Query 014319
Match_columns 427
No_of_seqs 169 out of 500
Neff 6.9
Searched_HMMs 46136
Date Fri Mar 29 03:58:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014319.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014319hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd09243 BRO1_Brox_like Protein 100.0 7.7E-66 1.7E-70 516.8 35.3 335 29-398 6-353 (353)
2 cd09246 BRO1_Alix_like_1 Prote 100.0 3.6E-66 7.8E-71 522.6 29.8 331 26-401 2-345 (353)
3 cd09239 BRO1_HD-PTP_like Prote 100.0 8.5E-66 1.8E-70 520.2 31.7 331 25-400 8-350 (361)
4 cd09240 BRO1_Alix Protein-inte 100.0 1.6E-65 3.4E-70 516.9 30.4 325 25-399 3-345 (346)
5 cd09242 BRO1_ScBro1_like Prote 100.0 2E-65 4.3E-70 516.5 30.1 332 26-399 2-346 (348)
6 cd09241 BRO1_ScRim20-like Prot 100.0 3.2E-65 7E-70 516.5 30.2 321 25-399 2-332 (355)
7 cd09244 BRO1_Rhophilin Protein 100.0 1.3E-60 2.9E-65 478.0 28.2 307 26-381 2-325 (350)
8 cd09034 BRO1_Alix_like Protein 100.0 1.1E-59 2.4E-64 474.6 31.5 334 26-397 2-344 (345)
9 PF03097 BRO1: BRO1-like domai 100.0 3.1E-58 6.8E-63 469.2 20.6 329 25-401 2-338 (377)
10 cd09248 BRO1_Rhophilin_1 Prote 100.0 1.4E-54 3.1E-59 434.8 28.9 308 26-381 2-359 (384)
11 cd09247 BRO1_Alix_like_2 Prote 100.0 5.4E-54 1.2E-58 433.0 27.3 273 91-399 58-345 (346)
12 cd09245 BRO1_UmRIM23-like Prot 100.0 1.5E-52 3.2E-57 429.4 31.5 356 33-403 8-413 (413)
13 cd09249 BRO1_Rhophilin_2 Prote 100.0 1.2E-50 2.6E-55 406.1 28.0 241 26-305 2-255 (385)
14 KOG2220 Predicted signal trans 100.0 8.2E-45 1.8E-49 392.0 25.4 323 24-401 4-336 (714)
15 KOG2220 Predicted signal trans 98.3 1.7E-06 3.6E-11 95.1 7.4 183 22-236 99-282 (714)
16 PF00515 TPR_1: Tetratricopept 69.5 8.1 0.00018 24.5 3.6 30 293-325 1-30 (34)
17 PF07719 TPR_2: Tetratricopept 66.5 10 0.00022 23.8 3.6 30 293-325 1-30 (34)
18 cd02682 MIT_AAA_Arch MIT: doma 66.4 13 0.00028 29.4 4.7 38 292-332 5-42 (75)
19 cd02681 MIT_calpain7_1 MIT: do 61.9 17 0.00038 28.7 4.7 39 291-332 4-42 (76)
20 KOG2002 TPR-containing nuclear 48.1 67 0.0015 36.9 8.0 48 142-197 751-798 (1018)
21 cd02683 MIT_1 MIT: domain cont 42.5 52 0.0011 25.9 4.6 38 292-332 5-42 (77)
22 PF04212 MIT: MIT (microtubule 41.8 62 0.0013 24.5 4.8 38 292-332 4-41 (69)
23 cd02678 MIT_VPS4 MIT: domain c 38.2 1.5E+02 0.0032 23.0 6.5 38 292-332 5-42 (75)
24 smart00745 MIT Microtubule Int 37.2 1.4E+02 0.003 22.9 6.3 38 292-332 7-44 (77)
25 PF13424 TPR_12: Tetratricopep 36.4 73 0.0016 24.0 4.6 36 137-192 42-77 (78)
26 KOG2460 Signal recognition par 35.4 1.2E+02 0.0026 32.8 7.1 48 287-337 416-463 (593)
27 cd02679 MIT_spastin MIT: domai 35.2 1.5E+02 0.0034 23.5 6.2 60 292-360 7-66 (79)
28 smart00028 TPR Tetratricopepti 33.6 46 0.00099 18.8 2.5 26 295-323 3-28 (34)
29 TIGR02552 LcrH_SycD type III s 33.0 2.8E+02 0.0061 22.8 8.7 28 295-325 87-114 (135)
30 PF13181 TPR_8: Tetratricopept 32.2 71 0.0015 19.8 3.3 29 294-325 2-30 (34)
31 PF13424 TPR_12: Tetratricopep 31.5 2.2E+02 0.0048 21.2 9.5 32 293-327 46-77 (78)
32 PF08629 PDE8: PDE8 phosphodie 31.2 24 0.00053 25.3 0.9 8 1-8 1-8 (52)
33 PF13176 TPR_7: Tetratricopept 27.9 1.1E+02 0.0025 19.7 3.7 28 295-325 1-28 (36)
34 KOG4642 Chaperone-dependent E3 26.9 53 0.0011 32.1 2.6 33 293-328 78-110 (284)
35 PF06552 TOM20_plant: Plant sp 26.9 98 0.0021 28.8 4.3 43 139-197 67-109 (186)
36 PF13374 TPR_10: Tetratricopep 26.5 1.2E+02 0.0026 19.4 3.7 32 294-328 3-34 (42)
37 PF13414 TPR_11: TPR repeat; P 25.5 1E+02 0.0022 22.4 3.7 29 294-325 4-32 (69)
38 PF02071 NSF: Aromatic-di-Alan 25.2 27 0.00059 17.8 0.2 12 180-191 1-12 (12)
39 smart00671 SEL1 Sel1-like repe 25.2 1.2E+02 0.0025 19.0 3.4 15 175-189 19-33 (36)
40 KOG3617 WD40 and TPR repeat-co 21.9 1.2E+02 0.0027 34.6 4.6 39 294-336 968-1006(1416)
41 PF04783 DUF630: Protein of un 20.4 48 0.001 25.1 0.8 9 1-9 1-9 (60)
No 1
>cd09243 BRO1_Brox_like Protein-interacting Bro1-like domain of human Brox1 and related proteins. This family contains the Bro1-like domain of a single-domain protein, human Brox, and related domains. It belongs to the BRO1_Alix_like superfamily which also includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding proteins Rhophilin-1 and -2, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, Ustilago maydis Rim23 (also known as PalC), and related domains. Alix, HD-PTP, Brox, Bro1, Rim20, and Rim23, interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Bro1-like domains are boomerang-shaped, and part of the domain is a tetratricopeptide repeat (TPR)-like structure. Bro1-like domains bind components of the ESCRT-III complex: CHMP4 in the case of Brox. Human Brox can bind to human immunodeficiency virus type 1 (
Probab=100.00 E-value=7.7e-66 Score=516.77 Aligned_cols=335 Identities=22% Similarity=0.372 Sum_probs=278.5
Q ss_pred CCCCCCCCcccc--hHHhhHHHHHHHHHHHHHHHHHHHHhhhcCCccccccccccccCCCCCHHHHHHHHHHHHHHHhcc
Q 014319 29 PGLRIPKPVDFS--QSLGDNLSKNMVERLSALRTRIVVMAAQEGPTITRTRRKSATQHGGSTLADLHQALEDYLPVLLGL 106 (427)
Q Consensus 29 p~lk~t~~vd~~--~~l~~~I~~~~~~~l~~lR~~i~~~~~~~~~~~~~~~r~~~~~~~~s~~~~l~~~l~~Y~~~L~~l 106 (427)
| ||-|..|+|. ....+--..+++.++..-|++++++. .++ .++++++.+++++|+++|.||
T Consensus 6 ~-~k~t~~~~f~~~~~~~~~~~~~~~~~~~~~r~~l~~~~---------------~~~-~~~~~~~~~a~~~Yl~ll~g~ 68 (353)
T cd09243 6 P-LKATAPVKFDLKGVATTPAASKLCSDLRTARARLLELL---------------SDP-SNDVDTVKTAFNAYLSLLQGF 68 (353)
T ss_pred c-cccccccccccccccCChhHHHHHHHHHHHHHHHHHHh---------------cCC-CCCHHHHHHHHHHHHHHHHHH
Confidence 5 8999988883 22333344578999999999999998 777 789999999999999999999
Q ss_pred cC------CCCCccceeeEEeeeCCCCCcceeecchHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCCCHHHHHHH
Q 014319 107 VK------DGSQLQYKVQFVWVNQEDEAEETAISNAWYEVLSVLHLMAMLSLSQANLLLLPRTSADGYQPKVSEESRRAS 180 (427)
Q Consensus 107 ~~------~~~~~~~~v~F~W~dsl~~~~~~~~~sl~fEkasVLfNiaal~s~~aa~~~~~~~~~~~~~~~~t~dglK~A 180 (427)
+. .+++++..|.|+|+|+|+++.+++++|++||++|||||||++|+++|+... .. .+ .++||+|+|
T Consensus 69 ~~~~d~~~~~~~l~~~v~F~W~dsl~~~~~~~q~sl~fEk~sVLfNigal~s~~As~~~-~~------~~-~s~e~~K~A 140 (353)
T cd09243 69 ILALDGKTQESKLRYLINFKWTDSLLGNEPSVQQDAIFELASMLFNVALWYTKHASKLA-GK------ED-ITEDEAKDV 140 (353)
T ss_pred hhcccccCCccccceeeeEEEECCCCCCCceeeccHHHHHHHHHHHHHHHHHHHHHHHh-cc------CC-CCcHHHHHH
Confidence 86 578889999999999997778999999999999999999999998877432 21 23 355999999
Q ss_pred HHHHHHHhhHHHHHHhccCCCCCccccCCCCCCCCHHHHHHHHHHHhHHHHHHHHHHhhhhccchhhHHHHHHHHHHHHH
Q 014319 181 VDIFLKAAGYLDCAVRHVLPQMSPELRRELPVDLAEGDLRALCLQALGQGVDIQLGMAIDSTKATLAVKRRLACEMVKYW 260 (427)
Q Consensus 181 ~~~fq~AAG~F~~l~e~~~~~~~~~~~~~~p~Dl~~~~L~aL~~lmLAQAQE~~~~KAi~~~k~k~sliAKLA~q~s~~Y 260 (427)
|++||+|||||+||++++++.++++ ..+|+||++++|++|..|||||||||+|+||++ ++++++||||||+|++++|
T Consensus 141 ~~~fq~AAG~F~~l~e~~l~~l~~~--~~p~~DL~~~~L~aL~~lmLAQAQE~~~~KAi~-~k~k~sliaKLA~q~a~~Y 217 (353)
T cd09243 141 HKSLRTAAGIFQFVKENYIPKLIEP--AEKGSDLDPRVLEAYINQCTAEAQEVTVARAIE-LKHNAGLISALAYETAKLF 217 (353)
T ss_pred HHHHHHHHHHHHHHHHhhccccccc--CCCccccCHHHHHHHHHHHHHHHHHHHHHHHHH-cccchHHHHHHHHHHHHHH
Confidence 9999999999999999999876542 345689999999999999999999999999999 8999999999999999999
Q ss_pred HHHHHHHhcCCCCCCCCcccccccchhHHHHHHHHHHHHhhhhccCCcchhHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 014319 261 QQAQDNIMNLPLANGWGEKHKLFVKWKYFEAKAAAYYYHGLILDEGNTEKFHGMAVAALQAADEYFKESKKACEAFNVAP 340 (427)
Q Consensus 261 ~~A~~~l~~~~~~~~~~~k~~~~~~Wk~~~~kA~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~l~~a~~~~~~~~~~~ 340 (427)
++|.+.+++... .+..+|.-+..||..+|+|+||||+|..+++ +++||++|++|+.|.++++++.+.+++|....
T Consensus 218 ~~A~~~l~~~~~--~i~~~W~~~v~~K~~~f~A~A~y~~a~~l~e---~~k~GeaIa~L~~A~~~~k~a~~~~k~y~~~~ 292 (353)
T cd09243 218 QKADDSLSSLDP--EYSGKWRKYLQLKSVFYLAYAYCYHGETLLA---KDKCGEAIRSLQESEKLYNKAEALCKEYAKTK 292 (353)
T ss_pred HHHHHHHHcCCc--cccHHHHHHHHHHHHHHHHHHHHHHHHHhHh---cchHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Confidence 999999986432 1111222233345556688999999999999 99999999999999999999999999887653
Q ss_pred -C-CCCCCChhhHHHHHHhhccchhhhHhhhcCCceeeccCCCCCCCCCC---CccccccccC
Q 014319 341 -P-LSRNPPLWGTMKYLSEKIPKDTSSKVRINRDLYSYEKIMETAPTLPD---FALALKPDEF 398 (427)
Q Consensus 341 -~-~~~~~~~~~~~k~l~~~i~~~~l~~a~~nnd~IYhe~VP~~lp~l~~---~~l~vkp~~f 398 (427)
+ ....++.....+.+.+.|+ +.++++++|||||||++||+++|.++. ++| |+|+||
T Consensus 293 ~~~~~~~~~~~~~~~~l~~~I~-~~L~~aeKDNdfIYh~~VP~e~p~~e~k~~~g~-~~~~~~ 353 (353)
T cd09243 293 GPGTTAKPDQHLFFRKLGPLVK-RTLEKCERENGFIYHQKVPDEVPQLELKATYGL-VSPEEF 353 (353)
T ss_pred CccccccchhhHHHHHHHHHHH-HHHHHHhhhhceeccccCCCCCCccccccccCc-cCCCCC
Confidence 2 2233443444566666664 689999999999999999999888883 569 999987
No 2
>cd09246 BRO1_Alix_like_1 Protein-interacting, N-terminal, Bro1-like domain of an Uncharacterized family of the BRO1_Alix_like superfamily. This domain family is comprised of uncharacterized proteins. It belongs to the BRO1_Alix_like superfamily which includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding proteins Rhophilin-1 and -2, Brox, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, Ustilago maydis Rim23 (also known as PalC), and related domains. Alix, HD-PTP, Brox, Bro1, Rim20 and Rim23 interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Alix participates in membrane remodeling processes during the budding of enveloped viruses, vesicle budding inside late endosomal multivesicular bodies (MVBs), and the abscission reactions of mammalian cell division. It also functions in apoptosis. HD-PTP and Bro
Probab=100.00 E-value=3.6e-66 Score=522.60 Aligned_cols=331 Identities=19% Similarity=0.228 Sum_probs=275.7
Q ss_pred EecCCCCCCCCcccchHHhhHHHHHHHH-HHHHHHHHHHHHhhhcCCccccccccccccCCCCCHHHHHHHHHHHHHHHh
Q 014319 26 VYVPGLRIPKPVDFSQSLGDNLSKNMVE-RLSALRTRIVVMAAQEGPTITRTRRKSATQHGGSTLADLHQALEDYLPVLL 104 (427)
Q Consensus 26 ~~~p~lk~t~~vd~~~~l~~~I~~~~~~-~l~~lR~~i~~~~~~~~~~~~~~~r~~~~~~~~s~~~~l~~~l~~Y~~~L~ 104 (427)
|.|| +|+|.+|||..||++||.++|.+ +.+.+++++..+. ++|+.++++.+ ++ +..++.+.+||.+|.
T Consensus 2 l~ip-~K~t~~vd~~~~L~~~I~~~y~~~~~~~~~~~l~~l~-~LR~~~~~~~~----~~-----~~~~~~l~~Yy~~L~ 70 (353)
T cd09246 2 LSIH-RKKTETVDLVSPLRAYISETYSEREAQDAEDDLAELQ-QLRSEVRTLQE----KH-----AASRELLLRYYRALC 70 (353)
T ss_pred CCCC-CCcccccchHhHHHHHHHHHcCCcCHHHHHHHHHHHH-HHHHHhhcCCC----CC-----hhHHHHHHHHHHHHH
Confidence 5788 99999999999999999999964 4667777776655 55555444432 12 344678999999999
Q ss_pred cccCCCCC----ccceeeEEeeeCCCCCcceeecchHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCCCHHHHHHH
Q 014319 105 GLVKDGSQ----LQYKVQFVWVNQEDEAEETAISNAWYEVLSVLHLMAMLSLSQANLLLLPRTSADGYQPKVSEESRRAS 180 (427)
Q Consensus 105 ~l~~~~~~----~~~~v~F~W~dsl~~~~~~~~~sl~fEkasVLfNiaal~s~~aa~~~~~~~~~~~~~~~~t~dglK~A 180 (427)
.+..+++. .+.+|.|+|+|+|+++.+++++|+.||++|||||+|++|+++|+ .+++.+++|+|+|
T Consensus 71 ~l~~rfp~~~~~~~~~v~F~W~d~~~~~~~~~~~sl~fEka~vlfNiaal~s~~a~-----------~~~~~~~~glK~A 139 (353)
T cd09246 71 AVESRFPISEESGHARVSFSWYDAFRPHRKATQANVHFEKAAVLFNLGALSSQLGL-----------QQDRTTAEGIKQA 139 (353)
T ss_pred HHHccCCCCcccccccceeEeeccCCCCcceeecchHHHHHHHHHHHHHHHHHHHH-----------hcCCCChHHHHHH
Confidence 87644322 23589999999999878999999999999999999999999998 2577889999999
Q ss_pred HHHHHHHhhHHHHHHhccCCCCCccccCCCCCCCCHHHHHHHHHHHhHHHHHHHHHHhhhhccchhhHHHHHHHHHHHHH
Q 014319 181 VDIFLKAAGYLDCAVRHVLPQMSPELRRELPVDLAEGDLRALCLQALGQGVDIQLGMAIDSTKATLAVKRRLACEMVKYW 260 (427)
Q Consensus 181 ~~~fq~AAG~F~~l~e~~~~~~~~~~~~~~p~Dl~~~~L~aL~~lmLAQAQE~~~~KAi~~~k~k~sliAKLA~q~s~~Y 260 (427)
|++||+|||||+||++++++.+.. .+++||++++|.+|..+||||||||+|+||+. ++++++||||||.|++++|
T Consensus 140 ~~~fq~AAG~F~~l~e~~~~~~~~----~~s~Dl~~~~l~~l~~lmLAQAQE~~~~Ka~~-~~~k~sliAKLa~qv~~~Y 214 (353)
T cd09246 140 CHAFQAAAGAFAHLRDKVSGKTGG----FRTPDLTAECLGMLESLMLAQAQECFYEKAVA-DGKSPAVCSKLAKQARSYY 214 (353)
T ss_pred HHHHHHHHHHHHHHHHhccccccC----CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHh-cCCCccHHHHHHHHHHHHH
Confidence 999999999999999998765432 22479999999999999999999999999999 8999999999999999999
Q ss_pred HHHHHHHhcCCCCCCCCcccccccch-hHHHH-----HHHHHHHHhhhhccCCcchhHHHHHHHHHHHHHHHHHHHHHHh
Q 014319 261 QQAQDNIMNLPLANGWGEKHKLFVKW-KYFEA-----KAAAYYYHGLILDEGNTEKFHGMAVAALQAADEYFKESKKACE 334 (427)
Q Consensus 261 ~~A~~~l~~~~~~~~~~~k~~~~~~W-k~~~~-----kA~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~l~~a~~~~~ 334 (427)
++|.+.+++....+ .+...| +++++ +|+||||+|..+.+ +++||++||||+.|.+.++++.+..+
T Consensus 215 ~~a~~~l~~~~~~~------~~~~~W~~~~~~K~~~f~A~A~~~~a~~~~~---~~k~GeaIa~L~~A~~~l~~a~k~~~ 285 (353)
T cd09246 215 EEALEALDSPPLKG------HFDKSWVAHVQLKAAYFRAEALYRAAKDLHE---KEDIGEEIARLRAASDALAEARKQAK 285 (353)
T ss_pred HHHHHHHhcccccc------cccHHHHHHHHHHHHHHHHHHHHHHHHHhHH---hcchHHHHHHHHHHHHHHHHHHHHhh
Confidence 99999998654311 356678 66654 67999999999999 99999999999999999999988754
Q ss_pred hcccCCCCCCCCChhhHHHHHHhhccchhhhHhhhcCCceeeccCCC--CCCCCCCCccccccccCCCC
Q 014319 335 AFNVAPPLSRNPPLWGTMKYLSEKIPKDTSSKVRINRDLYSYEKIME--TAPTLPDFALALKPDEFQLP 401 (427)
Q Consensus 335 ~~~~~~~~~~~~~~~~~~k~l~~~i~~~~l~~a~~nnd~IYhe~VP~--~lp~l~~~~l~vkp~~f~lP 401 (427)
... .+.+.+.++.+.+.|+ +.++++++||||||||+||+ +||+|++..| |||+|++-|
T Consensus 286 ~~~-------~~~~~~~~~~l~~~v~-~~l~~aekdNd~IY~~~VP~~~~Lp~i~~~~~-vk~i~~~~~ 345 (353)
T cd09246 286 GVN-------GDELIEAVSELEQVIN-ELLERAEKENDCVYLDRVPAPSDLPPLGAASM-VKPAAPPAE 345 (353)
T ss_pred cCC-------cHHHHHHHHHHHHHHH-HHHHHHHhhhcccccCCCCCcccCCCCCCccc-ccCCCCcch
Confidence 221 1134566777777775 78999999999999999997 8999999999 999986554
No 3
>cd09239 BRO1_HD-PTP_like Protein-interacting, N-terminal, Bro1-like domain of mammalian His-Domain type N23 protein tyrosine phosphatase and related domains. This family contains the N-terminal, Bro1-like domain of mammalian His-Domain type N23 protein tyrosine phosphatase (HD-PTP) and related domains. It belongs to the BRO1_Alix_like superfamily which also includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), RhoA-binding proteins Rhophilin-1 and -2, Brox, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, Ustilago maydis Rim23 (also known as PalC), and related domains. Alix, also known as apoptosis-linked gene-2 interacting protein 1 (AIP1), HD-PTP, Brox, Bro1, Rim20, and Rim23, interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. HD-PTP participates in cell migration and endosomal trafficking. Bro1-like domains are boomerang-shaped, and part of the domain is a tetratricopeptide repeat (TPR)-l
Probab=100.00 E-value=8.5e-66 Score=520.23 Aligned_cols=331 Identities=17% Similarity=0.153 Sum_probs=270.9
Q ss_pred EEecCCCCCCCCcccchHHhhHHHHHHHHHHHHHHHHHHHHhhhcCCccccccccccccCCCCCHHHHHHHHHHHHHHHh
Q 014319 25 SVYVPGLRIPKPVDFSQSLGDNLSKNMVERLSALRTRIVVMAAQEGPTITRTRRKSATQHGGSTLADLHQALEDYLPVLL 104 (427)
Q Consensus 25 ~~~~p~lk~t~~vd~~~~l~~~I~~~~~~~l~~lR~~i~~~~~~~~~~~~~~~r~~~~~~~~s~~~~l~~~l~~Y~~~L~ 104 (427)
.|.+| ||+|++|||..||++||.++|.++...+.+++..+. ++|+.+.++. .+ +..++.|.+||.+|.
T Consensus 8 ~l~ip-lK~t~~vd~~~~L~~~I~~~y~~~~~~~~~~l~~l~-~LR~~~~~~~---------~~-~~~~~~l~~Yy~qL~ 75 (361)
T cd09239 8 MLWLQ-LKSSGEFTFQPALKKYILENYGEDPELYSEELKSLE-QLRQEAVNPP---------RD-FEGCSVLKRYYGQLH 75 (361)
T ss_pred ccccC-CCCCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHHH-HHHHHhccCC---------CC-hHHHHHHHHHHHHHH
Confidence 46777 999999999999999999999877777777765554 4444433332 11 334667889999998
Q ss_pred cccCCCCCc---cceeeEEeeeCCCCCcceeecchHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCCCHHHHHHHH
Q 014319 105 GLVKDGSQL---QYKVQFVWVNQEDEAEETAISNAWYEVLSVLHLMAMLSLSQANLLLLPRTSADGYQPKVSEESRRASV 181 (427)
Q Consensus 105 ~l~~~~~~~---~~~v~F~W~dsl~~~~~~~~~sl~fEkasVLfNiaal~s~~aa~~~~~~~~~~~~~~~~t~dglK~A~ 181 (427)
.+..+++.. ..+|.|+|+|+|++ .+++++|+.||++|||||||++|+++|+. +++.++||+|.||
T Consensus 76 ~l~~rfp~~~~~~~~v~F~W~d~~~~-~~~~~~~l~fEka~vlfNigal~sq~a~~-----------~~r~~~~glK~A~ 143 (361)
T cd09239 76 LLQSRFPMGAGQEAAVPFTWTDIFSG-SEVTHEDIKFEEASVLYNIGALHSQLGAS-----------DKRDSEEGMKVAC 143 (361)
T ss_pred HHHhcCCCCccccccceeeeecccCC-CchhhhhHHHHHHHHHHHHHHHHHHHHHh-----------ccCCChHHHHHHH
Confidence 875443221 24799999999984 78899999999999999999999999982 5778999999999
Q ss_pred HHHHHHhhHHHHHHhccCCCCCccccCCCCCCCCHHHHHHHHHHHhHHHHHHHHHHhhhhccchhhHHHHHHHHHHHHHH
Q 014319 182 DIFLKAAGYLDCAVRHVLPQMSPELRRELPVDLAEGDLRALCLQALGQGVDIQLGMAIDSTKATLAVKRRLACEMVKYWQ 261 (427)
Q Consensus 182 ~~fq~AAG~F~~l~e~~~~~~~~~~~~~~p~Dl~~~~L~aL~~lmLAQAQE~~~~KAi~~~k~k~sliAKLA~q~s~~Y~ 261 (427)
++||+|||||+||++++++. ++ ++||++++|.+|..|||||||||+|+||+. ++++++||||||.|++++|+
T Consensus 144 ~~fq~AAG~F~~l~e~~~~~-~~------~~Dl~~~~l~~L~~lmLAQAQEc~~~Kai~-d~~k~sliAKLA~q~~~~Y~ 215 (361)
T cd09239 144 THFQCAAWAFAYLREHYPQV-YG------AVDMSSQLLSFNYSLMLAQAQECLLEKSLL-DNRKSHITAKVSAQVVEYYK 215 (361)
T ss_pred HHHHHHHHHHHHHHHhccCC-CC------cccCCHHHHHHHHHHHHHHHHHHHHHHHHH-hCCchHHHHHHHHHHHHHHH
Confidence 99999999999999998653 32 159999999999999999999999999999 89999999999999999999
Q ss_pred HHHHHHhcCCCCC-CCCcccccccch-hHHH-----HHHHHHHHHhhhhccCCcchhHHHHHHHHHHHHHHHHHHHHHHh
Q 014319 262 QAQDNIMNLPLAN-GWGEKHKLFVKW-KYFE-----AKAAAYYYHGLILDEGNTEKFHGMAVAALQAADEYFKESKKACE 334 (427)
Q Consensus 262 ~A~~~l~~~~~~~-~~~~k~~~~~~W-k~~~-----~kA~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~l~~a~~~~~ 334 (427)
+|.+.+++..... .+. ..++.+| ++++ |+|+||||+|..+.+ +++|||+|+||+.|...+++|.+.++
T Consensus 216 ~a~~~l~~~~~~~~~~~--~~i~~~W~~~v~~K~~~f~A~A~y~~a~~~~~---~~k~Ge~Ia~L~~A~~~l~~a~~~~~ 290 (361)
T cd09239 216 EALRALENWESNSKIIL--GKIQKEWRKLVQMKIAYYASIAHLHMGKQSEE---QQKMGERVAYYQLANDKLEEAIKNAK 290 (361)
T ss_pred HHHHHHhcccccccccc--cccCHHHHHHHHHHHHHHHHHHHHHHHHHhHH---HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 9999998643210 001 1356789 6665 467999999999999 99999999999999999999998876
Q ss_pred hcccCCCCCCCCChhhHHHHHHhhccchhhhHhhhcCCceeeccCC--CCCCCCCCCccccccccCCC
Q 014319 335 AFNVAPPLSRNPPLWGTMKYLSEKIPKDTSSKVRINRDLYSYEKIM--ETAPTLPDFALALKPDEFQL 400 (427)
Q Consensus 335 ~~~~~~~~~~~~~~~~~~k~l~~~i~~~~l~~a~~nnd~IYhe~VP--~~lp~l~~~~l~vkp~~f~l 400 (427)
.... ...+.+.++.+.+.|. +.++++++|||||||++|| ++||+|+++.| |||+||+.
T Consensus 291 ~~~~------~~~~~~~~~~l~~~i~-~~l~~aekDNd~IYhe~VP~~~~L~~i~~~~~-vk~~p~~~ 350 (361)
T cd09239 291 GQPD------TVNLQEALSFTMDVIG-GKRNSAKKENDFIYHEAVPKLDTLQAVKGANL-VKGIPFSP 350 (361)
T ss_pred CCCc------chhHHHHHHHHHHHHH-HHHHHHhcccCceeecCCCChhhcCCCcCccc-cccCCCCc
Confidence 3211 1124455666677774 7899999999999999999 58999999999 99998875
No 4
>cd09240 BRO1_Alix Protein-interacting, N-terminal, Bro1-like domain of mammalian Alix and related domains. This family contains the N-terminal, Bro1-like domain of mammalian Alix (apoptosis-linked gene-2 interacting protein X), also called apoptosis-linked gene-2 interacting protein 1 (AIP1). It belongs to the BRO1_Alix_like superfamily which also includes the Bro1-like domains of His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding proteins Rhophilin-1 and -2, Brox, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, Ustilago maydis Rim23 (also known as PalC), and related domains. Alix, HD-PTP, Brox, Bro1, Rim20, and Rim23, interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Alix participates in membrane remodeling processes during the budding of enveloped viruses, vesicle budding inside late endosomal multivesicular bodies (MVBs), and the abscission reactions of mammalian cell division. It also f
Probab=100.00 E-value=1.6e-65 Score=516.87 Aligned_cols=325 Identities=22% Similarity=0.281 Sum_probs=267.7
Q ss_pred EEecCCCCCCCCcccchHHhhHHHHHHH--HHHHHHHHHHHHHhhhcCCccccccccccccCCCCCHHHHHHHHHHHHHH
Q 014319 25 SVYVPGLRIPKPVDFSQSLGDNLSKNMV--ERLSALRTRIVVMAAQEGPTITRTRRKSATQHGGSTLADLHQALEDYLPV 102 (427)
Q Consensus 25 ~~~~p~lk~t~~vd~~~~l~~~I~~~~~--~~l~~lR~~i~~~~~~~~~~~~~~~r~~~~~~~~s~~~~l~~~l~~Y~~~ 102 (427)
++.|| ||+|.+|||..||++||.++|. ++.+.++++|..+. ++|+.+..+. .+.+ +..++.+.+||.+
T Consensus 3 ~l~ip-lK~t~~vd~~~~l~~~I~~~y~~~~~~~~~~~~l~~l~-~lR~~~~~~~---~~~~-----~~~~~~l~~Yy~q 72 (346)
T cd09240 3 FISVP-LKKSSEVDLVKPLEKFIKNTYSSGEEQADYKEAIKELN-KLRNNAVCRP---LDKH-----ESSLELLLRYYDQ 72 (346)
T ss_pred eeecc-CcCCCcCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-HHHHHhhcCC---CCcc-----hhHHHHHHHHHHH
Confidence 57899 9999999999999999999998 66666666665554 4444322111 0111 3346789999999
Q ss_pred HhcccCCCCC--ccceeeEEeeeCCCC------CcceeecchHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCCCH
Q 014319 103 LLGLVKDGSQ--LQYKVQFVWVNQEDE------AEETAISNAWYEVLSVLHLMAMLSLSQANLLLLPRTSADGYQPKVSE 174 (427)
Q Consensus 103 L~~l~~~~~~--~~~~v~F~W~dsl~~------~~~~~~~sl~fEkasVLfNiaal~s~~aa~~~~~~~~~~~~~~~~t~ 174 (427)
|..+..+.+. .+.+|.|+|+|+|+. +.+++++|+.||++|||||||++++++|+. +++.++
T Consensus 73 L~~l~~rfp~~~~~~~v~F~W~d~~~~~~~~~~~~~~~~~~l~fEka~vlfNiaal~s~la~~-----------~~~~~~ 141 (346)
T cd09240 73 LCAIEPKFPFSESQIQVTFTWKDAFDKGSLFGGSKKLALSSLGYEKVCVLFNIAALQSQIAAE-----------QNLDTD 141 (346)
T ss_pred HHHHHhcCCCCcccccceeeeecccccccccCCCcccccccHHHHHHHHHHHHHHHHHHHHHH-----------cCCCCh
Confidence 9987543322 235899999999974 245789999999999999999999999982 567889
Q ss_pred HHHHHHHHHHHHHhhHHHHHHhccCCCCCccccCCCCCCCCHHHHHHHHHHHhHHHHHHHHHHhhhhccchhhHHHHHHH
Q 014319 175 ESRRASVDIFLKAAGYLDCAVRHVLPQMSPELRRELPVDLAEGDLRALCLQALGQGVDIQLGMAIDSTKATLAVKRRLAC 254 (427)
Q Consensus 175 dglK~A~~~fq~AAG~F~~l~e~~~~~~~~~~~~~~p~Dl~~~~L~aL~~lmLAQAQE~~~~KAi~~~k~k~sliAKLA~ 254 (427)
||+|+||++||+|||||+||++++++.++. .+++||++++|.+|..+||||||||+|+||+. ++++++||||||.
T Consensus 142 eglK~A~~~fq~AAG~F~~l~e~~~~~~~~----~~s~Dl~~~~l~~l~~lmLAQAQE~~~~Kai~-~~~k~~liAKLa~ 216 (346)
T cd09240 142 EGLKLAAKLFQQAAGIFNHLKETVLSALQQ----EPTPDLSPDTLSALSALMLAQAQEVFYLKATR-DKMKDAIIAKLAA 216 (346)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccccccC----CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHh-ccCchhHHHHHHH
Confidence 999999999999999999999998766432 23479999999999999999999999999999 8999999999999
Q ss_pred HHHHHHHHHHHHHhcCCCCCCCCcccccccch-hHHHH-----HHHHHHHHhhhhccCCcchhHHHHHHHHHHHHHHHHH
Q 014319 255 EMVKYWQQAQDNIMNLPLANGWGEKHKLFVKW-KYFEA-----KAAAYYYHGLILDEGNTEKFHGMAVAALQAADEYFKE 328 (427)
Q Consensus 255 q~s~~Y~~A~~~l~~~~~~~~~~~k~~~~~~W-k~~~~-----kA~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~l~~ 328 (427)
|++++|++|.+.+++.... ..++.+| .++++ +|+||||+|+.+.+ +++|||+||||+.|.+.+++
T Consensus 217 qv~~~Y~~a~~~l~~~~~~------~~~~~~W~~~~~~K~~~f~a~A~y~~a~~~~e---~~k~GeaIa~L~~A~~~~~~ 287 (346)
T cd09240 217 QAADYYGDAFKQCQREDVR------SLLPKDWIPVLAGKQAYFHALAEYHQSLVAKA---QKKFGEEIARLQHALELIKT 287 (346)
T ss_pred HHHHHHHHHHHHHhcchhc------cccCHHHHHHHHHHHHHHHHHHHHHHHHHhhh---hchHHHHHHHHHHHHHHHHH
Confidence 9999999999999876531 1466789 66654 57999999999999 99999999999999999999
Q ss_pred HHHHHhhcccCCCCCCCCChhhHHHHHHhhccchhhhHhhhcCCceeeccCCC--CCCCCCCCccccccccCC
Q 014319 329 SKKACEAFNVAPPLSRNPPLWGTMKYLSEKIPKDTSSKVRINRDLYSYEKIME--TAPTLPDFALALKPDEFQ 399 (427)
Q Consensus 329 a~~~~~~~~~~~~~~~~~~~~~~~k~l~~~i~~~~l~~a~~nnd~IYhe~VP~--~lp~l~~~~l~vkp~~f~ 399 (427)
+.+.++.+. .++.+.+.|. +.++++++||||||||+||+ +||+|++..| |||+||+
T Consensus 288 a~~~~~~~~-------------~~~~l~~~i~-~~l~~aekDNd~IY~e~VP~~~~L~~i~~~~~-vk~~p~~ 345 (346)
T cd09240 288 AQSRAGEYV-------------DVKDFAAKIS-RALTAAKKDNDFIYHDRVPDVKSLPPIGKAAL-AKPTPVN 345 (346)
T ss_pred HHHHhcchh-------------HHHHHHHHHH-HHHHHHhhccCeEeccCCCCchhccCCcCccc-ccCCCCC
Confidence 988654321 1456666775 78999999999999999996 8999999999 9999864
No 5
>cd09242 BRO1_ScBro1_like Protein-interacting, N-terminal, Bro1-like domain of Saccharomyces cerevisiae Bro1 and related proteins. This family contains the N-terminal, Bro1-like domain of Saccharomyces cerevisiae Bro1 and related proteins. It belongs to the BRO1_Alix_like superfamily which also includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding proteins Rhophilin-1 and -2, Brox, Saccharomyces cerevisiae Rim20 (also known as PalA), Ustilago maydis Rim23 (also known as PalC), and related domains. Alix, HD-PTP, Brox, Bro1, Rim20, and Rim23, interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Bro1 participates in endosomal trafficking. Bro1-like domains are boomerang-shaped, and part of the domain is a tetratricopeptide repeat (TPR)-like structure. Bro1-like domains bind components of the ESCRT-III complex: Snf7 in the
Probab=100.00 E-value=2e-65 Score=516.52 Aligned_cols=332 Identities=18% Similarity=0.212 Sum_probs=272.0
Q ss_pred EecCCCCCCCCcccchHHhhHHHHHHHHHHHHHHHHHHHHhhhcCCccccccccccccCCCCCHHHHHHHHHHHHHHHhc
Q 014319 26 VYVPGLRIPKPVDFSQSLGDNLSKNMVERLSALRTRIVVMAAQEGPTITRTRRKSATQHGGSTLADLHQALEDYLPVLLG 105 (427)
Q Consensus 26 ~~~p~lk~t~~vd~~~~l~~~I~~~~~~~l~~lR~~i~~~~~~~~~~~~~~~r~~~~~~~~s~~~~l~~~l~~Y~~~L~~ 105 (427)
+.+| +|+|.+|||..||++||.++|.++...+++++..+. ++|+.++++. . + +..++.+.+||.+|..
T Consensus 2 l~lp-lK~t~~vd~~~~L~~~I~~~y~~~~~~~~~~l~~l~-~lR~~~~~~~--------~-~-~~~~~~l~~Yy~qL~~ 69 (348)
T cd09242 2 ISLP-LKDTEEVDWKKPLSSYLKRSYGSSTFYYEEEIAEFD-RLRQDANGVL--------A-D-ETGRDLLYKYYGQLEL 69 (348)
T ss_pred CCCC-CCcCCccChHHHHHHHHHHHcCCCHHHHHHHHHHHH-HHHHHhcCCC--------C-C-HHHHHHHHHHHHHHHH
Confidence 5688 999999999999999999999777777777765554 4444444332 1 1 4446789999999987
Q ss_pred ccCCCC--CccceeeEEeeeCCCCCcceeecchHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCCCHHHHHHHHHH
Q 014319 106 LVKDGS--QLQYKVQFVWVNQEDEAEETAISNAWYEVLSVLHLMAMLSLSQANLLLLPRTSADGYQPKVSEESRRASVDI 183 (427)
Q Consensus 106 l~~~~~--~~~~~v~F~W~dsl~~~~~~~~~sl~fEkasVLfNiaal~s~~aa~~~~~~~~~~~~~~~~t~dglK~A~~~ 183 (427)
+..+++ ....+|.|+|+|+|+++.+++++|+.||++|||||+|++|+++|+. +++.+++|+|.||++
T Consensus 70 l~~rfp~~~~~~~v~F~W~d~~~~~~~~~~~sl~fEka~VLfNiaal~s~~A~~-----------~~~~~~~~~K~A~~~ 138 (348)
T cd09242 70 LELRFPFNNKELKVDFTWYDAFYKSKKVKQHSLAFEKASVLFNIGALLSQLAAE-----------KYREDEDDLKEAITN 138 (348)
T ss_pred HHhhcCCCCccccceeeeeecCCCCCceeecchHHHHHHHHHHHHHHHHHHHHH-----------hccCChHHHHHHHHH
Confidence 643332 1235899999999996689999999999999999999999999983 456689999999999
Q ss_pred HHHHhhHHHHHHhccCCCCCccccCCCCCCCCHHHHHHHHHHHhHHHHHHHHHHhhhhcc---chhhHHHHHHHHHHHHH
Q 014319 184 FLKAAGYLDCAVRHVLPQMSPELRRELPVDLAEGDLRALCLQALGQGVDIQLGMAIDSTK---ATLAVKRRLACEMVKYW 260 (427)
Q Consensus 184 fq~AAG~F~~l~e~~~~~~~~~~~~~~p~Dl~~~~L~aL~~lmLAQAQE~~~~KAi~~~k---~k~sliAKLA~q~s~~Y 260 (427)
||+|||||+||++++++ .|+ .||++++|.+|..+||||||||+|+||+. ++ ++++||||||.|++++|
T Consensus 139 fq~AAG~f~~l~e~~~~-~ps-------~Dl~~~~l~~L~~lmLAQAQE~~~~Kai~-~~~~~~k~sliaKLa~~~~~~Y 209 (348)
T cd09242 139 LQQAAGCFQYINENFLH-APS-------VDLQQENVKFLVKLMLAQAQEIFLLKLIN-GDDAQKKASLISKLASATANLY 209 (348)
T ss_pred HHHHHHHHHHHHHhcCC-CCC-------ccCCHHHHHHHHHHHHHHHHHHHHHHHHh-cCCcccchHHHHHHHHHHHHHH
Confidence 99999999999999754 233 79999999999999999999999999999 66 89999999999999999
Q ss_pred HHHHHHHhcCCCCCCCCcccccccch-hHH-----HHHHHHHHHHhhhhccCCcchhHHHHHHHHHHHHHHHHHHHHHHh
Q 014319 261 QQAQDNIMNLPLANGWGEKHKLFVKW-KYF-----EAKAAAYYYHGLILDEGNTEKFHGMAVAALQAADEYFKESKKACE 334 (427)
Q Consensus 261 ~~A~~~l~~~~~~~~~~~k~~~~~~W-k~~-----~~kA~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~l~~a~~~~~ 334 (427)
++|.+.+++..... +..++.+| .++ +|+|+||||+|.++.+ +++||++||||+.|.+.++++.+.++
T Consensus 210 ~~a~~~l~~~~~~~----~~~~~~~W~~~~~~K~~~f~A~A~y~~a~~~~~---~~k~GeaIa~L~~A~~~l~~a~~~~~ 282 (348)
T cd09242 210 ESCVEFLKEIQEKG----ISYGDPKWISLVQCKAHYYKSLAAYYHALALEA---AGKYGEAIAYLTQAESILKEANPQKL 282 (348)
T ss_pred HHHHHHHhcccccc----ccccCHHHHHHHHHHHHHHHHHHHHHHHHHhHH---hccHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99999998744310 00245678 554 4577999999999999 99999999999999999999998876
Q ss_pred hcccCCCCCCCCChhhHHHHHHhhccchhhhHhhhcCCceeeccCCC--CCCCCCCCccccccccCC
Q 014319 335 AFNVAPPLSRNPPLWGTMKYLSEKIPKDTSSKVRINRDLYSYEKIME--TAPTLPDFALALKPDEFQ 399 (427)
Q Consensus 335 ~~~~~~~~~~~~~~~~~~k~l~~~i~~~~l~~a~~nnd~IYhe~VP~--~lp~l~~~~l~vkp~~f~ 399 (427)
.+..+.. ...+.+.+.++.+.+.|+ +.++++++|||||||++||+ +||+|++..| |||+|++
T Consensus 283 ~~~~~~~-~~~~~~~~~~~~~~~~v~-~~l~~aekDNd~IY~~~VP~~~~L~~i~~~~~-vk~~p~~ 346 (348)
T cd09242 283 SLKASAG-DAAYALNDDFKGQKDTVE-EKLKELEKDNDFIYHDIVPSEVTLPSIKPLDA-AKPIPIE 346 (348)
T ss_pred cCCCccc-cchhHHHHHHHHHHHHHH-HHHHHHhcccCeeccCCCCCccccCCCCcccc-CCCCCCc
Confidence 5432211 112236667778888885 78999999999999999996 8999999999 9999753
No 6
>cd09241 BRO1_ScRim20-like Protein-interacting, N-terminal, Bro1-like domain of Saccharomyces cerevisiae Rim20 and related proteins. This family contains the N-terminal, Bro1-like domain of Saccharomyces cerevisiae Rim20 (also known as PalA) and related proteins. It belongs to the BRO1_Alix_like superfamily which also includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding proteins Rhophilin-1 and -2, Brox, Saccharomyces cerevisiae Bro1, Ustilago maydis Rim23 (also known as PalC), and related domains. Alix, HD-PTP, Brox, Bro1, Rim20, and Rim23, interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Rim20 and Rim23 participate in the response to the external pH via the Rim101 pathway. Bro1-like domains are boomerang-shaped, and part of the domain is a tetratricopeptide repeat (TPR)-like structure. Bro1-like domains bind comp
Probab=100.00 E-value=3.2e-65 Score=516.45 Aligned_cols=321 Identities=20% Similarity=0.271 Sum_probs=272.7
Q ss_pred EEecCCCCCCCCcccchHHhhHHHHHHHHHHHHHHHHHHHHhhhcCCccccccccccccCCCCCHHHHHHHHHHHHHHHh
Q 014319 25 SVYVPGLRIPKPVDFSQSLGDNLSKNMVERLSALRTRIVVMAAQEGPTITRTRRKSATQHGGSTLADLHQALEDYLPVLL 104 (427)
Q Consensus 25 ~~~~p~lk~t~~vd~~~~l~~~I~~~~~~~l~~lR~~i~~~~~~~~~~~~~~~r~~~~~~~~s~~~~l~~~l~~Y~~~L~ 104 (427)
+|.|| +|+|.+|||..||++||.++|.++.+.++++|..+. ++|+.++++. .+ +..++.+.+||.+|.
T Consensus 2 ~l~ip-~K~t~~vd~~~~l~~~I~~~y~~~~~~~~~dl~~l~-~lR~~~~~~~-----~~-----~~~~~~l~~Yy~~L~ 69 (355)
T cd09241 2 LLSIP-FKRTLPVDLKDALRNYISNHYFQTPSSFEDDLAEID-KLRNDAINPE-----PS-----VNGLSLLKEYYAQLV 69 (355)
T ss_pred cCccC-CCcCCcCCHHHHHHHHHHHhcCCCHHHHHHHHHHHH-HHHHHhhCCC-----CC-----hhHHHHHHHHHHHHH
Confidence 47899 999999999999999999999887777777776654 5555544332 11 344678999999999
Q ss_pred cccCCCCCccceeeEEeeeCCCCC--cceeecchHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCCCHHHHHHHHH
Q 014319 105 GLVKDGSQLQYKVQFVWVNQEDEA--EETAISNAWYEVLSVLHLMAMLSLSQANLLLLPRTSADGYQPKVSEESRRASVD 182 (427)
Q Consensus 105 ~l~~~~~~~~~~v~F~W~dsl~~~--~~~~~~sl~fEkasVLfNiaal~s~~aa~~~~~~~~~~~~~~~~t~dglK~A~~ 182 (427)
.+..+.+ ..+|.|+|+|+|+++ .+++++|+.||++|||||+|++|+++|++ +++.+++|+|+||+
T Consensus 70 ~l~~rfp--~~~i~F~W~d~~~~~~~~~~~~~~l~fEka~VLfNigal~sq~a~~-----------~~~~~~~glK~A~~ 136 (355)
T cd09241 70 VLSKKFP--DDQLEFTWYPTLGYKSSGPVSLSSLKFERANILYNLGALYSQLALS-----------ENRYTDEGLKRACS 136 (355)
T ss_pred HHHhcCC--CcCCceeeecccCCCCCCceeeccHHHHHHHHHHHHHHHHHHHHHH-----------cCCCChHHHHHHHH
Confidence 9876554 568999999999874 68999999999999999999999999982 56778999999999
Q ss_pred HHHHHhhHHHHHHhccCCCCCccccCCCCCCCCHHHHHHHHHHHhHHHHHHHHHHhhhhccchhhHHHHHHHHHHHHHHH
Q 014319 183 IFLKAAGYLDCAVRHVLPQMSPELRRELPVDLAEGDLRALCLQALGQGVDIQLGMAIDSTKATLAVKRRLACEMVKYWQQ 262 (427)
Q Consensus 183 ~fq~AAG~F~~l~e~~~~~~~~~~~~~~p~Dl~~~~L~aL~~lmLAQAQE~~~~KAi~~~k~k~sliAKLA~q~s~~Y~~ 262 (427)
+||+|||||+||++++++.+ .++.||++++|.+|..+||||||||+|+||+. +++++++|||||.|++.+|++
T Consensus 137 ~fq~AAG~F~~l~~~~~~~~------~~s~Dl~~~~l~~L~~lmLAQAQE~~~~Kai~-~~~k~sliAKLa~qv~~~Y~~ 209 (355)
T cd09241 137 YFQASAGCFEYILQHLLPTL------SPPPDLDENTLKALESLMLAQAQECFWQKAIS-DGTKDSLIAKLAAQVSDYYQE 209 (355)
T ss_pred HHHHHHHHHHHHHHhccccc------CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHh-cCCcchHHHHHHHHHHHHHHH
Confidence 99999999999999987664 12389999999999999999999999999999 888999999999999999999
Q ss_pred HHHHHhcCCCCCCCCcccccccch-hHH-----HHHHHHHHHHhhhhccCCcchhHHHHHHHHHHHHHHHHHHHHHHhhc
Q 014319 263 AQDNIMNLPLANGWGEKHKLFVKW-KYF-----EAKAAAYYYHGLILDEGNTEKFHGMAVAALQAADEYFKESKKACEAF 336 (427)
Q Consensus 263 A~~~l~~~~~~~~~~~k~~~~~~W-k~~-----~~kA~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~l~~a~~~~~~~ 336 (427)
|.+.++..+. +..+| .++ +|+|+||||+|..+.+ +++||++||||+.|.+.++++.+.++..
T Consensus 210 a~~~l~~~~~---------i~~~W~~~v~~K~~~f~A~A~y~~a~~~~e---~~k~Ge~Ia~L~~A~~~l~~a~~~~~~~ 277 (355)
T cd09241 210 ALKYANKSDL---------IRSDWINHLKVKKHHFKAAAHYRMALVALE---KSKYGEEVARLRVALAACKEALKEARYG 277 (355)
T ss_pred HHHHHhcCCc---------ccHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HhhHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 9999985443 45567 444 5578999999999999 9999999999999999999999887633
Q ss_pred ccCCCCCCCCChhhHHHHHHhhccchhhhHhhhcCCceeeccCCC--CCCCCCCCccccccccCC
Q 014319 337 NVAPPLSRNPPLWGTMKYLSEKIPKDTSSKVRINRDLYSYEKIME--TAPTLPDFALALKPDEFQ 399 (427)
Q Consensus 337 ~~~~~~~~~~~~~~~~k~l~~~i~~~~l~~a~~nnd~IYhe~VP~--~lp~l~~~~l~vkp~~f~ 399 (427)
.+.+.+.++.+.+.|+ +.++++++|||+||||+||+ +||+|++..| |||+|++
T Consensus 278 --------~~~~~~~~~~l~~~i~-~~l~~aekdNd~IY~e~VP~~~~L~~i~~~~~-vk~~~~~ 332 (355)
T cd09241 278 --------NKAVLEDLQGLKDIVK-ESLKRAERDNDLIYLQPVPPASELPPIKPASM-VKAIVPP 332 (355)
T ss_pred --------chhHHHHHHHHHHHHH-HHHHHHhhccCeeCCcCCCCcccCCCCCCccc-ccccCch
Confidence 1223344556667775 78999999999999999996 8999999999 9999764
No 7
>cd09244 BRO1_Rhophilin Protein-interacting Bro1-like domain of RhoA-binding protein Rhophilin and related domains. This family contains the Bro1-like domain of RhoA-binding proteins, Rhophilin-1 and -2, and related domains. It belongs to the BRO1_Alix_like superfamily which also includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), Brox, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, Ustilago maydis Rim23 (also known as PalC), and related domains. Rhophilin-1 and -2 bind both GDP- and GTP-bound RhoA. Bro1-like domains are boomerang-shaped, and part of the domain is a tetratricopeptide repeat (TPR)-like structure. In addition to this Bro1-like domain, Rhophilin-1 and -2, contain an N-terminal Rho-binding domain and a C-terminal PDZ (PS.D.-95, Disc-large, ZO-1) domain. Their PDZ domains have limited homology. Rhophilin-1 and -2 have different ac
Probab=100.00 E-value=1.3e-60 Score=477.97 Aligned_cols=307 Identities=18% Similarity=0.195 Sum_probs=259.3
Q ss_pred EecCCCCCCCCcccchHHhhHHHHHHHHHHHHHHHHHHHHhhhcCCccccccccccccCCCCCHHHHHHHHHHHHHHHhc
Q 014319 26 VYVPGLRIPKPVDFSQSLGDNLSKNMVERLSALRTRIVVMAAQEGPTITRTRRKSATQHGGSTLADLHQALEDYLPVLLG 105 (427)
Q Consensus 26 ~~~p~lk~t~~vd~~~~l~~~I~~~~~~~l~~lR~~i~~~~~~~~~~~~~~~r~~~~~~~~s~~~~l~~~l~~Y~~~L~~ 105 (427)
|.+| ||+|++|||..||++||.++|.++.+.+.++|.++. ++|+.++++.| + +..++.|.+||.+|..
T Consensus 2 i~l~-lK~T~~vd~~~~L~~yI~~~Y~e~~~~y~~~l~~l~-~LR~~~~~~~~---~-------~~g~~~L~~YY~qL~~ 69 (350)
T cd09244 2 IPLG-LKETKEIDFMEPFKDFILEHYSEDPSLYEDEIADFT-DLRQAMRTPSR---D-------EAGIELLFEYYNQLYF 69 (350)
T ss_pred CCCC-CCcCCcCChHHHHHHHHHHHcCCCHHHHHHHHHHHH-HHHHHhhCCCC---C-------hhHHHHHHHHHHHHHH
Confidence 4577 999999999999999999999998899999887766 78888777764 1 2335678899999987
Q ss_pred ccCCCCCc--cceeeEEeeeCCCCCcceeecchHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCCCHHHHHHHHHH
Q 014319 106 LVKDGSQL--QYKVQFVWVNQEDEAEETAISNAWYEVLSVLHLMAMLSLSQANLLLLPRTSADGYQPKVSEESRRASVDI 183 (427)
Q Consensus 106 l~~~~~~~--~~~v~F~W~dsl~~~~~~~~~sl~fEkasVLfNiaal~s~~aa~~~~~~~~~~~~~~~~t~dglK~A~~~ 183 (427)
+-.+++.. ..+|.|+|+|+|++ .+++++++.|||+|||||||++|+++|+. ++|.+++|+|+||++
T Consensus 70 le~RFp~~~~~~~v~F~W~Ds~~~-~~~~q~sl~fEkasVLFNigAl~Sq~aa~-----------~~r~~~eglK~A~~~ 137 (350)
T cd09244 70 VERRFFPPDRSLGIYFHWYDSLTG-VPSVQRSVAFEKASVLFNIGALYTQIGAK-----------QDRTTEEGIEAAVDA 137 (350)
T ss_pred HHhcCCCccccccceeeeecccCC-CccccccHHHHHHHHHHHHHHHHHHHHHH-----------hccCChHHHHHHHHH
Confidence 64333221 25899999999987 79999999999999999999999999982 678899999999999
Q ss_pred HHHHhhHHHHHHhccCCCCCccccCCCCCCCCHHHHHHHHHHHhHHHHHHHHHHhhhhcc-chhhH-----HHHHHHHHH
Q 014319 184 FLKAAGYLDCAVRHVLPQMSPELRRELPVDLAEGDLRALCLQALGQGVDIQLGMAIDSTK-ATLAV-----KRRLACEMV 257 (427)
Q Consensus 184 fq~AAG~F~~l~e~~~~~~~~~~~~~~p~Dl~~~~L~aL~~lmLAQAQE~~~~KAi~~~k-~k~sl-----iAKLA~q~s 257 (427)
||+|||+|+||++++. +.|+ .||++++|++|..|||||||||+|+||+. ++ +|+++ |||||.|++
T Consensus 138 Fq~AAG~F~~l~e~~~-~~ps-------~Dls~~~L~~L~~LmLAQAQEc~~~Kai~-d~~~k~~~~~~~~lAklA~qv~ 208 (350)
T cd09244 138 FQRAAGAFNYLRENFS-NAPS-------MDLSPEMLEALIKLMLAQAQECVFEKLVL-PGEDSKDIQACLDLAQEAAQVS 208 (350)
T ss_pred HHHHHHHHHHHHHhcc-CCCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHHh-ccccccchhHHHHHHHHHHHHH
Confidence 9999999999999964 3444 79999999999999999999999999998 55 77888 999999999
Q ss_pred HHHHHHHHHHhcCCCCCCCCcccccccch-hHHHH-----HHHHHHHHhhhhccCCcchhHHHHHHHHHHHHHHHHHHHH
Q 014319 258 KYWQQAQDNIMNLPLANGWGEKHKLFVKW-KYFEA-----KAAAYYYHGLILDEGNTEKFHGMAVAALQAADEYFKESKK 331 (427)
Q Consensus 258 ~~Y~~A~~~l~~~~~~~~~~~k~~~~~~W-k~~~~-----kA~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~l~~a~~ 331 (427)
++|++|.+.+++..... .++.+| .++++ +|+||||+|+.+.+ .+++|++|++|+.|..+.++|.+
T Consensus 209 ~~Y~~a~~~~~~~~~~~------~i~~~W~~~v~~K~~~f~AlA~y~~a~~l~~---~~~~g~~~a~L~~A~~~~e~a~~ 279 (350)
T cd09244 209 DCYSEVHKLMNQEPVKD------YIPYSWISLVEVKSEHYKALAHYYAAMGLLL---EERRLLGKAHLKEALLLHEEALR 279 (350)
T ss_pred HHHHHHHHHHhcccccc------ccCHHHHHHHHHHHHHHHHHHHHHHHHHhhH---HHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999998644321 466789 66654 67999999999999 99999999999999999999999
Q ss_pred H---HhhcccCCCCCCCCChhhHHHHHHhhccchhhhHhhhcCCceeeccCCC
Q 014319 332 A---CEAFNVAPPLSRNPPLWGTMKYLSEKIPKDTSSKVRINRDLYSYEKIME 381 (427)
Q Consensus 332 ~---~~~~~~~~~~~~~~~~~~~~k~l~~~i~~~~l~~a~~nnd~IYhe~VP~ 381 (427)
. |+.+.. ...+.+.++..++++. ..++..+++|||+||+.||+
T Consensus 280 ~~~~c~~~~~------~~~l~~~l~~~~~~~~-~~~~~~~~~~d~~~~~~~p~ 325 (350)
T cd09244 280 LHRMCRFLRN------VDSLQEVLKEAHDRSL-NKYSSLEEEDDFSDALDAPD 325 (350)
T ss_pred HHHHHhhhcc------hHHHHHHHHHHHHHHH-HHHHhhccccchhhccccCC
Confidence 4 665542 3346677777777775 67888899999999988876
No 8
>cd09034 BRO1_Alix_like Protein-interacting Bro1-like domain of mammalian Alix and related domains. This superfamily includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding proteins Rhophilin-1 and Rhophilin-2, Brox, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, and related domains. Alix, HD-PTP, Brox, Bro1 and Rim20 interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Alix, also known as apoptosis-linked gene-2 interacting protein 1 (AIP1), participates in membrane remodeling processes during the budding of enveloped viruses, vesicle budding inside late endosomal multivesicular bodies (MVBs), and the abscission reactions of mammalian cell division. It also functions in apoptosis. HD-PTP functions in cell migration and endosomal trafficking, Bro1 in endosomal trafficking, and Rim20 in the response to
Probab=100.00 E-value=1.1e-59 Score=474.59 Aligned_cols=334 Identities=37% Similarity=0.539 Sum_probs=267.1
Q ss_pred EecCCCCCCCCcccchHHhhHHHHHHHH-HHHHHHHHHHHHhhhcCCccccccccccccCCCCCHHHHHHHHHHHHHHHh
Q 014319 26 VYVPGLRIPKPVDFSQSLGDNLSKNMVE-RLSALRTRIVVMAAQEGPTITRTRRKSATQHGGSTLADLHQALEDYLPVLL 104 (427)
Q Consensus 26 ~~~p~lk~t~~vd~~~~l~~~I~~~~~~-~l~~lR~~i~~~~~~~~~~~~~~~r~~~~~~~~s~~~~l~~~l~~Y~~~L~ 104 (427)
+.+| ||+|.+|||..+|+++|.++|.+ +-..++++|..+. ++|+.+.+.. .+ .++.+.+++.|.+||++|.
T Consensus 2 i~~p-lk~t~~vd~~~~l~~~i~~~~~~~~~~~~~~~l~~~~-~lR~~~~~~~----~~--~~~~~~~~~~l~~Y~~~L~ 73 (345)
T cd09034 2 IGLP-LKKTKEVDVKVPLSKFIPKNYGELEATAVEDLIEKLS-KLRNNIVTEQ----NN--DTTCENLLEALKEYLPYLL 73 (345)
T ss_pred CCCC-CCCCceeeechhhHHHhhHhhCcccchhhHHHHHHHH-HHHHHHHhhc----cC--CcchHHHHHHHHHHHHHHH
Confidence 4678 99999999999999999998854 3333333333222 2222222221 22 1145778899999999999
Q ss_pred cccCCCC--CccceeeEEeeeCCCCCcceeecchHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCCC-HHHHHHHH
Q 014319 105 GLVKDGS--QLQYKVQFVWVNQEDEAEETAISNAWYEVLSVLHLMAMLSLSQANLLLLPRTSADGYQPKVS-EESRRASV 181 (427)
Q Consensus 105 ~l~~~~~--~~~~~v~F~W~dsl~~~~~~~~~sl~fEkasVLfNiaal~s~~aa~~~~~~~~~~~~~~~~t-~dglK~A~ 181 (427)
++..+.+ ..+.+|.|+|+|+|+.+.++.. |+.||++|||||+|++|+++|+. .++.+ ++|+|.|+
T Consensus 74 ~l~~~~~~~~~~~~i~F~W~d~~~~~~~~~~-~l~fE~~~vLfn~aa~~s~~a~~-----------~~~~~~~~~~k~A~ 141 (345)
T cd09034 74 GLEKKLPFQKLRDNVEFTWTDSFDTKKESAT-SLRYELLSILFNLAALASQLANE-----------KLITGSEEDLKQAI 141 (345)
T ss_pred HHHhcCCcccccccceeEeecccCCCcchhh-hHHHHHHHHHHHHHHHHHHHHHh-----------ccCCCchHHHHHHH
Confidence 9875543 4457899999999997665555 99999999999999999999983 34445 79999999
Q ss_pred HHHHHHhhHHHHHHhccCCCCCccccCCCCCCCCHHHHHHHHHHHhHHHHHHHHHHhhhhcc-chhhHHHHHHHHHHHHH
Q 014319 182 DIFLKAAGYLDCAVRHVLPQMSPELRRELPVDLAEGDLRALCLQALGQGVDIQLGMAIDSTK-ATLAVKRRLACEMVKYW 260 (427)
Q Consensus 182 ~~fq~AAG~F~~l~e~~~~~~~~~~~~~~p~Dl~~~~L~aL~~lmLAQAQE~~~~KAi~~~k-~k~sliAKLA~q~s~~Y 260 (427)
++||+|||+|+||++++.+..+. .+|+||++++|.+|..+||||||||+|+||+. ++ +++++|||||.|++++|
T Consensus 142 ~~fq~AAG~F~~l~~~~~~~~~~----~~~~Dl~~~~l~~l~~l~LAqAQe~~~~ka~~-~~~~~~~liakLa~~~~~~y 216 (345)
T cd09034 142 KSLQKAAGYFEYLKEHVLPLPPD----ELPVDLTEAVLSALSLIMLAQAQECFLLKAEE-DKKAKLSLLARLACEAAKYY 216 (345)
T ss_pred HHHHHHHHHHHHHHHhccccCCC----CCCccCCHHHHHHHHHHHHHHHHHHHHHHHHh-cccCcHHHHHHHHHHHHHHH
Confidence 99999999999999998765432 25589999999999999999999999999999 66 89999999999999999
Q ss_pred HHHHHHHhcCCCC--CCCCcccccccchhHHHHHHHHHHHHhhhhccCCcchhHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 014319 261 QQAQDNIMNLPLA--NGWGEKHKLFVKWKYFEAKAAAYYYHGLILDEGNTEKFHGMAVAALQAADEYFKESKKACEAFNV 338 (427)
Q Consensus 261 ~~A~~~l~~~~~~--~~~~~k~~~~~~Wk~~~~kA~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~l~~a~~~~~~~~~ 338 (427)
++|.+.+++.+.. +.+..+|..+..||...++|+||||+|.++.+ .++||++|+||+.|...++++.+.++.+..
T Consensus 217 ~~A~~~l~~~~~~~~~~~~~~w~~~v~~K~~~~~a~a~~~~a~~~~e---~~~~G~aia~L~~A~~~~~~~~~~~~~~~~ 293 (345)
T cd09034 217 EEALKCLSGVDLETIKNIPKKWLLFLKWKKCIFKALAYYYHGLKLDE---ANKIGEAIARLQAALELLKESERLCKSFLL 293 (345)
T ss_pred HHHHHHHhcCCchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhc---cccHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 9999999976542 22222222223334445688999999999999 899999999999999999999998775431
Q ss_pred CCCCCCCCChhhHHHHHHhhccchhhhHhhhcCCceeeccCCC--CCCCCCCCcccccccc
Q 014319 339 APPLSRNPPLWGTMKYLSEKIPKDTSSKVRINRDLYSYEKIME--TAPTLPDFALALKPDE 397 (427)
Q Consensus 339 ~~~~~~~~~~~~~~k~l~~~i~~~~l~~a~~nnd~IYhe~VP~--~lp~l~~~~l~vkp~~ 397 (427)
.+++.++.+.++|+ +.++++++|||+||||+||+ +||++++..+ |+|.|
T Consensus 294 --------~~~~~~~~l~~~i~-~~l~~~~kdNd~Iy~e~VP~~~~Lp~i~~~~~-v~~~p 344 (345)
T cd09034 294 --------DVWGNLKKLKEKIE-KELEKAERENDFIYFEEVPPEDPLPEIKGALL-VKPPP 344 (345)
T ss_pred --------hHHHHHHHHHHHHH-HHHHHHHhhhhHhhcccCCCCCCCCccccccc-cCCCC
Confidence 35667888888886 68999999999999999997 4999999999 88775
No 9
>PF03097 BRO1: BRO1-like domain; InterPro: IPR004328 The BRO1 domain has about 390 residues and occurs in a number of eukaryotic proteins such as yeast BRO1 and human PDCD6IP/Alix that are involved in protein targeting to the vacuole or lysosome. The BRO1 domain of fungal and mammalian proteins binds with multivesicular body components (ESCRT-III proteins) such as yeast Snf7 and mammalian CHMP4b, and can function to target BRO1 domain-containing proteins to endosomes [, , ]. The BRO1 domain has a boomerang shape composed of 14 alpha-helices and 3 beta-sheets. It contains a TPR-like substructure in the central part []. The C terminus is less conserved. This domain is found in a number of signal transduction proteins. The Saccharomyces cerevisiae protein Bro1p is required for sorting endocytic cargo to the lumen of multivesicular bodies (MVBs). Alix appears to be the mammalian orthologue of Bro1p []. Alix is also involved in the ESCRT pathway, which facilitates membrane fission events during enveloped virus budding, multivesicular body formation, and cytokinesis. To promote HIV budding and cytokinesis, the ALIX protein must bind and recruit CHMP4 subunits of the ESCRT-III complex. The Bro1 domain of ALIX binds specifically to C-terminal residues of the human CHMP4 proteins [, ]. Likewise, the Homo sapiens Brox protein has a Bro1 domain. CHMP4 proteins are components of endosomal sorting complex required for transport III, via their Bro1 domains and to play roles in sorting of ubiquitinated cargoes []. Alix also binds to the nucleocapsid (NC) domain of HIV-1 Gag. Alix and the Bro1 domain can be specifically packaged into viral particles via the NC []. Myopic is the Drosophila homologue of the Bro1-domain tyrosine phosphatase HD-PTP, and it promotes the epidermal growth factor receptor (EGFR) signalling []. The Caenorhabditis elegans Bro1-domain protein, ALX-1, interacts with LIN-12/Notch. The EGO-2 protein also contains a Bro1 domain. Notch-type signalling mediates numerous inductive events during development [].; PDB: 2VSV_A 1ZB1_A 3UM3_A 3ULY_A 3R9M_A 3ZXP_A 3UM2_A 3UM0_A 3UM1_D 3RAU_B ....
Probab=100.00 E-value=3.1e-58 Score=469.21 Aligned_cols=329 Identities=23% Similarity=0.296 Sum_probs=246.4
Q ss_pred EEecCCCCCCCCcccchHHhhHHHHHHHHHHHHHHHHHHHHhhhcCCccccccccccccCCCCCHHHHHHHHHHHHHHHh
Q 014319 25 SVYVPGLRIPKPVDFSQSLGDNLSKNMVERLSALRTRIVVMAAQEGPTITRTRRKSATQHGGSTLADLHQALEDYLPVLL 104 (427)
Q Consensus 25 ~~~~p~lk~t~~vd~~~~l~~~I~~~~~~~l~~lR~~i~~~~~~~~~~~~~~~r~~~~~~~~s~~~~l~~~l~~Y~~~L~ 104 (427)
++.+| ||+|++|||..+|++||.++|.++...+++++..+. ++|+.++++. ...+..++.+.+||++|.
T Consensus 2 ~~~lp-lK~t~~vd~~~~l~~~i~~~y~~~~~~~~~~l~~l~-~lR~~~~~~~---------~~~~~~~~~l~~Y~~~L~ 70 (377)
T PF03097_consen 2 MLSLP-LKKTKEVDLKKPLKKYISSHYGEDPDSFDEDLKELD-KLRQDARNPQ---------SPSESGLKLLEEYYPQLE 70 (377)
T ss_dssp ---------BEEE-CHHHHHHHHHHHCSSCCHCCHHHHHHHH-HHHHHHHTSS----------SSHHHHHHHHHHHHHHH
T ss_pred cCCCC-CCCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHH-HHHHHHhccC---------CCchhHHHHHHHHHHHHH
Confidence 46678 999999999999999999988443333333332222 1111111110 122566889999999999
Q ss_pred cccCCCCCccceeeEEeeeCCCCCcceeecchHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCCCHHHHHHHHHHH
Q 014319 105 GLVKDGSQLQYKVQFVWVNQEDEAEETAISNAWYEVLSVLHLMAMLSLSQANLLLLPRTSADGYQPKVSEESRRASVDIF 184 (427)
Q Consensus 105 ~l~~~~~~~~~~v~F~W~dsl~~~~~~~~~sl~fEkasVLfNiaal~s~~aa~~~~~~~~~~~~~~~~t~dglK~A~~~f 184 (427)
.+..+.+....+|.|+|+|+|+++.+++++++.||++|||||+|++|+++|+. .++.+++++|.|+++|
T Consensus 71 ~l~~~~p~~~~~i~F~W~d~~~~~~~~~~~~~~fE~a~vL~N~aa~~s~~a~~-----------~~~~~~~~~k~A~~~f 139 (377)
T PF03097_consen 71 SLEKRFPSDQIQISFTWSDSLSTGKPVSQSSLAFEKACVLFNIAALYSQLAAS-----------QNRSTDEGLKEACNYF 139 (377)
T ss_dssp HHCCCSCSSCCTT-EEEE-TTSTTSEEEESSHHHHHHHHHHHHHHHHHHHHHH-----------S-TTSHHHHHHHHHHH
T ss_pred HHHHhcccccceeeEeeeccccCCCcccchhhHHHHHHHHHHHHHHHHHHHHh-----------cccccchhHHHHHHHH
Confidence 98755543334699999999976689999999999999999999999999983 4556899999999999
Q ss_pred HHHhhHHHHHHhccCCCCCccccCCCCCCCCHHHHHHHHHHHhHHHHHHHHHHhhhhccchhhHHHHHHHHHHHHHHHHH
Q 014319 185 LKAAGYLDCAVRHVLPQMSPELRRELPVDLAEGDLRALCLQALGQGVDIQLGMAIDSTKATLAVKRRLACEMVKYWQQAQ 264 (427)
Q Consensus 185 q~AAG~F~~l~e~~~~~~~~~~~~~~p~Dl~~~~L~aL~~lmLAQAQE~~~~KAi~~~k~k~sliAKLA~q~s~~Y~~A~ 264 (427)
|+|||+|+||++++ ...++ .||++++|.+|..+||||||||+|+||+. +++++++|||||.+++++|++|.
T Consensus 140 q~AAg~f~~l~~~~-~~~~s-------~Dl~~~~l~~l~~l~lAqAQe~~~~ka~~-~~~~~~liAKLa~~~~~~Y~~a~ 210 (377)
T PF03097_consen 140 QRAAGIFQYLRENF-KDSPS-------PDLSPEVLSALSNLMLAQAQECFYEKAIA-DKKKPSLIAKLAAQASELYDEAH 210 (377)
T ss_dssp HHHHHHHHHHHHHS-SS-SS-------GGGSHHHHHHHHHHHHHHHHHHHHHHHHH-TTG-HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhh-cccCC-------CcCCHHHHHHHHHHHHHHHHHHHHHHHHH-ccCchHHHHHHHHHHHHHHHHHH
Confidence 99999999999994 33333 69999999999999999999999999999 89999999999999999999999
Q ss_pred HHHhcCCCCCCCCcccccccch-hHH-----HHHHHHHHHHhhhhccCCcchhHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 014319 265 DNIMNLPLANGWGEKHKLFVKW-KYF-----EAKAAAYYYHGLILDEGNTEKFHGMAVAALQAADEYFKESKKACEAFNV 338 (427)
Q Consensus 265 ~~l~~~~~~~~~~~k~~~~~~W-k~~-----~~kA~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~l~~a~~~~~~~~~ 338 (427)
+.+++..... .++..| .++ .++|+||||+|..+.+ +++||++|+||+.|...++++.+.++.+
T Consensus 211 ~~l~~~~~~~------~~~~~w~~~~~~K~~~~~A~A~y~~A~~~~~---~~~~G~aia~L~~A~~~l~~a~~~~~~~-- 279 (377)
T PF03097_consen 211 EALQSSPLSE------SIPKDWRSYVQVKSAYYRALAHYHQALAAEE---AKKYGEAIARLRRAEEALKEASKLAKKC-- 279 (377)
T ss_dssp HHHTTCHHHH------CSHCCHHHHHHHHHHHHHHHHHHHHHHHHHH---TT-HHHHHHHHHHHHHHHHHHHHHCCCH--
T ss_pred HHHhcccccc------cccHHHHHHHHHHHHHHHHHHHHHHHHHHHH---hhcccHHHHHHHHHHHHHHHHHhhhhcc--
Confidence 9999876422 245567 444 4578999999999999 9999999999999999999999987643
Q ss_pred CCCCCCCCChhhHHHHHHhhccchhhhHhhhcCCceeeccCCC--CCCCCCCCccccccccCCCC
Q 014319 339 APPLSRNPPLWGTMKYLSEKIPKDTSSKVRINRDLYSYEKIME--TAPTLPDFALALKPDEFQLP 401 (427)
Q Consensus 339 ~~~~~~~~~~~~~~k~l~~~i~~~~l~~a~~nnd~IYhe~VP~--~lp~l~~~~l~vkp~~f~lP 401 (427)
...+.+.+.++.+.+.+. ..++++++|||+|||++||+ +||++++..+ |||+|++-+
T Consensus 280 ----~~~~~~~~~~~~l~~~i~-~~l~~~~kdNd~Iy~e~VP~~~~L~~~~~~~~-vk~~~~~~~ 338 (377)
T PF03097_consen 280 ----SKSSSLQDDLKSLLDQIQ-EKLEKAEKDNDFIYHEPVPSESELPPIKPASM-VKPIPPPEF 338 (377)
T ss_dssp ----SCCSTTTHHHHHHHHHHH-HHHHHHHHHHHHTT--S--SCGGSGGS-SSST-T----HHCC
T ss_pred ----cchHHHHHHHHHHHHHHH-HHHHHHHhcccccccccCCCcccccccccccc-cCCCCCccc
Confidence 123346667788888886 67888999999999999997 5889999999 999976644
No 10
>cd09248 BRO1_Rhophilin_1 Protein-interacting Bro1-like domain of RhoA-binding protein Rhophilin-1. This subfamily contains the Bro1-like domain of the RhoA-binding protein, Rhophilin-1. It belongs to the BRO1_Alix_like superfamily which also includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding protein Rhophilin-2, Brox, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, Ustilago maydis Rim23 (also known as PalC), and related domains. Rhophilin-1 binds both GDP- and GTP-bound RhoA. Bro1-like domains are boomerang-shaped, and part of the domain is a tetratricopeptide repeat (TPR)-like structure. In addition to this Bro1-like domain, Rhophilin-1 contains an N-terminal Rho-binding domain and a C-terminal PDZ (PS.D.-95, Disc-large, ZO-1) domain. The Drosophila knockout of the Rhophilin-1 is embryonic lethal, suggesting an essential role i
Probab=100.00 E-value=1.4e-54 Score=434.85 Aligned_cols=308 Identities=15% Similarity=0.133 Sum_probs=243.9
Q ss_pred EecCCCCCCCCcccchHHhhHHHHHHHHHHHHHHHHHHHHhhhcCCccccccccccccCCCCCHHHHHHHHHHHHHHHhc
Q 014319 26 VYVPGLRIPKPVDFSQSLGDNLSKNMVERLSALRTRIVVMAAQEGPTITRTRRKSATQHGGSTLADLHQALEDYLPVLLG 105 (427)
Q Consensus 26 ~~~p~lk~t~~vd~~~~l~~~I~~~~~~~l~~lR~~i~~~~~~~~~~~~~~~r~~~~~~~~s~~~~l~~~l~~Y~~~L~~ 105 (427)
|.+| ||+|++|||..||++||.++|.++.+.++++|..+. ++|+.++++.+ + +..++.|.+||.+|..
T Consensus 2 i~lp-lK~T~~vDl~~pL~~yI~~~Y~q~~~~y~~dl~~l~-~LR~~~~~~~~-----~-----~sgle~L~~YY~qL~~ 69 (384)
T cd09248 2 IPLG-LKETKELDLPTPLKELISEHFGEDGTSYEAEIRELE-DLRQAMRTPSR-----S-----EAGLELLMAYYNQLCF 69 (384)
T ss_pred CCCC-CCcCCcCChHHHHHHHHHHHcCCCHHHHHHHHHHHH-HHHHHhcCCCC-----C-----hhHHHHHHHHHHHHHH
Confidence 5678 999999999999999999999988888888887665 67766655542 1 3345678999999998
Q ss_pred ccCCCCCc--cceeeEEeeeCCCCCcceeecchHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCCCHHHHHHHHHH
Q 014319 106 LVKDGSQL--QYKVQFVWVNQEDEAEETAISNAWYEVLSVLHLMAMLSLSQANLLLLPRTSADGYQPKVSEESRRASVDI 183 (427)
Q Consensus 106 l~~~~~~~--~~~v~F~W~dsl~~~~~~~~~sl~fEkasVLfNiaal~s~~aa~~~~~~~~~~~~~~~~t~dglK~A~~~ 183 (427)
+..+++.. ..+|.|+|+|+|++ .+++++|+.|||+||||||||+||++|+ .++|.++||+|.||++
T Consensus 70 Le~RFp~~~~~~~v~FtW~Daf~~-~~~~q~sl~FEKasVLFNigAL~Sqlaa-----------~~~r~t~eGlK~A~~~ 137 (384)
T cd09248 70 LDARFFPPAKSLGLFFHWYDSLTG-VPAQQRALAFEKGSVLFNIGALHTQIGA-----------RQDRSCTEGTRRAIDA 137 (384)
T ss_pred HHhcCCCCcccccceeeeeccCCC-CccccccHHHHHHHHHHhHHHHHHHHHh-----------hccCCChHHHHHHHHH
Confidence 75443221 25799999999987 6899999999999999999999999998 3688999999999999
Q ss_pred HHHHhhHHHHHHhccCCCCCccccCCCCCCCCHHHHHHHHHHHhHHHHHHHHHHhh-------hhccchhhHHHHHHHHH
Q 014319 184 FLKAAGYLDCAVRHVLPQMSPELRRELPVDLAEGDLRALCLQALGQGVDIQLGMAI-------DSTKATLAVKRRLACEM 256 (427)
Q Consensus 184 fq~AAG~F~~l~e~~~~~~~~~~~~~~p~Dl~~~~L~aL~~lmLAQAQE~~~~KAi-------~~~k~k~sliAKLA~q~ 256 (427)
||+|||||+||++++. +.|+ .||++++|.+|..|||||||||+|+|++ . +++++++|||||.|+
T Consensus 138 FQ~AAG~F~~L~e~~~-~~Ps-------~Dms~~~L~~L~~LMLAQAQEC~~eKail~~~~~~~-d~~k~~~iAKlAaQv 208 (384)
T cd09248 138 FQRAAGAFSLLRENFS-NAPS-------PDMSTASLSMLEQLMVAQAQECIFEGLLLPLLATPQ-DFFAQLQLAQEAAQV 208 (384)
T ss_pred HHHHHHHHHHHHHHhc-cCCC-------CcCCHHHHHHHHHHHHHHHHHHHHHHHHhhhccccc-ccchhhHHHHHHHHH
Confidence 9999999999999954 3344 7999999999999999999999999999 4 788999999999999
Q ss_pred HHHHHHHHHHHhcCCCCCCCCcccccccch-hHHH-----HHHHHHHHHhhhhccCC-----------------------
Q 014319 257 VKYWQQAQDNIMNLPLANGWGEKHKLFVKW-KYFE-----AKAAAYYYHGLILDEGN----------------------- 307 (427)
Q Consensus 257 s~~Y~~A~~~l~~~~~~~~~~~k~~~~~~W-k~~~-----~kA~A~y~~a~~~~~~~----------------------- 307 (427)
+++|++|++.+++.... ..++..| .+++ |+|+||||+|+.+.+..
T Consensus 209 s~~Y~~a~~~~~~~~~~------~~i~~~W~~~v~~K~~hF~AlA~y~~A~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~ 282 (384)
T cd09248 209 AAEYRLVHRTMAQPPVR------DYVPFSWTALVHVKAEHFCALAHYHAAMALCDSSPASEGELATQEKAFLQPHTSQPE 282 (384)
T ss_pred HHHHHHHHHHHhccccc------ccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccchHHHHHHhccCCCCCCC
Confidence 99999999999865542 1466789 5554 56799999999966411
Q ss_pred ---------cchhHHHHHHHHHHHHHHHHHHHHHHh---hcccCCCCCCCCChhhHHHHHHhhccchhhhHhhhcCCcee
Q 014319 308 ---------TEKFHGMAVAALQAADEYFKESKKACE---AFNVAPPLSRNPPLWGTMKYLSEKIPKDTSSKVRINRDLYS 375 (427)
Q Consensus 308 ---------~~~k~GeaIa~L~~A~~~l~~a~~~~~---~~~~~~~~~~~~~~~~~~k~l~~~i~~~~l~~a~~nnd~IY 375 (427)
+..+.|+ ++|+.|....++|.++.+ ... ....+.+.++..+++.. ..+...+++|||+|
T Consensus 283 ~~~~~~~~~~~~~~~~--ahl~~a~~~~eea~r~~~~c~~l~------~~~~l~~~l~~~~~~s~-~~~~~~~~~~d~~~ 353 (384)
T cd09248 283 GPSLPQEPEERRKLGK--AHLKRAILGQEEALRLHALCRILR------KVDLLQAVLTQALRRSL-AKYSELDREDDFFE 353 (384)
T ss_pred ccccccChHHHHHHHH--HHHHHHHHhhHHHHHHHHHHHHhc------cHHHHHHHHHHHHHHHH-HHHhhhccccchhh
Confidence 1256676 899999999999988744 211 11123344444444432 45666788888987
Q ss_pred eccCCC
Q 014319 376 YEKIME 381 (427)
Q Consensus 376 he~VP~ 381 (427)
...-|+
T Consensus 354 ~~~~~~ 359 (384)
T cd09248 354 TGEAPD 359 (384)
T ss_pred ccccCc
Confidence 776564
No 11
>cd09247 BRO1_Alix_like_2 Protein-interacting Bro1-like domain of an Uncharacterized family of the BRO1_Alix_like superfamily. This domain family is comprised of uncharacterized proteins. It belongs to the BRO1_Alix_like superfamily which includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding proteins Rhophilin-1 and -2, Brox, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, Ustilago maydis Rim23 (also known as PalC), and related domains. Alix, HD-PTP, Brox, Bro1, Rim20 and Rim23 interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Alix participates in membrane remodeling processes during the budding of enveloped viruses, vesicle budding inside late endosomal multivesicular bodies (MVBs), and the abscission reactions of mammalian cell division. It also functions in apoptosis. HD-PTP and Bro1 function in
Probab=100.00 E-value=5.4e-54 Score=433.04 Aligned_cols=273 Identities=18% Similarity=0.253 Sum_probs=228.2
Q ss_pred HHHHHHHHHHHHHhcccCCC--CCccceeeEEeeeCCCC---CcceeecchHHHHHHHHHHHHHHHHHHHHhhccCCCCC
Q 014319 91 DLHQALEDYLPVLLGLVKDG--SQLQYKVQFVWVNQEDE---AEETAISNAWYEVLSVLHLMAMLSLSQANLLLLPRTSA 165 (427)
Q Consensus 91 ~l~~~l~~Y~~~L~~l~~~~--~~~~~~v~F~W~dsl~~---~~~~~~~sl~fEkasVLfNiaal~s~~aa~~~~~~~~~ 165 (427)
+.+.+|..|++.|.++..+. .+++..+.|+|+|+|++ ...+++.++.||++|||||+|++++++|...
T Consensus 58 ~yl~~L~~~~~~L~~~~~~~~~~~l~~~i~F~W~~~l~~~~~~~~~~~~sl~fE~~~vLfn~aa~~s~~A~~~------- 130 (346)
T cd09247 58 QYLPYLEGYLPALENLVNHRDKVQLNEQLSFRWTSGLGSSKGPKAFQSDSLRFELGMVLFLYGAALRERASEV------- 130 (346)
T ss_pred hHHHHHHHHHHhhccCCccchHHhhcccCceeeecccCCCCCCceeeccchHHHHHHHHHHHHHHHHHHHHHh-------
Confidence 35678888888888887553 24678999999999987 3457888999999999999999998888721
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHhhHHHHHHhccCCCCCccc-cCCCCCCCCHHHHHHHHHHHhHHHHHHHHHHhhhhccc
Q 014319 166 DGYQPKVSEESRRASVDIFLKAAGYLDCAVRHVLPQMSPEL-RRELPVDLAEGDLRALCLQALGQGVDIQLGMAIDSTKA 244 (427)
Q Consensus 166 ~~~~~~~t~dglK~A~~~fq~AAG~F~~l~e~~~~~~~~~~-~~~~p~Dl~~~~L~aL~~lmLAQAQE~~~~KAi~~~k~ 244 (427)
...|++|.||++||+|||||+||++++++.+++.+ ...+|+||+++++.+|+.|||||||||+|+||+. +++
T Consensus 131 ------~~~e~~K~A~~~l~~AAG~f~~l~~~~l~~~~~~~s~~~~~~Dl~~~~~~aL~~l~LAqAQe~~~~KAi~-~~~ 203 (346)
T cd09247 131 ------LPTEDFKEAATHLRRAAGVFEFLAHDELPRLRGALSADERPPECTPSLALAMSLLCLAEAQAVTARKAEE-KGT 203 (346)
T ss_pred ------ccHHHHHHHHHHHHHHHHHHHHHHhccccccccCcccCCCCcccCHHHHHHHHHHHHHHHHHHHHHHHHH-cCC
Confidence 12379999999999999999999999988765543 3566789999999999999999999999999999 889
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHhcCCC-CCCCCcccccccch-hHH-----HHHHHHHHHHhhhhccCCcchhHHHHHH
Q 014319 245 TLAVKRRLACEMVKYWQQAQDNIMNLPL-ANGWGEKHKLFVKW-KYF-----EAKAAAYYYHGLILDEGNTEKFHGMAVA 317 (427)
Q Consensus 245 k~sliAKLA~q~s~~Y~~A~~~l~~~~~-~~~~~~k~~~~~~W-k~~-----~~kA~A~y~~a~~~~~~~~~~k~GeaIa 317 (427)
+++||||||+|++++|++|.+.+++... .. .+..+| +++ .++|+||||+|.++.+ +++||++|+
T Consensus 204 ~~sliAKLa~~~~~~y~~A~~~l~~~~~~~~------~i~~~~~~~l~~k~~~~~A~A~~~~a~~~~~---~~k~GeaIa 274 (346)
T cd09247 204 SPSLLAKLHYGATQFLEEAKNVLRSLATDLK------DLDPRFLRFISSCIALHEARSQLYLARRLKE---AGHIGVAVG 274 (346)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHccCcchh------hcCHHHHHHHHHHHHHHHHHHHHHHHHHHHh---cCCchHHHH
Confidence 9999999999999999999999987542 11 134456 444 4578999999999999 999999999
Q ss_pred HHHHHHHHHHHHHHHHhhcccCCCCCCCCChhhHHHHHHhhccchhhhHhhhcCCceeeccCCC--CCCCCCCCcccccc
Q 014319 318 ALQAADEYFKESKKACEAFNVAPPLSRNPPLWGTMKYLSEKIPKDTSSKVRINRDLYSYEKIME--TAPTLPDFALALKP 395 (427)
Q Consensus 318 ~L~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~k~l~~~i~~~~l~~a~~nnd~IYhe~VP~--~lp~l~~~~l~vkp 395 (427)
+|+.|.+.++++.+.++.+ ....++.+.+.|+ ..++++++||||||||+||+ +||++++..| |||
T Consensus 275 ~L~~A~~~l~~~~~~~~~~-----------~~~~~~~~~~~i~-~~l~~a~kdNd~IY~e~VP~~~~L~~~~~~~~-vk~ 341 (346)
T cd09247 275 VLREALRNLKKKLPGSDIS-----------SPVIFRDERAEVA-TLLQKYEKENEVIYFEKVPDIDELPLPEGKVI-VKP 341 (346)
T ss_pred HHHHHHHHHHHhhccCchh-----------HHHHHHHHHHHHH-HHHHHHHhccCeEEeecCCCccccCCCccccc-eee
Confidence 9999999998888654311 1234556667774 68999999999999999995 6999999999 999
Q ss_pred ccCC
Q 014319 396 DEFQ 399 (427)
Q Consensus 396 ~~f~ 399 (427)
+||.
T Consensus 342 ip~~ 345 (346)
T cd09247 342 VPYK 345 (346)
T ss_pred cCCC
Confidence 9986
No 12
>cd09245 BRO1_UmRIM23-like Protein-interacting, Bro1-like domain of Ustilago maydis Rim23 (PalC), and related domains. This family contains the Bro1-like domain of Ustilago maydis Rim23 (also known as PalC), and related proteins. It belongs to the BRO1_Alix_like superfamily which includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding proteins Rhophilin-1 and -2, Brox, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, and related domains. Alix, HD-PTP, Brox, Bro1, Rim20, and Rim23 interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Rim20 and Rim23 participate in the response to the external pH via the Rim101 pathway. Through its Bro1-like domain, Rim23 allows the interaction between the endosomal and plasma membrane complexes. Bro1-like domains are boomerang-shape, and part of the domain is a tetratricop
Probab=100.00 E-value=1.5e-52 Score=429.41 Aligned_cols=356 Identities=20% Similarity=0.205 Sum_probs=259.4
Q ss_pred CCCCcccchHHhhHHHHHHHHHHHHHHHHHHHHhhhcCCccccccccccccCCCCCHHHHHHHHHHHHHHHhcccCCCC-
Q 014319 33 IPKPVDFSQSLGDNLSKNMVERLSALRTRIVVMAAQEGPTITRTRRKSATQHGGSTLADLHQALEDYLPVLLGLVKDGS- 111 (427)
Q Consensus 33 ~t~~vd~~~~l~~~I~~~~~~~l~~lR~~i~~~~~~~~~~~~~~~r~~~~~~~~s~~~~l~~~l~~Y~~~L~~l~~~~~- 111 (427)
-|..|.|..-+.+-=-..++.+.+..|..+.... -...|++. ... .+++..++++|++||++|.+|..+.+
T Consensus 8 tTs~~sF~~~~~~~~~~~l~~~a~~~R~~lr~~l---k~~k~~~~----~~~-~~~~~~~~~aL~~Ylp~L~~l~~~~~~ 79 (413)
T cd09245 8 TTSSISFSDFFNSDSYPSLPLNATTARAVLRAAL---KAHKRTPP----GSQ-ASNLLTVVKALEEYLPYLLAIDACLSH 79 (413)
T ss_pred CCcccchhhhcCCCcccchhhHHHHHHHHHHHHH---HhcccCCc----ccc-cccHHHHHHHHHHHHHHHHHHHccCCc
Confidence 5667888744444111246888999898876554 22223332 222 46678899999999999999864432
Q ss_pred ---CccceeeEEeeeCCCCCc-----ceeecchHHHHHHHHHHHHHHHHHHHHhhccCCCCCCC------CCCCCCHHHH
Q 014319 112 ---QLQYKVQFVWVNQEDEAE-----ETAISNAWYEVLSVLHLMAMLSLSQANLLLLPRTSADG------YQPKVSEESR 177 (427)
Q Consensus 112 ---~~~~~v~F~W~dsl~~~~-----~~~~~sl~fEkasVLfNiaal~s~~aa~~~~~~~~~~~------~~~~~t~dgl 177 (427)
+++..|.|+|+|+|+++. .+++++++||++|||||||++|+++|.+.+.+.....+ ...+.+++++
T Consensus 80 ~~~~l~~~i~F~W~~tl~~~~~~~~~~~~~~sl~fE~a~VLfnla~l~S~~A~~~l~~~~~~~~~~~is~~~~~~~~e~l 159 (413)
T cd09245 80 DELILKSEPTFEWRTTLSSTSGRESPRLPLPGLHYELAFVLLTYAYALSNLARSILAPLGAYETDRSISDASRKQRDERL 159 (413)
T ss_pred chhcccccceeEeecccccCCCCCCcccccCCHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccccccccccchHHH
Confidence 445689999999997653 48999999999999999999999999975433211000 1236789999
Q ss_pred HHHHHHHHHHhhHHHHHHhccCCCCCccc-cCCCCCCCCHHHHHHHHHHHhHHHHHHHHHHhhhh------c--------
Q 014319 178 RASVDIFLKAAGYLDCAVRHVLPQMSPEL-RRELPVDLAEGDLRALCLQALGQGVDIQLGMAIDS------T-------- 242 (427)
Q Consensus 178 K~A~~~fq~AAG~F~~l~e~~~~~~~~~~-~~~~p~Dl~~~~L~aL~~lmLAQAQE~~~~KAi~~------~-------- 242 (427)
|.|+++||+|||||+||++++++.+++.. ...+|+||+++++.+|+.|||||||||+|+|++.. +
T Consensus 160 K~A~~~l~~AAGvf~~L~~~~l~~~~~~~~~~~~~~DLs~~~l~aL~~L~LAqAQel~~~K~~~~~~~~d~~~~~~ap~~ 239 (413)
T cd09245 160 KAATKLLCKAAGIFDYLATRVLPQWESNRGGAPPPPDLSPEVLSALSSLALAEATLLAVRKLDPYPAAVDKDWMTPGPPL 239 (413)
T ss_pred HHHHHHHHHHHHHHHHHHhcccccccccccCCCCCcccCHHHHHHHHHHHHHHHHHHHHHhhhhhcccccchhcccCccc
Confidence 99999999999999999999988765422 23556899999999999999999999999998751 1
Q ss_pred -cc--hhhHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCcccccccch-hHHH-----HHHHHHHHHhhhhccCCcchhHH
Q 014319 243 -KA--TLAVKRRLACEMVKYWQQAQDNIMNLPLANGWGEKHKLFVKW-KYFE-----AKAAAYYYHGLILDEGNTEKFHG 313 (427)
Q Consensus 243 -k~--k~sliAKLA~q~s~~Y~~A~~~l~~~~~~~~~~~k~~~~~~W-k~~~-----~kA~A~y~~a~~~~~~~~~~k~G 313 (427)
++ +++||||||.+++++|++|.+.+++.+....+ ..+..+| +|+. ++|+||||+|+++.+ +++||
T Consensus 240 ~k~~~s~sLiAKLa~~~~~~y~~A~~~l~~~~~~~~~---~~i~~~~~~yl~~k~~~~~A~A~~~~g~d~~e---~~k~G 313 (413)
T cd09245 240 PKVHPSAHLLARLCLAASEHAESARALLSTPGSKRGS---GEVSEELLRYLSDLRRVARALACKFLGIDAGE---NGKVG 313 (413)
T ss_pred ccccccHHHHHHHHHHHHHHHHHHHHHHhcccccccc---ccccHHHHHHHHHHHHHHHHHHHHHHHHhhHh---cCCHH
Confidence 22 56999999999999999999999876542111 1244566 5554 578999999999999 99999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcccCC-CC-------CCCCChhhHHHHHHhhccchhhhHhhhcCCceeeccCCC--CC
Q 014319 314 MAVAALQAADEYFKESKKACEAFNVAP-PL-------SRNPPLWGTMKYLSEKIPKDTSSKVRINRDLYSYEKIME--TA 383 (427)
Q Consensus 314 eaIa~L~~A~~~l~~a~~~~~~~~~~~-~~-------~~~~~~~~~~k~l~~~i~~~~l~~a~~nnd~IYhe~VP~--~l 383 (427)
|+|++|+.|...++++......-.... ++ ......++.++...+.|+ ..+++++++||+||||+||+ +|
T Consensus 314 eaIa~L~~A~~~L~~~~~~~~~~~~~~l~~~~~~~r~~~~~~~~~~~~~e~~~i~-~~l~~~~K~ND~Iy~q~VP~~~~L 392 (413)
T cd09245 314 EAIGWLRAAKKELEDLKSPSGVASKAKLKKSWKEKREDRKVEKGAGVEEELRTLE-MLLKKYKKMNDTVSFQPVPPSSEL 392 (413)
T ss_pred HHHHHHHHHHHHHHHhhhccccccccccchhhhhhhhhhhchhhhhHHHHHHHHH-HHHHHHHHhcceeeeecCCChHhh
Confidence 999999999999888775321000000 00 000111123445555664 68899999999999999996 44
Q ss_pred -CCCCCCccccccccCCCCCC
Q 014319 384 -PTLPDFALALKPDEFQLPPV 403 (427)
Q Consensus 384 -p~l~~~~l~vkp~~f~lP~~ 403 (427)
..+|.+.-+++|+||..|.+
T Consensus 393 ~~~~P~Gr~i~~~~~~~~p~~ 413 (413)
T cd09245 393 QSSMPSGREAHTAKPYTPPPS 413 (413)
T ss_pred hhcCCCcccccCCCCCCCCCC
Confidence 56775444499999998853
No 13
>cd09249 BRO1_Rhophilin_2 Protein-interacting Bro1-like domain of RhoA-binding protein Rhophilin-2. This subfamily contains the Bro1-like domain of RhoA-binding protein, Rhophilin-2. It belongs to the BRO1_Alix_like superfamily which also includes the Bro1-like domain of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding protein Rhophilin-1, Brox, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, Ustilago maydis Rim23 (also known as PalC), and related domains. Rhophilin-2, binds both GDP- and GTP-bound RhoA. Bro1-like domains are boomerang-shaped, and part of the domain is a tetratricopeptide repeat (TPR)-like structure. In addition to this Bro1-like domain, Rhophilin-2 contains an N-terminal Rho-binding domain and a C-terminal PDZ (PS.D.-95, Disc-large, ZO-1) domain. Roles for Rhophilin-2 may include limiting stress fiber formation or increasing the turnover of F-
Probab=100.00 E-value=1.2e-50 Score=406.08 Aligned_cols=241 Identities=18% Similarity=0.188 Sum_probs=202.9
Q ss_pred EecCCCCCCCCcccchHHhhHHHHHHHHHHHHHHHHHHHHhhhcCCccccccccccccCCCCCHHHHHHHHHHHHHHHhc
Q 014319 26 VYVPGLRIPKPVDFSQSLGDNLSKNMVERLSALRTRIVVMAAQEGPTITRTRRKSATQHGGSTLADLHQALEDYLPVLLG 105 (427)
Q Consensus 26 ~~~p~lk~t~~vd~~~~l~~~I~~~~~~~l~~lR~~i~~~~~~~~~~~~~~~r~~~~~~~~s~~~~l~~~l~~Y~~~L~~ 105 (427)
+.+| ||+|++|||+.||++||.++|.++.+.++++|..+. ++|+.++++.+. +..++.|.+||.+|..
T Consensus 2 i~lp-lK~T~~VD~~~pL~~yI~~~Y~q~~~~y~~dl~~l~-~LR~~~~~~~~~----------~sg~e~L~~YY~qL~~ 69 (385)
T cd09249 2 IPLG-LKETKDVDFSVPLKDFILEHYSEDGSEYEDEIADLM-DLRQACRTPSRD----------EAGVELLMSYFSQLGF 69 (385)
T ss_pred CCCC-CCcCCccChHHHHHHHHHHHcCCCHHHHHHHHHHHH-HHHHHhcCCCCC----------hhHHHHHHHHHHHHHH
Confidence 4567 999999999999999999999988888888887665 667666555421 2335678899999998
Q ss_pred ccCCCCCc--cceeeEEeeeCCCCCcceeecchHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCCCHHHHHHHHHH
Q 014319 106 LVKDGSQL--QYKVQFVWVNQEDEAEETAISNAWYEVLSVLHLMAMLSLSQANLLLLPRTSADGYQPKVSEESRRASVDI 183 (427)
Q Consensus 106 l~~~~~~~--~~~v~F~W~dsl~~~~~~~~~sl~fEkasVLfNiaal~s~~aa~~~~~~~~~~~~~~~~t~dglK~A~~~ 183 (427)
+..+++.. ..+|.|+|+|+|++ .+++++|+.||++|||||||++|+++|+ .+++.+++|+|.||++
T Consensus 70 Le~RFp~~~~~~~v~FtW~Dsf~~-~~~~q~sl~fEkasVLFNigAl~Sqlaa-----------~~~r~t~eGlK~A~~~ 137 (385)
T cd09249 70 LENRFFPPTRQMGILFTWYDSFTG-VPVSQQNLLLEKASILFNIGALYTQIGT-----------RCNRQTQAGLESAVDA 137 (385)
T ss_pred HHhhCCCCcccccceeeeeccCCC-CccccccHHHHHHHHHHhHHHHHHHHHH-----------HhccCCchhHHHHHHH
Confidence 65443221 25789999999986 7899999999999999999999999998 2678899999999999
Q ss_pred HHHHhhHHHHHHhccCCCCCccccCCCCCCCCHHHHHHHHHHHhHHHHHHHHHHhhhhccchhhH-----HHHHHHHHHH
Q 014319 184 FLKAAGYLDCAVRHVLPQMSPELRRELPVDLAEGDLRALCLQALGQGVDIQLGMAIDSTKATLAV-----KRRLACEMVK 258 (427)
Q Consensus 184 fq~AAG~F~~l~e~~~~~~~~~~~~~~p~Dl~~~~L~aL~~lmLAQAQE~~~~KAi~~~k~k~sl-----iAKLA~q~s~ 258 (427)
||+|||||+||++++. +.|+ .||++++|.+|..|||||||||+|+|++. +++++++ |||+|.|+++
T Consensus 138 FQ~AAG~F~~L~e~~~-~~ps-------~Dls~~~L~~L~~LmLAQAQEc~~~Kai~-d~~k~~~~~i~kiAklAaqvs~ 208 (385)
T cd09249 138 FQRAAGVLNYLKETFT-HTPS-------YDMSPAMLSVLVKMMLAQAQECLFEKISL-PGIRNEFFTLVKMAQEAAKVGE 208 (385)
T ss_pred HHHHHHHHHHHHHhcc-CCCC-------CcCCHHHHHHHHHHHHHHHHHHHHHHHHh-ccCcchhhHHHHHHHHHHHHHH
Confidence 9999999999999954 3343 79999999999999999999999999998 8888888 8999999999
Q ss_pred HHHHHHHHHhcCCCCCCCCcccccccch-hHHH-----HHHHHHHHHhhhhcc
Q 014319 259 YWQQAQDNIMNLPLANGWGEKHKLFVKW-KYFE-----AKAAAYYYHGLILDE 305 (427)
Q Consensus 259 ~Y~~A~~~l~~~~~~~~~~~k~~~~~~W-k~~~-----~kA~A~y~~a~~~~~ 305 (427)
+|++|.+.+++..... .++.+| .+++ |+|+||||+|..+.+
T Consensus 209 ~Y~~a~~al~s~~~~~------~i~~~W~~~v~~K~~~f~AlA~Y~~A~~l~~ 255 (385)
T cd09249 209 VYMQVHTAMNQAPVKE------NIPYSWSSLVQVKAHHYNALAHYFVATLLID 255 (385)
T ss_pred HHHHHHHHHhcccccc------cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 9999999998655422 466789 6665 467999999999885
No 14
>KOG2220 consensus Predicted signal transduction protein [General function prediction only]
Probab=100.00 E-value=8.2e-45 Score=392.02 Aligned_cols=323 Identities=19% Similarity=0.243 Sum_probs=253.6
Q ss_pred EEEecCCCCCCCCcccchHHhhHHHHHHHHHHHHHHHHHHHHhhhcCCccccccccccccCCCCCHHHHHHHHHHHHHHH
Q 014319 24 VSVYVPGLRIPKPVDFSQSLGDNLSKNMVERLSALRTRIVVMAAQEGPTITRTRRKSATQHGGSTLADLHQALEDYLPVL 103 (427)
Q Consensus 24 ~~~~~p~lk~t~~vd~~~~l~~~I~~~~~~~l~~lR~~i~~~~~~~~~~~~~~~r~~~~~~~~s~~~~l~~~l~~Y~~~L 103 (427)
+.+.+| ||+|.++||..||..||...|.+.-+..-++|..+. ++|.. +.. ........+.+.+||.+|
T Consensus 4 ~~~~~~-lK~t~e~d~~~~l~~~i~~~y~~~~~~~~~~i~~~~-~lR~~--------a~~--~~~~~~~~~~l~~yy~qL 71 (714)
T KOG2220|consen 4 LPLPIP-LKKTSEVDFLKPLSKLIQLSYGESQENRNDAIEKLE-KLRNN--------ANG--VPKPSEGLEVLKRYYGQL 71 (714)
T ss_pred cccCcc-cccCCccchhhhHHHHHHHhcCCchhhHHHHHHHHH-HHHhc--------ccc--CCcchhhhHHHHHHHHHH
Confidence 337788 999999999999999999987554443323333222 11111 111 111122345788999999
Q ss_pred hcccCCCCCccceee-EEeeeCCCCC-cceeecchHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCCCHHHHHHHH
Q 014319 104 LGLVKDGSQLQYKVQ-FVWVNQEDEA-EETAISNAWYEVLSVLHLMAMLSLSQANLLLLPRTSADGYQPKVSEESRRASV 181 (427)
Q Consensus 104 ~~l~~~~~~~~~~v~-F~W~dsl~~~-~~~~~~sl~fEkasVLfNiaal~s~~aa~~~~~~~~~~~~~~~~t~dglK~A~ 181 (427)
+.+..+.+-...++. |+|+|+|+++ .++++.++.||++|||||||++++++|+ +.++.+.|++|.||
T Consensus 72 ~~l~~r~p~~~~~~~~F~W~d~~~~~~~~~~~~~L~fEka~vLfni~~l~s~iaa-----------~~~~~~~d~~k~a~ 140 (714)
T KOG2220|consen 72 CYLESRFPMSENEIEEFTWKDAFDSGAKKVTQISLGFEKACVLFNIAALYSQIAA-----------HQSRETVDGYKAAI 140 (714)
T ss_pred HHHHHhcCcccccccceeeeecccCCccceeeccchhhHHHHHHHHHHHHHHHHH-----------HhccCchHHHHHHH
Confidence 987644433223333 9999999876 8899999999999999999999999999 24567899999999
Q ss_pred HHHHHHhhHHHHHHhccCCCCCccccCCCCCCCCHHHHHHHHHHHhHHHHHHHHHHhhhhccchhhHHHHHHHHHHHHHH
Q 014319 182 DIFLKAAGYLDCAVRHVLPQMSPELRRELPVDLAEGDLRALCLQALGQGVDIQLGMAIDSTKATLAVKRRLACEMVKYWQ 261 (427)
Q Consensus 182 ~~fq~AAG~F~~l~e~~~~~~~~~~~~~~p~Dl~~~~L~aL~~lmLAQAQE~~~~KAi~~~k~k~sliAKLA~q~s~~Y~ 261 (427)
.+||.|||+|.|++.+.+..-+. .|++++++.++..+|+||||||++.+++. +++++++|+||+.|++.+|.
T Consensus 141 ~~fq~aagaf~~l~~~~~~~~~~-------~d~~~~~l~~~~~l~~AqAQec~f~ks~~-d~~~~~~iaKis~q~~~fy~ 212 (714)
T KOG2220|consen 141 AHFQAAAGAFRYLSRDALGVEPL-------VDLSSLTLVFLRFLMLAQAQECFFYKSLT-DNPKPSIIAKLSAQVVLFYE 212 (714)
T ss_pred HHHHHHHHHHHhhcHHhcCcccc-------cccCHHHHHHHHHhhHHhhchheeehhhc-CCcchHHHHHHHHHHHHHHH
Confidence 99999999999999443443333 79999999999999999999999999999 99999999999999999999
Q ss_pred HHHHHHhcCCCCCCCCcccccccch-hHH-----HHHHHHHHHHhhhhccCCcchhHHHHHHHHHHHHHHHHHHHHHHhh
Q 014319 262 QAQDNIMNLPLANGWGEKHKLFVKW-KYF-----EAKAAAYYYHGLILDEGNTEKFHGMAVAALQAADEYFKESKKACEA 335 (427)
Q Consensus 262 ~A~~~l~~~~~~~~~~~k~~~~~~W-k~~-----~~kA~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~l~~a~~~~~~ 335 (427)
+|++.++.... . .+...| .++ .+.++++||++....+ .+++|++|++|+.+...+++|.+...+
T Consensus 213 ~Al~~~~~~~~-~------~~~~~w~~~~~~k~~~~~~v~~~~~~~~~~e---~~~~ge~i~~l~~~~~~l~~Aqk~~~~ 282 (714)
T KOG2220|consen 213 EALKAQIGARA-D------RITKEWLTLVAAKFARFAGVAYYYQSLFLHE---KSKDGEAIARLQLSLLMLSEAQKCSFG 282 (714)
T ss_pred HHHHHHHHhhh-c------ccchhHHHHHHHHHHHHHHHHHHHHHHHhhh---hhhhhHHHHHHHHHHHHHHHHHHhhcc
Confidence 99999998211 1 355567 444 3466999999999999 999999999999999999999987543
Q ss_pred cccCCCCCCCCChhhHHHHHHhhccchhhhHhhhcCCceeeccCCC--CCCCCCCCccccccccCCCC
Q 014319 336 FNVAPPLSRNPPLWGTMKYLSEKIPKDTSSKVRINRDLYSYEKIME--TAPTLPDFALALKPDEFQLP 401 (427)
Q Consensus 336 ~~~~~~~~~~~~~~~~~k~l~~~i~~~~l~~a~~nnd~IYhe~VP~--~lp~l~~~~l~vkp~~f~lP 401 (427)
. ..++. ...+.++ ..++.+++|||||||++||+ ++|+|+++.+ |+|.+++-|
T Consensus 283 ~--------~~~~~----~~~~~~~-~~lk~a~kdNdFIyhe~vp~~~~l~~~~~~~~-vkp~~~~~l 336 (714)
T KOG2220|consen 283 E--------FTDVI----ESLSSLE-KALKEAKKDNDFIYHERVPKVSELPPLKAAQL-VKPLPWAVL 336 (714)
T ss_pred c--------chhHh----hhhhHHH-HHHHhhhcccchhhhcccccccccCCcchhHh-hcCCCcccc
Confidence 1 11122 2335554 46888999999999999994 8999999999 999998877
No 15
>KOG2220 consensus Predicted signal transduction protein [General function prediction only]
Probab=98.26 E-value=1.7e-06 Score=95.08 Aligned_cols=183 Identities=14% Similarity=0.055 Sum_probs=141.8
Q ss_pred CcEEEecCCCCCCCCcccchHHhhHHHHHHH-HHHHHHHHHHHHHhhhcCCccccccccccccCCCCCHHHHHHHHHHHH
Q 014319 22 GEVSVYVPGLRIPKPVDFSQSLGDNLSKNMV-ERLSALRTRIVVMAAQEGPTITRTRRKSATQHGGSTLADLHQALEDYL 100 (427)
Q Consensus 22 ~~~~~~~p~lk~t~~vd~~~~l~~~I~~~~~-~~l~~lR~~i~~~~~~~~~~~~~~~r~~~~~~~~s~~~~l~~~l~~Y~ 100 (427)
..+.+...||+++..++...+|..+|..++. ++-..+.+.|..+. ..+++.++++|+.+.. +.+.+.-..++
T Consensus 99 ~~~~~~~L~fEka~vLfni~~l~s~iaa~~~~~~~d~~k~a~~~fq-~aagaf~~l~~~~~~~------~~~~d~~~~~l 171 (714)
T KOG2220|consen 99 KKVTQISLGFEKACVLFNIAALYSQIAAHQSRETVDGYKAAIAHFQ-AAAGAFRYLSRDALGV------EPLVDLSSLTL 171 (714)
T ss_pred cceeeccchhhHHHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHH-HHHHHHHhhcHHhcCc------ccccccCHHHH
Confidence 3477788899999999999999999999998 78888888887765 6778888888642221 22233334455
Q ss_pred HHHhcccCCCCCccceeeEEeeeCCCCCcceeecchHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCCCHHHHHHH
Q 014319 101 PVLLGLVKDGSQLQYKVQFVWVNQEDEAEETAISNAWYEVLSVLHLMAMLSLSQANLLLLPRTSADGYQPKVSEESRRAS 180 (427)
Q Consensus 101 ~~L~~l~~~~~~~~~~v~F~W~dsl~~~~~~~~~sl~fEkasVLfNiaal~s~~aa~~~~~~~~~~~~~~~~t~dglK~A 180 (427)
..+..+.... .-.+.| ++++.+ .+..+--..+++.+++||.+|++.++.+ + .++.+.++++.+
T Consensus 172 ~~~~~l~~Aq---AQec~f--~ks~~d-~~~~~~iaKis~q~~~fy~~Al~~~~~~-----~------~~~~~~~w~~~~ 234 (714)
T KOG2220|consen 172 VFLRFLMLAQ---AQECFF--YKSLTD-NPKPSIIAKLSAQVVLFYEEALKAQIGA-----R------ADRITKEWLTLV 234 (714)
T ss_pred HHHHHhhHHh---hchhee--ehhhcC-CcchHHHHHHHHHHHHHHHHHHHHHHHh-----h------hcccchhHHHHH
Confidence 5555554322 124555 888876 4555666789999999999999999985 1 467888999999
Q ss_pred HHHHHHHhhHHHHHHhccCCCCCccccCCCCCCCCHHHHHHHHHHHhHHHHHHHHH
Q 014319 181 VDIFLKAAGYLDCAVRHVLPQMSPELRRELPVDLAEGDLRALCLQALGQGVDIQLG 236 (427)
Q Consensus 181 ~~~fq~AAG~F~~l~e~~~~~~~~~~~~~~p~Dl~~~~L~aL~~lmLAQAQE~~~~ 236 (427)
...|++++|++.|....+... ++ .|..+-.+-.+..+||+|||+|..+
T Consensus 235 ~~k~~~~~~v~~~~~~~~~~e-~~-------~~ge~i~~l~~~~~~l~~Aqk~~~~ 282 (714)
T KOG2220|consen 235 AAKFARFAGVAYYYQSLFLHE-KS-------KDGEAIARLQLSLLMLSEAQKCSFG 282 (714)
T ss_pred HHHHHHHHHHHHHHHHHHhhh-hh-------hhhHHHHHHHHHHHHHHHHHHhhcc
Confidence 999999999999999986543 33 6999999999999999999999875
No 16
>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....
Probab=69.46 E-value=8.1 Score=24.51 Aligned_cols=30 Identities=30% Similarity=0.111 Sum_probs=24.2
Q ss_pred HHHHHHHhhhhccCCcchhHHHHHHHHHHHHHH
Q 014319 293 AAAYYYHGLILDEGNTEKFHGMAVAALQAADEY 325 (427)
Q Consensus 293 A~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~ 325 (427)
|.+++..|..... .+++.+||.+++.|.++
T Consensus 1 a~~~~~~g~~~~~---~~~~~~A~~~~~~al~~ 30 (34)
T PF00515_consen 1 AEAYYNLGNAYFQ---LGDYEEALEYYQRALEL 30 (34)
T ss_dssp HHHHHHHHHHHHH---TT-HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHH---hCCchHHHHHHHHHHHH
Confidence 4578889999998 89999999999888754
No 17
>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....
Probab=66.54 E-value=10 Score=23.77 Aligned_cols=30 Identities=27% Similarity=0.249 Sum_probs=23.5
Q ss_pred HHHHHHHhhhhccCCcchhHHHHHHHHHHHHHH
Q 014319 293 AAAYYYHGLILDEGNTEKFHGMAVAALQAADEY 325 (427)
Q Consensus 293 A~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~ 325 (427)
|-++++.|..... .+++.+|+.+++.|.++
T Consensus 1 a~~~~~lg~~~~~---~~~~~~A~~~~~~al~l 30 (34)
T PF07719_consen 1 AEAWYYLGQAYYQ---LGNYEEAIEYFEKALEL 30 (34)
T ss_dssp HHHHHHHHHHHHH---TT-HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHH---hCCHHHHHHHHHHHHHH
Confidence 3567888999998 89999999888887654
No 18
>cd02682 MIT_AAA_Arch MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in mostly archaebacterial AAA-ATPases. The molecular function of the MIT domain is unclear.
Probab=66.42 E-value=13 Score=29.39 Aligned_cols=38 Identities=18% Similarity=0.134 Sum_probs=33.2
Q ss_pred HHHHHHHHhhhhccCCcchhHHHHHHHHHHHHHHHHHHHHH
Q 014319 292 KAAAYYYHGLILDEGNTEKFHGMAVAALQAADEYFKESKKA 332 (427)
Q Consensus 292 kA~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~l~~a~~~ 332 (427)
.|..+...|..++. .+++++||.+|+.|-++|-++.+.
T Consensus 5 ~A~~~a~~AVe~D~---~gr~~eAi~~Y~~aIe~L~q~~~~ 42 (75)
T cd02682 5 MARKYAINAVKAEK---EGNAEDAITNYKKAIEVLSQIVKN 42 (75)
T ss_pred HHHHHHHHHHHHHh---cCCHHHHHHHHHHHHHHHHHHHHh
Confidence 45667778888999 999999999999999999888765
No 19
>cd02681 MIT_calpain7_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in the nuclear thiol protease PalBH. The molecular function of the MIT domain is unclear.
Probab=61.86 E-value=17 Score=28.70 Aligned_cols=39 Identities=18% Similarity=0.076 Sum_probs=33.9
Q ss_pred HHHHHHHHHhhhhccCCcchhHHHHHHHHHHHHHHHHHHHHH
Q 014319 291 AKAAAYYYHGLILDEGNTEKFHGMAVAALQAADEYFKESKKA 332 (427)
Q Consensus 291 ~kA~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~l~~a~~~ 332 (427)
-+|+.+-..|+.++. .++|.+||.+++.|.+++..+.+.
T Consensus 4 ~~Ai~~a~~Ave~D~---~g~y~eA~~~Y~~aie~l~~~~~~ 42 (76)
T cd02681 4 RDAVQFARLAVQRDQ---EGRYSEAVFYYKEAAQLLIYAEMA 42 (76)
T ss_pred HHHHHHHHHHHHHHH---ccCHHHHHHHHHHHHHHHHHHHHh
Confidence 467788888999999 999999999999999999777543
No 20
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=48.12 E-value=67 Score=36.92 Aligned_cols=48 Identities=19% Similarity=0.085 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHHHhhccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhHHHHHHhc
Q 014319 142 SVLHLMAMLSLSQANLLLLPRTSADGYQPKVSEESRRASVDIFLKAAGYLDCAVRH 197 (427)
Q Consensus 142 sVLfNiaal~s~~aa~~~~~~~~~~~~~~~~t~dglK~A~~~fq~AAG~F~~l~e~ 197 (427)
+|+||+|.++.+++.+.+. .++.|-+.+..+..-+..|--+|+||+.+
T Consensus 751 ~v~FN~a~v~kkla~s~lr--------~~k~t~eev~~a~~~le~a~r~F~~ls~~ 798 (1018)
T KOG2002|consen 751 SVKFNLALVLKKLAESILR--------LEKRTLEEVLEAVKELEEARRLFTELSKN 798 (1018)
T ss_pred hHHhHHHHHHHHHHHHHHh--------cccccHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3899999888777775442 34567888999999999999999999887
No 21
>cd02683 MIT_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in proteins with unknown function, co-occuring with an as yet undescribed domain. The molecular function of the MIT domain is unclear.
Probab=42.48 E-value=52 Score=25.94 Aligned_cols=38 Identities=18% Similarity=0.134 Sum_probs=32.7
Q ss_pred HHHHHHHHhhhhccCCcchhHHHHHHHHHHHHHHHHHHHHH
Q 014319 292 KAAAYYYHGLILDEGNTEKFHGMAVAALQAADEYFKESKKA 332 (427)
Q Consensus 292 kA~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~l~~a~~~ 332 (427)
+|..+...|...+. .++|.+||.+++.|.+.+..+.+.
T Consensus 5 ~a~~l~~~Ave~D~---~g~y~eAl~~Y~~aie~l~~~lk~ 42 (77)
T cd02683 5 AAKEVLKRAVELDQ---EGRFQEALVCYQEGIDLLMQVLKG 42 (77)
T ss_pred HHHHHHHHHHHHHH---hccHHHHHHHHHHHHHHHHHHHhh
Confidence 45667777888888 999999999999999999888764
No 22
>PF04212 MIT: MIT (microtubule interacting and transport) domain; InterPro: IPR007330 The MIT domain is found in vacuolar sorting proteins, spastin (probable ATPase involved in the assembly or function of nuclear protein complexes), and a sorting nexin, which may play a role in intracellular trafficking.; PDB: 2DL1_A 2JQK_A 1WR0_A 2CPT_A 2JQH_A 2V6Y_A 2JQ9_A 2K3W_A 1YXR_A 3EAB_E ....
Probab=41.84 E-value=62 Score=24.45 Aligned_cols=38 Identities=24% Similarity=0.179 Sum_probs=33.6
Q ss_pred HHHHHHHHhhhhccCCcchhHHHHHHHHHHHHHHHHHHHHH
Q 014319 292 KAAAYYYHGLILDEGNTEKFHGMAVAALQAADEYFKESKKA 332 (427)
Q Consensus 292 kA~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~l~~a~~~ 332 (427)
+|..+...|...++ .++|.+||-+++.|.+.+..+.+.
T Consensus 4 ~A~~~~~~Av~~D~---~g~~~~A~~~Y~~ai~~l~~~~~~ 41 (69)
T PF04212_consen 4 KAIELIKKAVEADE---AGNYEEALELYKEAIEYLMQALKS 41 (69)
T ss_dssp HHHHHHHHHHHHHH---TTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH---CCCHHHHHHHHHHHHHHHHHHhcc
Confidence 56777788898999 999999999999999999998865
No 23
>cd02678 MIT_VPS4 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in intracellular protein transport proteins of the AAA-ATPase family. The molecular function of the MIT domain is unclear.
Probab=38.16 E-value=1.5e+02 Score=22.97 Aligned_cols=38 Identities=26% Similarity=0.147 Sum_probs=32.1
Q ss_pred HHHHHHHHhhhhccCCcchhHHHHHHHHHHHHHHHHHHHHH
Q 014319 292 KAAAYYYHGLILDEGNTEKFHGMAVAALQAADEYFKESKKA 332 (427)
Q Consensus 292 kA~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~l~~a~~~ 332 (427)
+|.....+|+..+. .++|-+|+.++..|.+.+..+.+.
T Consensus 5 ~A~~l~~~Av~~D~---~g~y~eA~~~Y~~aie~l~~~~k~ 42 (75)
T cd02678 5 KAIELVKKAIEEDN---AGNYEEALRLYQHALEYFMHALKY 42 (75)
T ss_pred HHHHHHHHHHHHHH---cCCHHHHHHHHHHHHHHHHHHHhh
Confidence 56667778888888 999999999999999998887754
No 24
>smart00745 MIT Microtubule Interacting and Trafficking molecule domain.
Probab=37.23 E-value=1.4e+02 Score=22.88 Aligned_cols=38 Identities=29% Similarity=0.189 Sum_probs=31.5
Q ss_pred HHHHHHHHhhhhccCCcchhHHHHHHHHHHHHHHHHHHHHH
Q 014319 292 KAAAYYYHGLILDEGNTEKFHGMAVAALQAADEYFKESKKA 332 (427)
Q Consensus 292 kA~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~l~~a~~~ 332 (427)
+|..+.-+|+..++ .+++-+|+.+++.|.+.+..+.+.
T Consensus 7 ~A~~li~~Av~~d~---~g~~~eAl~~Y~~a~e~l~~~~~~ 44 (77)
T smart00745 7 KAKELISKALKADE---AGDYEEALELYKKAIEYLLEGIKV 44 (77)
T ss_pred HHHHHHHHHHHHHH---cCCHHHHHHHHHHHHHHHHHHhcc
Confidence 55666667888888 899999999999999999887753
No 25
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=36.41 E-value=73 Score=23.97 Aligned_cols=36 Identities=8% Similarity=0.125 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhHHH
Q 014319 137 WYEVLSVLHLMAMLSLSQANLLLLPRTSADGYQPKVSEESRRASVDIFLKAAGYLD 192 (427)
Q Consensus 137 ~fEkasVLfNiaal~s~~aa~~~~~~~~~~~~~~~~t~dglK~A~~~fq~AAG~F~ 192 (427)
..+.+.+++|+|.++...+ ..++|..+|++|--+|+
T Consensus 42 ~~~~a~~~~~lg~~~~~~g--------------------~~~~A~~~~~~al~i~~ 77 (78)
T PF13424_consen 42 HPDTANTLNNLGECYYRLG--------------------DYEEALEYYQKALDIFE 77 (78)
T ss_dssp HHHHHHHHHHHHHHHHHTT--------------------HHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHcC--------------------CHHHHHHHHHHHHhhhc
Confidence 4467999999998775333 26789999999987764
No 26
>KOG2460 consensus Signal recognition particle, subunit Srp68 [Intracellular trafficking, secretion, and vesicular transport]
Probab=35.38 E-value=1.2e+02 Score=32.78 Aligned_cols=48 Identities=25% Similarity=0.270 Sum_probs=42.2
Q ss_pred hHHHHHHHHHHHHhhhhccCCcchhHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 014319 287 KYFEAKAAAYYYHGLILDEGNTEKFHGMAVAALQAADEYFKESKKACEAFN 337 (427)
Q Consensus 287 k~~~~kA~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~l~~a~~~~~~~~ 337 (427)
+.+.|||.-++|.|..... .+||-||+|-+--|...++++.+..+.+.
T Consensus 416 ~~~~fkafRC~~iA~sY~a---~~K~~EAlALy~Ra~sylqe~~~~l~s~~ 463 (593)
T KOG2460|consen 416 KKLYFKAFRCFYIAVSYQA---KKKYSEALALYVRAYSYLQEVNSELESFK 463 (593)
T ss_pred HHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHhhhhchh
Confidence 6667799889999999999 99999999999999999999988776553
No 27
>cd02679 MIT_spastin MIT: domain contained within Microtubule Interacting and Trafficking molecules. This MIT domain sub-family is found in the AAA protein spastin, a probable ATPase involved in the assembly or function of nuclear protein complexes; spastins might also be involved in microtubule dynamics. The molecular function of the MIT domain is unclear.
Probab=35.23 E-value=1.5e+02 Score=23.54 Aligned_cols=60 Identities=18% Similarity=0.118 Sum_probs=43.1
Q ss_pred HHHHHHHHhhhhccCCcchhHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCCChhhHHHHHHhhcc
Q 014319 292 KAAAYYYHGLILDEGNTEKFHGMAVAALQAADEYFKESKKACEAFNVAPPLSRNPPLWGTMKYLSEKIP 360 (427)
Q Consensus 292 kA~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~k~l~~~i~ 360 (427)
+|+.+-=+|+..++ .+.--.||.+|+.|...|.++....- +.....+.|+....+.+++.
T Consensus 7 ~A~~~I~kaL~~dE---~g~~e~Al~~Y~~gi~~l~eg~ai~~------~~~~~~~~w~~ar~~~~Km~ 66 (79)
T cd02679 7 QAFEEISKALRADE---WGDKEQALAHYRKGLRELEEGIAVPV------PSAGVGSQWERARRLQQKMK 66 (79)
T ss_pred HHHHHHHHHhhhhh---cCCHHHHHHHHHHHHHHHHHHcCCCC------CcccccHHHHHHHHHHHHHH
Confidence 56666667777888 67777899999999999998875421 11234457887778888775
No 28
>smart00028 TPR Tetratricopeptide repeats. Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.
Probab=33.58 E-value=46 Score=18.82 Aligned_cols=26 Identities=19% Similarity=-0.047 Sum_probs=17.9
Q ss_pred HHHHHhhhhccCCcchhHHHHHHHHHHHH
Q 014319 295 AYYYHGLILDEGNTEKFHGMAVAALQAAD 323 (427)
Q Consensus 295 A~y~~a~~~~~~~~~~k~GeaIa~L~~A~ 323 (427)
+++..|..+.. .+++.+++.+++.+.
T Consensus 3 ~~~~~a~~~~~---~~~~~~a~~~~~~~~ 28 (34)
T smart00028 3 ALYNLGNAYLK---LGDYDEALEYYEKAL 28 (34)
T ss_pred HHHHHHHHHHH---HhhHHHHHHHHHHHH
Confidence 45566666676 777777887776654
No 29
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=32.96 E-value=2.8e+02 Score=22.84 Aligned_cols=28 Identities=25% Similarity=0.087 Sum_probs=16.9
Q ss_pred HHHHHhhhhccCCcchhHHHHHHHHHHHHHH
Q 014319 295 AYYYHGLILDEGNTEKFHGMAVAALQAADEY 325 (427)
Q Consensus 295 A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~ 325 (427)
.+|+.|..... .+++.+++..++.+.+.
T Consensus 87 ~~~~la~~~~~---~g~~~~A~~~~~~al~~ 114 (135)
T TIGR02552 87 PYFHAAECLLA---LGEPESALKALDLAIEI 114 (135)
T ss_pred HHHHHHHHHHH---cCCHHHHHHHHHHHHHh
Confidence 34455555555 56677777777665544
No 30
>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A ....
Probab=32.23 E-value=71 Score=19.81 Aligned_cols=29 Identities=28% Similarity=0.249 Sum_probs=21.2
Q ss_pred HHHHHHhhhhccCCcchhHHHHHHHHHHHHHH
Q 014319 294 AAYYYHGLILDEGNTEKFHGMAVAALQAADEY 325 (427)
Q Consensus 294 ~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~ 325 (427)
-+++..|..... .+++.+|+..++.|.+.
T Consensus 2 ~~~~~lg~~y~~---~~~~~~A~~~~~~a~~~ 30 (34)
T PF13181_consen 2 EAYYNLGKIYEQ---LGDYEEALEYFEKALEL 30 (34)
T ss_dssp HHHHHHHHHHHH---TTSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH---cCCHHHHHHHHHHHHhh
Confidence 356777777777 77888888887776643
No 31
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=31.53 E-value=2.2e+02 Score=21.21 Aligned_cols=32 Identities=19% Similarity=-0.020 Sum_probs=23.4
Q ss_pred HHHHHHHhhhhccCCcchhHHHHHHHHHHHHHHHH
Q 014319 293 AAAYYYHGLILDEGNTEKFHGMAVAALQAADEYFK 327 (427)
Q Consensus 293 A~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~l~ 327 (427)
+.+++-.|..... .+++-+|+.+++.|.+..+
T Consensus 46 a~~~~~lg~~~~~---~g~~~~A~~~~~~al~i~~ 77 (78)
T PF13424_consen 46 ANTLNNLGECYYR---LGDYEEALEYYQKALDIFE 77 (78)
T ss_dssp HHHHHHHHHHHHH---TTHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH---cCCHHHHHHHHHHHHhhhc
Confidence 4667777777777 7777778888877776654
No 32
>PF08629 PDE8: PDE8 phosphodiesterase; InterPro: IPR013938 The cyclic nucleotide phosphodiesterases (PDE) comprise a group of enzymes that degrade the phosphodiester bond in the second messenger molecules cAMP and cGMP. They are divided into 11 families. They regulate the localisation, duration and amplitude of cyclic nucleotide signalling within subcellular domains. PDEs are therefore important for signal transduction. PDE enzymes are often targets for pharmacological inhibition due to their unique tissue distribution, structural properties, and functional properties. Inhibitors include: Roflumilast for chronic obstructive pulmonary disease and asthma [], Sildenafil for erectile dysfunction [] and Cilostazol for peripheral arterial occlusive disease [], amongst others. Retinal 3',5'-cGMP phosphodiesterase is located in photoreceptor outer segments: it is light activated, playing a pivotal role in signal transduction. In rod cells, PDE is oligomeric, comprising an alpha-, a beta- and 2 gamma-subunits, while in cones, PDE is a homodimer of alpha chains, which are associated with several smaller subunits. Both rod and cone PDEs catalyse the hydrolysis of cAMP or cGMP to the corresponding nucleoside 5' monophosphates, both enzymes also binding cGMP with high affinity. The cGMP-binding sites are located in the N-terminal half of the protein sequence, while the catalytic core resides in the C-terminal portion. This region is found at the N terminus of members of PDE8 phosphodiesterase family []. Phosphodiesterase 8 (PDE8) regulates chemotaxis of activated lymphocytes [].
Probab=31.18 E-value=24 Score=25.27 Aligned_cols=8 Identities=50% Similarity=0.800 Sum_probs=7.1
Q ss_pred CCcccccc
Q 014319 1 MGCFLSTS 8 (427)
Q Consensus 1 ~~~~~~~~ 8 (427)
|||+-|+.
T Consensus 1 mgcapsih 8 (52)
T PF08629_consen 1 MGCAPSIH 8 (52)
T ss_pred CCcCCcEe
Confidence 99999985
No 33
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=27.87 E-value=1.1e+02 Score=19.72 Aligned_cols=28 Identities=18% Similarity=0.031 Sum_probs=19.5
Q ss_pred HHHHHhhhhccCCcchhHHHHHHHHHHHHHH
Q 014319 295 AYYYHGLILDEGNTEKFHGMAVAALQAADEY 325 (427)
Q Consensus 295 A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~ 325 (427)
|+...|..... .++|.+||.+++.|..+
T Consensus 1 al~~Lg~~~~~---~g~~~~Ai~~y~~aL~l 28 (36)
T PF13176_consen 1 ALNNLGRIYRQ---QGDYEKAIEYYEQALAL 28 (36)
T ss_dssp HHHHHHHHHHH---CT-HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHH---cCCHHHHHHHHHHHHHh
Confidence 35556777777 78888888888886633
No 34
>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]
Probab=26.91 E-value=53 Score=32.09 Aligned_cols=33 Identities=30% Similarity=0.297 Sum_probs=30.0
Q ss_pred HHHHHHHhhhhccCCcchhHHHHHHHHHHHHHHHHH
Q 014319 293 AAAYYYHGLILDEGNTEKFHGMAVAALQAADEYFKE 328 (427)
Q Consensus 293 A~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~l~~ 328 (427)
+-+||+.|..+.. ..+|-++|..|+.|.+++.+
T Consensus 78 vk~h~flg~~~l~---s~~~~eaI~~Lqra~sl~r~ 110 (284)
T KOG4642|consen 78 VKAHYFLGQWLLQ---SKGYDEAIKVLQRAYSLLRE 110 (284)
T ss_pred HHHHHHHHHHHHh---hccccHHHHHHHHHHHHHhc
Confidence 4799999999999 99999999999999888765
No 35
>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins. Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.
Probab=26.87 E-value=98 Score=28.81 Aligned_cols=43 Identities=23% Similarity=0.217 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhHHHHHHhc
Q 014319 139 EVLSVLHLMAMLSLSQANLLLLPRTSADGYQPKVSEESRRASVDIFLKAAGYLDCAVRH 197 (427)
Q Consensus 139 EkasVLfNiaal~s~~aa~~~~~~~~~~~~~~~~t~dglK~A~~~fq~AAG~F~~l~e~ 197 (427)
.+--.++|+|..|+.+|- + +.| ..+|-.+|.+|..+|+-..+.
T Consensus 67 ~~hdAlw~lGnA~ts~A~--l-------------~~d-~~~A~~~F~kA~~~FqkAv~~ 109 (186)
T PF06552_consen 67 NKHDALWCLGNAYTSLAF--L-------------TPD-TAEAEEYFEKATEYFQKAVDE 109 (186)
T ss_dssp T-HHHHHHHHHHHHHHHH--H-----------------HHHHHHHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHHHHh--h-------------cCC-hHHHHHHHHHHHHHHHHHHhc
Confidence 345689999999999986 2 222 368889999999999876543
No 36
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=26.47 E-value=1.2e+02 Score=19.39 Aligned_cols=32 Identities=16% Similarity=-0.039 Sum_probs=19.8
Q ss_pred HHHHHHhhhhccCCcchhHHHHHHHHHHHHHHHHH
Q 014319 294 AAYYYHGLILDEGNTEKFHGMAVAALQAADEYFKE 328 (427)
Q Consensus 294 ~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~l~~ 328 (427)
.++...|..+.. .+++.+|+..++.|....+.
T Consensus 3 ~~~~~la~~~~~---~g~~~~A~~~~~~al~~~~~ 34 (42)
T PF13374_consen 3 SALNNLANAYRA---QGRYEEALELLEEALEIRER 34 (42)
T ss_dssp HHHHHHHHHHHH---CT-HHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHh---hhhcchhhHHHHHHHHHHHH
Confidence 345556666777 77888888777777655443
No 37
>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A ....
Probab=25.54 E-value=1e+02 Score=22.40 Aligned_cols=29 Identities=24% Similarity=0.198 Sum_probs=17.3
Q ss_pred HHHHHHhhhhccCCcchhHHHHHHHHHHHHHH
Q 014319 294 AAYYYHGLILDEGNTEKFHGMAVAALQAADEY 325 (427)
Q Consensus 294 ~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~ 325 (427)
..++..|..+.. .++|.+||..++.|.+.
T Consensus 4 ~~~~~~g~~~~~---~~~~~~A~~~~~~ai~~ 32 (69)
T PF13414_consen 4 EAWYNLGQIYFQ---QGDYEEAIEYFEKAIEL 32 (69)
T ss_dssp HHHHHHHHHHHH---TTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH---cCCHHHHHHHHHHHHHc
Confidence 455556666666 66666666666655543
No 38
>PF02071 NSF: Aromatic-di-Alanine (AdAR) repeat ; InterPro: IPR000744 Regulated exocytosis of neurotransmitters and hormones, as well as intracellular traffic, requires fusion of two lipid bilayers. SNARE proteins are thought to form a protein bridge, the SNARE complex, between an incoming vesicle and the acceptor compartment. SNARE proteins contribute to the specificity of membrane fusion, implying that the mechanisms by which SNAREs are targeted to subcellular compartments are important for specific docking and fusion of vesicles. This mechanism involves a family of conserved proteins, members of which appear to function at all sites of constitutive and regulated secretion in eukaryotes []. Among them are 2 types of cytosolic protein, NSF (N-ethyl-maleimide-sensitive protein) and the SNAPs (alpha-, beta- and gamma-soluble NSF attachment proteins). The yeast vesicular fusion protein, sec17, a cytoplasmic peripheral membrane protein involved in vesicular transport between the endoplasmic reticulum and the golgi apparatus, shows a high degree of sequence similarity to the alpha-SNAP family. SNAP-25 and its non-neuronal homologue Syndet/SNAP-23 are synthesized as soluble proteins in the cytosol. Both SNAP-25 and Syndet/SNAP-23 are palmitoylated at cysteine residues clustered in a loop between two N- and C-terminal coils and palmitoylation is essential for membrane binding and plasma membrane targeting. The C-terminal and the N-terminal helices of SNAP-25, are each targeted to the plasma membrane by two distinct cysteine-rich domains and appear to regulate the availability of SNAP to form complexes with SNARE [].; GO: 0006886 intracellular protein transport
Probab=25.24 E-value=27 Score=17.83 Aligned_cols=12 Identities=25% Similarity=0.351 Sum_probs=8.0
Q ss_pred HHHHHHHHhhHH
Q 014319 180 SVDIFLKAAGYL 191 (427)
Q Consensus 180 A~~~fq~AAG~F 191 (427)
|.+++++||-||
T Consensus 1 A~~~y~~Aa~~y 12 (12)
T PF02071_consen 1 AIKCYEKAAECY 12 (12)
T ss_pred CcHHHHHHHhhC
Confidence 356777777665
No 39
>smart00671 SEL1 Sel1-like repeats. These represent a subfamily of TPR (tetratricopeptide repeat) sequences.
Probab=25.17 E-value=1.2e+02 Score=18.97 Aligned_cols=15 Identities=20% Similarity=0.326 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHhh
Q 014319 175 ESRRASVDIFLKAAG 189 (427)
Q Consensus 175 dglK~A~~~fq~AAG 189 (427)
...+.|+.+|++||-
T Consensus 19 ~d~~~A~~~~~~Aa~ 33 (36)
T smart00671 19 KDLEKALEYYKKAAE 33 (36)
T ss_pred cCHHHHHHHHHHHHH
Confidence 346789999999983
No 40
>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]
Probab=21.91 E-value=1.2e+02 Score=34.63 Aligned_cols=39 Identities=21% Similarity=0.228 Sum_probs=34.9
Q ss_pred HHHHHHhhhhccCCcchhHHHHHHHHHHHHHHHHHHHHHHhhc
Q 014319 294 AAYYYHGLILDEGNTEKFHGMAVAALQAADEYFKESKKACEAF 336 (427)
Q Consensus 294 ~A~y~~a~~~~~~~~~~k~GeaIa~L~~A~~~l~~a~~~~~~~ 336 (427)
+|.||.|...+. .+++|+||-++..|+ .+..|.++||+-
T Consensus 968 AAcYhlaR~YEn---~g~v~~Av~FfTrAq-afsnAIRlcKEn 1006 (1416)
T KOG3617|consen 968 AACYHLARMYEN---DGDVVKAVKFFTRAQ-AFSNAIRLCKEN 1006 (1416)
T ss_pred HHHHHHHHHhhh---hHHHHHHHHHHHHHH-HHHHHHHHHHhc
Confidence 789999999999 999999999999998 568899999864
No 41
>PF04783 DUF630: Protein of unknown function (DUF630); InterPro: IPR006868 This region is sometimes found at the N terminus of putative plant bZIP proteins IPR006867 from INTERPRO. The function of this conserved region is not known.
Probab=20.44 E-value=48 Score=25.09 Aligned_cols=9 Identities=44% Similarity=0.693 Sum_probs=6.6
Q ss_pred CCccccccc
Q 014319 1 MGCFLSTSK 9 (427)
Q Consensus 1 ~~~~~~~~~ 9 (427)
|||..|+-.
T Consensus 1 MGC~~SK~d 9 (60)
T PF04783_consen 1 MGCSQSKLD 9 (60)
T ss_pred CCCCccccc
Confidence 888888743
Done!