E~~~v~~sL~~ll~~d~k-----~tL~~lf~~i~~~~~~de~~Re~~lkFl~~kl~~l~--~~~~~p 171 (556)
T PF05918_consen 103 --QLLQ--TDDPVELDAVKNSLMSLLKQDPK-----GTLTGLFSQIESSKSGDEQVRERALKFLREKLKPLK--PELLTP 171 (556)
T ss_dssp --HHTT-----HHHHHHHHHHHHHHHHH-HH-----HHHHHHHHHHH---HS-HHHHHHHHHHHHHHGGGS---TTTS--
T ss_pred --HHHh--cccHHHHHHHHHHHHHHHhcCcH-----HHHHHHHHHHHhcccCchHHHHHHHHHHHHHHhhCc--HHHhhc
Confidence 1110 11122223344566666666653 33333333332 3467788899888876666542 23344
Q ss_pred -HHHHHHHHHhhhhcCCCCCHHHHHHhhcc
Q 003141 359 -VEAVRLIANHVKVKNCQLHPDFVEVFMSL 387 (844)
Q Consensus 359 -leiVr~I~~~vK~k~~~v~p~vl~~fL~L 387 (844)
-|+.+.|...+|.-=-.|...=...|+.+
T Consensus 172 ~~E~e~~i~~~ikkvL~DVTaeEF~l~m~l 201 (556)
T PF05918_consen 172 QKEMEEFIVDEIKKVLQDVTAEEFELFMSL 201 (556)
T ss_dssp -HHHHHHHHHHHHHHCTT--HHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence 45555555544432224566555555553
No 64
>PF14664 RICTOR_N: Rapamycin-insensitive companion of mTOR, N-term
Probab=29.65 E-value=85 Score=36.11 Aligned_cols=87 Identities=15% Similarity=0.259 Sum_probs=63.5
Q ss_pred HHHHHHHHHHHhhc--CCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhccCC---CCccHHHHHHHHHHhhhh
Q 003141 297 HQVVVRCICNLLDA--VPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKH---GGVATVEAVRLIANHVKV 371 (844)
Q Consensus 297 ~~~Avkclc~LL~~--~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D~~~---~G~~sleiVr~I~~~vK~ 371 (844)
+++|++.+-.++.- .| -++...+++.+|.-..++++..+..|.++|.++.-.+|.. .| -++.+.+.+-.
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 67888877777654 23 2344599999999999999999999999999998887641 12 23444444433
Q ss_pred cCCCCCHHHHHHhhccccc
Q 003141 372 KNCQLHPDFVEVFMSLSFD 390 (844)
Q Consensus 372 k~~~v~p~vl~~fL~Lr~~ 390 (844)
..+.+.+.++.+||++ ++
T Consensus 159 ~~~~~~~~l~~~lL~l-Ld 176 (371)
T PF14664_consen 159 GSFSISESLLDTLLYL-LD 176 (371)
T ss_pred ccHhHHHHHHHHHHHH-hC
Confidence 4456888899999998 54
No 65
>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=28.18 E-value=1e+02 Score=22.13 Aligned_cols=28 Identities=25% Similarity=0.329 Sum_probs=23.0
Q ss_pred HHHHHHHhhccChhhHHHHHHHHHHHHh
Q 003141 215 LKEMLQIARDDNPSISKLGFLSLLAVFK 242 (844)
Q Consensus 215 Lk~L~~m~~~k~~~vrkLAilSL~~VFk 242 (844)
|..|++++.+.+..||..|..+|..+.+
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 5678899999999999999999888754
No 66
>PF00790 VHS: VHS domain; InterPro: IPR002014 The VHS domain is a ~140 residues long domain, whose name is derived from its occurrence in VPS-27, Hrs and STAM. Based on regions surrounding the domain, VHS-proteins can be divided into 4 groups []: STAM/EAST/Hbp which all share the domain composition VHS-SH3-ITAM and carry one or two ubiquitin-interacting motifs Proteins with a FYVE domain (IPR000306 from INTERPRO) C-terminal to VHS which also carry one or two ubiquitin-interacting motifs GGA proteins with a domain composition VHS-GAT (GGA and Tom1) homology domain VHS domain alone or in combination with domains other than those listed above The VHS domain is always found at the N- terminus of proteins suggesting that such topology is important for function. The domain is considered to have a general membrane targeting/cargo recognition role in vesicular trafficking []. Resolution of the crystal structure of the VHS domain of Drosophila Hrs and human Tom1 revealed that it consists of eight helices arranged in a double-layer superhelix []. The existence of conserved patches of residues on the domain surface suggests that VHS domains may be involved in protein-protein recognition and docking. Overall, sequence similarity is low (approx 25%) amongst domain family members.; GO: 0006886 intracellular protein transport; PDB: 1X5B_A 2L0T_B 1DVP_A 3LDZ_C 3ZYQ_A 4AVX_A 3G2U_A 3G2W_A 1UJJ_A 3G2V_A ....
Probab=26.91 E-value=1.4e+02 Score=29.32 Aligned_cols=84 Identities=20% Similarity=0.341 Sum_probs=56.6
Q ss_pred HHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhccC--CCCccHHHHHHHHHHhhhhcCCC-
Q 003141 299 VVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGK--HGGVATVEAVRLIANHVKVKNCQ- 375 (844)
Q Consensus 299 ~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D~~--~~G~~sleiVr~I~~~vK~k~~~- 375 (844)
.++--+|+++.+.+. -....+..|..+|.++++.+...|+..|..+.+|-+. |.-..+-+.+..+.++++.+...
T Consensus 24 ~~~l~icD~i~~~~~--~~kea~~~l~krl~~~~~~vq~~aL~lld~lvkNcg~~f~~ev~~~~fl~~l~~l~~~~~~~~ 101 (140)
T PF00790_consen 24 SLILEICDLINSSPD--GAKEAARALRKRLKHGNPNVQLLALTLLDALVKNCGPRFHREVASKEFLDELVKLIKSKKTDP 101 (140)
T ss_dssp HHHHHHHHHHHTSTT--HHHHHHHHHHHHHTTSSHHHHHHHHHHHHHHHHHSHHHHHHHHTSHHHHHHHHHHHHHTTTHH
T ss_pred HHHHHHHHHHHcCCc--cHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHcCCHHHHHHHhHHHHHHHHHHHHccCCCCc
Confidence 455679999998843 5569999999999999999999999999999998421 00112223455555655544332
Q ss_pred ---CCHHHHHHh
Q 003141 376 ---LHPDFVEVF 384 (844)
Q Consensus 376 ---v~p~vl~~f 384 (844)
|...+++++
T Consensus 102 ~~~Vk~k~l~ll 113 (140)
T PF00790_consen 102 ETPVKEKILELL 113 (140)
T ss_dssp HSHHHHHHHHHH
T ss_pred hhHHHHHHHHHH
Confidence 344445444
No 67
>KOG1077 consensus Vesicle coat complex AP-2, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=26.51 E-value=3e+02 Score=34.37 Aligned_cols=83 Identities=10% Similarity=0.252 Sum_probs=61.6
Q ss_pred CCcchHHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHHhhhccCCCCccHHHHHHHHHHhhh
Q 003141 292 KQPVFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLG-SQDVVVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHVK 370 (844)
Q Consensus 292 k~~~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg-~~~~~Va~~c~~al~~Lf~~D~~~~G~~sleiVr~I~~~vK 370 (844)
+.++++=.|+..||.|..+.+-..--..=..++++-|. .+|-.|+.++.+.|-..-.. +.+. .||..+-+++-
T Consensus 341 rE~NiRYLaLEsm~~L~ss~~s~davK~h~d~Ii~sLkterDvSirrravDLLY~mcD~-----~Nak-~IV~elLqYL~ 414 (938)
T KOG1077|consen 341 RETNIRYLALESMCKLASSEFSIDAVKKHQDTIINSLKTERDVSIRRRAVDLLYAMCDV-----SNAK-QIVAELLQYLE 414 (938)
T ss_pred ccccchhhhHHHHHHHHhccchHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHhch-----hhHH-HHHHHHHHHHh
Confidence 46778899999999999985543332333678889998 78999998888777554332 3343 58888888888
Q ss_pred hcCCCCCHHH
Q 003141 371 VKNCQLHPDF 380 (844)
Q Consensus 371 ~k~~~v~p~v 380 (844)
..+|.+++++
T Consensus 415 tAd~sireei 424 (938)
T KOG1077|consen 415 TADYSIREEI 424 (938)
T ss_pred hcchHHHHHH
Confidence 8888888875
No 68
>PLN00094 aconitate hydratase 2; Provisional
Probab=26.41 E-value=4.6e+02 Score=33.72 Aligned_cols=80 Identities=11% Similarity=0.120 Sum_probs=58.6
Q ss_pred hHHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhccCCCCccHHHHHHHHHHhhhhcCCC
Q 003141 296 FHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHVKVKNCQ 375 (844)
Q Consensus 296 l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D~~~~G~~sleiVr~I~~~vK~k~~~ 375 (844)
+...-+..+|+||.+-|+- ...-||.+++++..---+..+..=..-|..+.+.+...+......+|+++.-|+ -+||
T Consensus 91 l~~~q~~~~~~ll~~~~~~-~~~~~~~l~~~rv~pgvd~aa~vka~fl~~i~~g~~~~~~i~~~~a~~llg~m~--ggyn 167 (938)
T PLN00094 91 LDAKQVSELIAQLEAPKSE-DADRLVDLLVNRVPPGVDEAAYVKASWLAAVAKGETRSPLISRARAVEILGTMQ--GGYN 167 (938)
T ss_pred CCHHHHHHHHHHhcCCCCc-cHHHHHHHHhhCCCCCCChHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHhhcc--CCCc
Confidence 3344567899999998875 456799999999876555555555567778887765555555667899988886 5788
Q ss_pred CCH
Q 003141 376 LHP 378 (844)
Q Consensus 376 v~p 378 (844)
|.|
T Consensus 168 v~~ 170 (938)
T PLN00094 168 ISP 170 (938)
T ss_pred HHH
Confidence 776
No 69
>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=26.21 E-value=1.7e+02 Score=32.80 Aligned_cols=69 Identities=14% Similarity=0.161 Sum_probs=52.9
Q ss_pred HHHHHHHHHHhhcCCCCch---HHHHHHHHHHhhCCC--cHHHHHHHHHHHHHHhhhccCCCCccHHHHHHHHHHhh
Q 003141 298 QVVVRCICNLLDAVPHFNC---CEILLEVVVRNLGSQ--DVVVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHV 369 (844)
Q Consensus 298 ~~Avkclc~LL~~~PhFNf---~~nLL~~lV~kLg~~--~~~Va~~c~~al~~Lf~~D~~~~G~~sleiVr~I~~~v 369 (844)
...+++++.++..+++... ..-+-+.+|..+.++ ...||..|+.+++.++..++ +.++-.++..+.+.+
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 4468888888888877443 345888899999888 89999999999999999873 445556666666554
No 70
>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=26.16 E-value=1.1e+02 Score=28.55 Aligned_cols=48 Identities=23% Similarity=0.293 Sum_probs=40.6
Q ss_pred HHHHHHHhhcCCCCchHHHHHHHHHHhhCCC-cHHHHHHHHHHHHHHhhhc
Q 003141 301 VRCICNLLDAVPHFNCCEILLEVVVRNLGSQ-DVVVRKLCCATIKSLFTNE 350 (844)
Q Consensus 301 vkclc~LL~~~PhFNf~~nLL~~lV~kLg~~-~~~Va~~c~~al~~Lf~~D 350 (844)
+-.+|..+.+.|+-|. ..|..|.....+. +..|+.+|.-++..+|++=
T Consensus 8 IA~l~~~ile~PE~ni--~~lk~l~~~~~~~~~~~v~kLa~lSl~~VFkDI 56 (95)
T PF07540_consen 8 IASLASSILEDPEENI--GSLKRLLKLCESKVDVTVRKLAILSLLAVFKDI 56 (95)
T ss_pred HHHHHHHHHHCHHHHH--HHHHHHHHHHhccchHHHHHHHHHHHHHHHhhc
Confidence 4567888999999988 7788888888888 8888889888888898863
No 71
>KOG4204 consensus Histone deacetylase complex, SIN3 component [Chromatin structure and dynamics]
Probab=26.15 E-value=8.5e+02 Score=26.29 Aligned_cols=120 Identities=20% Similarity=0.247 Sum_probs=70.8
Q ss_pred HHHHHHHHHHHHHHHHhCHHHhHHHHHHHHHHhhc-cChhhHHHHHHHHHHHHhh----------hc-CCCCCCCCchhh
Q 003141 190 FESKKCKLAELGMALLADPESNIKSLKEMLQIARD-DNPSISKLGFLSLLAVFKD----------II-PGYRIRLPTEKE 257 (844)
Q Consensus 190 ~~~~kdkIAaL~~~I~edPe~ni~~Lk~L~~m~~~-k~~~vrkLAilSL~~VFkD----------Il-P~YrIR~lte~E 257 (844)
+..+...|-++-...+.+|+--=..|+-|.++... -|... +|.-+.++||| .| |||+|-...+..
T Consensus 19 ~~DAlsYl~~VK~~f~d~p~kY~~FL~im~d~ka~~iD~~~---vi~rv~eLfK~h~~Ll~gfN~fLP~~~~i~~~~~~~ 95 (231)
T KOG4204|consen 19 LDDALAYLKAVKEAFQDEPEKYDEFLEIMKDFKAQRIDTPG---VIARVKELLKGHPDLLLGFNTFLPPGYKITLSSEAK 95 (231)
T ss_pred hHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHhccCCHHH---HHHHHHHHHccCHHHHHHHHhhCcccceeccCcccc
Confidence 34556667777777888897655556556555433 23222 46667788987 33 589997655431
Q ss_pred ------------hhhhhh-----------HHHHHHHHHHHHHH-------HHHHHHHHHHHHhcCCcchHHHHHHHHHHH
Q 003141 258 ------------LEMKVS-----------KEVKKMRFYESTLL-------SAYKAYLQKLIASEKQPVFHQVVVRCICNL 307 (844)
Q Consensus 258 ------------~~~kvs-----------Kev~~lr~fE~~Ll-------~~Y~~yLq~Le~l~k~~~l~~~Avkclc~L 307 (844)
-..+++ -+.-....|-.+++ .+|..|++.|...........-..+|++.|
T Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~fv~klk~rf~~~~~v~~s~l~il~~y~~~~ks~~e~~~eV~~L 175 (231)
T KOG4204|consen 96 DEFTIYGATSYLPSPKVAFHEEILKLLEDVEFDRAISFVNKLKTRFQGDDHVYKSFLEILRMYQEGNKSVSEVYQEVEAL 175 (231)
T ss_pred cccccccccccCCCccccccchhhhhcccchHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHH
Confidence 111222 12222334444444 566778888877665544445577788888
Q ss_pred hhcCC
Q 003141 308 LDAVP 312 (844)
Q Consensus 308 L~~~P 312 (844)
+-.+|
T Consensus 176 ~~~~~ 180 (231)
T KOG4204|consen 176 LQGHE 180 (231)
T ss_pred HccCH
Confidence 87776
No 72
>PRK09238 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated
Probab=25.48 E-value=3.5e+02 Score=34.52 Aligned_cols=100 Identities=15% Similarity=0.240 Sum_probs=68.2
Q ss_pred HHHHHHHHHHhcCC-----cchHHHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhccCCC
Q 003141 280 YKAYLQKLIASEKQ-----PVFHQVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHG 354 (844)
Q Consensus 280 Y~~yLq~Le~l~k~-----~~l~~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D~~~~ 354 (844)
|..|.+..+.-... |-..++ +..+|+||.+-|+-+- +-||.+++++..---+..+..=..-|..+.+.+...+
T Consensus 2 ~~~y~~~~~er~~~g~~p~pl~~~~-~~~~~~~l~~~~~~~~-~~~~~l~~~~v~pgv~~aa~vka~fl~~i~~~~~~~~ 79 (835)
T PRK09238 2 LEAYRKHVAERAALGIPPLPLDAEQ-TAELVELLKNPPAGEE-EFLLDLLTNRVPPGVDEAAYVKAGFLAAIAKGEAKSP 79 (835)
T ss_pred hHHHHHHHHHHHhCCCCCCCCCHHH-HHHHHHHhcCCCCccH-HHHHHHHhcCCCCCCChHHHHHHHHHHHHHcCCCCCc
Confidence 45666666443322 222333 8899999999998743 3499999998875555555544567778887766555
Q ss_pred CccHHHHHHHHHHhhhhcCCCCCHHHHHHh
Q 003141 355 GVATVEAVRLIANHVKVKNCQLHPDFVEVF 384 (844)
Q Consensus 355 G~~sleiVr~I~~~vK~k~~~v~p~vl~~f 384 (844)
.-...++|.++.-|+ -+|||.| +++.|
T Consensus 80 ~i~~~~a~~~l~~m~--gg~~~~~-l~~~l 106 (835)
T PRK09238 80 LISPEKAVELLGTML--GGYNVEP-LIDLL 106 (835)
T ss_pred CcCHHHHHHHHhhcc--CCCcHHH-HHHHh
Confidence 556678999999887 5788877 44443
No 73
>KOG2171 consensus Karyopherin (importin) beta 3 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=24.85 E-value=1.3e+02 Score=39.03 Aligned_cols=63 Identities=14% Similarity=0.153 Sum_probs=0.0
Q ss_pred HHHHHHHhcCCc--chHHHHHHHHHHHhhcCCC---CchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHH
Q 003141 283 YLQKLIASEKQP--VFHQVVVRCICNLLDAVPH---FNCCEILLEVVVRNLGSQDVVVRKLCCATIKSL 346 (844)
Q Consensus 283 yLq~Le~l~k~~--~l~~~Avkclc~LL~~~Ph---FNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~L 346 (844)
+.+.+..+...+ ..+..|+.++..+-...+. -|+ ++|+.+|+|.|.||.+.|+..||.+|.++
T Consensus 349 ~~~~l~~~l~S~~w~~R~AaL~Als~i~EGc~~~m~~~l-~~Il~~Vl~~l~DphprVr~AA~naigQ~ 416 (1075)
T KOG2171|consen 349 LFEALEAMLQSTEWKERHAALLALSVIAEGCSDVMIGNL-PKILPIVLNGLNDPHPRVRYAALNAIGQM 416 (1075)
T ss_pred HHHHHHHHhcCCCHHHHHHHHHHHHHHHcccHHHHHHHH-HHHHHHHHhhcCCCCHHHHHHHHHHHHhh
No 74
>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=24.16 E-value=99 Score=22.64 Aligned_cols=29 Identities=28% Similarity=0.115 Sum_probs=23.1
Q ss_pred HHHHHHHHhhCCCcHHHHHHHHHHHHHHh
Q 003141 319 ILLEVVVRNLGSQDVVVRKLCCATIKSLF 347 (844)
Q Consensus 319 nLL~~lV~kLg~~~~~Va~~c~~al~~Lf 347 (844)
+.+..++..|++.+..+...++.+|..|.
T Consensus 12 g~i~~L~~ll~~~~~~i~~~a~~aL~nl~ 40 (41)
T smart00185 12 GGLPALVELLKSEDEEVVKEAAWALSNLS 40 (41)
T ss_pred CCHHHHHHHHcCCCHHHHHHHHHHHHHHc
Confidence 46777888888888888888888888763
No 75
>KOG2023 consensus Nuclear transport receptor Karyopherin-beta2/Transportin (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=23.87 E-value=3.3e+02 Score=33.92 Aligned_cols=116 Identities=16% Similarity=0.243 Sum_probs=73.6
Q ss_pred HHHHHHHHhhccChhhHHHHHHHHHHHHhhhcCCCCCCCCchhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 003141 214 SLKEMLQIARDDNPSISKLGFLSLLAVFKDIIPGYRIRLPTEKELEMKVSKEVKKMRFYESTLLSAYKAYLQKLIASEKQ 293 (844)
Q Consensus 214 ~Lk~L~~m~~~k~~~vrkLAilSL~~VFkDIlP~YrIR~lte~E~~~kvsKev~~lr~fE~~Ll~~Y~~yLq~Le~l~k~ 293 (844)
-|..|..|....+.....=|+-+|..|+-|..--|.--.+| +-+.. ++- +|++.... ..
T Consensus 129 lLp~L~~~L~s~d~n~~EgA~~AL~KIcEDsa~~lds~~~~------------rpl~~----mip---kfl~f~~h--~s 187 (885)
T KOG2023|consen 129 LLPQLCELLDSPDYNTCEGAFGALQKICEDSAQFLDSDVLT------------RPLNI----MIP---KFLQFFKH--PS 187 (885)
T ss_pred HHHHHHHHhcCCcccccchhHHHHHHHHhhhHHHHhhhccc------------CchHH----hHH---HHHHHHhC--CC
Confidence 47777888777777777778888888887754322221110 00111 111 22222111 25
Q ss_pred cchHHHHHHHHHHHhhcC--CCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhc
Q 003141 294 PVFHQVVVRCICNLLDAV--PHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNE 350 (844)
Q Consensus 294 ~~l~~~Avkclc~LL~~~--PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D 350 (844)
|.++.-|+.|+-..+... +-.+.-+.-|..+-...+|.++.|+..+|.++.-|+.-.
T Consensus 188 pkiRs~A~~cvNq~i~~~~qal~~~iD~Fle~lFalanD~~~eVRk~vC~alv~Llevr 246 (885)
T KOG2023|consen 188 PKIRSHAVGCVNQFIIIQTQALYVHIDKFLEILFALANDEDPEVRKNVCRALVFLLEVR 246 (885)
T ss_pred hhHHHHHHhhhhheeecCcHHHHHHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHhc
Confidence 678999999997765433 334444566777777789999999999999999888764
No 76
>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=23.81 E-value=5.7e+02 Score=26.74 Aligned_cols=85 Identities=20% Similarity=0.195 Sum_probs=55.3
Q ss_pred HHHHHHHHHHh--cCCcchHHHHHHHHHHHhhc-CCCC--chHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhccCCC
Q 003141 280 YKAYLQKLIAS--EKQPVFHQVVVRCICNLLDA-VPHF--NCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHG 354 (844)
Q Consensus 280 Y~~yLq~Le~l--~k~~~l~~~Avkclc~LL~~-~PhF--Nf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D~~~~ 354 (844)
|..||-.+-.. +.+...+-+|.+.+.+||.. .++- -.-..|+.-+-+-|+++++.|...|+.+|+.|....+ ..
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 33446788999999999998 2210 0112344445567899999999999999999977653 44
Q ss_pred CccHHHHHHHHHHh
Q 003141 355 GVATVEAVRLIANH 368 (844)
Q Consensus 355 G~~sleiVr~I~~~ 368 (844)
|++ .|--..++
T Consensus 115 G~a---LvPyyrqL 125 (183)
T PF10274_consen 115 GEA---LVPYYRQL 125 (183)
T ss_pred hHH---HHHHHHHH
Confidence 543 55444443
No 77
>PRK14148 heat shock protein GrpE; Provisional
Probab=23.64 E-value=5.7e+02 Score=26.96 Aligned_cols=23 Identities=9% Similarity=-0.060 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Q 003141 269 MRFYESTLLSAYKAYLQKLIASE 291 (844)
Q Consensus 269 lr~fE~~Ll~~Y~~yLq~Le~l~ 291 (844)
...|-.++.-.|++|++.|+++.
T Consensus 116 ~~~l~~Gv~mi~k~l~~vL~k~G 138 (195)
T PRK14148 116 AIAMKEGIELTAKMLVDILKKNG 138 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCC
Confidence 35578899999999999998763
No 78
>PF05327 RRN3: RNA polymerase I specific transcription initiation factor RRN3; InterPro: IPR007991 This family consists of several eukaryotic proteins which are homologous to the Saccharomyces cerevisiae RRN3 protein. RRN3 is one of the RRN genes specifically required for the transcription of rDNA by RNA polymerase I (Pol I) in the S. cerevisiae [] RNA polymerase I complex within the nucleolus. In mammalian cells, the phosphorylation state of Rrn3 regulates rDNA transcription by determining the steady-state concentration of the Rrn3 [].; PDB: 3TJ1_B.
Probab=23.45 E-value=1.4e+03 Score=27.81 Aligned_cols=130 Identities=11% Similarity=0.140 Sum_probs=70.0
Q ss_pred CHHHHhhhhHHHHHHHHHHHHHHHhhhccccccccccccccCCCCCCCccchHHHHhhhhcccccCChhhHHHHHHHHHH
Q 003141 454 DVMEKRRMQTETISAVFETYFRILKHTMMFTAVSSEANASSIGGASGAHPLLAPCLKGLGKFSHLIDLDYIGDLMNYLKR 533 (844)
Q Consensus 454 d~~er~k~qteiL~~vF~iYFRILK~~~~~~~~~~~~~~ra~p~a~~~s~LL~~vLeGL~KfaHlIN~df~~DLl~vL~~ 533 (844)
...+..+-..+.|..+..+.|.-+..+...+ -+. +| -....|.+|+.++..
T Consensus 268 ~~~~~~~~~~~kLD~im~~lf~~l~~~~~~~-------------------~~~---~~-------~~~~lf~~Ll~~F~~ 318 (563)
T PF05327_consen 268 RRTEDIDEMAEKLDSIMDLLFEYLDSCFTNG-------------------SLD---EG-------NADSLFNTLLSIFES 318 (563)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHHHHHHS-HH-------------------HHH---SS-------THHHHHHHHHHHHHH
T ss_pred hhHhhHHHHHHHHHHHHHHHHHHHHHhccCC-------------------ccc---hh-------HHHHHHHHHHHHHHH
Confidence 3445556677888888888888887753211 000 00 123588999999999
Q ss_pred HhcCCCCCCCCCCCCCCccchhhHHHHHHHHHHHHhhccccccCChHHHHHHHHHhhhccCCC-CChHHHHHHHHHHHhh
Q 003141 534 LAGGGSSNDGPSQKNSNHLTVTERLRCCIVAFRVMRNNLDALNVDLQDFFVQLYNLILEYRPG-RDQGEVLAEALKIMLC 612 (844)
Q Consensus 534 Li~~~~~~~~~~~~~~~~ls~~~~L~ci~taF~LL~~~g~alniD~~rFY~~LY~~L~~~~~~-~~~~~~ll~~L~~~l~ 612 (844)
.|-..+. +-..++ ..|.+.+-..+- ...|...|...+.++.-. ..+.. -..-|-.++.
T Consensus 319 ~ILpT~~------------sr~vQF----l~Fy~~s~~~~~----~~~Fl~~L~~~~~~~~~~~~~R~~-A~~YlaSfla 377 (563)
T PF05327_consen 319 HILPTHK------------SRHVQF----LLFYFCSLDPEL----ADAFLSFLWKIAFDPNQPPVTRQA-AAAYLASFLA 377 (563)
T ss_dssp TCCCC-S-------------SSTTH----HHHHHHTTSHHH----HHHHHHHHHHHHH-SSS-HHHHHH-HHHHHHHHHH
T ss_pred HccCCCc------------cchHHH----HHHHHHHcCchH----HHHHHHHHHHHHhCCCCCHHHHHH-HHHHHHHHHH
Confidence 7743111 111112 335555432221 468899999988864321 12210 1112233445
Q ss_pred cccCCcHHHHHHHHHHHHHHH
Q 003141 613 DDRQHDMQKAAAFVKRLATFS 633 (844)
Q Consensus 613 ~~~~~~~~RvaAFiKRLl~~a 633 (844)
+-+.++..-|..-+++|++.+
T Consensus 378 RAk~v~~~~v~~~l~~L~~w~ 398 (563)
T PF05327_consen 378 RAKFVPLSTVRSVLSYLCDWL 398 (563)
T ss_dssp HBTT--HHHHHHHHHHHHHHH
T ss_pred HHhcCCHHHHHHHHHHHHHHH
Confidence 556788888888888888865
No 79
>COG5218 YCG1 Chromosome condensation complex Condensin, subunit G [Chromatin structure and dynamics / Cell division and chromosome partitioning]
Probab=22.48 E-value=6.4e+02 Score=31.14 Aligned_cols=78 Identities=14% Similarity=0.132 Sum_probs=57.7
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCcchHHHHHHHH----HHHhhcCCC-CchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHH
Q 003141 272 YESTLLSAYKAYLQKLIASEKQPVFHQVVVRCI----CNLLDAVPH-FNCCEILLEVVVRNLGSQDVVVRKLCCATIKSL 346 (844)
Q Consensus 272 fE~~Ll~~Y~~yLq~Le~l~k~~~l~~~Avkcl----c~LL~~~Ph-FNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~L 346 (844)
+++++-..+-+-+..+..+.+.|++..--++.+ -.++..-|+ -.+-.-++.-+++.+.+++.+|+..||..|.-+
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 556666656666777777888787654444333 346778888 677778889999999999999999999988766
Q ss_pred hhh
Q 003141 347 FTN 349 (844)
Q Consensus 347 f~~ 349 (844)
...
T Consensus 119 ~d~ 121 (885)
T COG5218 119 SDV 121 (885)
T ss_pred HHh
Confidence 543
No 80
>cd03561 VHS VHS domain family; The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It has a superhelical structure similar to that of the ARM (Armadillo) repeats and is present at the N-termini of proteins involved in intracellular membrane trafficking. There are four general groups of VHS domain containing proteins based on their association with other domains. The first group consists of proteins of the STAM/EAST/Hbp family which has the domain composition VHS-SH3-ITAM. The second consists of proteins with a FYVE domain C-terminal to VHS. The third consists of GGA proteins with a domain composition VHS-GAT (GGA and TOM)-GAE (gamma-adaptin ear) domain. The fourth consists of proteins with a VHS domain alone or with domains other than those mentioned above. In GGA proteins, VHS domains are involved in cargo recognition in trans-Golgi, thereby having a general me
Probab=22.32 E-value=6e+02 Score=24.58 Aligned_cols=51 Identities=16% Similarity=0.205 Sum_probs=42.9
Q ss_pred HHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhc
Q 003141 298 QVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNE 350 (844)
Q Consensus 298 ~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D 350 (844)
-.++--+|+++.+.+ +-....++.|-.+|.++++.+.-.+...|..+++|=
T Consensus 18 ~~~il~icd~I~~~~--~~~k~a~raL~krl~~~n~~vql~AL~lLd~~vkNc 68 (133)
T cd03561 18 WALNLELCDLINLKP--NGPKEAARAIRKKIKYGNPHVQLLALTLLELLVKNC 68 (133)
T ss_pred HHHHHHHHHHHhCCC--CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhC
Confidence 346677899998875 345689999999999999999999999999999984
No 81
>KOG2759 consensus Vacuolar H+-ATPase V1 sector, subunit H [Energy production and conversion]
Probab=21.72 E-value=2.3e+02 Score=33.19 Aligned_cols=109 Identities=16% Similarity=0.309 Sum_probs=58.2
Q ss_pred HHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhhcCCC-CchHH-HHHHHHHHhhC-C-CcHHHHH---HHHHHHH--HHh
Q 003141 277 LSAYKAYLQKLIASEKQPVFHQVVVRCICNLLDAVPH-FNCCE-ILLEVVVRNLG-S-QDVVVRK---LCCATIK--SLF 347 (844)
Q Consensus 277 l~~Y~~yLq~Le~l~k~~~l~~~Avkclc~LL~~~Ph-FNf~~-nLL~~lV~kLg-~-~~~~Va~---~c~~al~--~Lf 347 (844)
+.+|..||..+.+-+..+-...+|++|+-+||.-.++ |+|-. +=..++++-+. . .+-.+.. .|+..|. ..+
T Consensus 154 ~~~~~~~l~~~l~~~~~~~~~~~~~rcLQ~ll~~~eyR~~~v~adg~~~l~~~l~s~~~~~QlQYqsifciWlLtFn~~~ 233 (442)
T KOG2759|consen 154 LDVYKGFLKEQLQSSTNNDYIQFAARCLQTLLRVDEYRYAFVIADGVSLLIRILASTKCGFQLQYQSIFCIWLLTFNPHA 233 (442)
T ss_pred HHHHHHHHHHHHhccCCCchHHHHHHHHHHHhcCcchhheeeecCcchhhHHHHhccCcchhHHHHHHHHHHHhhcCHHH
Confidence 4566677766655555555678999999999987665 33311 00134444442 1 1222322 3444443 222
Q ss_pred hhccCCCCccHHHHHHHHHHhhhhcCCCCCHHHHHHhhccccccccc
Q 003141 348 TNEGKHGGVATVEAVRLIANHVKVKNCQLHPDFVEVFMSLSFDEDLQ 394 (844)
Q Consensus 348 ~~D~~~~G~~sleiVr~I~~~vK~k~~~v~p~vl~~fL~Lr~~e~l~ 394 (844)
..+ ..++.++..+.++|+. ...++|+++.++. |...+.
T Consensus 234 ae~-----~~~~~li~~L~~Ivk~---~~KEKV~Rivlai-~~Nll~ 271 (442)
T KOG2759|consen 234 AEK-----LKRFDLIQDLSDIVKE---STKEKVTRIVLAI-FRNLLD 271 (442)
T ss_pred HHH-----HhhccHHHHHHHHHHH---HHHHHHHHHHHHH-HHHHhc
Confidence 222 1333456666666654 3567777777665 554443
No 82
>TIGR00117 acnB aconitate hydratase 2. Aconitate hydratase (aconitase) is an enzyme of the TCA cycle. This model describes aconitase 2, AcnB, which has weak similarity to aconitase 1. It is found almost exclusively in the Proteobacteria.
Probab=21.05 E-value=5.2e+02 Score=33.09 Aligned_cols=83 Identities=14% Similarity=0.217 Sum_probs=60.2
Q ss_pred HHHHHHHHHHhhcCCCCchHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHhhhccCCCCccHHHHHHHHHHhhhhcCCCCC
Q 003141 298 QVVVRCICNLLDAVPHFNCCEILLEVVVRNLGSQDVVVRKLCCATIKSLFTNEGKHGGVATVEAVRLIANHVKVKNCQLH 377 (844)
Q Consensus 298 ~~Avkclc~LL~~~PhFNf~~nLL~~lV~kLg~~~~~Va~~c~~al~~Lf~~D~~~~G~~sleiVr~I~~~vK~k~~~v~ 377 (844)
..-+..+|+||.+-|+- ...-||.+++++..---+..+..=..-|..+.+.+...+.-....+|.++.-|+ -+|||.
T Consensus 24 ~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~pgvd~aa~vka~fl~~i~~~~~~~~~i~~~~a~~~l~~m~--gg~~~~ 100 (844)
T TIGR00117 24 ANQMAALVELLKNPPAG-EEEFLLDLLTNRVPPGVDEAAYVKAGFLAAIAKGEAKCPLISPEKAIELLGTMQ--GGYNVH 100 (844)
T ss_pred HHHHHHHHHHhcCCCCc-cHHHHHHHHHhCCCCCCChHHHHHHHHHHHHHcCCCCCcccCHHHHHHHHhhcc--CCCCHH
Confidence 34567899999998874 456799999999876555555555567778887776555555667888888886 578887
Q ss_pred HHHHHHh
Q 003141 378 PDFVEVF 384 (844)
Q Consensus 378 p~vl~~f 384 (844)
| +++.+
T Consensus 101 ~-l~~~~ 106 (844)
T TIGR00117 101 P-LIDAL 106 (844)
T ss_pred H-HHHHH
Confidence 7 44443
No 83
>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=20.68 E-value=3.6e+02 Score=29.86 Aligned_cols=114 Identities=17% Similarity=0.091 Sum_probs=57.5
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhhcCCCCch--H-------HHHHHHHHHhhCCCcHHHHHHHHHH
Q 003141 272 YESTLLSAYKAYLQKLIASEKQPVFHQVVVRCICNLLDAVPHFNC--C-------EILLEVVVRNLGSQDVVVRKLCCAT 342 (844)
Q Consensus 272 fE~~Ll~~Y~~yLq~Le~l~k~~~l~~~Avkclc~LL~~~PhFNf--~-------~nLL~~lV~kLg~~~~~Va~~c~~a 342 (844)
.+.....+=.-|+..|.....++...+..+..+.+||...|.+-- . ......+++.++.+|..|...++..
T Consensus 49 ~~~~~~~~~~~~l~lL~~~~~~~d~v~yvL~li~dll~~~~~~~~~~~~~~~~~~~~~~~~fl~ll~~~D~~i~~~a~~i 128 (312)
T PF03224_consen 49 LEEDGDQYASLFLNLLNKLSSNDDTVQYVLTLIDDLLSDDPSRVELFLELAKQDDSDPYSPFLKLLDRNDSFIQLKAAFI 128 (312)
T ss_dssp -------------HHHHHH---HHHHHHHHHHHHHHHH-SSSSHHHHHHHHH-TTH--HHHHHHH-S-SSHHHHHHHHHH
T ss_pred HHhchhhHHHHHHHHHHHccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHhcccccchhHHHHHHHhcCCCHHHHHHHHHH
Confidence 344444444566666776644445667788899999999996431 1 1245566777888899999999999
Q ss_pred HHHHhhhccCCCCccH--HHHHHHHHHhhhh----cCCCCCHHHHHHhhcc
Q 003141 343 IKSLFTNEGKHGGVAT--VEAVRLIANHVKV----KNCQLHPDFVEVFMSL 387 (844)
Q Consensus 343 l~~Lf~~D~~~~G~~s--leiVr~I~~~vK~----k~~~v~p~vl~~fL~L 387 (844)
+..|+...+. .... -+++..+.++++. .+.++..-++.+|-.|
T Consensus 129 Lt~Ll~~~~~--~~~~~~~~~l~~ll~~L~~~l~~~~~~~~~~av~~L~~L 177 (312)
T PF03224_consen 129 LTSLLSQGPK--RSEKLVKEALPKLLQWLSSQLSSSDSELQYIAVQCLQNL 177 (312)
T ss_dssp HHHHHTSTTT----HHHHHHHHHHHHHHHH-TT-HHHH---HHHHHHHHHH
T ss_pred HHHHHHcCCc--cccchHHHHHHHHHHHHHHhhcCCCcchHHHHHHHHHHH
Confidence 9999998742 1121 1455555555543 2333333344554443
No 84
>KOG2259 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.39 E-value=1.1e+03 Score=29.73 Aligned_cols=56 Identities=14% Similarity=0.277 Sum_probs=49.8
Q ss_pred HHHHHHHHHHHHHHHHHHhCHHHhHHHHHHHHHHhhccChhhHHHHHHHHHHHHhh
Q 003141 188 ELFESKKCKLAELGMALLADPESNIKSLKEMLQIARDDNPSISKLGFLSLLAVFKD 243 (844)
Q Consensus 188 e~~~~~kdkIAaL~~~I~edPe~ni~~Lk~L~~m~~~k~~~vrkLAilSL~~VFkD 243 (844)
|-.+=.+.-++++|++.++.|-.-..+|+-|++|.++....||-.||-+|..+-.-
T Consensus 385 Ef~EVR~AAV~Sl~~La~ssP~FA~~aldfLvDMfNDE~~~VRL~ai~aL~~Is~~ 440 (823)
T KOG2259|consen 385 EFYEVRRAAVASLCSLATSSPGFAVRALDFLVDMFNDEIEVVRLKAIFALTMISVH 440 (823)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHH
Confidence 45566788899999999999999999999999999999999999999999988443
Done!