Query 011038
Match_columns 495
No_of_seqs 57 out of 59
Neff 3.3
Searched_HMMs 46136
Date Fri Mar 29 07:25:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011038.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011038hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2412 Nuclear-export-signal 100.0 3.8E-66 8.2E-71 539.4 27.5 446 4-489 3-467 (591)
2 PF07817 GLE1: GLE1-like prote 100.0 6.7E-29 1.5E-33 240.4 8.3 131 365-495 22-175 (256)
3 KOG2412 Nuclear-export-signal 96.8 0.012 2.7E-07 64.4 12.3 38 217-257 220-258 (591)
4 PTZ00121 MAEBL; Provisional 96.8 0.068 1.5E-06 64.2 18.5 67 182-250 1112-1178(2084)
5 PTZ00121 MAEBL; Provisional 96.5 0.35 7.5E-06 58.6 21.7 18 181-198 1130-1147(2084)
6 PTZ00266 NIMA-related protein 96.4 0.066 1.4E-06 62.6 14.9 10 25-34 227-236 (1021)
7 KOG0163 Myosin class VI heavy 94.8 0.56 1.2E-05 54.0 14.0 57 234-290 936-993 (1259)
8 KOG1029 Endocytic adaptor prot 94.6 0.45 9.7E-06 54.8 12.9 9 99-107 198-206 (1118)
9 PRK09510 tolA cell envelope in 94.2 2.3 4.9E-05 45.5 16.4 8 458-465 361-368 (387)
10 KOG1144 Translation initiation 94.2 0.2 4.4E-06 57.4 9.1 62 205-273 213-274 (1064)
11 PRK09510 tolA cell envelope in 94.1 2.9 6.4E-05 44.7 17.0 8 127-134 53-60 (387)
12 TIGR02794 tolA_full TolA prote 93.0 2.5 5.4E-05 44.2 14.2 11 277-287 180-190 (346)
13 COG3064 TolA Membrane protein 92.9 3 6.6E-05 44.1 14.4 7 143-149 55-61 (387)
14 PTZ00266 NIMA-related protein 92.9 0.98 2.1E-05 53.3 12.1 39 238-276 473-511 (1021)
15 KOG1029 Endocytic adaptor prot 92.6 8.7 0.00019 44.9 18.5 9 372-380 477-485 (1118)
16 KOG0163 Myosin class VI heavy 89.1 42 0.00091 39.7 19.6 11 369-379 1072-1082(1259)
17 PF05262 Borrelia_P83: Borreli 88.3 14 0.00029 40.9 14.8 13 67-79 48-60 (489)
18 KOG4364 Chromatin assembly fac 85.1 18 0.0004 41.6 13.9 11 481-491 733-743 (811)
19 KOG2140 Uncharacterized conser 83.3 3.8 8.2E-05 46.1 7.6 82 365-457 157-240 (739)
20 KOG3054 Uncharacterized conser 81.9 10 0.00022 39.2 9.5 13 412-424 262-274 (299)
21 KOG2002 TPR-containing nuclear 81.1 53 0.0012 39.3 16.0 15 148-162 773-787 (1018)
22 PF02854 MIF4G: MIF4G domain; 77.2 7.8 0.00017 34.5 6.4 80 374-459 2-82 (209)
23 PLN03086 PRLI-interacting fact 72.2 21 0.00045 40.2 9.4 25 445-469 199-223 (567)
24 KOG3054 Uncharacterized conser 70.7 31 0.00068 35.7 9.4 15 222-238 129-143 (299)
25 PF09726 Macoilin: Transmembra 70.2 2.2E+02 0.0047 33.1 20.1 37 367-403 622-661 (697)
26 PRK00247 putative inner membra 69.4 93 0.002 34.1 13.2 12 99-110 194-205 (429)
27 KOG2072 Translation initiation 68.2 2.7E+02 0.0059 33.5 17.8 22 24-45 399-420 (988)
28 PF15236 CCDC66: Coiled-coil d 67.9 1.2E+02 0.0026 29.2 14.2 36 217-254 63-99 (157)
29 KOG0612 Rho-associated, coiled 67.8 2.5E+02 0.0054 34.9 17.1 89 67-176 352-455 (1317)
30 KOG2002 TPR-containing nuclear 67.8 1.5E+02 0.0032 35.9 15.1 46 160-210 752-797 (1018)
31 PF09726 Macoilin: Transmembra 65.4 2.7E+02 0.0058 32.4 19.7 52 172-228 417-469 (697)
32 KOG1144 Translation initiation 65.0 61 0.0013 38.4 11.2 34 446-483 579-612 (1064)
33 PF15346 ARGLU: Arginine and g 61.0 1.6E+02 0.0034 28.3 13.8 6 233-238 65-70 (149)
34 PRK13428 F0F1 ATP synthase sub 60.3 2.3E+02 0.005 30.8 14.1 8 446-453 307-314 (445)
35 PRK14474 F0F1 ATP synthase sub 57.1 2.2E+02 0.0047 28.6 14.1 25 218-242 31-55 (250)
36 PF05262 Borrelia_P83: Borreli 57.0 1.9E+02 0.0041 32.4 12.9 36 99-134 62-99 (489)
37 smart00543 MIF4G Middle domain 55.6 44 0.00096 30.0 6.8 78 374-458 2-79 (200)
38 PF05672 MAP7: MAP7 (E-MAP-115 50.6 2.5E+02 0.0055 27.5 14.5 15 243-257 102-116 (171)
39 KOG2891 Surface glycoprotein [ 48.1 1.2E+02 0.0027 32.2 9.3 25 204-228 266-292 (445)
40 KOG4364 Chromatin assembly fac 47.3 3.7E+02 0.008 31.7 13.4 10 21-30 49-58 (811)
41 KOG0336 ATP-dependent RNA heli 45.6 22 0.00049 39.4 3.8 36 21-56 215-252 (629)
42 cd06398 PB1_Joka2 The PB1 doma 45.1 28 0.00061 30.2 3.6 35 22-81 22-56 (91)
43 KOG2072 Translation initiation 43.6 6.8E+02 0.015 30.4 19.2 25 172-196 702-726 (988)
44 COG5269 ZUO1 Ribosome-associat 43.1 2.8E+02 0.0061 29.6 11.0 15 208-222 223-237 (379)
45 KOG4661 Hsp27-ERE-TATA-binding 42.8 2.5E+02 0.0053 32.7 11.1 10 343-352 732-741 (940)
46 PF03115 Astro_capsid: Astrovi 42.5 8.2 0.00018 44.8 0.0 12 106-117 693-704 (787)
47 TIGR03321 alt_F1F0_F0_B altern 40.7 3.7E+02 0.0081 26.6 14.1 23 472-494 220-242 (246)
48 KOG1011 Neurotransmitter relea 39.5 80 0.0017 37.0 6.9 34 446-479 940-976 (1283)
49 TIGR03738 PRTRC_C PRTRC system 39.4 19 0.00041 30.3 1.6 18 15-32 12-30 (66)
50 PF07046 CRA_rpt: Cytoplasmic 38.5 1.3E+02 0.0028 23.5 5.7 10 276-285 18-27 (42)
51 KOG1363 Predicted regulator of 38.3 2E+02 0.0044 31.8 9.6 29 201-229 291-319 (460)
52 PRK06568 F0F1 ATP synthase sub 37.7 3.7E+02 0.0079 25.6 14.1 20 219-238 31-50 (154)
53 PF15346 ARGLU: Arginine and g 36.9 3.9E+02 0.0084 25.7 14.6 53 145-204 12-64 (149)
54 KOG4691 Uncharacterized conser 36.7 4.7E+02 0.01 26.6 13.2 16 275-290 155-170 (227)
55 PF14454 Prok_Ub: Prokaryotic 36.2 23 0.0005 29.5 1.7 20 15-34 13-33 (65)
56 PRK07352 F0F1 ATP synthase sub 36.0 3.7E+02 0.008 25.1 14.5 9 374-382 162-170 (174)
57 KOG0742 AAA+-type ATPase [Post 35.7 7.2E+02 0.016 28.4 17.0 44 136-179 83-127 (630)
58 PLN02316 synthase/transferase 35.4 1.2E+02 0.0027 36.6 8.0 17 223-239 254-270 (1036)
59 PF05672 MAP7: MAP7 (E-MAP-115 35.3 4.4E+02 0.0096 25.9 13.0 9 175-183 34-42 (171)
60 PLN03086 PRLI-interacting fact 33.3 2.5E+02 0.0054 32.0 9.5 12 331-342 91-102 (567)
61 PF07946 DUF1682: Protein of u 33.3 1.9E+02 0.0042 29.9 8.1 12 191-202 251-262 (321)
62 PF07046 CRA_rpt: Cytoplasmic 33.1 1E+02 0.0022 24.0 4.5 8 261-268 18-25 (42)
63 PF13904 DUF4207: Domain of un 31.2 5.7E+02 0.012 25.9 15.5 21 233-253 180-200 (264)
64 PF10446 DUF2457: Protein of u 28.3 39 0.00085 37.3 2.3 8 104-111 97-104 (458)
65 PF11919 DUF3437: Domain of un 28.1 34 0.00075 29.7 1.5 18 453-470 13-30 (90)
66 PLN02316 synthase/transferase 28.1 1.4E+02 0.0031 36.1 6.9 10 434-443 606-615 (1036)
67 PF00769 ERM: Ezrin/radixin/mo 28.0 6.3E+02 0.014 25.4 14.6 10 183-192 5-14 (246)
68 TIGR00570 cdk7 CDK-activating 27.3 5.6E+02 0.012 27.3 10.3 54 133-189 101-154 (309)
69 PTZ00491 major vault protein; 26.5 2.5E+02 0.0054 33.6 8.2 14 230-243 667-680 (850)
70 KOG3011 Ubiquitin-conjugating 26.4 80 0.0017 32.9 3.9 55 411-467 89-162 (293)
71 COG4942 Membrane-bound metallo 26.3 9.3E+02 0.02 26.8 17.8 20 26-45 39-58 (420)
72 CHL00118 atpG ATP synthase CF0 26.2 5.2E+02 0.011 23.8 14.1 10 177-186 46-55 (156)
73 PF06098 Radial_spoke_3: Radia 25.4 5E+02 0.011 27.2 9.5 95 112-226 119-216 (291)
74 PF11521 TFIIE-A_C-term: C-ter 24.3 20 0.00043 31.3 -0.6 33 75-107 23-55 (86)
75 KOG2891 Surface glycoprotein [ 24.1 8.7E+02 0.019 26.2 10.9 10 126-135 228-237 (445)
76 PF11002 RDM: RFPL defining mo 22.2 29 0.00064 27.0 0.0 26 20-45 7-32 (42)
77 PF09026 CENP-B_dimeris: Centr 21.7 14 0.00029 33.3 -2.2 22 149-170 65-86 (101)
78 TIGR03086 conserved hypothetic 21.3 69 0.0015 30.0 2.2 22 21-42 25-46 (180)
79 PF00769 ERM: Ezrin/radixin/mo 21.1 6.4E+02 0.014 25.4 9.0 12 351-362 191-202 (246)
80 KOG1363 Predicted regulator of 20.8 4.7E+02 0.01 29.1 8.6 17 46-62 90-106 (460)
81 PF12128 DUF3584: Protein of u 20.8 1.6E+03 0.035 27.6 22.9 9 34-42 527-535 (1201)
82 KOG4691 Uncharacterized conser 20.3 9.3E+02 0.02 24.6 12.8 35 138-177 61-95 (227)
No 1
>KOG2412 consensus Nuclear-export-signal (NES)-containing protein/polyadenylated-RNA export factor [RNA processing and modification]
Probab=100.00 E-value=3.8e-66 Score=539.45 Aligned_cols=446 Identities=34% Similarity=0.480 Sum_probs=382.5
Q ss_pred cccccCCCCccCccccCCCCCCChHHHHHHHHHHHHHhccCC-CCcccccccccccccCccccccCcceEEEeccccccc
Q 011038 4 IKLELRCPQKVDGIAIDPEPDWSFDALLSELNSLETRLNASS-KPVPFTKTKSREISTGKSVESNARAFVIRVSDDELEN 82 (495)
Q Consensus 4 ~~~e~~cp~~~~~~~~dp~p~ws~~~l~~el~~le~~~~~~~-~~~p~tk~~s~~~~~~~~~~~~~~~fvmrv~~~~~e~ 82 (495)
+.|+..||.+++|++|||+|+|+|.||++++.|.+.+||+++ +|+|+|.+.-+... ++..|||.|++|+++.
T Consensus 3 ~pl~ep~p~s~~~~~id~epn~~fpdl~a~~as~~~~l~~~gk~~~~~t~~~v~d~~-------~~~~~~~~~~e~e~~~ 75 (591)
T KOG2412|consen 3 IPLEEPCPKSVDGISIDPEPNWNFPDLVAEIASVEKKLNGFGKYPQPITNTTVRDGR-------RGGGFVMHVSEDEMES 75 (591)
T ss_pred CCCCCCCCCCcccccCCCCCCCCchhHHHHhhhhhhhhcccCCCccHHHHHHHHhhh-------ccCCccchhHHHHHHh
Confidence 568999999999999999999999999999999999999999 99999887755433 5788999999999975
Q ss_pred ccc-----ccccccccccccccccccccccccCCCCCCcccccccCchhhhhhhhhhhhhHHHHhhhcccchhHHHHHHH
Q 011038 83 DNE-----RKGEEVHNGSLVAVKRFTCDALYLSESDDSDDDVALGGESYLMDEVGLADGALVELTHQHQLGVKEEIRNLI 157 (495)
Q Consensus 83 ~d~-----~~~e~~~~~~~~~~~~f~c~~l~ls~~~~sd~~~~~~~~~~lm~k~~~~e~~l~el~~~h~~~v~eeir~~~ 157 (495)
+.+ ...|+.+++.|..|++|+|+.||++|.++.+.++... +.|+++|+..++ .++|++.++.++|+++
T Consensus 76 ~~~~~sq~~l~e~~~s~~~~a~t~m~~~qL~~~~~~~~~~~~e~~---~~l~~L~~~~~~----~~q~~~~~~~~~~~ki 148 (591)
T KOG2412|consen 76 DEGEESQDELEEEDHSQKCTAGTRMACAQLYLSDESDEEFDHENE---QDLNKLGLKESA----INQRQTEIKSDIRAKI 148 (591)
T ss_pred cccccccCcccCcchhHhhhccchhHHHHHHHHHHhhhhhhcchh---hhHHHHHHhhcc----chhhhHhHHhhhhhhh
Confidence 553 3448889999999999999999999988888766655 899999999988 6999999999999999
Q ss_pred HHHHHHHHH-HHhhhhHHHHhhHHhHHhHHHHhhhhcHHHHHHHHHHHHhhhhHhhhhHHHHHHHHHHHhhhHHHHHHHH
Q 011038 158 STLETQLIS-ENEQSNSALAQVEKDRDMRREMDRKNDTVYQRKIAEALDNHLTAVQRDHELKSQIEERKIRSDAAYEEAK 236 (495)
Q Consensus 158 s~le~~l~~-E~q~s~sa~arveKy~e~r~e~~r~~~~~~qr~~aea~~~~~~~~qrd~e~~sq~eer~~r~~aA~EEAk 236 (495)
+.+..-..+ ++..+++.+..++||.++|.+..+|+ .++|+++...+|+|++.++|.|.+.+||.+|++++++..+||+
T Consensus 149 ~~~~~pea~~~~~~n~e~~~l~~~~~e~~~~~~~r~-~e~Q~qv~qsl~~el~~i~~~~q~~eqi~~~~~~~e~kr~Eae 227 (591)
T KOG2412|consen 149 LNSPLPEANQEIETNAENIRLVEKLSETRKEVKRRL-LEEQNQVLQSLDTELQAIQREKQRKEQIRERKERSEEKREEAE 227 (591)
T ss_pred hcCCChHHHHHHHhhHHHHHhhhhHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhH
Confidence 999888777 89999999999999999999999999 9999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcccccCCcCCCCCCcchhhhc
Q 011038 237 RKERALQEEKIRQEKVKAEAEMQAKLRAEEAKRAALEAEKRAAKEAAEREAAENSKRITAGVSQDGACGRQPDDSSVIAG 316 (495)
Q Consensus 237 Rke~A~qEEk~Rqekak~EaE~~ak~~aeeak~a~~E~~rkaa~EAa~ke~ae~~~~~~~~~~~~~a~~~~a~~~~~~~~ 316 (495)
|++++.|||+.+++.+.++.++.++.|+++.| +|.++|.+.++++|++....+. .++ .|+.+.....
T Consensus 228 rk~~~~qEe~Rqk~d~~~~~~eqekiR~~eek---qeee~ke~e~~~~k~~q~~~~~-----eek-----~a~qk~~~~~ 294 (591)
T KOG2412|consen 228 RKRRAHQEELRQKEDEEAELQEQEKIRAEEEK---QEEERKEAEEQAEKEVQDPKAH-----EEK-----LAEQKAVIEK 294 (591)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH---HHHHHHHHHHHHHHHhcCchhc-----ccc-----cccccccccc
Confidence 99999999999999999999999999999888 3446888988888877665433 222 3444444433
Q ss_pred cccCCCCCcccccchhhhhhchHHHHHHHHHHHHHHHHHHHhhhhcccccccchhhhhhhhhhhhhhccchhH-HHhHHH
Q 011038 317 AQSRGSRSDGTKKLQSAVRATESALNIEQKRLQKLKELDEENQSLKLSSNEDFSGYEKDISRLIRQIRGLKDN-VRTKAS 395 (495)
Q Consensus 317 ~~~~g~~~~~~~~s~~~~raa~sAl~~E~~Rlk~LkEL~e~n~~LK~~lnke~~d~rRqI~K~VgQIS~tkeq-Vk~Ks~ 395 (495)
++.... ++.+.---....++.|.++.+..+.++..+|+.++.. +.|.||..||||+.+..| +.+...
T Consensus 295 ~~~~~~-~ds~m~w~~~d~i~q~k~d~v~pi~~kd~~lk~~~~~-----------~kr~in~~~~qis~~~~q~L~qI~d 362 (591)
T KOG2412|consen 295 VTTSSA-SDSQMFWNSQDAIAQSKLDLVNPILKKDEELKNYNQS-----------LKRAINPPFSQISKSNGQVLRQIFD 362 (591)
T ss_pred ccCCch-hHHHhhhhHHHHHHHHHHHHHhhhhhHHHHHHHHHHH-----------HHhhcCCChhhhhhccHHHHHHHHH
Confidence 331111 1111111134688999999999999988887776655 557888899999988888 777778
Q ss_pred HHHHHhcCCCC---ch--HHHHHHHHHHHHhhhcC---CCCCCchhhHHHHHHHHhhcccHHHHHHHHhhhhcccccccc
Q 011038 396 ELVKILNNPLC---PQ--SISLATFSKKVVSRCET---PDDNVAMSCGYVIVLVASQVPQVMDILLGEFHRACIYTVPKH 467 (495)
Q Consensus 396 ELvqiLn~pq~---P~--~fALnifAKKIISQ~Es---~a~s~AFalAeVIv~VaaQ~Pe~~DILLAkFHkvCpYTVPky 467 (495)
.|.+++++... |+ .|++|+|||+.|+|.|+ .+|-.|||||+||+.+|+|||+|+|+|||+||+.|||+||+|
T Consensus 363 kl~s~~~~~~~~~~pl~~~~~~~~iaka~V~Q~Etev~~~PeaAfPla~V~l~i~~q~Pdv~dlllA~l~KkCP~~VPf~ 442 (591)
T KOG2412|consen 363 KLDSLFGGIPDIVDPLAYDWCLNFIAKAFVKQAETEVASKPEAAFPLAKVILYIWSQFPDVGDLLLARLHKKCPYVVPFH 442 (591)
T ss_pred HHHHHhcCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHhCchHHHHHHHHHHhcCCcccccc
Confidence 88888876642 54 58999999999999999 555679999999999999999999999999999999999999
Q ss_pred cchh--hhHhhhcccccch-hHHHH
Q 011038 468 IVFS--EFRLHLNQKRLTT-KLLDT 489 (495)
Q Consensus 468 i~~~--~~r~~~~~kr~~~-k~~~~ 489 (495)
++++ +|+--||||+.|+ ||++-
T Consensus 443 ~~~~~Eq~~k~mGyk~~d~nk~Eqn 467 (591)
T KOG2412|consen 443 IVNSTEQYQKMMGYKAWDSNKWEQN 467 (591)
T ss_pred ccCcHHHHHHhhccccccccccccc
Confidence 9986 9999999999994 99964
No 2
>PF07817 GLE1: GLE1-like protein; InterPro: IPR012476 The members of this family are sequences that are similar to the human protein GLE1 (O75458 from SWISSPROT). This protein is localised at the nuclear pore complexes and functions in poly(A)+ RNA export to the cytoplasm []. ; GO: 0016973 poly(A)+ mRNA export from nucleus, 0005643 nuclear pore; PDB: 3PEV_B 3RRN_B 3PEU_B 3RRM_B.
Probab=99.95 E-value=6.7e-29 Score=240.36 Aligned_cols=131 Identities=25% Similarity=0.323 Sum_probs=102.2
Q ss_pred ccccchhhhhhhhhhhhhhccchhHHHhHHHHHHHHhcCC--------------CCchHHHHHHHHHHHHhhhcC---CC
Q 011038 365 SNEDFSGYEKDISRLIRQIRGLKDNVRTKASELVKILNNP--------------LCPQSISLATFSKKVVSRCET---PD 427 (495)
Q Consensus 365 lnke~~d~rRqI~K~VgQIS~tkeqVk~Ks~ELvqiLn~p--------------q~P~~fALnifAKKIISQ~Es---~a 427 (495)
+++.+++++|+|+++||||+++..+++.++++|.++|++. .+++.|+||+|||+||+|+|+ ..
T Consensus 22 lKk~~~~~kr~I~~~vgQls~~~~qi~~i~~~i~~ll~~~~~~~~~~~~~~~~~~~~~~~~l~~lAk~iv~Q~e~ev~~~ 101 (256)
T PF07817_consen 22 LKKLRFDLKRKINPKVGQLSNSSSQINRIINQISNLLSGQPVKSNDLQQSKNDHPLAYKYLLNFLAKKIVSQAETEVSAN 101 (256)
T ss_dssp HHHHHHHHHHHHCCHHHC--SBHHHHHHHHHHHHHH----------HHTTTT-SHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHhhhhCcCcHhhccCcHHHHHHHHHHHHHHhhhhhhchhhhhhhccCCchHHHHHHHHHHHHHHHHHHHHhccC
Confidence 5567799999999999999999999999999999995332 224568999999999999999 35
Q ss_pred CCCchhhHHHHHHHHhhcccHHHHHHHHhhhhcccccccccch------hhhHhhhcccccchhHHHHHHhhhC
Q 011038 428 DNVAMSCGYVIVLVASQVPQVMDILLGEFHRACIYTVPKHIVF------SEFRLHLNQKRLTTKLLDTVRKMER 495 (495)
Q Consensus 428 ~s~AFalAeVIv~VaaQ~Pe~~DILLAkFHkvCpYTVPkyi~~------~~~r~~~~~kr~~~k~~~~~~~~~~ 495 (495)
++.|||||+|++.|++++|+|+|||||+||++|||+||+|+++ ++||.+||||+.+++||++..-++|
T Consensus 102 ~~~A~PlA~v~~~l~~~~p~~~dillA~l~k~Cp~~vP~~~~~~~~~~~e~~~k~lGyk~~~~~~E~~~~y~~R 175 (256)
T PF07817_consen 102 PESAFPLARVAVQLWSQHPEFGDILLARLHKKCPYLVPKYPGFTCDQSTEEYRKRLGYKRDDGGWESEDQYLKR 175 (256)
T ss_dssp GGGHHHHHHHHHHHHHHSTCHHHHHHHHHHHH-GGGG----T-----SSHHHHHHTT--B-TTSB--HHHHHHH
T ss_pred CchhhhHHHHHHHHHHcCCcHHHHHHHHHHHcCceeEeecCcccCCCCHHHHHHHcCCccCCCCccchHHHHHH
Confidence 5789999999999999999999999999999999999998864 7899999999999889998765554
No 3
>KOG2412 consensus Nuclear-export-signal (NES)-containing protein/polyadenylated-RNA export factor [RNA processing and modification]
Probab=96.84 E-value=0.012 Score=64.36 Aligned_cols=38 Identities=37% Similarity=0.446 Sum_probs=22.5
Q ss_pred HHHHHH-HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011038 217 LKSQIE-ERKIRSDAAYEEAKRKERALQEEKIRQEKVKAEAE 257 (495)
Q Consensus 217 ~~sq~e-er~~r~~aA~EEAkRke~A~qEEk~Rqekak~EaE 257 (495)
-++++| ||+.+.+ +|++|+..-++.++..||+.|++.+
T Consensus 220 e~kr~Eaerk~~~~---qEe~Rqk~d~~~~~~eqekiR~~ee 258 (591)
T KOG2412|consen 220 EEKREEAERKRRAH---QEELRQKEDEEAELQEQEKIRAEEE 258 (591)
T ss_pred HhhhhhhHHHHHHH---HHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 345555 4444443 6666665566666666777777555
No 4
>PTZ00121 MAEBL; Provisional
Probab=96.80 E-value=0.068 Score=64.22 Aligned_cols=67 Identities=18% Similarity=0.304 Sum_probs=40.2
Q ss_pred HHhHHHHhhhhcHHHHHHHHHHHHhhhhHhhhhHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Q 011038 182 RDMRREMDRKNDTVYQRKIAEALDNHLTAVQRDHELKSQIEERKIRSDAAYEEAKRKERALQEEKIRQE 250 (495)
Q Consensus 182 ~e~r~e~~r~~~~~~qr~~aea~~~~~~~~qrd~e~~sq~eer~~r~~aA~EEAkRke~A~qEEk~Rqe 250 (495)
.+.|++.+-+....+||.+-||.-. ..+.|+.+.++..++|+.+..-..||++|.+.+.+.|..|.+
T Consensus 1112 ee~r~~ee~~~r~e~arr~eeARra--e~~Rr~EeaRKrEeaRraE~aRreEEaRr~EEaRraEeArr~ 1178 (2084)
T PTZ00121 1112 EEARKAEEAKKKAEDARKAEEARKA--EDARKAEEARKAEDAKRVEIARKAEDARKAEEARKAEDAKKA 1178 (2084)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666777777788888877632 344466666666666665555555666555544444433333
No 5
>PTZ00121 MAEBL; Provisional
Probab=96.51 E-value=0.35 Score=58.59 Aligned_cols=18 Identities=11% Similarity=0.276 Sum_probs=8.7
Q ss_pred hHHhHHHHhhhhcHHHHH
Q 011038 181 DRDMRREMDRKNDTVYQR 198 (495)
Q Consensus 181 y~e~r~e~~r~~~~~~qr 198 (495)
..|+|+..+.|.+-+.+|
T Consensus 1130 ~eeARrae~~Rr~EeaRK 1147 (2084)
T PTZ00121 1130 AEEARKAEDARKAEEARK 1147 (2084)
T ss_pred HHHHhhHHHHHHHHHHHH
Confidence 345555555554444333
No 6
>PTZ00266 NIMA-related protein kinase; Provisional
Probab=96.36 E-value=0.066 Score=62.64 Aligned_cols=10 Identities=30% Similarity=0.973 Sum_probs=7.4
Q ss_pred CChHHHHHHH
Q 011038 25 WSFDALLSEL 34 (495)
Q Consensus 25 ws~~~l~~el 34 (495)
||||-++-||
T Consensus 227 WSLG~ILYEL 236 (1021)
T PTZ00266 227 WALGCIIYEL 236 (1021)
T ss_pred HHHHHHHHHH
Confidence 7777777766
No 7
>KOG0163 consensus Myosin class VI heavy chain [Cytoskeleton]
Probab=94.76 E-value=0.56 Score=54.03 Aligned_cols=57 Identities=40% Similarity=0.484 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHh
Q 011038 234 EAKRKERALQEEKIRQEKVKAEAEMQAKLRAEEAK-RAALEAEKRAAKEAAEREAAEN 290 (495)
Q Consensus 234 EAkRke~A~qEEk~Rqekak~EaE~~ak~~aeeak-~a~~E~~rkaa~EAa~ke~ae~ 290 (495)
|-+|+|.-.++-++--|+.++++||..|.++||+. ++.+|.+++.+.|-.++-+.|+
T Consensus 936 ER~rrEaeek~rre~ee~k~~k~e~e~kRK~eEeqr~~qee~e~~l~~e~q~qla~e~ 993 (1259)
T KOG0163|consen 936 ERKRREAEEKRRREEEEKKRAKAEMETKRKAEEEQRKAQEEEERRLALELQEQLAKEA 993 (1259)
T ss_pred HHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHH
Confidence 33344433333344455667777888888877555 6666666766665554444433
No 8
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=94.63 E-value=0.45 Score=54.78 Aligned_cols=9 Identities=11% Similarity=-0.038 Sum_probs=5.6
Q ss_pred ccccccccc
Q 011038 99 VKRFTCDAL 107 (495)
Q Consensus 99 ~~~f~c~~l 107 (495)
.+.|++.|-
T Consensus 198 ~QlFNa~Dk 206 (1118)
T KOG1029|consen 198 RQLFNALDK 206 (1118)
T ss_pred HHHhhhccc
Confidence 456776664
No 9
>PRK09510 tolA cell envelope integrity inner membrane protein TolA; Provisional
Probab=94.21 E-value=2.3 Score=45.52 Aligned_cols=8 Identities=13% Similarity=0.293 Sum_probs=3.2
Q ss_pred hhcccccc
Q 011038 458 RACIYTVP 465 (495)
Q Consensus 458 kvCpYTVP 465 (495)
+++||-+|
T Consensus 361 r~a~lP~p 368 (387)
T PRK09510 361 KTAKIPKP 368 (387)
T ss_pred HcCCCCCC
Confidence 34444333
No 10
>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]
Probab=94.16 E-value=0.2 Score=57.43 Aligned_cols=62 Identities=31% Similarity=0.392 Sum_probs=48.0
Q ss_pred HhhhhHhhhhHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011038 205 DNHLTAVQRDHELKSQIEERKIRSDAAYEEAKRKERALQEEKIRQEKVKAEAEMQAKLRAEEAKRAALE 273 (495)
Q Consensus 205 ~~~~~~~qrd~e~~sq~eer~~r~~aA~EEAkRke~A~qEEk~Rqekak~EaE~~ak~~aeeak~a~~E 273 (495)
-+|++++|+--+.+.+.|||+.|.+ ||-.|+ ..+|++.|.++++++.| +|.+..+.++.+.|
T Consensus 213 ~Kgv~~~qe~La~~qe~eE~qkree---EE~~r~--eeEEer~~ee~E~~~eE--ak~kkKekekek~e 274 (1064)
T KOG1144|consen 213 PKGVRAMQEALAKRQEEEERQKREE---EERLRR--EEEEERRREEEEAQEEE--AKEKKKEKEKEKKE 274 (1064)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHH---HHHHHH--HHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHH
Confidence 4689999999999999999999987 655555 57778888888888888 66666666655555
No 11
>PRK09510 tolA cell envelope integrity inner membrane protein TolA; Provisional
Probab=94.12 E-value=2.9 Score=44.71 Aligned_cols=8 Identities=25% Similarity=0.401 Sum_probs=3.4
Q ss_pred hhhhhhhh
Q 011038 127 LMDEVGLA 134 (495)
Q Consensus 127 lm~k~~~~ 134 (495)
.|=-.|.|
T Consensus 53 VmvD~~~v 60 (387)
T PRK09510 53 VMVDPGAV 60 (387)
T ss_pred eecChHHH
Confidence 34344444
No 12
>TIGR02794 tolA_full TolA protein. TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB.
Probab=93.04 E-value=2.5 Score=44.24 Aligned_cols=11 Identities=27% Similarity=0.383 Sum_probs=4.3
Q ss_pred HHHHHHHHHHH
Q 011038 277 RAAKEAAEREA 287 (495)
Q Consensus 277 kaa~EAa~ke~ 287 (495)
|+++|+.+|+.
T Consensus 180 k~kaea~~ka~ 190 (346)
T TIGR02794 180 KAKAEAEAKAK 190 (346)
T ss_pred HHHHHHHHHHH
Confidence 33334433333
No 13
>COG3064 TolA Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]
Probab=92.90 E-value=3 Score=44.08 Aligned_cols=7 Identities=14% Similarity=-0.201 Sum_probs=2.8
Q ss_pred hhcccch
Q 011038 143 HQHQLGV 149 (495)
Q Consensus 143 ~~h~~~v 149 (495)
-|-++-+
T Consensus 55 VDpgav~ 61 (387)
T COG3064 55 VDPGAVV 61 (387)
T ss_pred eCcHHHH
Confidence 3444433
No 14
>PTZ00266 NIMA-related protein kinase; Provisional
Probab=92.89 E-value=0.98 Score=53.33 Aligned_cols=39 Identities=31% Similarity=0.352 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 011038 238 KERALQEEKIRQEKVKAEAEMQAKLRAEEAKRAALEAEK 276 (495)
Q Consensus 238 ke~A~qEEk~Rqekak~EaE~~ak~~aeeak~a~~E~~r 276 (495)
+|+..++||+|+|++++|.|...+++.|.++..++|.||
T Consensus 473 rer~er~erer~Erer~erEr~erer~erer~~r~e~er 511 (1021)
T PTZ00266 473 RERMERIERERLERERLERERLERDRLERDRLDRLERER 511 (1021)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445556666666665554444444444433344333
No 15
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=92.64 E-value=8.7 Score=44.90 Aligned_cols=9 Identities=22% Similarity=0.198 Sum_probs=3.6
Q ss_pred hhhhhhhhh
Q 011038 372 YEKDISRLI 380 (495)
Q Consensus 372 ~rRqI~K~V 380 (495)
++.++-..+
T Consensus 477 ~~~q~e~~i 485 (1118)
T KOG1029|consen 477 VTKQRELMI 485 (1118)
T ss_pred hhhHHHHHH
Confidence 444444433
No 16
>KOG0163 consensus Myosin class VI heavy chain [Cytoskeleton]
Probab=89.12 E-value=42 Score=39.68 Aligned_cols=11 Identities=9% Similarity=0.271 Sum_probs=5.9
Q ss_pred chhhhhhhhhh
Q 011038 369 FSGYEKDISRL 379 (495)
Q Consensus 369 ~~d~rRqI~K~ 379 (495)
+..++-+|+.+
T Consensus 1072 yaeLRDtINTS 1082 (1259)
T KOG0163|consen 1072 YAELRDTINTS 1082 (1259)
T ss_pred HHHHHHhhccc
Confidence 34455566554
No 17
>PF05262 Borrelia_P83: Borrelia P83/100 protein; InterPro: IPR007926 This family consists of several Borrelia P83/P100 antigen proteins.
Probab=88.28 E-value=14 Score=40.95 Aligned_cols=13 Identities=31% Similarity=0.542 Sum_probs=8.0
Q ss_pred cCcceEEEecccc
Q 011038 67 NARAFVIRVSDDE 79 (495)
Q Consensus 67 ~~~~fvmrv~~~~ 79 (495)
.++-||+|+=|..
T Consensus 48 ~~~y~ii~~vd~~ 60 (489)
T PF05262_consen 48 YGRYYIIHAVDPE 60 (489)
T ss_pred cCcEEEEEecCcc
Confidence 3677777765443
No 18
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=85.08 E-value=18 Score=41.60 Aligned_cols=11 Identities=36% Similarity=0.199 Sum_probs=5.2
Q ss_pred ccchhHHHHHH
Q 011038 481 RLTTKLLDTVR 491 (495)
Q Consensus 481 r~~~k~~~~~~ 491 (495)
+|++++--.|+
T Consensus 733 ~Pk~rlcw~V~ 743 (811)
T KOG4364|consen 733 VPKTRLCWKVR 743 (811)
T ss_pred CCcchhHHHHH
Confidence 44455444444
No 19
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only]
Probab=83.31 E-value=3.8 Score=46.08 Aligned_cols=82 Identities=17% Similarity=0.347 Sum_probs=58.1
Q ss_pred ccccchhhhhhhhhhhhhhccchhHHHhHHHHHH--HHhcCCCCchHHHHHHHHHHHHhhhcCCCCCCchhhHHHHHHHH
Q 011038 365 SNEDFSGYEKDISRLIRQIRGLKDNVRTKASELV--KILNNPLCPQSISLATFSKKVVSRCETPDDNVAMSCGYVIVLVA 442 (495)
Q Consensus 365 lnke~~d~rRqI~K~VgQIS~tkeqVk~Ks~ELv--qiLn~pq~P~~fALnifAKKIISQ~Es~a~s~AFalAeVIv~Va 442 (495)
...++-.+++.|+..||.+.. .++...+.+|. +++. .-++|++.||..--+.- .+...||..+.+|-
T Consensus 157 QRmnWEalkksInglInkvn~--sNi~~ii~eLfqeNiir--------gRgl~crsv~~aq~asp-~ft~vyaALvAviN 225 (739)
T KOG2140|consen 157 QRMNWEALKKSINGLINKVNA--SNIQEIIRELFQENIIR--------GRGLLCRSVMQAQAASP-GFTPVYAALVAVIN 225 (739)
T ss_pred HHHHHHHHHHHhHHHHhhhhH--HHHHHHHHHHHHHHHHh--------ccchhHHHHHHHHhcCC-CCcHHHHHHHHHHc
Confidence 445778899999999988743 34555555653 3333 24567777776443322 37788999999999
Q ss_pred hhcccHHHHHHHHhh
Q 011038 443 SQVPQVMDILLGEFH 457 (495)
Q Consensus 443 aQ~Pe~~DILLAkFH 457 (495)
+.||+++.+||-++.
T Consensus 226 skfP~IgElLlkrLi 240 (739)
T KOG2140|consen 226 SKFPQIGELLLKRLI 240 (739)
T ss_pred cCCchHHHHHHHHHH
Confidence 999999999998764
No 20
>KOG3054 consensus Uncharacterized conserved protein [Function unknown]
Probab=81.95 E-value=10 Score=39.16 Aligned_cols=13 Identities=31% Similarity=0.330 Sum_probs=8.8
Q ss_pred HHHHHHHHHhhhc
Q 011038 412 LATFSKKVVSRCE 424 (495)
Q Consensus 412 LnifAKKIISQ~E 424 (495)
|+.+||=|=.+.-
T Consensus 262 l~AVAkfIkqrGR 274 (299)
T KOG3054|consen 262 LAAVAKFIKQRGR 274 (299)
T ss_pred HHHHHHHHHHcCc
Confidence 7777777766553
No 21
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=81.12 E-value=53 Score=39.34 Aligned_cols=15 Identities=27% Similarity=0.341 Sum_probs=7.1
Q ss_pred chhHHHHHHHHHHHH
Q 011038 148 GVKEEIRNLISTLET 162 (495)
Q Consensus 148 ~v~eeir~~~s~le~ 162 (495)
+.-|+|+..+-.||.
T Consensus 773 ~t~eev~~a~~~le~ 787 (1018)
T KOG2002|consen 773 RTLEEVLEAVKELEE 787 (1018)
T ss_pred ccHHHHHHHHHHHHH
Confidence 444455544444443
No 22
>PF02854 MIF4G: MIF4G domain; InterPro: IPR003890 This entry represents an MIF4G-like domain. MIF4G domains share a common structure but can differ in sequence. This entry is designated "type 3", and is found in nuclear cap-binding proteins, eIF4G, and UPF2. The MIF4G domain is a structural motif with an ARM (Armadillo) repeat-type fold, consisting of a 2-layer alpha/alpha right-handed superhelix. Proteins usually contain two or more structurally similar MIF4G domains connected by unstructured linkers. MIF4G domains are found in several proteins involved in RNA metabolism, including eIF4G (eukaryotic initiation factor 4-gamma), eIF-2b (translation initiation factor), UPF2 (regulator of nonsense transcripts 2), and nuclear cap-binding proteins (CBP80, CBC1, NCBP1), although the sequence identity between them may be low []. The nuclear cap-binding complex (CBC) is a heterodimer. Human CBC consists of a large CBP80 subunit and a small CBP20 subunit, the latter being critical for cap binding. CBP80 contains three MIF4G domains connected with long linkers, while CBP20 has an RNP (ribonucleoprotein)-type domain that associates with domains 2 and 3 of CBP80 []. The complex binds to 5'-cap of eukaryotic RNA polymerase II transcripts, such as mRNA and U snRNA. The binding is important for several mRNA nuclear maturation steps and for nonsense-mediated decay. It is also essential for nuclear export of U snRNAs in metazoans []. Eukaryotic translation initiation factor 4 gamma (eIF4G) plays a critical role in protein expression, and is at the centre of a complex regulatory network. Together with the cap-binding protein eIF4E, it recruits the small ribosomal subunit to the 5'-end of mRNA and promotes the assembly of a functional translation initiation complex, which scans along the mRNA to the translation start codon. The activity of eIF4G in translation initiation could be regulated through intra- and inter-protein interactions involving the ARM repeats []. In eIF4G, the MIF4G domain binds eIF4A, eIF3, RNA and DNA. Nonsense-mediated mRNA decay (NMD) in eukaryotes involves UPF1, UPF2 and UPF3 to accelerate the decay rate of two unique classes of transcripts: (1) nonsense mRNAs that arise through errors in gene expression, and (2) naturally occurring transcripts that lack coding errors but have built-in features that target them for accelerated decay (error-free mRNAs). NMD can trigger decay during any round of translation and can target CBC-bound or eIF-4E-bound transcripts []. UPF2 contains MIF4G domains, while UPF3 contains an RNP domain []. ; GO: 0005515 protein binding, 0016070 RNA metabolic process; PDB: 3FEY_A 3FEX_A 1H6K_C 1H2V_C 1H2U_A 1H2T_C 1N54_A 1N52_A 1HU3_A 3RK6_A ....
Probab=77.23 E-value=7.8 Score=34.53 Aligned_cols=80 Identities=14% Similarity=0.239 Sum_probs=57.0
Q ss_pred hhhhhhhhhhccchhHHHhHHHHHHHHhcCCCCchHHHHHHHHHHHHhhhcCCCCCCchhhHHHHHHHHhhcc-cHHHHH
Q 011038 374 KDISRLIRQIRGLKDNVRTKASELVKILNNPLCPQSISLATFSKKVVSRCETPDDNVAMSCGYVIVLVASQVP-QVMDIL 452 (495)
Q Consensus 374 RqI~K~VgQIS~tkeqVk~Ks~ELvqiLn~pq~P~~fALnifAKKIISQ~Es~a~s~AFalAeVIv~VaaQ~P-e~~DIL 452 (495)
|.|+..+|+|+ ..++..-+.+|.++.... . +-.+..+++.|++.+.... .+...||.++..+...+| .|...|
T Consensus 2 r~v~~~lnklt--~~n~~~~~~~l~~~~~~~-~--~~~~~~i~~~i~~~a~~~~-~~~~~~a~l~~~l~~~~~~~f~~~l 75 (209)
T PF02854_consen 2 RKVRGILNKLT--PSNFESIIDELIKLNWSD-D--PETLKEIVKLIFEKAVEEP-NFSPLYARLCAALNSRFPSEFRSLL 75 (209)
T ss_dssp HHHHHHHHHCS--STTHHHHHHHHHHHHHHS-C--HHHHHHHHHHHHHHHHHSG-GGHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred chHHHHHHHCC--HHHHHHHHHHHHHHHhhc-c--HHHHHHHHHHHhhhhhcCc-hHHHHHHHHHHHHhccchhhHHHHH
Confidence 67888899998 445667777777777543 2 2346666666666555432 367789999999999999 898888
Q ss_pred HHHhhhh
Q 011038 453 LGEFHRA 459 (495)
Q Consensus 453 LAkFHkv 459 (495)
+..++..
T Consensus 76 l~~~~~~ 82 (209)
T PF02854_consen 76 LNRCQEE 82 (209)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 8877654
No 23
>PLN03086 PRLI-interacting factor K; Provisional
Probab=72.20 E-value=21 Score=40.21 Aligned_cols=25 Identities=12% Similarity=0.220 Sum_probs=16.6
Q ss_pred cccHHHHHHHHhhhhcccccccccc
Q 011038 445 VPQVMDILLGEFHRACIYTVPKHIV 469 (495)
Q Consensus 445 ~Pe~~DILLAkFHkvCpYTVPkyi~ 469 (495)
++..-.+|=-.|..-+.+|++-.|.
T Consensus 199 i~npKavLE~~Lr~~stLT~Gd~i~ 223 (567)
T PLN03086 199 LPNHKAVLETALRQHATLSEDDVLV 223 (567)
T ss_pred cccHHHHHHHHhhcCccccCCCEEE
Confidence 3555566777777777777777544
No 24
>KOG3054 consensus Uncharacterized conserved protein [Function unknown]
Probab=70.70 E-value=31 Score=35.74 Aligned_cols=15 Identities=73% Similarity=1.039 Sum_probs=8.4
Q ss_pred HHHHhhhHHHHHHHHHH
Q 011038 222 EERKIRSDAAYEEAKRK 238 (495)
Q Consensus 222 eer~~r~~aA~EEAkRk 238 (495)
|+||-+.+ ++||+||
T Consensus 129 EeRk~ke~--~eE~erK 143 (299)
T KOG3054|consen 129 EERKRKED--YEEAERK 143 (299)
T ss_pred HHHhHHHH--HHHHHHh
Confidence 34554444 6777665
No 25
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=70.20 E-value=2.2e+02 Score=33.10 Aligned_cols=37 Identities=11% Similarity=0.290 Sum_probs=27.8
Q ss_pred ccchhhhhhhhhhhhhhccchh---HHHhHHHHHHHHhcC
Q 011038 367 EDFSGYEKDISRLIRQIRGLKD---NVRTKASELVKILNN 403 (495)
Q Consensus 367 ke~~d~rRqI~K~VgQIS~tke---qVk~Ks~ELvqiLn~ 403 (495)
.-+|+-+|||.-.-+||..--. ..+.|+.+|+-++++
T Consensus 622 saLg~akrq~ei~~~~~~~~d~ei~~lk~ki~~~~av~p~ 661 (697)
T PF09726_consen 622 SALGDAKRQLEIAQGQLRKKDKEIEELKAKIAQLLAVMPS 661 (697)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCc
Confidence 3458999999999999974322 368888888877765
No 26
>PRK00247 putative inner membrane protein translocase component YidC; Validated
Probab=69.41 E-value=93 Score=34.10 Aligned_cols=12 Identities=25% Similarity=0.257 Sum_probs=5.9
Q ss_pred cccccccccccC
Q 011038 99 VKRFTCDALYLS 110 (495)
Q Consensus 99 ~~~f~c~~l~ls 110 (495)
..-||.---++|
T Consensus 194 a~vft~i~~~~s 205 (429)
T PRK00247 194 AAVFTAINMAMS 205 (429)
T ss_pred HHHHHHHHHHHH
Confidence 445555444444
No 27
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=68.22 E-value=2.7e+02 Score=33.48 Aligned_cols=22 Identities=23% Similarity=0.277 Sum_probs=14.0
Q ss_pred CCChHHHHHHHHHHHHHhccCC
Q 011038 24 DWSFDALLSELNSLETRLNASS 45 (495)
Q Consensus 24 ~ws~~~l~~el~~le~~~~~~~ 45 (495)
+++-..|-.-|.++=.+++.++
T Consensus 399 eF~PL~l~k~lq~ll~~ls~~~ 420 (988)
T KOG2072|consen 399 EFHPLKLCKKLQPLLDKLSESP 420 (988)
T ss_pred cCCHHHHHHHHHHHHHHHHcCC
Confidence 3444566666777777777665
No 28
>PF15236 CCDC66: Coiled-coil domain-containing protein 66
Probab=67.92 E-value=1.2e+02 Score=29.25 Aligned_cols=36 Identities=33% Similarity=0.566 Sum_probs=15.4
Q ss_pred HHHHHHHHHhhhHHHHHHHHHH-HHHHHHHHHHHHHHHH
Q 011038 217 LKSQIEERKIRSDAAYEEAKRK-ERALQEEKIRQEKVKA 254 (495)
Q Consensus 217 ~~sq~eer~~r~~aA~EEAkRk-e~A~qEEk~Rqekak~ 254 (495)
++.||+|++-... .|+++|+ |-...|+++..+++..
T Consensus 63 i~~QieEk~r~k~--~E~err~~EE~~EE~Rl~rere~~ 99 (157)
T PF15236_consen 63 IKQQIEEKRRQKQ--EEEERRRREEEEEEERLAREREEL 99 (157)
T ss_pred HHHHHHHHHHHHH--HHHHHHHHHhHHHHHHHHHHHHHH
Confidence 4556665544433 1233222 3344444444444433
No 29
>KOG0612 consensus Rho-associated, coiled-coil containing protein kinase [Signal transduction mechanisms]
Probab=67.78 E-value=2.5e+02 Score=34.94 Aligned_cols=89 Identities=19% Similarity=0.209 Sum_probs=46.7
Q ss_pred cCcceEEEeccccccccc-----cccccccccccc----------cccccccccccccCCCCCCcccccccCchhhhhhh
Q 011038 67 NARAFVIRVSDDELENDN-----ERKGEEVHNGSL----------VAVKRFTCDALYLSESDDSDDDVALGGESYLMDEV 131 (495)
Q Consensus 67 ~~~~fvmrv~~~~~e~~d-----~~~~e~~~~~~~----------~~~~~f~c~~l~ls~~~~sd~~~~~~~~~~lm~k~ 131 (495)
..-|||=-|+-|+|.+.= |..+.+.+.-.. --|=.||| ..++|++..++....... ..
T Consensus 352 ~~pP~vPevssd~DTsnFd~~~dd~~~~e~~p~~~~~~f~Gn~LPFIGfTy~~-~~~~ss~~~~~~~~~~~~------~~ 424 (1317)
T KOG0612|consen 352 SVPPVVPEVSSDDDTSNFDVDEDDLRDAETFPPRIPKAFSGNHLPFIGFTYTH-ESLLSSSTPLKNEKEANA------ER 424 (1317)
T ss_pred cCCCCCCcCCCCCccccccccccccchhhccCCCCCCCCcCCcCCeeeeeecc-chhhccCCcccchhhccc------cc
Confidence 456888889888885322 222233333111 11556677 666666655554333311 11
Q ss_pred hhhhhhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhhhHHHH
Q 011038 132 GLADGALVELTHQHQLGVKEEIRNLISTLETQLISENEQSNSALA 176 (495)
Q Consensus 132 ~~~e~~l~el~~~h~~~v~eeir~~~s~le~~l~~E~q~s~sa~a 176 (495)
+-+.+ -|+-+.+..||-.+.|+.+..-.-.+
T Consensus 425 ~~~~~--------------~e~~~~~~~le~~l~~~~~~~~~~~~ 455 (1317)
T KOG0612|consen 425 SDVDS--------------QEIHKTLQILEQSLVNEMQEKEKLDE 455 (1317)
T ss_pred cchhh--------------hccccchhhcccchhhHHHHhhhHHH
Confidence 11111 34556677788778888766544433
No 30
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=67.76 E-value=1.5e+02 Score=35.85 Aligned_cols=46 Identities=17% Similarity=0.198 Sum_probs=25.3
Q ss_pred HHHHHHHHHhhhhHHHHhhHHhHHhHHHHhhhhcHHHHHHHHHHHHhhhhH
Q 011038 160 LETQLISENEQSNSALAQVEKDRDMRREMDRKNDTVYQRKIAEALDNHLTA 210 (495)
Q Consensus 160 le~~l~~E~q~s~sa~arveKy~e~r~e~~r~~~~~~qr~~aea~~~~~~~ 210 (495)
|.--+--.++++.+.+.|.+| .-+++-+....+.+.|-=+=+||+.
T Consensus 752 v~FN~a~v~kkla~s~lr~~k-----~t~eev~~a~~~le~a~r~F~~ls~ 797 (1018)
T KOG2002|consen 752 VKFNLALVLKKLAESILRLEK-----RTLEEVLEAVKELEEARRLFTELSK 797 (1018)
T ss_pred HHhHHHHHHHHHHHHHHhccc-----ccHHHHHHHHHHHHHHHHHHHHHHh
Confidence 333444566777777777766 4445555555555554444444443
No 31
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=65.39 E-value=2.7e+02 Score=32.38 Aligned_cols=52 Identities=15% Similarity=0.326 Sum_probs=27.9
Q ss_pred hHHHHhhHHhHHhHHHHhhhhcHHHHHHHHHHHHhhhhHhhhh-HHHHHHHHHHHhhh
Q 011038 172 NSALAQVEKDRDMRREMDRKNDTVYQRKIAEALDNHLTAVQRD-HELKSQIEERKIRS 228 (495)
Q Consensus 172 ~sa~arveKy~e~r~e~~r~~~~~~qr~~aea~~~~~~~~qrd-~e~~sq~eer~~r~ 228 (495)
.+++.|+|...+. -|-|.+.-|.+-+-|-.|++.+.-+ ..+|+.+..-+...
T Consensus 417 ~~a~~rLE~dvkk-----LraeLq~~Rq~E~ELRsqis~l~~~Er~lk~eL~qlr~en 469 (697)
T PF09726_consen 417 PDAISRLEADVKK-----LRAELQSSRQSEQELRSQISSLTNNERSLKSELSQLRQEN 469 (697)
T ss_pred hHHHHHHHHHHHH-----HHHHHHhhhhhHHHHHHHHhhccccchHHHHHHHHHHHHH
Confidence 3455666655443 3455666676666666665555442 44555544443333
No 32
>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]
Probab=64.96 E-value=61 Score=38.43 Aligned_cols=34 Identities=21% Similarity=0.070 Sum_probs=17.8
Q ss_pred ccHHHHHHHHhhhhcccccccccchhhhHhhhcccccc
Q 011038 446 PQVMDILLGEFHRACIYTVPKHIVFSEFRLHLNQKRLT 483 (495)
Q Consensus 446 Pe~~DILLAkFHkvCpYTVPkyi~~~~~r~~~~~kr~~ 483 (495)
|.-+.-|.=.=.+.|||.|-. +.-.|+ .|||-..
T Consensus 579 pqtiESi~lLR~rktpFivAL---NKiDRL-Ygwk~~p 612 (1064)
T KOG1144|consen 579 PQTIESINLLRMRKTPFIVAL---NKIDRL-YGWKSCP 612 (1064)
T ss_pred cchhHHHHHHHhcCCCeEEee---hhhhhh-cccccCC
Confidence 333333333445678887754 334454 4676543
No 33
>PF15346 ARGLU: Arginine and glutamate-rich 1
Probab=61.05 E-value=1.6e+02 Score=28.25 Aligned_cols=6 Identities=83% Similarity=1.121 Sum_probs=2.8
Q ss_pred HHHHHH
Q 011038 233 EEAKRK 238 (495)
Q Consensus 233 EEAkRk 238 (495)
++++++
T Consensus 65 ~e~r~k 70 (149)
T PF15346_consen 65 EEARRK 70 (149)
T ss_pred HHHHhh
Confidence 444444
No 34
>PRK13428 F0F1 ATP synthase subunit delta; Provisional
Probab=60.29 E-value=2.3e+02 Score=30.76 Aligned_cols=8 Identities=25% Similarity=0.463 Sum_probs=4.2
Q ss_pred ccHHHHHH
Q 011038 446 PQVMDILL 453 (495)
Q Consensus 446 Pe~~DILL 453 (495)
|+|..+|.
T Consensus 307 ~el~~~L~ 314 (445)
T PRK13428 307 PRLAILLS 314 (445)
T ss_pred HHHHHHHh
Confidence 55555553
No 35
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=57.06 E-value=2.2e+02 Score=28.63 Aligned_cols=25 Identities=12% Similarity=0.345 Sum_probs=14.7
Q ss_pred HHHHHHHHhhhHHHHHHHHHHHHHH
Q 011038 218 KSQIEERKIRSDAAYEEAKRKERAL 242 (495)
Q Consensus 218 ~sq~eer~~r~~aA~EEAkRke~A~ 242 (495)
.+=+++|+.+.....++|+.....+
T Consensus 31 ~~~l~eR~~~I~~~l~~Ae~~~~eA 55 (250)
T PRK14474 31 IQVMKKRQQRIANRWQDAEQRQQEA 55 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445667766666666666554333
No 36
>PF05262 Borrelia_P83: Borrelia P83/100 protein; InterPro: IPR007926 This family consists of several Borrelia P83/P100 antigen proteins.
Probab=57.04 E-value=1.9e+02 Score=32.40 Aligned_cols=36 Identities=22% Similarity=0.296 Sum_probs=17.7
Q ss_pred cccccccccccCCCCCCccccccc--Cchhhhhhhhhh
Q 011038 99 VKRFTCDALYLSESDDSDDDVALG--GESYLMDEVGLA 134 (495)
Q Consensus 99 ~~~f~c~~l~ls~~~~sd~~~~~~--~~~~lm~k~~~~ 134 (495)
+..|.+|=++|.+..+.|.=.+++ ...|||...||-
T Consensus 62 ~~~~~ADi~~ig~~a~vdhI~nlrrIiagyl~~aygY~ 99 (489)
T PF05262_consen 62 KKKLDADIFIIGENARVDHINNLRRIIAGYLEAAYGYS 99 (489)
T ss_pred ccCCCCcEEEEcCCCCccHHHHHHHHHHHHHHHhcCCC
Confidence 444566666666554444433332 122555555553
No 37
>smart00543 MIF4G Middle domain of eukaryotic initiation factor 4G (eIF4G). Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA. Ponting (TiBS) "Novel eIF4G domain homologues (in press)
Probab=55.64 E-value=44 Score=29.97 Aligned_cols=78 Identities=17% Similarity=0.238 Sum_probs=53.0
Q ss_pred hhhhhhhhhhccchhHHHhHHHHHHHHhcCCCCchHHHHHHHHHHHHhhhcCCCCCCchhhHHHHHHHHhhcccHHHHHH
Q 011038 374 KDISRLIRQIRGLKDNVRTKASELVKILNNPLCPQSISLATFSKKVVSRCETPDDNVAMSCGYVIVLVASQVPQVMDILL 453 (495)
Q Consensus 374 RqI~K~VgQIS~tkeqVk~Ks~ELvqiLn~pq~P~~fALnifAKKIISQ~Es~a~s~AFalAeVIv~VaaQ~Pe~~DILL 453 (495)
+.|+..+|.|+ .+++..-+.+|..+..+. | -....+++.|++...... .....+|..+..+...+|.|+..|+
T Consensus 2 ~~v~~~lnkLs--~~n~~~~~~~l~~~~~~~--~--~~~~~l~~~i~~~~~~~~-~~~~~ya~L~~~l~~~~~~f~~~ll 74 (200)
T smart00543 2 KKVKGLINKLS--PSNFESIIKELLKLNNSD--K--NLRKYILELIFEKAVEEP-NFIPAYARLCALLNAKNPDFGSLLL 74 (200)
T ss_pred hHHHHHHhhCC--HHHHHHHHHHHHHHHccC--H--HHHHHHHHHHHHHHHcCc-chHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56778888887 467888888888887643 2 124444444444444332 3567788889888888888887777
Q ss_pred HHhhh
Q 011038 454 GEFHR 458 (495)
Q Consensus 454 AkFHk 458 (495)
..+..
T Consensus 75 ~~~~~ 79 (200)
T smart00543 75 ERLQE 79 (200)
T ss_pred HHHHH
Confidence 66654
No 38
>PF05672 MAP7: MAP7 (E-MAP-115) family; InterPro: IPR008604 The organisation of microtubules varies with the cell type and is presumably controlled by tissue-specific microtubule-associated proteins (MAPs). The 115 kDa epithelial MAP (E-MAP-115) has been identified as a microtubule-stabilising protein predominantly expressed in cell lines of epithelial origin []. The binding of this microtubule associated protein is nucleotide independent [].
Probab=50.65 E-value=2.5e+02 Score=27.47 Aligned_cols=15 Identities=60% Similarity=0.623 Sum_probs=6.8
Q ss_pred HHHHHHHHHHHHHHH
Q 011038 243 QEEKIRQEKVKAEAE 257 (495)
Q Consensus 243 qEEk~Rqekak~EaE 257 (495)
+++..+..+.+-+|+
T Consensus 102 ~Ee~e~~~kQkeeae 116 (171)
T PF05672_consen 102 QEEQERLQKQKEEAE 116 (171)
T ss_pred HHHHHHHHHhHHHHH
Confidence 444444444444444
No 39
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=48.13 E-value=1.2e+02 Score=32.23 Aligned_cols=25 Identities=36% Similarity=0.562 Sum_probs=13.8
Q ss_pred HHhhhhHhh--hhHHHHHHHHHHHhhh
Q 011038 204 LDNHLTAVQ--RDHELKSQIEERKIRS 228 (495)
Q Consensus 204 ~~~~~~~~q--rd~e~~sq~eer~~r~ 228 (495)
..+|||.|| .-+|-+.|||-.+.|.
T Consensus 266 rsrhlsevqiakraeerrqieterlrq 292 (445)
T KOG2891|consen 266 RSRHLSEVQIAKRAEERRQIETERLRQ 292 (445)
T ss_pred hhhhhhHHHHHHHHHHHhhhhHHHHhh
Confidence 346888777 2345555666444443
No 40
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=47.31 E-value=3.7e+02 Score=31.72 Aligned_cols=10 Identities=40% Similarity=0.364 Sum_probs=4.4
Q ss_pred CCCCCChHHH
Q 011038 21 PEPDWSFDAL 30 (495)
Q Consensus 21 p~p~ws~~~l 30 (495)
-+||-.|+++
T Consensus 49 ~~~d~~~~d~ 58 (811)
T KOG4364|consen 49 LEMDGLFDDF 58 (811)
T ss_pred cccchhHHHH
Confidence 3444444443
No 41
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=45.56 E-value=22 Score=39.39 Aligned_cols=36 Identities=19% Similarity=0.335 Sum_probs=27.8
Q ss_pred CCCCCChHHHHHHHHHHHH--HhccCCCCccccccccc
Q 011038 21 PEPDWSFDALLSELNSLET--RLNASSKPVPFTKTKSR 56 (495)
Q Consensus 21 p~p~ws~~~l~~el~~le~--~~~~~~~~~p~tk~~s~ 56 (495)
|.|.|||++-...--++=. +-+++++|+|++-+.-|
T Consensus 215 PnP~ctFddAFq~~pevmenIkK~GFqKPtPIqSQaWP 252 (629)
T KOG0336|consen 215 PNPVCTFDDAFQCYPEVMENIKKTGFQKPTPIQSQAWP 252 (629)
T ss_pred CCCcCcHHHHHhhhHHHHHHHHhccCCCCCcchhcccc
Confidence 9999999998877666533 56789999999766433
No 42
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module
Probab=45.15 E-value=28 Score=30.19 Aligned_cols=35 Identities=14% Similarity=0.295 Sum_probs=25.0
Q ss_pred CCCCChHHHHHHHHHHHHHhccCCCCcccccccccccccCccccccCcceEEEecccccc
Q 011038 22 EPDWSFDALLSELNSLETRLNASSKPVPFTKTKSREISTGKSVESNARAFVIRVSDDELE 81 (495)
Q Consensus 22 ~p~ws~~~l~~el~~le~~~~~~~~~~p~tk~~s~~~~~~~~~~~~~~~fvmrv~~~~~e 81 (495)
.|+|+|..|..++..+ |++| ....|+++-.|||-|
T Consensus 22 ~~d~~~~~L~~kI~~~--------f~l~-----------------~~~~~~l~Y~Dedgd 56 (91)
T cd06398 22 QLDLNMDGLREKVEEL--------FSLS-----------------PDADLSLTYTDEDGD 56 (91)
T ss_pred cCCCCHHHHHHHHHHH--------hCCC-----------------CCCcEEEEEECCCCC
Confidence 4899999999998764 2222 145788888887554
No 43
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=43.60 E-value=6.8e+02 Score=30.40 Aligned_cols=25 Identities=28% Similarity=0.268 Sum_probs=18.3
Q ss_pred hHHHHhhHHhHHhHHHHhhhhcHHH
Q 011038 172 NSALAQVEKDRDMRREMDRKNDTVY 196 (495)
Q Consensus 172 ~sa~arveKy~e~r~e~~r~~~~~~ 196 (495)
..+|--.+++-..|.+-|+.+=-.+
T Consensus 702 ~EeiPL~e~~~~~~~~~d~e~~e~~ 726 (988)
T KOG2072|consen 702 LEEIPLIEKAYDERQEEDRELYEAR 726 (988)
T ss_pred HHhhhhHHHHHHHHHhhhHHHHHHH
Confidence 4467778888888888888776533
No 44
>COG5269 ZUO1 Ribosome-associated chaperone zuotin [Translation, ribosomal structure and biogenesis / Posttranslational modification, protein turnover, chaperones]
Probab=43.14 E-value=2.8e+02 Score=29.60 Aligned_cols=15 Identities=40% Similarity=0.353 Sum_probs=8.7
Q ss_pred hhHhhhhHHHHHHHH
Q 011038 208 LTAVQRDHELKSQIE 222 (495)
Q Consensus 208 ~~~~qrd~e~~sq~e 222 (495)
..++.||..+++=.|
T Consensus 223 ~~A~~~DPRIK~fkE 237 (379)
T COG5269 223 QIAKKRDPRIKSFKE 237 (379)
T ss_pred HHHHhcCcchhhHHH
Confidence 345667777755433
No 45
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=42.76 E-value=2.5e+02 Score=32.71 Aligned_cols=10 Identities=40% Similarity=0.322 Sum_probs=4.4
Q ss_pred HHHHHHHHHH
Q 011038 343 IEQKRLQKLK 352 (495)
Q Consensus 343 ~E~~Rlk~Lk 352 (495)
-|..|..++.
T Consensus 732 pe~kr~a~~d 741 (940)
T KOG4661|consen 732 PESKRKAVLD 741 (940)
T ss_pred chhhhhhHhh
Confidence 3444544443
No 46
>PF03115 Astro_capsid: Astrovirus capsid protein precursor; InterPro: IPR004337 The astrovirus genome is apparently organised with nonstructural proteins encoded at the 5' end and structural proteins at the 3' end []. Proteins in this family are encoded by astrovirus ORF2, one of the three astrovirus ORFs (1a, 1b, 2). The proteins contain a viral RNA-dependent RNA polymerase motif []. The 87kDa precursor polyprotein undergoes an intracellular cleavage to form a 79kDa protein. Subsequently, extracellular trypsin cleavage yields the three proteins forming the infectious virion [].; PDB: 3QSQ_A 3TS3_D.
Probab=42.52 E-value=8.2 Score=44.81 Aligned_cols=12 Identities=25% Similarity=0.360 Sum_probs=0.0
Q ss_pred ccccCCCCCCcc
Q 011038 106 ALYLSESDDSDD 117 (495)
Q Consensus 106 ~l~ls~~~~sd~ 117 (495)
||.-++++|+||
T Consensus 693 DL~~~seSe~eD 704 (787)
T PF03115_consen 693 DLHPSSESEDED 704 (787)
T ss_dssp ------------
T ss_pred ccCccccccccc
Confidence 555554444444
No 47
>TIGR03321 alt_F1F0_F0_B alternate F1F0 ATPase, F0 subunit B. CC and in principle may run in either direction. This model represents the F0 subunit B of this apparent second ATP synthase.
Probab=40.68 E-value=3.7e+02 Score=26.58 Aligned_cols=23 Identities=17% Similarity=0.238 Sum_probs=14.7
Q ss_pred hhHhhhcccccchhHHHHHHhhh
Q 011038 472 EFRLHLNQKRLTTKLLDTVRKME 494 (495)
Q Consensus 472 ~~r~~~~~kr~~~k~~~~~~~~~ 494 (495)
-.++++|=.-.|.-|..-+.+|.
T Consensus 220 Gi~l~~g~~~id~Si~~~L~~l~ 242 (246)
T TIGR03321 220 GIELTAGGHKLAWSVDDYLESLE 242 (246)
T ss_pred ceEEEECCEEEechHHHHHHHHH
Confidence 35677777777766666655553
No 48
>KOG1011 consensus Neurotransmitter release regulator, UNC-13 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=39.53 E-value=80 Score=37.00 Aligned_cols=34 Identities=29% Similarity=0.486 Sum_probs=29.2
Q ss_pred ccHHHHH---HHHhhhhcccccccccchhhhHhhhcc
Q 011038 446 PQVMDIL---LGEFHRACIYTVPKHIVFSEFRLHLNQ 479 (495)
Q Consensus 446 Pe~~DIL---LAkFHkvCpYTVPkyi~~~~~r~~~~~ 479 (495)
-.+||+| |-.|-..|--||-|++-.+-|++-||-
T Consensus 940 ~plmdlldgnlt~fa~~cektvlk~vlkelwkivm~t 976 (1283)
T KOG1011|consen 940 EPLMDLLDGNLTLFADQCEKTVLKRVLKELWKIVMNT 976 (1283)
T ss_pred HHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4577777 678889999999999999999999873
No 49
>TIGR03738 PRTRC_C PRTRC system protein C. A novel genetic system characterized by six major proteins, included a ParB homolog and a ThiF homolog, is designated PRTRC, or ParB-Related,ThiF-Related Cassette. It is often found on plasmids. This protein family is designated PRTRC system protein C.
Probab=39.37 E-value=19 Score=30.28 Aligned_cols=18 Identities=28% Similarity=0.551 Sum_probs=14.2
Q ss_pred Ccc-ccCCCCCCChHHHHH
Q 011038 15 DGI-AIDPEPDWSFDALLS 32 (495)
Q Consensus 15 ~~~-~~dp~p~ws~~~l~~ 32 (495)
+|| --||+|.||.+++.+
T Consensus 12 ~gi~L~DP~p~~spe~V~d 30 (66)
T TIGR03738 12 NGVRLADPSPAMSPEQVRD 30 (66)
T ss_pred CCeEcCCCCCCCCHHHHHH
Confidence 453 359999999999875
No 50
>PF07046 CRA_rpt: Cytoplasmic repetitive antigen (CRA) like repeat; InterPro: IPR009761 This family consists of several repeats of around 42 residues in length. These repeated sequences are found in multiple copies in Trypanosoma cruzi antigens, Q26907 from SWISSPROT contains 23 copies of this repeat [].
Probab=38.48 E-value=1.3e+02 Score=23.49 Aligned_cols=10 Identities=40% Similarity=0.444 Sum_probs=4.2
Q ss_pred HHHHHHHHHH
Q 011038 276 KRAAKEAAER 285 (495)
Q Consensus 276 rkaa~EAa~k 285 (495)
.+.++||.+.
T Consensus 18 KqraAEA~k~ 27 (42)
T PF07046_consen 18 KQRAAEATKA 27 (42)
T ss_pred HHHHHHHHHH
Confidence 3444444443
No 51
>KOG1363 consensus Predicted regulator of the ubiquitin pathway (contains UAS and UBX domains) [Signal transduction mechanisms]
Probab=38.31 E-value=2e+02 Score=31.82 Aligned_cols=29 Identities=14% Similarity=0.092 Sum_probs=15.7
Q ss_pred HHHHHhhhhHhhhhHHHHHHHHHHHhhhH
Q 011038 201 AEALDNHLTAVQRDHELKSQIEERKIRSD 229 (495)
Q Consensus 201 aea~~~~~~~~qrd~e~~sq~eer~~r~~ 229 (495)
..+...++...|+.....+--++|.++.+
T Consensus 291 ~~~~~~~~~~~q~~~~~~~er~~r~~~~~ 319 (460)
T KOG1363|consen 291 LVAFEEEERRLQMRRSEQDEREARLALEQ 319 (460)
T ss_pred HhhhhhhhHHHhhcccchhHHHHHHHHHH
Confidence 34555555556655555555555555555
No 52
>PRK06568 F0F1 ATP synthase subunit B; Validated
Probab=37.72 E-value=3.7e+02 Score=25.61 Aligned_cols=20 Identities=5% Similarity=0.192 Sum_probs=11.3
Q ss_pred HHHHHHHhhhHHHHHHHHHH
Q 011038 219 SQIEERKIRSDAAYEEAKRK 238 (495)
Q Consensus 219 sq~eer~~r~~aA~EEAkRk 238 (495)
.-+++|..+.+...++|++.
T Consensus 31 ~~LeeR~~~I~~~Ld~Ae~~ 50 (154)
T PRK06568 31 NSLDAKILEVQEKVLKAEKL 50 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34456666666666666544
No 53
>PF15346 ARGLU: Arginine and glutamate-rich 1
Probab=36.87 E-value=3.9e+02 Score=25.67 Aligned_cols=53 Identities=21% Similarity=0.266 Sum_probs=31.7
Q ss_pred cccchhHHHHHHHHHHHHHHHHHHhhhhHHHHhhHHhHHhHHHHhhhhcHHHHHHHHHHH
Q 011038 145 HQLGVKEEIRNLISTLETQLISENEQSNSALAQVEKDRDMRREMDRKNDTVYQRKIAEAL 204 (495)
Q Consensus 145 h~~~v~eeir~~~s~le~~l~~E~q~s~sa~arveKy~e~r~e~~r~~~~~~qr~~aea~ 204 (495)
-.-+|-+.|+.++-..=. ..||+..+.. .+.+.|+.|...+..+..+.-..++
T Consensus 12 ~akRvEe~V~krVee~l~--~eei~~ei~r-----Rvee~r~~me~~v~~ele~ek~~~l 64 (149)
T PF15346_consen 12 TAKRVEEAVRKRVEEELN--SEEIEKEIQR-----RVEEERKKMEKQVAEELEREKEEAL 64 (149)
T ss_pred HHHHHHHHHHHHHHHHHh--hHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344677777777654222 3455544432 3456777888887777777666655
No 54
>KOG4691 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.73 E-value=4.7e+02 Score=26.60 Aligned_cols=16 Identities=13% Similarity=0.021 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHHHHHh
Q 011038 275 EKRAAKEAAEREAAEN 290 (495)
Q Consensus 275 ~rkaa~EAa~ke~ae~ 290 (495)
+.|.++|..=+..+++
T Consensus 155 a~k~qae~eVl~~ier 170 (227)
T KOG4691|consen 155 AWKQQAEREVLQLIER 170 (227)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3444444444444444
No 55
>PF14454 Prok_Ub: Prokaryotic Ubiquitin
Probab=36.20 E-value=23 Score=29.48 Aligned_cols=20 Identities=30% Similarity=0.479 Sum_probs=15.3
Q ss_pred Cccc-cCCCCCCChHHHHHHH
Q 011038 15 DGIA-IDPEPDWSFDALLSEL 34 (495)
Q Consensus 15 ~~~~-~dp~p~ws~~~l~~el 34 (495)
+|+- -||.|.||.+++++=.
T Consensus 13 ~g~~L~DP~p~~spe~V~~~y 33 (65)
T PF14454_consen 13 NGITLPDPNPSLSPEEVRDFY 33 (65)
T ss_pred CCEECCCCCCCCCHHHHHHHH
Confidence 5643 4899999999987633
No 56
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=36.05 E-value=3.7e+02 Score=25.13 Aligned_cols=9 Identities=33% Similarity=0.368 Sum_probs=3.3
Q ss_pred hhhhhhhhh
Q 011038 374 KDISRLIRQ 382 (495)
Q Consensus 374 RqI~K~VgQ 382 (495)
+-|.+.|++
T Consensus 162 ~li~~~i~~ 170 (174)
T PRK07352 162 RLIDRSIAN 170 (174)
T ss_pred HHHHHHHHh
Confidence 333333333
No 57
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=35.68 E-value=7.2e+02 Score=28.39 Aligned_cols=44 Identities=25% Similarity=0.203 Sum_probs=24.0
Q ss_pred hhHHHHhhhccc-chhHHHHHHHHHHHHHHHHHHhhhhHHHHhhH
Q 011038 136 GALVELTHQHQL-GVKEEIRNLISTLETQLISENEQSNSALAQVE 179 (495)
Q Consensus 136 ~~l~el~~~h~~-~v~eeir~~~s~le~~l~~E~q~s~sa~arve 179 (495)
-||-|+.+-.|. .|-|=+|.|--..-.++.+|.+.--...+..+
T Consensus 83 KAlrein~s~~aK~vfel~r~qE~Trq~E~~~k~~~~eA~qa~~~ 127 (630)
T KOG0742|consen 83 KALREINHSPYAKDVFELARMQEQTRQAEQQAKTKEYEAAQAQLK 127 (630)
T ss_pred HHHHhhccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 357777776655 45555555555555555555554444444433
No 58
>PLN02316 synthase/transferase
Probab=35.42 E-value=1.2e+02 Score=36.62 Aligned_cols=17 Identities=35% Similarity=0.405 Sum_probs=9.6
Q ss_pred HHHhhhHHHHHHHHHHH
Q 011038 223 ERKIRSDAAYEEAKRKE 239 (495)
Q Consensus 223 er~~r~~aA~EEAkRke 239 (495)
++++-.+.|.|||.|++
T Consensus 254 ~~~e~~~la~e~ae~~~ 270 (1036)
T PLN02316 254 KRRELEKLAKEEAERER 270 (1036)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33334556667776664
No 59
>PF05672 MAP7: MAP7 (E-MAP-115) family; InterPro: IPR008604 The organisation of microtubules varies with the cell type and is presumably controlled by tissue-specific microtubule-associated proteins (MAPs). The 115 kDa epithelial MAP (E-MAP-115) has been identified as a microtubule-stabilising protein predominantly expressed in cell lines of epithelial origin []. The binding of this microtubule associated protein is nucleotide independent [].
Probab=35.34 E-value=4.4e+02 Score=25.86 Aligned_cols=9 Identities=44% Similarity=0.778 Sum_probs=4.5
Q ss_pred HHhhHHhHH
Q 011038 175 LAQVEKDRD 183 (495)
Q Consensus 175 ~arveKy~e 183 (495)
+||.+|.+|
T Consensus 34 lAReQkErE 42 (171)
T PF05672_consen 34 LAREQKERE 42 (171)
T ss_pred HHHHHhhhH
Confidence 455555544
No 60
>PLN03086 PRLI-interacting factor K; Provisional
Probab=33.34 E-value=2.5e+02 Score=32.02 Aligned_cols=12 Identities=8% Similarity=0.238 Sum_probs=6.5
Q ss_pred hhhhhhchHHHH
Q 011038 331 QSAVRATESALN 342 (495)
Q Consensus 331 ~~~~raa~sAl~ 342 (495)
|.+|.-=.|||.
T Consensus 91 GdKI~LPpSaL~ 102 (567)
T PLN03086 91 GDKIKLPPSCFT 102 (567)
T ss_pred CCeEEcCHHHHH
Confidence 344555566664
No 61
>PF07946 DUF1682: Protein of unknown function (DUF1682); InterPro: IPR012879 The members of this family are all hypothetical eukaryotic proteins of unknown function. One member (Q920S6 from SWISSPROT) is described as being an adipocyte-specific protein, but no evidence of this was found.
Probab=33.25 E-value=1.9e+02 Score=29.86 Aligned_cols=12 Identities=17% Similarity=0.116 Sum_probs=5.3
Q ss_pred hhcHHHHHHHHH
Q 011038 191 KNDTVYQRKIAE 202 (495)
Q Consensus 191 ~~~~~~qr~~ae 202 (495)
+|..+..+++..
T Consensus 251 ~l~~e~~~K~~k 262 (321)
T PF07946_consen 251 KLSPEAKKKAKK 262 (321)
T ss_pred eeCHHHHHHHHH
Confidence 344444444443
No 62
>PF07046 CRA_rpt: Cytoplasmic repetitive antigen (CRA) like repeat; InterPro: IPR009761 This family consists of several repeats of around 42 residues in length. These repeated sequences are found in multiple copies in Trypanosoma cruzi antigens, Q26907 from SWISSPROT contains 23 copies of this repeat [].
Probab=33.08 E-value=1e+02 Score=23.98 Aligned_cols=8 Identities=63% Similarity=0.617 Sum_probs=3.6
Q ss_pred HHHHHHHH
Q 011038 261 KLRAEEAK 268 (495)
Q Consensus 261 k~~aeeak 268 (495)
|+++.++.
T Consensus 18 KqraAEA~ 25 (42)
T PF07046_consen 18 KQRAAEAT 25 (42)
T ss_pred HHHHHHHH
Confidence 44444444
No 63
>PF13904 DUF4207: Domain of unknown function (DUF4207)
Probab=31.17 E-value=5.7e+02 Score=25.91 Aligned_cols=21 Identities=29% Similarity=0.422 Sum_probs=9.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 011038 233 EEAKRKERALQEEKIRQEKVK 253 (495)
Q Consensus 233 EEAkRke~A~qEEk~Rqekak 253 (495)
|+|+++-+.=...|..+++.+
T Consensus 180 e~a~~~~q~W~~kK~~e~~~~ 200 (264)
T PF13904_consen 180 EEAKQRYQEWERKKKEEQQQK 200 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 455555444433444443333
No 64
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=28.33 E-value=39 Score=37.28 Aligned_cols=8 Identities=13% Similarity=-0.130 Sum_probs=4.6
Q ss_pred ccccccCC
Q 011038 104 CDALYLSE 111 (495)
Q Consensus 104 c~~l~ls~ 111 (495)
.||=|=||
T Consensus 97 ~ddG~~TD 104 (458)
T PF10446_consen 97 DDDGNETD 104 (458)
T ss_pred cccCccCc
Confidence 35666663
No 65
>PF11919 DUF3437: Domain of unknown function (DUF3437); InterPro: IPR021843 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 142 to 163 amino acids in length. ; PDB: 3L5Q_6 1VSY_5.
Probab=28.15 E-value=34 Score=29.70 Aligned_cols=18 Identities=28% Similarity=0.287 Sum_probs=9.2
Q ss_pred HHHhhhhcccccccccch
Q 011038 453 LGEFHRACIYTVPKHIVF 470 (495)
Q Consensus 453 LAkFHkvCpYTVPkyi~~ 470 (495)
|+-|...+||+||.+++.
T Consensus 13 L~Alv~a~Py~vP~w~P~ 30 (90)
T PF11919_consen 13 LSALVLAFPYDVPPWMPE 30 (90)
T ss_dssp HHHHHTT-S--SS-HHHH
T ss_pred HHHHHHHcCCCCcccHHH
Confidence 455666778888877764
No 66
>PLN02316 synthase/transferase
Probab=28.13 E-value=1.4e+02 Score=36.13 Aligned_cols=10 Identities=20% Similarity=0.315 Sum_probs=4.2
Q ss_pred hHHHHHHHHh
Q 011038 434 CGYVIVLVAS 443 (495)
Q Consensus 434 lAeVIv~Vaa 443 (495)
+|-|++.++.
T Consensus 606 LgDVV~sLp~ 615 (1036)
T PLN02316 606 LGDVVTSLSR 615 (1036)
T ss_pred HHHHHHHHHH
Confidence 4444444433
No 67
>PF00769 ERM: Ezrin/radixin/moesin family; InterPro: IPR011259 The ERM family consists of three closely-related proteins, ezrin, radixin and moesin []. Ezrin was first identified as a constituent of microvilli [], radixin as a barbed, end-capping actin-modulating protein from isolated junctional fractions [], and moesin as a heparin binding protein []. A tumour suppressor molecule responsible for neurofibromatosis type 2 (NF2) is highly similar to ERM proteins and has been designated merlin (moesin-ezrin-radixin-like protein). ERM molecules contain 3 domains, an N-terminal globular domain; an extended alpha-helical domain; and a charged C-terminal domain []. Ezrin, radixin and merlin also contain a polyproline region between the helical and C-terminal domains. The N-terminal domain is highly conserved, and is also found in merlin, band 4.1 proteins and members of the band 4.1 superfamily. ERM proteins crosslink actin filaments with plasma membranes. They co-localise with CD44 at actin filament-plasma membrane interaction sites, associating with CD44 via their N-terminal domains and with actin filaments via their C-terminal domains [].; GO: 0008092 cytoskeletal protein binding, 0005737 cytoplasm, 0019898 extrinsic to membrane; PDB: 2I1J_A 2I1K_A 1E5W_A 1EF1_C.
Probab=27.99 E-value=6.3e+02 Score=25.39 Aligned_cols=10 Identities=10% Similarity=0.371 Sum_probs=5.4
Q ss_pred HhHHHHhhhh
Q 011038 183 DMRREMDRKN 192 (495)
Q Consensus 183 e~r~e~~r~~ 192 (495)
-.+.+++.||
T Consensus 5 r~k~Ele~rL 14 (246)
T PF00769_consen 5 REKQELEERL 14 (246)
T ss_dssp HHCHHHHHHH
T ss_pred HHHHHHHHHH
Confidence 3455556555
No 68
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=27.28 E-value=5.6e+02 Score=27.26 Aligned_cols=54 Identities=11% Similarity=0.201 Sum_probs=36.3
Q ss_pred hhhhhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhhhHHHHhhHHhHHhHHHHh
Q 011038 133 LADGALVELTHQHQLGVKEEIRNLISTLETQLISENEQSNSALAQVEKDRDMRREMD 189 (495)
Q Consensus 133 ~~e~~l~el~~~h~~~v~eeir~~~s~le~~l~~E~q~s~sa~arveKy~e~r~e~~ 189 (495)
-+|.+.|.|.+. +.| ++...+|...+..+..+|.+......+=+.+-+.+.+.+
T Consensus 101 ~vEdii~nL~~~--~d~-~~te~~l~~y~~~n~~~I~~n~~~~~~e~~~~~~~~~~E 154 (309)
T TIGR00570 101 EVEDIVYNLTNN--IDL-ENTKKKIETYQKENKDVIQKNKEKSTREQEELEEALEFE 154 (309)
T ss_pred HHHHHHHHhhcC--CcH-HHHHHHHHHHHHHhHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 488888998876 444 457788888888888888877665555444444443333
No 69
>PTZ00491 major vault protein; Provisional
Probab=26.48 E-value=2.5e+02 Score=33.59 Aligned_cols=14 Identities=29% Similarity=0.235 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHHHH
Q 011038 230 AAYEEAKRKERALQ 243 (495)
Q Consensus 230 aA~EEAkRke~A~q 243 (495)
+|.-+|.|.||.++
T Consensus 667 ~A~h~a~~~eQea~ 680 (850)
T PTZ00491 667 AARHQAELLEQEAR 680 (850)
T ss_pred HHHHHHHHHHHHhh
Confidence 44456666664443
No 70
>KOG3011 consensus Ubiquitin-conjugating enzyme [Posttranslational modification, protein turnover, chaperones]
Probab=26.42 E-value=80 Score=32.93 Aligned_cols=55 Identities=13% Similarity=0.178 Sum_probs=43.8
Q ss_pred HHHHHHHHHHhhhcCCCCCCchhhHHHHHHHHhhc-----------------ccHHHHHHHHh--hhhcccccccc
Q 011038 411 SLATFSKKVVSRCETPDDNVAMSCGYVIVLVASQV-----------------PQVMDILLGEF--HRACIYTVPKH 467 (495)
Q Consensus 411 ALnifAKKIISQ~Es~a~s~AFalAeVIv~VaaQ~-----------------Pe~~DILLAkF--HkvCpYTVPky 467 (495)
...+|+|.||--+.+..- +-.++|.+.|+|.+.+ |-++.-+.+ | |.+||.||-+|
T Consensus 89 lf~~~~~~ii~~~~s~~~-~~~~La~~aG~i~AD~~SGl~HWaaD~~Gsv~tP~vG~~f~r-freHH~dP~tITr~ 162 (293)
T KOG3011|consen 89 LFVSFAKSIIGGFGSHLW-LEPALAAYAGYITADLGSGVYHWAADNYGSVSTPWVGRQFER-FQEHHKDPWTITRR 162 (293)
T ss_pred HHHHHHHHHHHhhhhhhh-HHHHHHHHHHHHHHhhhcceeEeeccccCccccchhHHHHHH-HHhccCCcceeeHH
Confidence 367789999999888553 3456888889888887 778777777 6 78999999986
No 71
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=26.32 E-value=9.3e+02 Score=26.77 Aligned_cols=20 Identities=15% Similarity=0.416 Sum_probs=12.6
Q ss_pred ChHHHHHHHHHHHHHhccCC
Q 011038 26 SFDALLSELNSLETRLNASS 45 (495)
Q Consensus 26 s~~~l~~el~~le~~~~~~~ 45 (495)
.++..-.||.+++.++....
T Consensus 39 ~l~q~q~ei~~~~~~i~~~~ 58 (420)
T COG4942 39 QLKQIQKEIAALEKKIREQQ 58 (420)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34456667777777766655
No 72
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=26.25 E-value=5.2e+02 Score=23.81 Aligned_cols=10 Identities=30% Similarity=0.235 Sum_probs=4.4
Q ss_pred hhHHhHHhHH
Q 011038 177 QVEKDRDMRR 186 (495)
Q Consensus 177 rveKy~e~r~ 186 (495)
.|-++-+.|+
T Consensus 46 Pi~~~l~~R~ 55 (156)
T CHL00118 46 PLLKVLDERK 55 (156)
T ss_pred HHHHHHHHHH
Confidence 3444444443
No 73
>PF06098 Radial_spoke_3: Radial spoke protein 3; InterPro: IPR009290 This family consists of several radial spoke protein 3 (RSP3) sequences. Eukaryotic cilia and flagella present in diverse types of cells perform motile, sensory, and developmental functions in organisms from protists to humans. They are centred by precisely organised, microtubule-based structures, the axonemes. The axoneme consists of two central singlet microtubules, called the central pair, and nine outer doublet microtubules. These structures are well conserved during evolution. The outer doublet microtubules, each composed of A and B sub-fibres, are connected to each other by nexin links, while the central pair is held at the centre of the axoneme by radial spokes. The radial spokes are T-shaped structures extending from the A-tubule of each outer doublet microtubule to the centre of the axoneme. Radial spoke protein 3 (RSP3), is present at the proximal end of the spoke stalk and helps in anchoring the radial spoke to the outer doublet. It is thought that radial spokes regulate the activity of inner arm dynein through protein phosphorylation and dephosphorylation [].
Probab=25.39 E-value=5e+02 Score=27.23 Aligned_cols=95 Identities=18% Similarity=0.238 Sum_probs=0.0
Q ss_pred CCCCcccccccCch---hhhhhhhhhhhhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhhhHHHHhhHHhHHhHHHH
Q 011038 112 SDDSDDDVALGGES---YLMDEVGLADGALVELTHQHQLGVKEEIRNLISTLETQLISENEQSNSALAQVEKDRDMRREM 188 (495)
Q Consensus 112 ~~~sd~~~~~~~~~---~lm~k~~~~e~~l~el~~~h~~~v~eeir~~~s~le~~l~~E~q~s~sa~arveKy~e~r~e~ 188 (495)
.+++=+|-|.+|.| .|..|+ +|-||+|+..+.-|.---.-....-.+-++=+.|+||-- +.++..+.|-
T Consensus 119 ~~gdLFDFd~EV~PiLeVLVgKt--lEQAl~EV~EEeEL~~lr~~q~~fe~~R~aEl~e~qrlE------~~e~r~~eEk 190 (291)
T PF06098_consen 119 EEGDLFDFDEEVKPILEVLVGKT--LEQALMEVMEEEELAALRRQQRAFEELRNAELAEVQRLE------EAEKRRREEK 190 (291)
T ss_pred ccccccchHhhhhhHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHH
Q ss_pred hhhhcHHHHHHHHHHHHhhhhHhhhhHHHHHHHHHHHh
Q 011038 189 DRKNDTVYQRKIAEALDNHLTAVQRDHELKSQIEERKI 226 (495)
Q Consensus 189 ~r~~~~~~qr~~aea~~~~~~~~qrd~e~~sq~eer~~ 226 (495)
+||++-+-++...+.+ +..++..|..
T Consensus 191 erR~~q~~~~~~~~~~------------~~~Ki~Ar~~ 216 (291)
T PF06098_consen 191 ERRIKQQKERLEKEKE------------LREKIAARAF 216 (291)
T ss_pred HHHHHHHHHHHHHHHH------------HHHHHHHHHH
No 74
>PF11521 TFIIE-A_C-term: C-terminal general transcription factor TFIIE alpha; InterPro: IPR021600 TFIIE is compiled of two subunits, alpha and beta. This family of proteins are the C-terminal domain of the alpha subunit of the protein which is the largest subunit and contains several functional domains which are important for basal transcription and cell growth. The C-terminal end of the protein binds directly to the amino-terminal PH domain of p62/Tfb1 (of IIH) which is involved in the recruitment of the general transcription factor IIH to the transcription preinitiation complex. P53 competes for the same binding site as TFIIE alpha which shows their structural similarity. Like p53, TFIIE alpha 336-439 can activate transcription in vivo []. ; PDB: 2RNR_A 2RNQ_A 2JTX_A.
Probab=24.34 E-value=20 Score=31.25 Aligned_cols=33 Identities=18% Similarity=0.320 Sum_probs=15.7
Q ss_pred ecccccccccccccccccccccccccccccccc
Q 011038 75 VSDDELENDNERKGEEVHNGSLVAVKRFTCDAL 107 (495)
Q Consensus 75 v~~~~~e~~d~~~~e~~~~~~~~~~~~f~c~~l 107 (495)
+...+.+++|+.++.+.-..|.|+|+.|.++++
T Consensus 23 ~~~~d~~~dde~ee~~d~p~V~V~Gr~~~~~eV 55 (86)
T PF11521_consen 23 VDEEDSDEDDEFEEVEDDPTVMVAGRPYPYSEV 55 (86)
T ss_dssp ----SSSS--S-EEE-SS-EEEETTEEEEHHHH
T ss_pred cccccccccccccccccCceEEECCEEeehhhc
Confidence 333333333333333344568889999998765
No 75
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=24.10 E-value=8.7e+02 Score=26.20 Aligned_cols=10 Identities=30% Similarity=0.494 Sum_probs=6.3
Q ss_pred hhhhhhhhhh
Q 011038 126 YLMDEVGLAD 135 (495)
Q Consensus 126 ~lm~k~~~~e 135 (495)
..|+-.|.+-
T Consensus 228 qfmeykgfa~ 237 (445)
T KOG2891|consen 228 QFMEYKGFAQ 237 (445)
T ss_pred HHHHHHhHHH
Confidence 4577777654
No 76
>PF11002 RDM: RFPL defining motif (RDM); InterPro: IPR022723 The RFPL defining motif (RDM) is a domain found on RFPL (Ret finger protein like) proteins. In humans, RFPL transcripts can be detected at the onset of neurogenesis in differentiating human embryonic stem cells, and in the developing human neocortex []. The RDM domain is thought to have emerged from a neofunctionalisation event. It is found N-terminal to the SPRY domain (PF00622 from PFAM). ; PDB: 2FBE_B.
Probab=22.18 E-value=29 Score=26.96 Aligned_cols=26 Identities=31% Similarity=0.549 Sum_probs=0.0
Q ss_pred CCCCCCChHHHHHHHHHHHHHhccCC
Q 011038 20 DPEPDWSFDALLSELNSLETRLNASS 45 (495)
Q Consensus 20 dp~p~ws~~~l~~el~~le~~~~~~~ 45 (495)
|-.|+|-+|.|+|=+-.||-+|++.=
T Consensus 7 Di~p~~qLg~Lvs~iKelEPqL~~iL 32 (42)
T PF11002_consen 7 DIRPNFQLGKLVSKIKELEPQLRAIL 32 (42)
T ss_dssp --------------------------
T ss_pred cccHHHHHHHHHHHHHHhCHHHHHHH
Confidence 66899999999999999998887643
No 77
>PF09026 CENP-B_dimeris: Centromere protein B dimerisation domain; InterPro: IPR015115 Centromere protein B (CENP-B) interacts with centromeric heterochromatin in chromosomes and binds to a specific subset of alphoid satellite DNA, called the CENP-B box. CENP-B may organise arrays of centromere satellite DNA into a higher order structure, which then directs centromere formation and kinetochore assembly in mammalian chromosomes. The CENP-B dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation []. ; GO: 0003677 DNA binding, 0003682 chromatin binding, 0006355 regulation of transcription, DNA-dependent, 0000775 chromosome, centromeric region, 0005634 nucleus; PDB: 1UFI_A.
Probab=21.70 E-value=14 Score=33.32 Aligned_cols=22 Identities=18% Similarity=0.430 Sum_probs=12.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHhh
Q 011038 149 VKEEIRNLISTLETQLISENEQ 170 (495)
Q Consensus 149 v~eeir~~~s~le~~l~~E~q~ 170 (495)
|-+-+.+.|+-|+..|++=.-+
T Consensus 65 id~~v~shi~h~e~~~vhv~rk 86 (101)
T PF09026_consen 65 IDDKVQSHILHLEHDLVHVTRK 86 (101)
T ss_dssp --HHHHHHHHHHHHHHHHHHHH
T ss_pred hhHhhhhhhhccccceEEeeee
Confidence 3344667777777777664433
No 78
>TIGR03086 conserved hypothetical protein TIGR03086. This family, like Pfam family pfam07398 and TIGRFAMs family TIGR030834, belongs to the larger set of probable enzymes defined in family TIGR03083. Members are found primarily in the Actinobacteria (Mycobacterium, Streptomyces, etc.). The family is uncharacterized.
Probab=21.26 E-value=69 Score=29.99 Aligned_cols=22 Identities=27% Similarity=0.490 Sum_probs=17.7
Q ss_pred CCCCCChHHHHHHHHHHHHHhc
Q 011038 21 PEPDWSFDALLSELNSLETRLN 42 (495)
Q Consensus 21 p~p~ws~~~l~~el~~le~~~~ 42 (495)
|||+||+.+||.=|-....-+.
T Consensus 25 PcpgWtv~dLv~Hl~~~~~~~~ 46 (180)
T TIGR03086 25 PCAGWDVRALLNHLVGSAEAFA 46 (180)
T ss_pred CCCCccHHHHHHHHHHHHHHHH
Confidence 8999999999998877654443
No 79
>PF00769 ERM: Ezrin/radixin/moesin family; InterPro: IPR011259 The ERM family consists of three closely-related proteins, ezrin, radixin and moesin []. Ezrin was first identified as a constituent of microvilli [], radixin as a barbed, end-capping actin-modulating protein from isolated junctional fractions [], and moesin as a heparin binding protein []. A tumour suppressor molecule responsible for neurofibromatosis type 2 (NF2) is highly similar to ERM proteins and has been designated merlin (moesin-ezrin-radixin-like protein). ERM molecules contain 3 domains, an N-terminal globular domain; an extended alpha-helical domain; and a charged C-terminal domain []. Ezrin, radixin and merlin also contain a polyproline region between the helical and C-terminal domains. The N-terminal domain is highly conserved, and is also found in merlin, band 4.1 proteins and members of the band 4.1 superfamily. ERM proteins crosslink actin filaments with plasma membranes. They co-localise with CD44 at actin filament-plasma membrane interaction sites, associating with CD44 via their N-terminal domains and with actin filaments via their C-terminal domains [].; GO: 0008092 cytoskeletal protein binding, 0005737 cytoplasm, 0019898 extrinsic to membrane; PDB: 2I1J_A 2I1K_A 1E5W_A 1EF1_C.
Probab=21.09 E-value=6.4e+02 Score=25.37 Aligned_cols=12 Identities=58% Similarity=0.700 Sum_probs=4.6
Q ss_pred HHHHHHHhhhhc
Q 011038 351 LKELDEENQSLK 362 (495)
Q Consensus 351 LkEL~e~n~~LK 362 (495)
|+.|..-...++
T Consensus 191 L~~L~~EL~~~k 202 (246)
T PF00769_consen 191 LKELKSELEQLK 202 (246)
T ss_dssp HHHHHHHHHTTB
T ss_pred HHHHHHHHHHHh
Confidence 334333333333
No 80
>KOG1363 consensus Predicted regulator of the ubiquitin pathway (contains UAS and UBX domains) [Signal transduction mechanisms]
Probab=20.83 E-value=4.7e+02 Score=29.11 Aligned_cols=17 Identities=18% Similarity=0.085 Sum_probs=9.5
Q ss_pred CCcccccccccccccCc
Q 011038 46 KPVPFTKTKSREISTGK 62 (495)
Q Consensus 46 ~~~p~tk~~s~~~~~~~ 62 (495)
.++|-+...+..|+++.
T Consensus 90 ~~~~~s~~~l~~~~~~~ 106 (460)
T KOG1363|consen 90 GGVPSSNGLLGGWSDNR 106 (460)
T ss_pred CCccccccccccccccc
Confidence 34555555666666653
No 81
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins.
Probab=20.82 E-value=1.6e+03 Score=27.55 Aligned_cols=9 Identities=22% Similarity=0.589 Sum_probs=3.6
Q ss_pred HHHHHHHhc
Q 011038 34 LNSLETRLN 42 (495)
Q Consensus 34 l~~le~~~~ 42 (495)
+..|...|.
T Consensus 527 ~~~l~~~L~ 535 (1201)
T PF12128_consen 527 IAELQRQLD 535 (1201)
T ss_pred HHHHHHhhC
Confidence 334444443
No 82
>KOG4691 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.25 E-value=9.3e+02 Score=24.59 Aligned_cols=35 Identities=26% Similarity=0.300 Sum_probs=25.7
Q ss_pred HHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhhhHHHHh
Q 011038 138 LVELTHQHQLGVKEEIRNLISTLETQLISENEQSNSALAQ 177 (495)
Q Consensus 138 l~el~~~h~~~v~eeir~~~s~le~~l~~E~q~s~sa~ar 177 (495)
.+||+..||- .|+.+-+|-..+..|+++-.++=+.
T Consensus 61 ~~eLm~r~~~-----Y~~~vrslR~~fr~Ev~r~~e~~~g 95 (227)
T KOG4691|consen 61 FFELMERYQH-----YRQTVRSLRMEFRSEVQRVHEARAG 95 (227)
T ss_pred HHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHhhcch
Confidence 5666666653 5788888888999999987666555
Done!