Query 022328
Match_columns 299
No_of_seqs 28 out of 30
Neff 2.7
Searched_HMMs 46136
Date Fri Mar 29 02:42:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022328.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022328hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF08045 CDC14: Cell division 100.0 3.4E-57 7.3E-62 412.2 13.0 241 29-273 1-255 (257)
2 cd00020 ARM Armadillo/beta-cat 95.8 0.056 1.2E-06 39.9 7.2 97 134-232 19-115 (120)
3 cd00020 ARM Armadillo/beta-cat 93.9 0.18 3.9E-06 37.1 5.6 74 162-237 5-78 (120)
4 KOG2160 Armadillo/beta-catenin 92.1 0.87 1.9E-05 44.8 8.9 119 123-242 124-244 (342)
5 cd03561 VHS VHS domain family; 89.2 2.1 4.6E-05 35.3 7.5 96 160-255 33-132 (133)
6 PF05536 Neurochondrin: Neuroc 89.1 7.5 0.00016 39.6 12.7 139 137-294 114-261 (543)
7 PF06371 Drf_GBD: Diaphanous G 77.0 24 0.00052 29.2 8.8 53 26-78 66-120 (187)
8 PF01365 RYDR_ITPR: RIH domain 76.4 4.7 0.0001 35.0 4.6 118 137-265 76-194 (207)
9 PF10508 Proteasom_PSMB: Prote 75.8 12 0.00026 37.4 7.8 80 142-222 177-259 (503)
10 cd03565 VHS_Tom1 VHS domain fa 65.9 25 0.00055 29.8 6.6 87 130-256 47-135 (141)
11 PF00790 VHS: VHS domain; Int 65.4 21 0.00046 29.6 6.0 104 130-239 13-120 (140)
12 PLN03200 cellulose synthase-in 65.2 31 0.00068 41.3 9.1 84 134-217 201-285 (2102)
13 cd03567 VHS_GGA VHS domain fam 59.7 48 0.001 28.4 7.3 82 129-221 46-137 (139)
14 cd03561 VHS VHS domain family; 58.8 49 0.0011 27.3 7.0 78 129-217 45-133 (133)
15 PF05536 Neurochondrin: Neuroc 53.9 2.7E+02 0.0058 28.7 13.1 99 134-240 69-170 (543)
16 PF11841 DUF3361: Domain of un 53.6 39 0.00085 30.2 5.9 138 61-220 7-150 (160)
17 PLN03200 cellulose synthase-in 51.7 54 0.0012 39.4 8.1 212 23-237 10-261 (2102)
18 smart00185 ARM Armadillo/beta- 49.1 33 0.00072 21.4 3.6 37 196-234 2-38 (41)
19 PF05004 IFRD: Interferon-rela 46.3 2.7E+02 0.0058 26.5 10.8 111 179-297 101-238 (309)
20 PF13618 Gluconate_2-dh3: Gluc 45.8 1.4E+02 0.003 24.0 7.5 78 179-290 2-85 (131)
21 PF00514 Arm: Armadillo/beta-c 43.6 18 0.00039 23.8 1.8 35 195-231 1-35 (41)
22 PF00790 VHS: VHS domain; Int 41.2 1.5E+02 0.0033 24.6 7.3 78 130-215 51-133 (140)
23 KOG2027 Spindle pole body prot 40.5 23 0.00049 35.5 2.7 61 209-273 22-95 (388)
24 KOG4199 Uncharacterized conser 37.6 35 0.00077 34.9 3.5 75 150-225 90-164 (461)
25 smart00288 VHS Domain present 37.5 1.8E+02 0.004 24.1 7.2 96 160-255 33-130 (133)
26 PF04826 Arm_2: Armadillo-like 37.2 3.5E+02 0.0076 25.3 9.9 106 165-288 13-119 (254)
27 cd03572 ENTH_epsin_related ENT 32.1 3.2E+02 0.007 23.3 8.2 98 176-296 13-117 (122)
28 KOG1087 Cytosolic sorting prot 30.8 1.4E+02 0.003 30.9 6.4 78 137-255 53-132 (470)
29 smart00288 VHS Domain present 30.0 3.1E+02 0.0066 22.8 7.4 78 130-218 46-132 (133)
30 PF01480 PWI: PWI domain; Int 28.3 36 0.00078 26.0 1.5 38 229-266 24-61 (77)
31 PF14664 RICTOR_N: Rapamycin-i 26.8 3.4E+02 0.0074 26.7 8.1 103 132-238 118-226 (371)
32 PF13328 HD_4: HD domain; PDB: 26.8 1.6E+02 0.0034 24.5 5.1 57 207-274 23-79 (153)
33 cd03569 VHS_Hrs_Vps27p VHS dom 26.6 3.6E+02 0.0079 22.9 7.4 82 129-221 49-138 (142)
34 PF03224 V-ATPase_H_N: V-ATPas 24.1 1.6E+02 0.0034 27.3 5.1 93 140-234 168-267 (312)
35 PF12755 Vac14_Fab1_bd: Vacuol 23.4 2.3E+02 0.0049 22.8 5.3 61 149-217 34-97 (97)
36 cd03569 VHS_Hrs_Vps27p VHS dom 22.2 4.1E+02 0.0088 22.6 6.8 79 161-240 38-117 (142)
37 PF09090 MIF4G_like_2: MIF4G l 21.1 2.3E+02 0.0049 26.0 5.4 92 150-241 59-161 (253)
No 1
>PF08045 CDC14: Cell division control protein 14, SIN component; InterPro: IPR012535 Cdc14 is a component of the septation initiation network (SIN) and is required for the localisation and activity of Sid1. Sid1 is a protein kinase that localises asymmetrically to one spindle pole body (SPB) in anaphase disappears prior to cell separation [], [].
Probab=100.00 E-value=3.4e-57 Score=412.18 Aligned_cols=241 Identities=29% Similarity=0.404 Sum_probs=221.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhhcchhhHHHhchHHHHHHHhhhhccccchhhhhccCCcCCccchhhhhccccc
Q 022328 29 GELANSLKQQRVQREITLALRTGLRDARAEFSFLRVRGLRSLLKILRSVAESDSTIHFFCQSQSVPELQVVPVLFQHSFK 108 (299)
Q Consensus 29 ~elv~sl~~qR~yRevtlaLR~gLRDa~AeFSFlR~rglr~ll~fl~s~a~sd~~i~LF~~sQs~~~lQvvPvLF~hsl~ 108 (299)
||-.-|+..++||+|.++++|+|||++++.|+|++.++.++.-++.|+++.++++|..|+++|+++++|++|+.|+|.+.
T Consensus 1 ME~~ls~~~d~L~s~~~~~ir~GLrq~~~lL~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~eF~~LQ~~Fe~Nl~ 80 (257)
T PF08045_consen 1 MESLLSLAFDNLYSEDTPKIRKGLRQLEGLLAQLCLSIRQSRNSSKRSSAASRKGLELFRDDPALREFQKLQEGFEWNLA 80 (257)
T ss_pred CchHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhccccccccccchhhccchhhhhcccchhHHHHHHhHHHhhcchh
Confidence 45667899999999999999999999999999999999888888889999999999999999999999999999999994
Q ss_pred ccccCCccccccccccCCC-ccccCCCChHHHHHHHHHHhhccccCcchHHHhhhhHHHHHHHHHH-hhcCcchhhhHHH
Q 022328 109 EDSVDERVTSLDHIFTVDP-MRVTSPSTDAEVALALRVLEGCCLLHRESAILAHKHKAIKILMNIL-STRGALEQGACLD 186 (299)
Q Consensus 109 ~~~~~~~V~~l~~i~g~ep-~kit~psTdsEI~LALrVLeGccLLh~~s~~~a~r~~AvevllniL-~~rg~leq~AcLD 186 (299)
...|.++++++|.++ ++.++|+||.+|++||||||||||+||+|+.++||+++++++||+| .++++.+|+||||
T Consensus 81 ----~~Lv~~l~~l~~~~~~~~~~~~~~~~li~~aL~vLQGl~LLHp~Sr~lF~r~~~m~lll~LL~~~~~~~i~~a~L~ 156 (257)
T PF08045_consen 81 ----SRLVSWLDRLLGRGSHIDGDSPSNDSLIALALRVLQGLCLLHPPSRKLFHREQNMELLLDLLSPSNPPAIQSACLD 156 (257)
T ss_pred ----hhhHHHHHHHHhhcccccCcccchhHHHHHHHHHHHHHHHcCchHHHHHhhhhhHHHHHHHhccCCCchHHHHHHH
Confidence 678999999999999 8999999999999999999999999999999999999999999999 5689999999999
Q ss_pred HHHHHHhCCChhhhhhhhhccHHHHHHHHhhcccccchhhhHhHHHHHHhhcccCCCCCCc------------ccHHHHH
Q 022328 187 ALTSLMLDSSANQLDFEACNGIEEVAELIRDKQVDENLRLRCGEFLLLLIGHVNGRQLSPM------------ATIHEDI 254 (299)
Q Consensus 187 tLl~lmvDSs~N~~dFE~~~Gl~~Va~llK~~q~d~~vRlKC~EFLl~yl~~~~~~~~~~~------------a~~~ed~ 254 (299)
||+|+|+|+|+|+|+||+++|++.|++++|++++++++||||+||||||++++.++..+.- -+-++++
T Consensus 157 tLv~iLld~p~N~r~FE~~~Gl~~v~~llk~~~~~~~~r~K~~EFL~fyl~~E~~~~~~~~~~~~~~~~~~~t~~eKq~l 236 (257)
T PF08045_consen 157 TLVCILLDSPENQRDFEELNGLSTVCSLLKSKSTDRELRLKCIEFLYFYLMPETPSIPPGSSSSGSEGRATKTTEEKQEL 236 (257)
T ss_pred HHHHHHHcChHHHHHHHHhCCHHHHHHHHccccccHHHhHHHHHHHHHHHcccCCCCCcccccccCCCcCcccHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999864321 2355666
Q ss_pred HHHhchhhHHHHHHhhhcc
Q 022328 255 RRLLGEKSASLIWAASQFG 273 (299)
Q Consensus 255 ~~llGe~~asliwaa~~fg 273 (299)
-+-.+.++.++|-+...++
T Consensus 237 l~~~~~~vd~Lv~dL~~~~ 255 (257)
T PF08045_consen 237 LGRYLSNVDDLVEDLNELK 255 (257)
T ss_pred HHHhcccHHHHHHHHHHhc
Confidence 6667777888887766554
No 2
>cd00020 ARM Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.
Probab=95.79 E-value=0.056 Score=39.88 Aligned_cols=97 Identities=16% Similarity=0.172 Sum_probs=82.9
Q ss_pred CChHHHHHHHHHHhhccccCcchHHHhhhhHHHHHHHHHHhhcCcchhhhHHHHHHHHHhCCChhhhhhhhhccHHHHHH
Q 022328 134 STDAEVALALRVLEGCCLLHRESAILAHKHKAIKILMNILSTRGALEQGACLDALTSLMLDSSANQLDFEACNGIEEVAE 213 (299)
Q Consensus 134 sTdsEI~LALrVLeGccLLh~~s~~~a~r~~AvevllniL~~rg~leq~AcLDtLl~lmvDSs~N~~dFE~~~Gl~~Va~ 213 (299)
+++.-..-+++.|...|-..+++....-+..+++.++++|....+-.+..++=+|--+.-+.+++...+.+.+++..+.+
T Consensus 19 ~~~~~~~~a~~~l~~l~~~~~~~~~~~~~~~~i~~l~~~l~~~~~~v~~~a~~~L~~l~~~~~~~~~~~~~~g~l~~l~~ 98 (120)
T cd00020 19 SDENVQREAAWALSNLSAGNNDNIQAVVEAGGLPALVQLLKSEDEEVVKAALWALRNLAAGPEDNKLIVLEAGGVPKLVN 98 (120)
T ss_pred CCHHHHHHHHHHHHHHhcCCHHHHHHHHHCCChHHHHHHHhCCCHHHHHHHHHHHHHHccCcHHHHHHHHHCCChHHHHH
Confidence 34667788899999999988888888888899999999999988889999999999998888888888988899999999
Q ss_pred HHhhcccccchhhhHhHHH
Q 022328 214 LIRDKQVDENLRLRCGEFL 232 (299)
Q Consensus 214 llK~~q~d~~vRlKC~EFL 232 (299)
++.+. +.++|-.+..+|
T Consensus 99 ~l~~~--~~~~~~~a~~~l 115 (120)
T cd00020 99 LLDSS--NEDIQKNATGAL 115 (120)
T ss_pred HHhcC--CHHHHHHHHHHH
Confidence 99887 566776665554
No 3
>cd00020 ARM Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumor suppressor protein, and a number of other proteins. ARM has been implicated in mediating protein-protein interactions, but no common features among the target proteins recognized by the ARM repeats have been identified; related to the HEAT domain; three consecutive copies of the repeat are represented by this alignment model.
Probab=93.88 E-value=0.18 Score=37.15 Aligned_cols=74 Identities=19% Similarity=0.192 Sum_probs=64.5
Q ss_pred hhHHHHHHHHHHhhcCcchhhhHHHHHHHHHhCCChhhhhhhhhccHHHHHHHHhhcccccchhhhHhHHHHHHhh
Q 022328 162 KHKAIKILMNILSTRGALEQGACLDALTSLMLDSSANQLDFEACNGIEEVAELIRDKQVDENLRLRCGEFLLLLIG 237 (299)
Q Consensus 162 r~~AvevllniL~~rg~leq~AcLDtLl~lmvDSs~N~~dFE~~~Gl~~Va~llK~~q~d~~vRlKC~EFLl~yl~ 237 (299)
+...++.++++|....+.....++.+|-.+-.+++++...|-+.+|++.+.+++.+. +.++|..|+-.|.-+..
T Consensus 5 ~~~~i~~l~~~l~~~~~~~~~~a~~~l~~l~~~~~~~~~~~~~~~~i~~l~~~l~~~--~~~v~~~a~~~L~~l~~ 78 (120)
T cd00020 5 QAGGLPALVSLLSSSDENVQREAAWALSNLSAGNNDNIQAVVEAGGLPALVQLLKSE--DEEVVKAALWALRNLAA 78 (120)
T ss_pred HcCChHHHHHHHHcCCHHHHHHHHHHHHHHhcCCHHHHHHHHHCCChHHHHHHHhCC--CHHHHHHHHHHHHHHcc
Confidence 455788899999888778889999999999999999999999999999999999984 78999888888776653
No 4
>KOG2160 consensus Armadillo/beta-catenin-like repeat-containing protein [Posttranslational modification, protein turnover, chaperones]
Probab=92.14 E-value=0.87 Score=44.76 Aligned_cols=119 Identities=21% Similarity=0.219 Sum_probs=99.3
Q ss_pred ccCCCccccCCCChHHH-HHHHHHHhhccccCcchHHHhhhhHHHHHHHHHHhhcCcchh-hhHHHHHHHHHhCCChhhh
Q 022328 123 FTVDPMRVTSPSTDAEV-ALALRVLEGCCLLHRESAILAHKHKAIKILMNILSTRGALEQ-GACLDALTSLMLDSSANQL 200 (299)
Q Consensus 123 ~g~ep~kit~psTdsEI-~LALrVLeGccLLh~~s~~~a~r~~AvevllniL~~rg~leq-~AcLDtLl~lmvDSs~N~~ 200 (299)
=|-.|+---.-.+|++| ++|.|||--|.=+-|.|-..+=...|.+-|+-+|....+.+. +..|=|+-|++---++-+.
T Consensus 124 ggl~~ll~~l~~~~~~lR~~Aa~Vigt~~qNNP~~Qe~v~E~~~L~~Ll~~ls~~~~~~~r~kaL~AissLIRn~~~g~~ 203 (342)
T KOG2160|consen 124 GGLVPLLGYLENSDAELRELAARVIGTAVQNNPKSQEQVIELGALSKLLKILSSDDPNTVRTKALFAISSLIRNNKPGQD 203 (342)
T ss_pred cCHHHHHHHhcCCcHHHHHHHHHHHHHHHhcCHHHHHHHHHcccHHHHHHHHccCCCchHHHHHHHHHHHHHhcCcHHHH
Confidence 34444222334556666 799999999999999999999999999999999999888877 7888899999999999999
Q ss_pred hhhhhccHHHHHHHHhhcccccchhhhHhHHHHHHhhcccCC
Q 022328 201 DFEACNGIEEVAELIRDKQVDENLRLRCGEFLLLLIGHVNGR 242 (299)
Q Consensus 201 dFE~~~Gl~~Va~llK~~q~d~~vRlKC~EFLl~yl~~~~~~ 242 (299)
.|-..+|.+-..+++.+.+.+..++.|-..++- |+..+..+
T Consensus 204 ~fl~~~G~~~L~~vl~~~~~~~~lkrK~~~Ll~-~Ll~~~~s 244 (342)
T KOG2160|consen 204 EFLKLNGYQVLRDVLQSNNTSVKLKRKALFLLS-LLLQEDKS 244 (342)
T ss_pred HHHhcCCHHHHHHHHHcCCcchHHHHHHHHHHH-HHHHhhhh
Confidence 999999999999999999999999999875554 44444444
No 5
>cd03561 VHS VHS domain family; The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It has a superhelical structure similar to that of the ARM (Armadillo) repeats and is present at the N-termini of proteins involved in intracellular membrane trafficking. There are four general groups of VHS domain containing proteins based on their association with other domains. The first group consists of proteins of the STAM/EAST/Hbp family which has the domain composition VHS-SH3-ITAM. The second consists of proteins with a FYVE domain C-terminal to VHS. The third consists of GGA proteins with a domain composition VHS-GAT (GGA and TOM)-GAE (gamma-adaptin ear) domain. The fourth consists of proteins with a VHS domain alone or with domains other than those mentioned above. In GGA proteins, VHS domains are involved in cargo recognition in trans-Golgi, thereby having a general me
Probab=89.19 E-value=2.1 Score=35.25 Aligned_cols=96 Identities=14% Similarity=0.162 Sum_probs=70.1
Q ss_pred hhhhHHHHHHHHHHhhcCcchhhhHHHHHHHHHhCCCh-hhhhhhhhccHHHHHHHHhhc-ccccchhhhHhHHHHHHhh
Q 022328 160 AHKHKAIKILMNILSTRGALEQGACLDALTSLMLDSSA-NQLDFEACNGIEEVAELIRDK-QVDENLRLRCGEFLLLLIG 237 (299)
Q Consensus 160 a~r~~AvevllniL~~rg~leq~AcLDtLl~lmvDSs~-N~~dFE~~~Gl~~Va~llK~~-q~d~~vRlKC~EFLl~yl~ 237 (299)
.+-..|++.+..-|..+.+-+|.-.|..|=+++--+.. =...+-.-.-+++..++++++ +++.+||.||.|++.-+--
T Consensus 33 ~~~k~a~raL~krl~~~n~~vql~AL~lLd~~vkNcg~~f~~~i~s~~fl~~l~~l~~~~~~~~~~Vk~kil~ll~~W~~ 112 (133)
T cd03561 33 NGPKEAARAIRKKIKYGNPHVQLLALTLLELLVKNCGKPFHLQVADKEFLLELVKIAKNSPKYDPKVREKALELILAWSE 112 (133)
T ss_pred CCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCChHHHHHHhhHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHH
Confidence 56677888888888888888998888888888887755 445555556677888899887 9999999999999977654
Q ss_pred cccC--CCCCCcccHHHHHH
Q 022328 238 HVNG--RQLSPMATIHEDIR 255 (299)
Q Consensus 238 ~~~~--~~~~~~a~~~ed~~ 255 (299)
.... .+.|.+..+++.+|
T Consensus 113 ~f~~~~~~~~~~~~~y~~lk 132 (133)
T cd03561 113 SFGGHSEDLPGIEDAYKLLK 132 (133)
T ss_pred HhcCCCccchHHHHHHHHHh
Confidence 4333 22444444544443
No 6
>PF05536 Neurochondrin: Neurochondrin
Probab=89.14 E-value=7.5 Score=39.64 Aligned_cols=139 Identities=19% Similarity=0.187 Sum_probs=95.0
Q ss_pred HHHHHHHHHHhhccccCcchHHHhhhhHHHHHHHHHHhhcCcchhhhHHHHHHHHHhCCCh-----hhhhhhhhccHHHH
Q 022328 137 AEVALALRVLEGCCLLHRESAILAHKHKAIKILMNILSTRGALEQGACLDALTSLMLDSSA-----NQLDFEACNGIEEV 211 (299)
Q Consensus 137 sEI~LALrVLeGccLLh~~s~~~a~r~~AvevllniL~~rg~leq~AcLDtLl~lmvDSs~-----N~~dFE~~~Gl~~V 211 (299)
+=+..++.+|.+.+ -|+.-+...-++.++..+.++... ++..+-..+-.|+.+|-+... +...|... +.++
T Consensus 114 ~~v~dalqcL~~Ia-s~~~G~~aLl~~g~v~~L~ei~~~-~~~~~E~Al~lL~~Lls~~~~~~~~~~~~~l~~i--l~~L 189 (543)
T PF05536_consen 114 ETVDDALQCLLAIA-SSPEGAKALLESGAVPALCEIIPN-QSFQMEIALNLLLNLLSRLGQKSWAEDSQLLHSI--LPSL 189 (543)
T ss_pred hHHHHHHHHHHHHH-cCcHhHHHHHhcCCHHHHHHHHHh-CcchHHHHHHHHHHHHHhcchhhhhhhHHHHHHH--HHHH
Confidence 66788999999999 888888888889999999999988 555566667777777777763 23333333 3556
Q ss_pred HHHHhhcccccchhhhHhHHHHHHhhccc--CCCCCCcccHHHHHHHHhchhhHHHHHHhh--hccCCCChHHhHHHHHH
Q 022328 212 AELIRDKQVDENLRLRCGEFLLLLIGHVN--GRQLSPMATIHEDIRRLLGEKSASLIWAAS--QFGSTLNPEERLMALHI 287 (299)
Q Consensus 212 a~llK~~q~d~~vRlKC~EFLl~yl~~~~--~~~~~~~a~~~ed~~~llGe~~asliwaa~--~fgstlD~e~r~~aL~~ 287 (299)
++.++..+ .+.|..-++||..++-+.. +...++ ++++-+-||... -+.|.+.|++|-.+|+.
T Consensus 190 a~~fs~~~--~~~kfell~~L~~~L~~~~~~~~~~~~------------~~~W~~~l~~gl~~iL~sr~~~~~R~~al~L 255 (543)
T PF05536_consen 190 ARDFSSFH--GEDKFELLEFLSAFLPRSPILPLESPP------------SPKWLSDLRKGLRDILQSRLTPSQRDPALNL 255 (543)
T ss_pred HHHHHhhc--cchHHHHHHHHHHhcCcCCccccccCC------------hhhhHHHHHHHHHHHHhcCCCHHHHHHHHHH
Confidence 66666443 4456666999999988883 223333 233333333333 45789999999999765
Q ss_pred HHHHHHh
Q 022328 288 QARRVLE 294 (299)
Q Consensus 288 qA~~vLe 294 (299)
-| -+++
T Consensus 256 aa-~Ll~ 261 (543)
T PF05536_consen 256 AA-SLLD 261 (543)
T ss_pred HH-HHHH
Confidence 44 3443
No 7
>PF06371 Drf_GBD: Diaphanous GTPase-binding Domain; InterPro: IPR010473 Diaphanous-related formins (Drfs) are a family of formin homology (FH) proteins that act as effectors of Rho small GTPases during growth factor-induced cytoskeletal remodelling, stress fibre formation, and cell division []. Drf proteins are characterised by a variety of shared domains: an N-terminal GTPase-binding domain (GBD), formin-homology domains FH1, FH2 (IPR003104 from INTERPRO) and FH3 (IPR010472 from INTERPRO), and a C-terminal conserved Dia-autoregulatory domain (DAD) that binds the GBD. This entry represents the GBD, which is a bifunctional autoinhibitory domain that interacts with and is regulated by activated Rho family members. Mammalian Drf3 contains a CRIB-like motif within its GBD for binding to Cdc42, which is required for Cdc42 to activate and guide Drf3 towards the cell cortex where it remodels the actin skeleton [].; GO: 0003779 actin binding, 0017048 Rho GTPase binding, 0030036 actin cytoskeleton organization; PDB: 3OBV_A 2BNX_A 3EG5_D 2BAP_B 3O4X_B 1Z2C_B 2F31_A.
Probab=76.96 E-value=24 Score=29.21 Aligned_cols=53 Identities=26% Similarity=0.422 Sum_probs=37.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhcch--hhHHHhchHHHHHHHhhhh
Q 022328 26 TAVGELANSLKQQRVQREITLALRTGLRDARAEF--SFLRVRGLRSLLKILRSVA 78 (299)
Q Consensus 26 ~~v~elv~sl~~qR~yRevtlaLR~gLRDa~AeF--SFlR~rglr~ll~fl~s~a 78 (299)
....-.++.+.....-.++-..|+..||-....| .|+-..|+..|++.|....
T Consensus 66 ~~p~~~i~~L~~~~~~~~~L~~L~v~Lrt~~~~Wv~~Fl~~~G~~~L~~~L~~~~ 120 (187)
T PF06371_consen 66 SSPEWYIKKLKSRPSTSKILKSLRVSLRTNPISWVQEFLELGGLEALLNVLSKLN 120 (187)
T ss_dssp HHHHHHHHHHTTT--HHHHHHHHHHHHHHS-HHHHHHH-HHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHccCccHHHHHHHHHHhccCCchHHHHhccCCCHHHHHHHHHHhh
Confidence 4555566777665555577778888888877777 8999999999999998843
No 8
>PF01365 RYDR_ITPR: RIH domain; InterPro: IPR000699 Ryanodine and Inositol 1,4,5-trisphosphate (IP3) receptors are intracellular Ca2+-release channels. They become activated upon binding of their respective ligands, Ca2+ and IP3, opening an intrgral Ca2+ channel. Ryanodine receptor activation is a key component of muscular contraction, their activation allowing release of Ca2+ from the sarcoplasmic reticulum. Mutations in the ryanodine receptor lead to malignant hyperthermia susceptibility the and central core disease of muscle.; GO: 0005262 calcium channel activity, 0070588 calcium ion transmembrane transport, 0016020 membrane; PDB: 1N4K_A 2XOA_A 3UJ0_B 3UJ4_A 3T8S_A.
Probab=76.41 E-value=4.7 Score=35.02 Aligned_cols=118 Identities=25% Similarity=0.243 Sum_probs=38.9
Q ss_pred HHHHHHHHHHhhccccCcchHHHhhhhHHHHHHHHHHhhcCcchhhhHHHHHHHHHhCCChhhhhhhhhccHHHHHHHHh
Q 022328 137 AEVALALRVLEGCCLLHRESAILAHKHKAIKILMNILSTRGALEQGACLDALTSLMLDSSANQLDFEACNGIEEVAELIR 216 (299)
Q Consensus 137 sEI~LALrVLeGccLLh~~s~~~a~r~~AvevllniL~~rg~leq~AcLDtLl~lmvDSs~N~~dFE~~~Gl~~Va~llK 216 (299)
.=+..+.|+|...|--.+.-..+.++|.. .++.++.......-..-+|+|.+++=|.+.-...+.+-. ++++..+++
T Consensus 76 ~l~~~~~~lL~~f~~~n~~NQ~~l~~~~~--~l~~~~~~~~~~~~~~~~d~l~~i~~dN~~L~~~i~e~~-I~~~i~ll~ 152 (207)
T PF01365_consen 76 ELFRLCYRLLRQFCRGNRENQKYLFKHLD--FLISIFMQLQIGYGLGALDVLTEIFRDNPELCESISEEH-IEKFIELLR 152 (207)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHH-------HHCCCH-TTHHHHHHHHHHHTT----------------------
T ss_pred HHHHHHHHHHHHHHHhCHHHHHHHHHHHh--HHHHHHHHhhccCCchHHHHHHHHHHCcHHHHHHhhHHH-HHHHHHHHH
Confidence 44578899999999999888888888755 235555554444445679999999999999999998877 999999999
Q ss_pred hcccccchhhhHhHHHHHHhhcccCCCCCCcccHHHHHH-HHhchhhHHH
Q 022328 217 DKQVDENLRLRCGEFLLLLIGHVNGRQLSPMATIHEDIR-RLLGEKSASL 265 (299)
Q Consensus 217 ~~q~d~~vRlKC~EFLl~yl~~~~~~~~~~~a~~~ed~~-~llGe~~asl 265 (299)
..|.+.. ||-|+-.=.. .++.|....|+=|. .++.++-|.+
T Consensus 153 ~~gr~~~-------~L~~L~~lc~-~~g~pI~~nQ~lI~~~ll~~~~~dl 194 (207)
T PF01365_consen 153 KHGRQPR-------YLDFLSSLCV-CNGNPIPENQNLICQELLLEGEADL 194 (207)
T ss_dssp --------------------------------------------------
T ss_pred HcCCChH-------HHHHHhhhcc-cCCcCCHHHHHHHHHHHcCCCCccE
Confidence 9774432 5554433332 24567777887777 6776655444
No 9
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=75.79 E-value=12 Score=37.38 Aligned_cols=80 Identities=20% Similarity=0.201 Sum_probs=67.6
Q ss_pred HHHHHhhccccCcchHHHhhhhH---HHHHHHHHHhhcCcchhhhHHHHHHHHHhCCChhhhhhhhhccHHHHHHHHhhc
Q 022328 142 ALRVLEGCCLLHRESAILAHKHK---AIKILMNILSTRGALEQGACLDALTSLMLDSSANQLDFEACNGIEEVAELIRDK 218 (299)
Q Consensus 142 ALrVLeGccLLh~~s~~~a~r~~---AvevllniL~~rg~leq~AcLDtLl~lmvDSs~N~~dFE~~~Gl~~Va~llK~~ 218 (299)
=+||++=++-+...|...+.-.. .++-+++-|.+.-++.|-+|++.|--+-- ++.+..-.++.+.++++.+++.+.
T Consensus 177 R~Rv~el~v~i~~~S~~~~~~~~~sgll~~ll~eL~~dDiLvqlnalell~~La~-~~~g~~yL~~~gi~~~L~~~l~~~ 255 (503)
T PF10508_consen 177 RCRVYELLVEIASHSPEAAEAVVNSGLLDLLLKELDSDDILVQLNALELLSELAE-TPHGLQYLEQQGIFDKLSNLLQDS 255 (503)
T ss_pred HHHHHHHHHHHHhcCHHHHHHHHhccHHHHHHHHhcCccHHHHHHHHHHHHHHHc-ChhHHHHHHhCCHHHHHHHHHhcc
Confidence 36888877777777766666555 67888888888889999999998877777 999999899999999999999999
Q ss_pred cccc
Q 022328 219 QVDE 222 (299)
Q Consensus 219 q~d~ 222 (299)
..|+
T Consensus 256 ~~dp 259 (503)
T PF10508_consen 256 EEDP 259 (503)
T ss_pred ccCC
Confidence 9998
No 10
>cd03565 VHS_Tom1 VHS domain family, Tom1 subfamily; The VHS domain is an essential part of Tom1 (Target of myb1 - retroviral oncogene) protein. The VHS domain has a superhelical structure similar to the structure of the ARM repeats and is present at the very N-termini of proteins. It is a right-handed superhelix of eight alpha helices. The VHS domain has been found in a number of proteins, some of which have been implicated in intracellular trafficking and sorting. The VHS domain of the Tom1 protein is essential for the negative regulation of Interleukin-1 and Tumor Necrosis Factor-induced signaling pathways.
Probab=65.86 E-value=25 Score=29.79 Aligned_cols=87 Identities=20% Similarity=0.260 Sum_probs=49.5
Q ss_pred ccCCCChHHHHHHHHHHhhccccCcchHHHhhhhHHHHHHHHHHhhcCcchhhhHHHHHHHHHhCCChhhhhhhhhccHH
Q 022328 130 VTSPSTDAEVALALRVLEGCCLLHRESAILAHKHKAIKILMNILSTRGALEQGACLDALTSLMLDSSANQLDFEACNGIE 209 (299)
Q Consensus 130 it~psTdsEI~LALrVLeGccLLh~~s~~~a~r~~AvevllniL~~rg~leq~AcLDtLl~lmvDSs~N~~dFE~~~Gl~ 209 (299)
|.+......+-+||.+|+-|.-+ |-.-.|+..|-+.++|-.
T Consensus 47 l~~~~n~~v~l~aL~LLe~~vkN---CG~~fh~eiask~Fl~e~------------------------------------ 87 (141)
T cd03565 47 LNGNKNHKEVMLTLTVLETCVKN---CGHRFHVLVAKKDFIKDV------------------------------------ 87 (141)
T ss_pred HccCCCHHHHHHHHHHHHHHHHH---ccHHHHHHHHHHHhhhHH------------------------------------
Confidence 44333445566688888887754 444566655555554320
Q ss_pred HHHHHHhhc-ccccchhhhHhHHHHHHhhcccCC-CCCCcccHHHHHHH
Q 022328 210 EVAELIRDK-QVDENLRLRCGEFLLLLIGHVNGR-QLSPMATIHEDIRR 256 (299)
Q Consensus 210 ~Va~llK~~-q~d~~vRlKC~EFLl~yl~~~~~~-~~~~~a~~~ed~~~ 256 (299)
..+++..+ ..+.+|+.||.|.+.=+--...+. +.+.+..+++.|++
T Consensus 88 -L~~~i~~~~~~~~~Vk~kil~li~~W~~~f~~~~~l~~i~~~y~~L~~ 135 (141)
T cd03565 88 -LVKLINPKNNPPTIVQEKVLALIQAWADAFRGSPDLTGVVEVYEELKK 135 (141)
T ss_pred -HHHHHcccCCCcHHHHHHHHHHHHHHHHHhCCCccchHHHHHHHHHHH
Confidence 22333322 357789999999988776544332 23445556665553
No 11
>PF00790 VHS: VHS domain; InterPro: IPR002014 The VHS domain is a ~140 residues long domain, whose name is derived from its occurrence in VPS-27, Hrs and STAM. Based on regions surrounding the domain, VHS-proteins can be divided into 4 groups []: STAM/EAST/Hbp which all share the domain composition VHS-SH3-ITAM and carry one or two ubiquitin-interacting motifs Proteins with a FYVE domain (IPR000306 from INTERPRO) C-terminal to VHS which also carry one or two ubiquitin-interacting motifs GGA proteins with a domain composition VHS-GAT (GGA and Tom1) homology domain VHS domain alone or in combination with domains other than those listed above The VHS domain is always found at the N- terminus of proteins suggesting that such topology is important for function. The domain is considered to have a general membrane targeting/cargo recognition role in vesicular trafficking []. Resolution of the crystal structure of the VHS domain of Drosophila Hrs and human Tom1 revealed that it consists of eight helices arranged in a double-layer superhelix []. The existence of conserved patches of residues on the domain surface suggests that VHS domains may be involved in protein-protein recognition and docking. Overall, sequence similarity is low (approx 25%) amongst domain family members.; GO: 0006886 intracellular protein transport; PDB: 1X5B_A 2L0T_B 1DVP_A 3LDZ_C 3ZYQ_A 4AVX_A 3G2U_A 3G2W_A 1UJJ_A 3G2V_A ....
Probab=65.36 E-value=21 Score=29.58 Aligned_cols=104 Identities=18% Similarity=0.186 Sum_probs=68.2
Q ss_pred ccCCCC-hHHHHHHHHHHhhccccCcchHHHhhhhHHHHHHHHHHhhcCcchhhhHHHHHHHHHhCCChh-hhhhhhhcc
Q 022328 130 VTSPST-DAEVALALRVLEGCCLLHRESAILAHKHKAIKILMNILSTRGALEQGACLDALTSLMLDSSAN-QLDFEACNG 207 (299)
Q Consensus 130 it~psT-dsEI~LALrVLeGccLLh~~s~~~a~r~~AvevllniL~~rg~leq~AcLDtLl~lmvDSs~N-~~dFE~~~G 207 (299)
.|++.. +.+....+.|.+-. ... ..+-+.|++.+..=|..+.+-+|.-+|-.|=+++--+.+. ...|-.-.=
T Consensus 13 ATs~~~~~~Dw~~~l~icD~i---~~~---~~~~kea~~~l~krl~~~~~~vq~~aL~lld~lvkNcg~~f~~ev~~~~f 86 (140)
T PF00790_consen 13 ATSESLPSPDWSLILEICDLI---NSS---PDGAKEAARALRKRLKHGNPNVQLLALTLLDALVKNCGPRFHREVASKEF 86 (140)
T ss_dssp HT-TTSSS--HHHHHHHHHHH---HTS---TTHHHHHHHHHHHHHTTSSHHHHHHHHHHHHHHHHHSHHHHHHHHTSHHH
T ss_pred HhCcCCCCCCHHHHHHHHHHH---HcC---CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHcCCHHHHHHHhHHHH
Confidence 355554 44566666655522 111 3444677888888888888889988877666666655322 233333344
Q ss_pred HHHHHHHHhhcccccc--hhhhHhHHHHHHhhcc
Q 022328 208 IEEVAELIRDKQVDEN--LRLRCGEFLLLLIGHV 239 (299)
Q Consensus 208 l~~Va~llK~~q~d~~--vRlKC~EFLl~yl~~~ 239 (299)
++.+.++++++..+.+ ||-|+.|.+.-+--..
T Consensus 87 l~~l~~l~~~~~~~~~~~Vk~k~l~ll~~W~~~f 120 (140)
T PF00790_consen 87 LDELVKLIKSKKTDPETPVKEKILELLQEWAEAF 120 (140)
T ss_dssp HHHHHHHHHHTTTHHHSHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHccCCCCchhHHHHHHHHHHHHHHHHH
Confidence 6789999999999988 9999999988776665
No 12
>PLN03200 cellulose synthase-interactive protein; Provisional
Probab=65.18 E-value=31 Score=41.25 Aligned_cols=84 Identities=17% Similarity=0.150 Sum_probs=69.8
Q ss_pred CChHHHHHHHHHHhhccccCcchHHHhhhhHHHHHHHHHHhhcC-cchhhhHHHHHHHHHhCCChhhhhhhhhccHHHHH
Q 022328 134 STDAEVALALRVLEGCCLLHRESAILAHKHKAIKILMNILSTRG-ALEQGACLDALTSLMLDSSANQLDFEACNGIEEVA 212 (299)
Q Consensus 134 sTdsEI~LALrVLeGccLLh~~s~~~a~r~~AvevllniL~~rg-~leq~AcLDtLl~lmvDSs~N~~dFE~~~Gl~~Va 212 (299)
.++.....|..+|.-.|.-+++.+...-+..+|..++.+|.... +-.|..|.-+|..+=-+++.+...--+++|+....
T Consensus 201 ~d~~lQ~eAa~aLa~Lass~ee~~~aVIeaGaVP~LV~LL~sg~~~~VRE~AA~AL~nLAs~s~e~r~~Iv~aGgIp~LI 280 (2102)
T PLN03200 201 GNSDAQANAASLLARLMMAFESSISKVLDAGAVKQLLKLLGQGNEVSVRAEAAGALEALSSQSKEAKQAIADAGGIPALI 280 (2102)
T ss_pred CCHHHHHHHHHHHHHHHcCChHHHHHHHHCCCHHHHHHHHccCCChHHHHHHHHHHHHHhcCCHHHHHHHHHCCCHHHHH
Confidence 44566677888888778777878888889999999999996543 45688889999888889999999999999999999
Q ss_pred HHHhh
Q 022328 213 ELIRD 217 (299)
Q Consensus 213 ~llK~ 217 (299)
+++..
T Consensus 281 ~lL~s 285 (2102)
T PLN03200 281 NATVA 285 (2102)
T ss_pred HHHhC
Confidence 99874
No 13
>cd03567 VHS_GGA VHS domain family, GGA subfamily; GGA (Golgi-localized, Gamma-ear-containing, Arf-binding) comprise a subfamily of ubiquitously expressed, monomeric, motif-binding cargo/clathrin adaptor proteins. The VHS domain has a superhelical structure similar to the structure of the ARM (Armadillo) repeats and is present at the N-termini of proteins. GGA proteins have a multidomain structure consisting of an N-terminal VHS domain linked by a short proline-rich linker to a GAT (GGA and TOM) domain, which is followed by a long flexible linker to the C-terminal appendage, GAE (gamma-adaptin ear) domain. The VHS domain of GGA proteins binds to the acidic-cluster dileucine (DxxLL) motif found on the cytoplasmic tails of cargo proteins trafficked between the trans-Golgi network and the endosomal system.
Probab=59.73 E-value=48 Score=28.37 Aligned_cols=82 Identities=21% Similarity=0.294 Sum_probs=55.1
Q ss_pred cccCCCChHHHHHHHHHHhhccccCcchHHHhhhhHHHHH----HHHHHhhc------CcchhhhHHHHHHHHHhCCChh
Q 022328 129 RVTSPSTDAEVALALRVLEGCCLLHRESAILAHKHKAIKI----LMNILSTR------GALEQGACLDALTSLMLDSSAN 198 (299)
Q Consensus 129 kit~psTdsEI~LALrVLeGccLLh~~s~~~a~r~~Avev----llniL~~r------g~leq~AcLDtLl~lmvDSs~N 198 (299)
||.++ +..+..+||.+|+-|.-+| -.-.|+..|-+- ++.++... .+..+.-+|..+-.-
T Consensus 46 rl~~~-n~~v~l~AL~LLe~~vkNC---G~~fh~evas~~Fl~el~kl~~~k~~~~~~~~~Vk~kil~li~~W------- 114 (139)
T cd03567 46 KIQSP-QEKEALQALTVLEACMKNC---GERFHSEVGKFRFLNELIKLVSPKYLGSRTSEKVKTKIIELLYSW------- 114 (139)
T ss_pred HHcCC-CHHHHHHHHHHHHHHHHHc---CHHHHHHHHhHHHHHHHHHHhccccCCCCCCHHHHHHHHHHHHHH-------
Confidence 34444 3668899999999998654 445566666544 44555432 123556666655544
Q ss_pred hhhhhhhccHHHHHHHHhhcccc
Q 022328 199 QLDFEACNGIEEVAELIRDKQVD 221 (299)
Q Consensus 199 ~~dFE~~~Gl~~Va~llK~~q~d 221 (299)
...|...+.+.++-..||..|+=
T Consensus 115 ~~~f~~~p~~~~~Y~~Lk~~G~i 137 (139)
T cd03567 115 TLELPHEPKIKEAYDMLKKQGII 137 (139)
T ss_pred HHHhcccchHHHHHHHHHHCCCc
Confidence 45788899999999999999863
No 14
>cd03561 VHS VHS domain family; The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It has a superhelical structure similar to that of the ARM (Armadillo) repeats and is present at the N-termini of proteins involved in intracellular membrane trafficking. There are four general groups of VHS domain containing proteins based on their association with other domains. The first group consists of proteins of the STAM/EAST/Hbp family which has the domain composition VHS-SH3-ITAM. The second consists of proteins with a FYVE domain C-terminal to VHS. The third consists of GGA proteins with a domain composition VHS-GAT (GGA and TOM)-GAE (gamma-adaptin ear) domain. The fourth consists of proteins with a VHS domain alone or with domains other than those mentioned above. In GGA proteins, VHS domains are involved in cargo recognition in trans-Golgi, thereby having a general me
Probab=58.83 E-value=49 Score=27.26 Aligned_cols=78 Identities=19% Similarity=0.144 Sum_probs=50.1
Q ss_pred cccCCCChHHHHHHHHHHhhccccCcchHHHhhhhHHH----HHHHHHHhhc-C--cchhhhHHHHHHHHHhCCChhhhh
Q 022328 129 RVTSPSTDAEVALALRVLEGCCLLHRESAILAHKHKAI----KILMNILSTR-G--ALEQGACLDALTSLMLDSSANQLD 201 (299)
Q Consensus 129 kit~psTdsEI~LALrVLeGccLLh~~s~~~a~r~~Av----evllniL~~r-g--~leq~AcLDtLl~lmvDSs~N~~d 201 (299)
||.++ +..+.-+||.+|+-|.-.|. ...|...|- ..+++++... . +..+.-||..+... ...
T Consensus 45 rl~~~-n~~vql~AL~lLd~~vkNcg---~~f~~~i~s~~fl~~l~~l~~~~~~~~~~Vk~kil~ll~~W-------~~~ 113 (133)
T cd03561 45 KIKYG-NPHVQLLALTLLELLVKNCG---KPFHLQVADKEFLLELVKIAKNSPKYDPKVREKALELILAW-------SES 113 (133)
T ss_pred HHcCC-CHHHHHHHHHHHHHHHHhCC---hHHHHHHhhHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHH-------HHH
Confidence 34554 67899999999999987753 334444444 3366666653 2 33556777777665 334
Q ss_pred hh----hhccHHHHHHHHhh
Q 022328 202 FE----ACNGIEEVAELIRD 217 (299)
Q Consensus 202 FE----~~~Gl~~Va~llK~ 217 (299)
|. +++|+..+-..+|.
T Consensus 114 f~~~~~~~~~~~~~y~~lk~ 133 (133)
T cd03561 114 FGGHSEDLPGIEDAYKLLKR 133 (133)
T ss_pred hcCCCccchHHHHHHHHHhC
Confidence 44 37888888777763
No 15
>PF05536 Neurochondrin: Neurochondrin
Probab=53.87 E-value=2.7e+02 Score=28.73 Aligned_cols=99 Identities=19% Similarity=0.301 Sum_probs=73.8
Q ss_pred CChHHHHHHHHHHhhccccCcchHHHhhhh--HHHHHHHHHHhhcCc-chhhhHHHHHHHHHhCCChhhhhhhhhccHHH
Q 022328 134 STDAEVALALRVLEGCCLLHRESAILAHKH--KAIKILMNILSTRGA-LEQGACLDALTSLMLDSSANQLDFEACNGIEE 210 (299)
Q Consensus 134 sTdsEI~LALrVLeGccLLh~~s~~~a~r~--~AvevllniL~~rg~-leq~AcLDtLl~lmvDSs~N~~dFE~~~Gl~~ 210 (299)
...+=..+|+-||-.-|- .|+ ...|.. .-|.+++++++..+. -...-|+-.|.++- =+|..++.|=+.+++..
T Consensus 69 ~~~~~~~LavsvL~~f~~-~~~--~a~~~~~~~~IP~Lle~l~~~s~~~~v~dalqcL~~Ia-s~~~G~~aLl~~g~v~~ 144 (543)
T PF05536_consen 69 PPEEYLSLAVSVLAAFCR-DPE--LASSPQMVSRIPLLLEILSSSSDLETVDDALQCLLAIA-SSPEGAKALLESGAVPA 144 (543)
T ss_pred CHHHHHHHHHHHHHHHcC-Chh--hhcCHHHHHHHHHHHHHHHcCCchhHHHHHHHHHHHHH-cCcHhHHHHHhcCCHHH
Confidence 456778999999998887 333 223332 336779999999888 77788999988888 89999999999999999
Q ss_pred HHHHHhhcccccchhhhHhHHHHHHhhccc
Q 022328 211 VAELIRDKQVDENLRLRCGEFLLLLIGHVN 240 (299)
Q Consensus 211 Va~llK~~q~d~~vRlKC~EFLl~yl~~~~ 240 (299)
.++++.+ .+..+-++=+++..+.+..
T Consensus 145 L~ei~~~----~~~~~E~Al~lL~~Lls~~ 170 (543)
T PF05536_consen 145 LCEIIPN----QSFQMEIALNLLLNLLSRL 170 (543)
T ss_pred HHHHHHh----CcchHHHHHHHHHHHHHhc
Confidence 9999999 3333444555555554433
No 16
>PF11841 DUF3361: Domain of unknown function (DUF3361)
Probab=53.56 E-value=39 Score=30.17 Aligned_cols=138 Identities=22% Similarity=0.311 Sum_probs=93.8
Q ss_pred hHHHhchHHHHHHHhhhhcc----ccchhhhhccCCcCCccchhhhhcccccccccCCccccccccccCCCc-cccCCCC
Q 022328 61 FLRVRGLRSLLKILRSVAES----DSTIHFFCQSQSVPELQVVPVLFQHSFKEDSVDERVTSLDHIFTVDPM-RVTSPST 135 (299)
Q Consensus 61 FlR~rglr~ll~fl~s~a~s----d~~i~LF~~sQs~~~lQvvPvLF~hsl~~~~~~~~V~~l~~i~g~ep~-kit~psT 135 (299)
|.+-.|+.-|.+-..+--.. .++... -||-..-|.+|..=.- .+++.-|=.-=+ -++.++.
T Consensus 7 FI~~~Gl~~L~~~iE~g~~~~~~~~~~La~--------~L~af~eLMeHg~vsW------d~l~~~FI~Kia~~Vn~~~~ 72 (160)
T PF11841_consen 7 FISRDGLTLLIKMIEEGTEIQPCKGEILAY--------ALTAFVELMEHGIVSW------DTLSDSFIKKIASYVNSSAM 72 (160)
T ss_pred HHhccCHHHHHHHHHcCCccCcchHHHHHH--------HHHHHHHHHhcCcCch------hhccHHHHHHHHHHHccccc
Confidence 78889998888877763330 111111 2566677788765111 122222111111 1234444
Q ss_pred hHHHH-HHHHHHhhccccCcchHHHhhhhHHHHHHHHHHhhcCcchhhhHHHHHHHHHhCCChhhhhhhhhccHHHHHHH
Q 022328 136 DAEVA-LALRVLEGCCLLHRESAILAHKHKAIKILMNILSTRGALEQGACLDALTSLMLDSSANQLDFEACNGIEEVAEL 214 (299)
Q Consensus 136 dsEI~-LALrVLeGccLLh~~s~~~a~r~~AvevllniL~~rg~leq~AcLDtLl~lmvDSs~N~~dFE~~~Gl~~Va~l 214 (299)
|..|. .||.+||-.++.++.=.....+..-++-++..|.....-.|...+=.+-|+++=+++..|. ++++.
T Consensus 73 d~~i~q~sLaILEs~Vl~S~~ly~~V~~evt~~~Li~hLq~~~~~iq~naiaLinAL~~kA~~~~r~--------~i~~~ 144 (160)
T PF11841_consen 73 DASILQRSLAILESIVLNSPKLYQLVEQEVTLESLIRHLQVSNQEIQTNAIALINALFLKADDSKRK--------EIAET 144 (160)
T ss_pred cchHHHHHHHHHHHHHhCCHHHHHHHhccCCHHHHHHHHHcCCHHHHHHHHHHHHHHHhcCChHHHH--------HHHHH
Confidence 66666 7999999999988887888888888889999999988889999999999999999888775 66676
Q ss_pred Hhhccc
Q 022328 215 IRDKQV 220 (299)
Q Consensus 215 lK~~q~ 220 (299)
+..+|.
T Consensus 145 l~~k~~ 150 (160)
T PF11841_consen 145 LSQKQI 150 (160)
T ss_pred HHHHHH
Confidence 666554
No 17
>PLN03200 cellulose synthase-interactive protein; Provisional
Probab=51.73 E-value=54 Score=39.41 Aligned_cols=212 Identities=15% Similarity=0.152 Sum_probs=124.9
Q ss_pred hhhhhHHHHHHHHHHH----HHHHHHHHHHHhhhhhhhcchhhHH--HhchHHHHHHHhhh---hccccchhhhhccCCc
Q 022328 23 AAATAVGELANSLKQQ----RVQREITLALRTGLRDARAEFSFLR--VRGLRSLLKILRSV---AESDSTIHFFCQSQSV 93 (299)
Q Consensus 23 ~~~~~v~elv~sl~~q----R~yRevtlaLR~gLRDa~AeFSFlR--~rglr~ll~fl~s~---a~sd~~i~LF~~sQs~ 93 (299)
.+.+.|..+++.|... ...+..+-.||.=.+.-.-.-.|+- --++..|+.+|+|- +.-++.--|+.-+.-
T Consensus 10 ~~~~~v~~Lve~L~s~~ss~~~~~~Al~~Lr~Lak~~~enR~~Ia~~aGaIP~LV~lL~sg~~~vk~nAaaaL~nLS~~- 88 (2102)
T PLN03200 10 GTLASVAQCIEQLRAKSSSPQEKELTTARLLELAKTREEARKAIGSHSQAMPLLVSLLRSGTLGAKVNAAAVLGVLCKE- 88 (2102)
T ss_pred chHHHHHHHHHHHHcccCCHHHHHHHHHHHHHHHhcChHHHHHHHHccCcHHHHHHHHcCCCHHHHHHHHHHHHHHhcC-
Confidence 4456777777777755 6666666666666555443355552 22566677777641 111111122222211
Q ss_pred CC-------ccchhhhhccccccccc---CCcccccccc----------------ccCCC--ccc-cCCC-ChHH-HHHH
Q 022328 94 PE-------LQVVPVLFQHSFKEDSV---DERVTSLDHI----------------FTVDP--MRV-TSPS-TDAE-VALA 142 (299)
Q Consensus 94 ~~-------lQvvPvLF~hsl~~~~~---~~~V~~l~~i----------------~g~ep--~ki-t~ps-TdsE-I~LA 142 (299)
++ --.||-|.+ -|+.... ++....+..+ .|.=| +++ .+++ .|.- ...|
T Consensus 89 e~nk~~Iv~~GaIppLV~-LL~sGs~eaKe~AA~AL~sLS~~~~~D~~~~~I~v~~GaVp~Lv~lL~~gsk~d~~L~~~A 167 (2102)
T PLN03200 89 EDLRVKVLLGGCIPPLLS-LLKSGSAEAQKAAAEAIYAVSSGGLSDHVGSKIFSTEGVVPSLWDQLQPGNKQDKVVEGLL 167 (2102)
T ss_pred HHHHHHHHHcCChHHHHH-HHHCCCHHHHHHHHHHHHHHHcCcchhhhhhhhhhhcCChHHHHHHHhCCchhhHHHHHHH
Confidence 22 235555432 1222110 1211112111 22222 222 2322 2542 2456
Q ss_pred HHHHhhccccCcchHHHhhhhHHHHHHHHHHhhcCcchhhhHHHHHHHHHhCCChhhhhhhhhccHHHHHHHHhhccccc
Q 022328 143 LRVLEGCCLLHRESAILAHKHKAIKILMNILSTRGALEQGACLDALTSLMLDSSANQLDFEACNGIEEVAELIRDKQVDE 222 (299)
Q Consensus 143 LrVLeGccLLh~~s~~~a~r~~AvevllniL~~rg~leq~AcLDtLl~lmvDSs~N~~dFE~~~Gl~~Va~llK~~q~d~ 222 (299)
..+|...|.-+.......-+..++..++++|....+-.|..|.-+|.+++..++.+....-+.+++....+++++ +.+.
T Consensus 168 v~AL~nLs~~~en~~~~IIeaGaVp~LV~LLsS~d~~lQ~eAa~aLa~Lass~ee~~~aVIeaGaVP~LV~LL~s-g~~~ 246 (2102)
T PLN03200 168 TGALRNLCGSTDGFWSATLEAGGVDILVKLLSSGNSDAQANAASLLARLMMAFESSISKVLDAGAVKQLLKLLGQ-GNEV 246 (2102)
T ss_pred HHHHHHHhcCccchHHHHHHcCCHHHHHHHHcCCCHHHHHHHHHHHHHHHcCChHHHHHHHHCCCHHHHHHHHcc-CCCh
Confidence 678888887665555555667899999999998888899999999999999888777777789999999999975 4566
Q ss_pred chhhhHhHHHHHHhh
Q 022328 223 NLRLRCGEFLLLLIG 237 (299)
Q Consensus 223 ~vRlKC~EFLl~yl~ 237 (299)
++|-.|+-=|.-+..
T Consensus 247 ~VRE~AA~AL~nLAs 261 (2102)
T PLN03200 247 SVRAEAAGALEALSS 261 (2102)
T ss_pred HHHHHHHHHHHHHhc
Confidence 888777765544443
No 18
>smart00185 ARM Armadillo/beta-catenin-like repeats. Approx. 40 amino acid repeat. Tandem repeats form superhelix of helices that is proposed to mediate interaction of beta-catenin with its ligands. Involved in transducing the Wingless/Wnt signal. In plakoglobin arm repeats bind alpha-catenin and N-cadherin.
Probab=49.14 E-value=33 Score=21.35 Aligned_cols=37 Identities=16% Similarity=0.204 Sum_probs=28.3
Q ss_pred ChhhhhhhhhccHHHHHHHHhhcccccchhhhHhHHHHH
Q 022328 196 SANQLDFEACNGIEEVAELIRDKQVDENLRLRCGEFLLL 234 (299)
Q Consensus 196 s~N~~dFE~~~Gl~~Va~llK~~q~d~~vRlKC~EFLl~ 234 (299)
+.|.+.+-+.+|++...++++ +-+.+++..++-.|..
T Consensus 2 ~~~~~~i~~~g~i~~L~~ll~--~~~~~i~~~a~~aL~n 38 (41)
T smart00185 2 DEQKQAVVDAGGLPALVELLK--SEDEEVVKEAAWALSN 38 (41)
T ss_pred cHHHHHHHHCCCHHHHHHHHc--CCCHHHHHHHHHHHHH
Confidence 457888889999999999998 4467777766665543
No 19
>PF05004 IFRD: Interferon-related developmental regulator (IFRD); InterPro: IPR007701 Interferon-related developmental regulator (IFRD1) is the human homologue of the Rattus norvegicus early response protein PC4 and its murine homologue TIS7 []. The exact function of IFRD1 is unknown but it has been shown that PC4 is necessary for muscle differentiation and that it might have a role in signal transduction. This entry also contains IFRD2 and its murine equivalent SKMc15, which are highly expressed soon after gastrulation and in the hepatic primordium, suggesting an involvement in early hematopoiesis [].
Probab=46.33 E-value=2.7e+02 Score=26.50 Aligned_cols=111 Identities=23% Similarity=0.254 Sum_probs=62.3
Q ss_pred chhhhHH--HHHHHHHhC-CChhhhhhhhhccHHHHHHHHhhcccccchhhhHhHHHHH--HhhcccCCCCCCcccHH--
Q 022328 179 LEQGACL--DALTSLMLD-SSANQLDFEACNGIEEVAELIRDKQVDENLRLRCGEFLLL--LIGHVNGRQLSPMATIH-- 251 (299)
Q Consensus 179 leq~AcL--DtLl~lmvD-Ss~N~~dFE~~~Gl~~Va~llK~~q~d~~vRlKC~EFLl~--yl~~~~~~~~~~~a~~~-- 251 (299)
-||...+ =+|+|+=++ .......|+....+ ...+++|.....++|.+|++=|=. |++...+.+ +.
T Consensus 101 ~E~~lA~~~l~Ll~ltlg~g~~~~ei~~~~~~~--L~~~l~d~s~~~~~R~~~~~aLai~~fv~~~d~~~------~~~~ 172 (309)
T PF05004_consen 101 EEQALAARALALLALTLGAGEDSEEIFEELKPV--LKRILTDSSASPKARAACLEALAICTFVGGSDEEE------TEEL 172 (309)
T ss_pred HHHHHHHHHHHHHhhhcCCCccHHHHHHHHHHH--HHHHHhCCccchHHHHHHHHHHHHHHHhhcCChhH------HHHH
Confidence 4555443 367788776 34445667777664 456889998888999998854422 222222221 22
Q ss_pred -HHHHHHhc---------------hhhHHHHHHhhhcc----CCCChHHhHHHHHHHHHHHHhhcc
Q 022328 252 -EDIRRLLG---------------EKSASLIWAASQFG----STLNPEERLMALHIQARRVLESLD 297 (299)
Q Consensus 252 -ed~~~llG---------------e~~asliwaa~~fg----stlD~e~r~~aL~~qA~~vLe~ld 297 (299)
+=+..++. +..+.++-++.+-| +++|+..-...++..-.++.+.||
T Consensus 173 ~~~le~if~~~~~~~~~~~~~~~~~~~~~l~~aAL~aW~lLlt~~~~~~~~~~~~~~~~~l~~lL~ 238 (309)
T PF05004_consen 173 MESLESIFLLSILKSDGNAPVVAAEDDAALVAAALSAWALLLTTLPDSKLEDLLEEALPALSELLD 238 (309)
T ss_pred HHHHHHHHHHHhcCcCCCcccccCCCccHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhc
Confidence 22221211 12356777777655 788875444444555555555554
No 20
>PF13618 Gluconate_2-dh3: Gluconate 2-dehydrogenase subunit 3
Probab=45.83 E-value=1.4e+02 Score=23.97 Aligned_cols=78 Identities=22% Similarity=0.293 Sum_probs=49.4
Q ss_pred chhhhHHHHHHHHHh--CCChhhhhhhhhccHHHHHHHHhhcccccchhhhHhHHHHHHhhcccCCCCCCcccHHHHHHH
Q 022328 179 LEQGACLDALTSLML--DSSANQLDFEACNGIEEVAELIRDKQVDENLRLRCGEFLLLLIGHVNGRQLSPMATIHEDIRR 256 (299)
Q Consensus 179 leq~AcLDtLl~lmv--DSs~N~~dFE~~~Gl~~Va~llK~~q~d~~vRlKC~EFLl~yl~~~~~~~~~~~a~~~ed~~~ 256 (299)
..|.++|+++.-+|+ |..+... .+...+|+-.++.+... ++-++
T Consensus 2 ~~e~~~L~ai~~~iiP~~~~pgA~------------------------~~~v~~fId~~l~~~~~----------~~~~~ 47 (131)
T PF13618_consen 2 AEEAATLAAIADTIIPADDTPGAS------------------------DAGVPEFIDRMLADCYM----------PEDRR 47 (131)
T ss_pred HHHHHHHHHHHHHhcCCCCCCChh------------------------hcChHHHHHHHHhcCCC----------HHHHH
Confidence 356777777777777 3223333 26777888888887211 22355
Q ss_pred HhchhhHHHHHHhh-hcc---CCCChHHhHHHHHHHHH
Q 022328 257 LLGEKSASLIWAAS-QFG---STLNPEERLMALHIQAR 290 (299)
Q Consensus 257 llGe~~asliwaa~-~fg---stlD~e~r~~aL~~qA~ 290 (299)
.+-.-.+.+-..+. .|| +-|++++|..-|+..++
T Consensus 48 ~~~~gl~~ld~~a~~~~g~~F~~l~~~~~~~lL~~~~~ 85 (131)
T PF13618_consen 48 AFRAGLAALDAYAQKRYGKSFAELSPAQREALLDALEK 85 (131)
T ss_pred HHHHHHHHHHHHHHHHhCCChhhCCHHHHHHHHHHHHh
Confidence 66666666654443 667 77899999888876653
No 21
>PF00514 Arm: Armadillo/beta-catenin-like repeat; InterPro: IPR000225 The armadillo (Arm) repeat is an approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila melanogaster segment polarity gene armadillo involved in signal transduction through wingless. Animal Arm-repeat proteins function in various processes, including intracellular signalling and cytoskeletal regulation, and include such proteins as beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumour suppressor protein, and the nuclear transport factor importin-alpha, amongst others []. A subset of these proteins is conserved across eukaryotic kingdoms. In higher plants, some Arm-repeat proteins function in intracellular signalling like their mammalian counterparts, while others have novel functions []. The 3-dimensional fold of an armadillo repeat is known from the crystal structure of beta-catenin, where the 12 repeats form a superhelix of alpha helices with three helices per unit []. The cylindrical structure features a positively charged grove, which presumably interacts with the acidic surfaces of the known interaction partners of beta-catenin.; GO: 0005515 protein binding; PDB: 2Z6G_A 1IQ1_C 3RZX_A 2C1M_A 3BTR_C 3OQS_A 3TPO_A 1IAL_A 1Q1S_C 1PJM_B ....
Probab=43.60 E-value=18 Score=23.78 Aligned_cols=35 Identities=17% Similarity=0.264 Sum_probs=28.4
Q ss_pred CChhhhhhhhhccHHHHHHHHhhcccccchhhhHhHH
Q 022328 195 SSANQLDFEACNGIEEVAELIRDKQVDENLRLRCGEF 231 (299)
Q Consensus 195 Ss~N~~dFE~~~Gl~~Va~llK~~q~d~~vRlKC~EF 231 (299)
||+|.+..-+++|+....++|+ .-+.+++-.|+--
T Consensus 1 ~~~~~~~i~~~g~i~~Lv~ll~--~~~~~v~~~a~~a 35 (41)
T PF00514_consen 1 SPENKQAIVEAGGIPPLVQLLK--SPDPEVQEEAAWA 35 (41)
T ss_dssp SHHHHHHHHHTTHHHHHHHHTT--SSSHHHHHHHHHH
T ss_pred CHHHHHHHHHcccHHHHHHHHc--CCCHHHHHHHHHH
Confidence 5778888889999999999999 6777777766543
No 22
>PF00790 VHS: VHS domain; InterPro: IPR002014 The VHS domain is a ~140 residues long domain, whose name is derived from its occurrence in VPS-27, Hrs and STAM. Based on regions surrounding the domain, VHS-proteins can be divided into 4 groups []: STAM/EAST/Hbp which all share the domain composition VHS-SH3-ITAM and carry one or two ubiquitin-interacting motifs Proteins with a FYVE domain (IPR000306 from INTERPRO) C-terminal to VHS which also carry one or two ubiquitin-interacting motifs GGA proteins with a domain composition VHS-GAT (GGA and Tom1) homology domain VHS domain alone or in combination with domains other than those listed above The VHS domain is always found at the N- terminus of proteins suggesting that such topology is important for function. The domain is considered to have a general membrane targeting/cargo recognition role in vesicular trafficking []. Resolution of the crystal structure of the VHS domain of Drosophila Hrs and human Tom1 revealed that it consists of eight helices arranged in a double-layer superhelix []. The existence of conserved patches of residues on the domain surface suggests that VHS domains may be involved in protein-protein recognition and docking. Overall, sequence similarity is low (approx 25%) amongst domain family members.; GO: 0006886 intracellular protein transport; PDB: 1X5B_A 2L0T_B 1DVP_A 3LDZ_C 3ZYQ_A 4AVX_A 3G2U_A 3G2W_A 1UJJ_A 3G2V_A ....
Probab=41.19 E-value=1.5e+02 Score=24.56 Aligned_cols=78 Identities=10% Similarity=0.094 Sum_probs=46.2
Q ss_pred ccCCCChHHHHHHHHHHhhccccCc-chHHHhhhhHHHHHHHHHHhhcCcc----hhhhHHHHHHHHHhCCChhhhhhhh
Q 022328 130 VTSPSTDAEVALALRVLEGCCLLHR-ESAILAHKHKAIKILMNILSTRGAL----EQGACLDALTSLMLDSSANQLDFEA 204 (299)
Q Consensus 130 it~psTdsEI~LALrVLeGccLLh~-~s~~~a~r~~AvevllniL~~rg~l----eq~AcLDtLl~lmvDSs~N~~dFE~ 204 (299)
|.+ .+..++.+||.||+-|.-.+. .-....+...=+..+..++...... .+..+++.+... ...|..
T Consensus 51 l~~-~~~~vq~~aL~lld~lvkNcg~~f~~ev~~~~fl~~l~~l~~~~~~~~~~~Vk~k~l~ll~~W-------~~~f~~ 122 (140)
T PF00790_consen 51 LKH-GNPNVQLLALTLLDALVKNCGPRFHREVASKEFLDELVKLIKSKKTDPETPVKEKILELLQEW-------AEAFKS 122 (140)
T ss_dssp HTT-SSHHHHHHHHHHHHHHHHHSHHHHHHHHTSHHHHHHHHHHHHHTTTHHHSHHHHHHHHHHHHH-------HHHTTT
T ss_pred HhC-CCHHHHHHHHHHHHHHHHcCCHHHHHHHhHHHHHHHHHHHHccCCCCchhHHHHHHHHHHHHH-------HHHHCC
Confidence 444 567889999999999987652 2222233323334444444444433 467777777655 566766
Q ss_pred hccHHHHHHHH
Q 022328 205 CNGIEEVAELI 215 (299)
Q Consensus 205 ~~Gl~~Va~ll 215 (299)
.+.+..|.++.
T Consensus 123 ~~~~~~i~~~y 133 (140)
T PF00790_consen 123 DPELSLIQDTY 133 (140)
T ss_dssp STTGHHHHHHH
T ss_pred CCCchHHHHHH
Confidence 66665555543
No 23
>KOG2027 consensus Spindle pole body protein [Cytoskeleton]
Probab=40.50 E-value=23 Score=35.51 Aligned_cols=61 Identities=26% Similarity=0.390 Sum_probs=39.7
Q ss_pred HHHHHHHhhcccc-----------cchhhhHhHHHHHHhhcccCCC--CCCcccHHHHHHHHhchhhHHHHHHhhhcc
Q 022328 209 EEVAELIRDKQVD-----------ENLRLRCGEFLLLLIGHVNGRQ--LSPMATIHEDIRRLLGEKSASLIWAASQFG 273 (299)
Q Consensus 209 ~~Va~llK~~q~d-----------~~vRlKC~EFLl~yl~~~~~~~--~~~~a~~~ed~~~llGe~~asliwaa~~fg 273 (299)
..||++|+..+.+ ++-.+-|-|||.+|---+..+= ...+-..-+|++ |-.+|||||+.+++
T Consensus 22 rdIA~lL~sg~~~~A~~RvE~li~ee~~~~a~e~le~fCelll~R~~~i~~~~~cp~~l~----EAVsSlifAA~R~~ 95 (388)
T KOG2027|consen 22 RDIADLLKSGQDERARIRVEHLIREENLLEAYEILELFCELLLARLSLIEKQKECPDDLK----EAVSSLIFAAPRLS 95 (388)
T ss_pred HHHHHHHHcCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhhcccCCHHHH----HHHHHHHHHhcccc
Confidence 4677777776644 4456889999988765444441 111122335555 45799999999998
No 24
>KOG4199 consensus Uncharacterized conserved protein [Function unknown]
Probab=37.60 E-value=35 Score=34.90 Aligned_cols=75 Identities=19% Similarity=0.199 Sum_probs=60.5
Q ss_pred cccCcchHHHhhhhHHHHHHHHHHhhcCcchhhhHHHHHHHHHhCCChhhhhhhhhccHHHHHHHHhhcccccchh
Q 022328 150 CLLHRESAILAHKHKAIKILMNILSTRGALEQGACLDALTSLMLDSSANQLDFEACNGIEEVAELIRDKQVDENLR 225 (299)
Q Consensus 150 cLLh~~s~~~a~r~~AvevllniL~~rg~leq~AcLDtLl~lmvDSs~N~~dFE~~~Gl~~Va~llK~~q~d~~vR 225 (299)
|=-...|+.++|+..|...++-.+-.+..+.|+-|+-+|=++-+|.-. |-||-.+.|++-|.++|-++--+++|-
T Consensus 90 ck~~~A~r~la~~~ga~~~~it~~~la~~~~~~~l~ksL~al~~lt~~-qpdl~da~g~~vvv~lL~~~~~~~dlt 164 (461)
T KOG4199|consen 90 CKKSLAHRVLAGKNGAHDALITLLELAESPNESVLKKSLEAINSLTHK-QPDLFDAEAMAVVLKLLALKVESEEVT 164 (461)
T ss_pred HhhhHHHHHHhccCCCcchhhhHHHHhhCCchhHHHHHHHHHHHhhcC-CcchhccccHHHHHHHHhcccchHHHH
Confidence 333445677888888888887777778888999999999887776543 678889999999999999998888764
No 25
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=37.48 E-value=1.8e+02 Score=24.10 Aligned_cols=96 Identities=15% Similarity=0.178 Sum_probs=63.9
Q ss_pred hhhhHHHHHHHHHHhhcCcchhhhHHHHHHHHHhCCCh-hhhhhhhhccHHHHHHHHhhcccccchhhhHhHHHHHHhhc
Q 022328 160 AHKHKAIKILMNILSTRGALEQGACLDALTSLMLDSSA-NQLDFEACNGIEEVAELIRDKQVDENLRLRCGEFLLLLIGH 238 (299)
Q Consensus 160 a~r~~AvevllniL~~rg~leq~AcLDtLl~lmvDSs~-N~~dFE~~~Gl~~Va~llK~~q~d~~vRlKC~EFLl~yl~~ 238 (299)
.+-+.|++-+..=|..+.+-+|.-.|..|=+++--+.. =...+-.-.-++...++++++...++||-||.|.+.-.--.
T Consensus 33 ~~~k~a~r~l~krl~~~n~~v~l~AL~lLe~~vkNcg~~f~~ev~s~~fl~~L~~l~~~~~~~~~Vk~kil~li~~W~~~ 112 (133)
T smart00288 33 DGPKDAVRLLKKRLNNKNPHVALLALTLLDACVKNCGSKFHLEVASKEFLNELVKLIKPKYPLPLVKKRILELIQEWADA 112 (133)
T ss_pred ccHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHHHHHH
Confidence 45667777777777777777887777766666665433 22333344446677889999888888999999998877665
Q ss_pred ccCC-CCCCcccHHHHHH
Q 022328 239 VNGR-QLSPMATIHEDIR 255 (299)
Q Consensus 239 ~~~~-~~~~~a~~~ed~~ 255 (299)
.... +.+.+..+++.++
T Consensus 113 f~~~~~~~~i~~~y~~L~ 130 (133)
T smart00288 113 FKNDPDLSQIVDVYDLLK 130 (133)
T ss_pred HcCCCCchHHHHHHHHHH
Confidence 5332 2344444555554
No 26
>PF04826 Arm_2: Armadillo-like; InterPro: IPR006911 This entry consists of mammalian proteins of unknown function.
Probab=37.21 E-value=3.5e+02 Score=25.25 Aligned_cols=106 Identities=21% Similarity=0.277 Sum_probs=69.7
Q ss_pred HHHHHHHHHhh-cCcchhhhHHHHHHHHHhCCChhhhhhhhhccHHHHHHHHhhcccccchhhhHhHHHHHHhhcccCCC
Q 022328 165 AIKILMNILST-RGALEQGACLDALTSLMLDSSANQLDFEACNGIEEVAELIRDKQVDENLRLRCGEFLLLLIGHVNGRQ 243 (299)
Q Consensus 165 AvevllniL~~-rg~leq~AcLDtLl~lmvDSs~N~~dFE~~~Gl~~Va~llK~~q~d~~vRlKC~EFLl~yl~~~~~~~ 243 (299)
.++-++.+|.. +.|.+|+.++=|+-- .-..|.||.-.-++.|+.-|+.++.+. +.++|-| -+--+.+.+...
T Consensus 13 ~l~~Ll~lL~~t~dp~i~e~al~al~n-~aaf~~nq~~Ir~~Ggi~lI~~lL~~p--~~~vr~~----AL~aL~Nls~~~ 85 (254)
T PF04826_consen 13 ELQKLLCLLESTEDPFIQEKALIALGN-SAAFPFNQDIIRDLGGISLIGSLLNDP--NPSVREK----ALNALNNLSVND 85 (254)
T ss_pred HHHHHHHHHhcCCChHHHHHHHHHHHh-hccChhHHHHHHHcCCHHHHHHHcCCC--ChHHHHH----HHHHHHhcCCCh
Confidence 35778899985 678899988876644 688999999999999999999999995 5566643 233333333331
Q ss_pred CCCcccHHHHHHHHhchhhHHHHHHhhhccCCCChHHhHHHHHHH
Q 022328 244 LSPMATIHEDIRRLLGEKSASLIWAASQFGSTLNPEERLMALHIQ 288 (299)
Q Consensus 244 ~~~~a~~~ed~~~llGe~~asliwaa~~fgstlD~e~r~~aL~~q 288 (299)
.-++.|+..+ .-++... +...+|++.++.+|+..
T Consensus 86 -----en~~~Ik~~i-----~~Vc~~~-~s~~lns~~Q~agLrlL 119 (254)
T PF04826_consen 86 -----ENQEQIKMYI-----PQVCEET-VSSPLNSEVQLAGLRLL 119 (254)
T ss_pred -----hhHHHHHHHH-----HHHHHHH-hcCCCCCHHHHHHHHHH
Confidence 1233444332 2233222 22468888888777654
No 27
>cd03572 ENTH_epsin_related ENTH domain, Epsin Related family; composed of hypothetical proteins containing an ENTH-like domain. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. ENTH and ANTH (E/ANTH) domains are structurally similar to the VHS domain and are composed of a superhelix of eight alpha helices. E/ANTH domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membranes. ENTH domains also function in the development of membrane curvature through lipid remodeling during the formation of clathrin-coated vesicles. E/ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the t
Probab=32.14 E-value=3.2e+02 Score=23.30 Aligned_cols=98 Identities=13% Similarity=0.261 Sum_probs=59.1
Q ss_pred cCcchhhhHHHHHHHHHhCCChhhhhhhhhccHHHHHHH----HhhcccccchhhhHhHHHHHHhhcccCCCCCCcccHH
Q 022328 176 RGALEQGACLDALTSLMLDSSANQLDFEACNGIEEVAEL----IRDKQVDENLRLRCGEFLLLLIGHVNGRQLSPMATIH 251 (299)
Q Consensus 176 rg~leq~AcLDtLl~lmvDSs~N~~dFE~~~Gl~~Va~l----lK~~q~d~~vRlKC~EFLl~yl~~~~~~~~~~~a~~~ 251 (299)
...+..+.-+.-+.- +.|+......+|.+. |++++ ++|++||.--|-++...- +
T Consensus 13 d~~p~pgy~~~Eia~---------~t~~s~~~~~ei~d~L~kRL~~~~--~hVK~K~Lrilk~l~~~G--~--------- 70 (122)
T cd03572 13 DDEPTPGYLYEEIAK---------LTRKSVGSCQELLEYLLKRLKRSS--PHVKLKVLKIIKHLCEKG--N--------- 70 (122)
T ss_pred CCCCCchHHHHHHHH---------HHHcCHHHHHHHHHHHHHHhcCCC--CcchHHHHHHHHHHHhhC--C---------
Confidence 334444555554443 344433444455544 44444 999999998888777653 2
Q ss_pred HHHHHHhchhhHHHHHHhhhccCCCCh---HHhHHHHHHHHHHHHhhc
Q 022328 252 EDIRRLLGEKSASLIWAASQFGSTLNP---EERLMALHIQARRVLESL 296 (299)
Q Consensus 252 ed~~~llGe~~asliwaa~~fgstlD~---e~r~~aL~~qA~~vLe~l 296 (299)
++.++.+-+++ ..|=..-+|.-..|| +.--....-.|+.+++.|
T Consensus 71 ~~f~~~~~~~~-~~Ik~~~~f~g~~Dp~~Gd~~~~~VR~~A~El~~~i 117 (122)
T cd03572 71 SDFKRELQRNS-AQIRECANYKGPPDPLKGDSLNEKVREEAQELIKAI 117 (122)
T ss_pred HHHHHHHHHhH-HHHHHHHHcCCCCCcccCcchhHHHHHHHHHHHHHH
Confidence 45555555554 477777888888887 444445555677776654
No 28
>KOG1087 consensus Cytosolic sorting protein GGA2/TOM1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=30.75 E-value=1.4e+02 Score=30.86 Aligned_cols=78 Identities=23% Similarity=0.268 Sum_probs=60.3
Q ss_pred HHHHHHHHHHhhccccCcchHHHhhhhHHHHHHHHHHhhcCcchhhhHHHHHHHHHhCCChhhhhhhhhccHHHHHHHHh
Q 022328 137 AEVALALRVLEGCCLLHRESAILAHKHKAIKILMNILSTRGALEQGACLDALTSLMLDSSANQLDFEACNGIEEVAELIR 216 (299)
Q Consensus 137 sEI~LALrVLeGccLLh~~s~~~a~r~~AvevllniL~~rg~leq~AcLDtLl~lmvDSs~N~~dFE~~~Gl~~Va~llK 216 (299)
-+..+||-+||=|. +-|-..+|.+.|=|-++ .+.++++|
T Consensus 53 ~vq~lALtlLE~cv---kNCG~~fh~~Va~k~fL--------------------------------------~emVk~~k 91 (470)
T KOG1087|consen 53 KVQLLALTLLETCV---KNCGYSFHLQVASKEFL--------------------------------------NEMVKRPK 91 (470)
T ss_pred HHHHHHHHHHHHHH---HhhhHHHHHHHHHHHHH--------------------------------------HHHHhccc
Confidence 67788888888886 45667778766666553 34788899
Q ss_pred hcccccchhhhHhHHHHHHhhcccC--CCCCCcccHHHHHH
Q 022328 217 DKQVDENLRLRCGEFLLLLIGHVNG--RQLSPMATIHEDIR 255 (299)
Q Consensus 217 ~~q~d~~vRlKC~EFLl~yl~~~~~--~~~~~~a~~~ed~~ 255 (299)
+++.+-+||=|..++|.-+--...+ .-.|.+.+|.++++
T Consensus 92 ~~~~~~~Vr~kiL~LI~~W~~af~~~~~~~~~~~~~y~~l~ 132 (470)
T KOG1087|consen 92 NKPRDLKVREKILELIDTWQQAFCGPDGYLPDYYQIYDELR 132 (470)
T ss_pred cCCcchhHHHHHHHHHHHHHHHccCCCCcchhHHHHHHHHH
Confidence 9999999999999999877666665 23777888888888
No 29
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=30.03 E-value=3.1e+02 Score=22.80 Aligned_cols=78 Identities=21% Similarity=0.251 Sum_probs=45.6
Q ss_pred ccCCCChHHHHHHHHHHhhccccCcchHHHhhhhHHHHHHHHHHhh----cCcc--hhhhHHHHHHHHHhCCChhhhhhh
Q 022328 130 VTSPSTDAEVALALRVLEGCCLLHRESAILAHKHKAIKILMNILST----RGAL--EQGACLDALTSLMLDSSANQLDFE 203 (299)
Q Consensus 130 it~psTdsEI~LALrVLeGccLLh~~s~~~a~r~~AvevllniL~~----rg~l--eq~AcLDtLl~lmvDSs~N~~dFE 203 (299)
|.+ .+..++.+||.+|+=|.-.| -.-.|+..|=+-++|-|.. .... .+..+|..+... ...|.
T Consensus 46 l~~-~n~~v~l~AL~lLe~~vkNc---g~~f~~ev~s~~fl~~L~~l~~~~~~~~~Vk~kil~li~~W-------~~~f~ 114 (133)
T smart00288 46 LNN-KNPHVALLALTLLDACVKNC---GSKFHLEVASKEFLNELVKLIKPKYPLPLVKKRILELIQEW-------ADAFK 114 (133)
T ss_pred HcC-CCHHHHHHHHHHHHHHHHHC---CHHHHHHHHhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHHH-------HHHHc
Confidence 443 44788899999999888654 4455665655555555443 3332 456666655543 45675
Q ss_pred hhccH---HHHHHHHhhc
Q 022328 204 ACNGI---EEVAELIRDK 218 (299)
Q Consensus 204 ~~~Gl---~~Va~llK~~ 218 (299)
.-+++ .++-+.||..
T Consensus 115 ~~~~~~~i~~~y~~L~~~ 132 (133)
T smart00288 115 NDPDLSQIVDVYDLLKKK 132 (133)
T ss_pred CCCCchHHHHHHHHHHHC
Confidence 44444 4444455544
No 30
>PF01480 PWI: PWI domain; InterPro: IPR002483 The PWI domain, named after a highly conserved PWI tri-peptide located within its N-terminal region, is a ~80 amino acid module, which is found either at the N terminus or at the C terminus of eukaryotic proteins involved in pre-mRNA processing []. It is generally found in association with other domains such as RRM and RS. The PWI domain is a RNA/DNA-binding domain that has an equal preference for single- and double-stranded nucleic acids and is likely to have multiple important functions in pre-mRNA processing []. Proteins containing this domain include the SR-related nuclear matrix protein of 160kDa (SRm160) splicing and 3'-end cleavage-stimulatory factor, and the mammalian splicing factor PRP3. The PWI domain is a soluble, globular and independently folded domain which consists of a four-helix bundle, with structured N- and C-terminal elements [].; GO: 0006397 mRNA processing; PDB: 1MP1_A 1X4Q_A.
Probab=28.31 E-value=36 Score=26.01 Aligned_cols=38 Identities=11% Similarity=0.316 Sum_probs=26.9
Q ss_pred hHHHHHHhhcccCCCCCCcccHHHHHHHHhchhhHHHH
Q 022328 229 GEFLLLLIGHVNGRQLSPMATIHEDIRRLLGEKSASLI 266 (299)
Q Consensus 229 ~EFLl~yl~~~~~~~~~~~a~~~ed~~~llGe~~asli 266 (299)
.||.+=++.+-.....++...|++++..+||++.+.++
T Consensus 24 vdyI~~~l~~~~~~~~~~~~~l~~~L~~fL~~~a~~Fv 61 (77)
T PF01480_consen 24 VDYIVALLKSHKSSNEPDPKELQEQLEDFLDEEAEEFV 61 (77)
T ss_dssp HHHHHHHCCTT--SSS--HHHHHHHHTTTTGHHCHHHH
T ss_pred HHHHHHHHHhccccccccHHHHHHHHHHHHHhhHHHHH
Confidence 67776666654445566778899999999999998875
No 31
>PF14664 RICTOR_N: Rapamycin-insensitive companion of mTOR, N-term
Probab=26.85 E-value=3.4e+02 Score=26.68 Aligned_cols=103 Identities=19% Similarity=0.208 Sum_probs=72.8
Q ss_pred CCCChHHHHHHHHHHhhccccCcchHHHhhhhHHHHHHHHHHhhcCcchhhhHHHHHHHHHhCCChhhhhhhhhccHHHH
Q 022328 132 SPSTDAEVALALRVLEGCCLLHRESAILAHKHKAIKILMNILSTRGALEQGACLDALTSLMLDSSANQLDFEACNGIEEV 211 (299)
Q Consensus 132 ~psTdsEI~LALrVLeGccLLh~~s~~~a~r~~AvevllniL~~rg~leq~AcLDtLl~lmvDSs~N~~dFE~~~Gl~~V 211 (299)
+-+.|.---.++-.|-=.++.+|+-- .+-.++.++++.+.. |+.+...++=..+.-|+|+|..-+-+..-..++.+
T Consensus 118 e~~~D~lr~~cletL~El~l~~P~lv---~~~gG~~~L~~~l~d-~~~~~~~~l~~~lL~lLd~p~tR~yl~~~~dL~~l 193 (371)
T PF14664_consen 118 EHEDDRLRRICLETLCELALLNPELV---AECGGIRVLLRALID-GSFSISESLLDTLLYLLDSPRTRKYLRPGFDLESL 193 (371)
T ss_pred hCCchHHHHHHHHHHHHHHhhCHHHH---HHcCCHHHHHHHHHh-ccHhHHHHHHHHHHHHhCCcchhhhhcCCccHHHH
Confidence 33566666677777777777777644 344567889999888 65555555555556788999887777777778888
Q ss_pred HHHHhhcc-----cccch-hhhHhHHHHHHhhc
Q 022328 212 AELIRDKQ-----VDENL-RLRCGEFLLLLIGH 238 (299)
Q Consensus 212 a~llK~~q-----~d~~v-RlKC~EFLl~yl~~ 238 (299)
-.-+-|.+ .++++ ||+|+-++...+..
T Consensus 194 ~apftd~~~~~~~~~~~~~~l~~s~~ai~~~Lr 226 (371)
T PF14664_consen 194 LAPFTDFHYRKIKDDRELERLQASAKAISTLLR 226 (371)
T ss_pred HHhhhhhhccccccchHHHHHHHHHHHHHHHHh
Confidence 88877773 34455 99999988776654
No 32
>PF13328 HD_4: HD domain; PDB: 3NR1_B.
Probab=26.78 E-value=1.6e+02 Score=24.48 Aligned_cols=57 Identities=30% Similarity=0.328 Sum_probs=35.0
Q ss_pred cHHHHHHHHhhcccccchhhhHhHHHHHHhhcccCCCCCCcccHHHHHHHHhchhhHHHHHHhhhccC
Q 022328 207 GIEEVAELIRDKQVDENLRLRCGEFLLLLIGHVNGRQLSPMATIHEDIRRLLGEKSASLIWAASQFGS 274 (299)
Q Consensus 207 Gl~~Va~llK~~q~d~~vRlKC~EFLl~yl~~~~~~~~~~~a~~~ed~~~llGe~~asliwaa~~fgs 274 (299)
-+..|+.++.+-+.|+++..-| +|.=.+.+- .+. |||++.||++.++++........
T Consensus 23 H~~~va~~l~~~~~d~~~i~aa--lLHD~ied~--------~~~-~~i~~~fg~~V~~lV~~lt~~~~ 79 (153)
T PF13328_consen 23 HPLEVAEILAELGLDEETIAAA--LLHDVIEDT--------ETT-EDIEERFGEDVADLVDALTKIKK 79 (153)
T ss_dssp HHHHHHHHHHTS---HHHHHHH--HHTTHHHHS--------S---HHHHHHHHHHHHHHHHHT---TT
T ss_pred HHHHHHHHHHHcCCCHHHHhhh--eeecHHHhc--------CCH-HHHHHccChHHHHHHHHHHhccc
Confidence 3568999999999888755443 333233321 123 99999999999999999886553
No 33
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=26.56 E-value=3.6e+02 Score=22.88 Aligned_cols=82 Identities=17% Similarity=0.208 Sum_probs=51.9
Q ss_pred cccCCCChHHHHHHHHHHhhccccCcchHHHhhhhHHHHHHHHHHhh----cC-cchhhhHHHHHHHHHhCCChhhhhhh
Q 022328 129 RVTSPSTDAEVALALRVLEGCCLLHRESAILAHKHKAIKILMNILST----RG-ALEQGACLDALTSLMLDSSANQLDFE 203 (299)
Q Consensus 129 kit~psTdsEI~LALrVLeGccLLh~~s~~~a~r~~AvevllniL~~----rg-~leq~AcLDtLl~lmvDSs~N~~dFE 203 (299)
||.+ .+..+..+||.+|+-|.-. |-.-+|+..|=+-++|-|.. .. +-.+.-||..+-+. ...|+
T Consensus 49 rl~~-~n~~vql~AL~LLe~~vkN---CG~~fh~evas~~fl~~l~~l~~~~~~~~Vk~kil~li~~W-------~~~f~ 117 (142)
T cd03569 49 RLLS-KNPNVQLYALLLLESCVKN---CGTHFHDEVASREFMDELKDLIKTTKNEEVRQKILELIQAW-------ALAFR 117 (142)
T ss_pred HHcC-CChHHHHHHHHHHHHHHHH---CCHHHHHHHhhHHHHHHHHHHHcccCCHHHHHHHHHHHHHH-------HHHhC
Confidence 3444 4578899999999999865 45556666666655555443 22 23456666666544 45666
Q ss_pred hh---ccHHHHHHHHhhcccc
Q 022328 204 AC---NGIEEVAELIRDKQVD 221 (299)
Q Consensus 204 ~~---~Gl~~Va~llK~~q~d 221 (299)
.- +++..+-+.||..|+.
T Consensus 118 ~~~~l~~i~~~y~~L~~~G~~ 138 (142)
T cd03569 118 NKPQLKYVVDTYQILKAEGHK 138 (142)
T ss_pred CCcccHHHHHHHHHHHHcCCC
Confidence 44 4466677778887763
No 34
>PF03224 V-ATPase_H_N: V-ATPase subunit H; InterPro: IPR004908 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents subunit H (also known as Vma13p) found in the V1 complex of V-ATPases. This subunit has a regulatory function, being responsible for activating ATPase activity and coupling ATPase activity to proton flow []. The yeast enzyme contains five motifs similar to the HEAT or Armadillo repeats seen in the importins, and can be divided into two distinct domains: a large N-terminal domain consisting of stacked alpha helices, and a smaller C-terminal alpha-helical domain with a similar superhelical topology to an armadillo repeat []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=24.10 E-value=1.6e+02 Score=27.32 Aligned_cols=93 Identities=18% Similarity=0.186 Sum_probs=63.0
Q ss_pred HHHHHHHhhccccCcchHHHhhhhHHHHHHHHHH-----hhcCcc--hhhhHHHHHHHHHhCCChhhhhhhhhccHHHHH
Q 022328 140 ALALRVLEGCCLLHRESAILAHKHKAIKILMNIL-----STRGAL--EQGACLDALTSLMLDSSANQLDFEACNGIEEVA 212 (299)
Q Consensus 140 ~LALrVLeGccLLh~~s~~~a~r~~AvevllniL-----~~rg~l--eq~AcLDtLl~lmvDSs~N~~dFE~~~Gl~~Va 212 (299)
..+++.|+-. |-+++.+..+.+...++.++++| ..++.- .||..+=.+=.+-.+.. ....|-..+=+...+
T Consensus 168 ~~av~~L~~L-L~~~~~R~~f~~~~~v~~l~~iL~~~~~~~~~~~~Ql~Y~~ll~lWlLSF~~~-~~~~~~~~~~i~~L~ 245 (312)
T PF03224_consen 168 YIAVQCLQNL-LRSKEYRQVFWKSNGVSPLFDILRKQATNSNSSGIQLQYQALLCLWLLSFEPE-IAEELNKKYLIPLLA 245 (312)
T ss_dssp HHHHHHHHHH-HTSHHHHHHHHTHHHHHHHHHHHH---------HHHHHHHHHHHHHHHTTSHH-HHHHHHTTSHHHHHH
T ss_pred HHHHHHHHHH-hCcchhHHHHHhcCcHHHHHHHHHhhcccCCCCchhHHHHHHHHHHHHhcCHH-HHHHHhccchHHHHH
Confidence 7788888876 68999999999999999999999 333333 44665544444444433 344555555788899
Q ss_pred HHHhhcccccchhhhHhHHHHH
Q 022328 213 ELIRDKQVDENLRLRCGEFLLL 234 (299)
Q Consensus 213 ~llK~~q~d~~vRlKC~EFLl~ 234 (299)
+++|...-.+=+|+-.+=|.-+
T Consensus 246 ~i~~~~~KEKvvRv~la~l~Nl 267 (312)
T PF03224_consen 246 DILKDSIKEKVVRVSLAILRNL 267 (312)
T ss_dssp HHHHH--SHHHHHHHHHHHHHT
T ss_pred HHHHhcccchHHHHHHHHHHHH
Confidence 9999999888888766544433
No 35
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=23.35 E-value=2.3e+02 Score=22.79 Aligned_cols=61 Identities=25% Similarity=0.309 Sum_probs=42.7
Q ss_pred ccccCcchHHHhhhhHHHHHHHHHHhhcCcc--hh-hhHHHHHHHHHhCCChhhhhhhhhccHHHHHHHHhh
Q 022328 149 CCLLHRESAILAHKHKAIKILMNILSTRGAL--EQ-GACLDALTSLMLDSSANQLDFEACNGIEEVAELIRD 217 (299)
Q Consensus 149 ccLLh~~s~~~a~r~~AvevllniL~~rg~l--eq-~AcLDtLl~lmvDSs~N~~dFE~~~Gl~~Va~llK~ 217 (299)
-|+-+++.+. ||+|.|-+.||.-..+.. .. .-..|+|.-++-|+.+|-+ +|-+-.-++|||
T Consensus 34 ~~~~D~d~rV---Ry~AcEaL~ni~k~~~~~~l~~f~~IF~~L~kl~~D~d~~Vr-----~~a~~Ld~llkd 97 (97)
T PF12755_consen 34 KCFDDQDSRV---RYYACEALYNISKVARGEILPYFNEIFDALCKLSADPDENVR-----SAAELLDRLLKD 97 (97)
T ss_pred HHcCCCcHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCchhHH-----HHHHHHHHHhcC
Confidence 5788888887 999999999998774422 21 5678888888888887754 333444445443
No 36
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=22.17 E-value=4.1e+02 Score=22.60 Aligned_cols=79 Identities=16% Similarity=0.142 Sum_probs=53.8
Q ss_pred hhhHHHHHHHHHHhhcCcchhhhHHHHHHHHHhCCCh-hhhhhhhhccHHHHHHHHhhcccccchhhhHhHHHHHHhhcc
Q 022328 161 HKHKAIKILMNILSTRGALEQGACLDALTSLMLDSSA-NQLDFEACNGIEEVAELIRDKQVDENLRLRCGEFLLLLIGHV 239 (299)
Q Consensus 161 ~r~~AvevllniL~~rg~leq~AcLDtLl~lmvDSs~-N~~dFE~~~Gl~~Va~llK~~q~d~~vRlKC~EFLl~yl~~~ 239 (299)
+.+.|++.+..-|..+.+-+|.-.|..|=+++=-+.. =...+-.-.=+++..+++++ +++.+||-||.|.+.-.-...
T Consensus 38 ~~k~a~ral~krl~~~n~~vql~AL~LLe~~vkNCG~~fh~evas~~fl~~l~~l~~~-~~~~~Vk~kil~li~~W~~~f 116 (142)
T cd03569 38 QPKYAMRALKKRLLSKNPNVQLYALLLLESCVKNCGTHFHDEVASREFMDELKDLIKT-TKNEEVRQKILELIQAWALAF 116 (142)
T ss_pred CHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHCCHHHHHHHhhHHHHHHHHHHHcc-cCCHHHHHHHHHHHHHHHHHh
Confidence 5678888888888887788887777766666655432 11112222224567777776 899999999999988776544
Q ss_pred c
Q 022328 240 N 240 (299)
Q Consensus 240 ~ 240 (299)
.
T Consensus 117 ~ 117 (142)
T cd03569 117 R 117 (142)
T ss_pred C
Confidence 3
No 37
>PF09090 MIF4G_like_2: MIF4G like; InterPro: IPR015174 This entry represents an MIF4G-like domain. MIF4G domains share a common structure but can differ in sequence. This entry is designated "type 2", and is found in nuclear cap-binding proteins and eIF4G. The MIF4G domain is a structural motif with an ARM (Armadillo) repeat-type fold, consisting of a 2-layer alpha/alpha right-handed superhelix. Proteins usually contain two or more structurally similar MIF4G domains connected by unstructured linkers. MIF4G domains are found in several proteins involved in RNA metabolism, including eIF4G (eukaryotic initiation factor 4-gamma), eIF-2b (translation initiation factor), UPF2 (regulator of nonsense transcripts 2), and nuclear cap-binding proteins (CBP80, CBC1, NCBP1), although the sequence identity between them may be low []. The nuclear cap-binding complex (CBC) is a heterodimer. Human CBC consists of a large CBP80 subunit and a small CBP20 subunit, the latter being critical for cap binding. CBP80 contains three MIF4G domains connected with long linkers, while CBP20 has an RNP (ribonucleoprotein)-type domain that associates with domains 2 and 3 of CBP80 []. The complex binds to 5'-cap of eukaryotic RNA polymerase II transcripts, such as mRNA and U snRNA. The binding is important for several mRNA nuclear maturation steps and for nonsense-mediated decay. It is also essential for nuclear export of U snRNAs in metazoans []. Eukaryotic translation initiation factor 4 gamma (eIF4G) plays a critical role in protein expression, and is at the centre of a complex regulatory network. Together with the cap-binding protein eIF4E, it recruits the small ribosomal subunit to the 5'-end of mRNA and promotes the assembly of a functional translation initiation complex, which scans along the mRNA to the translation start codon. The activity of eIF4G in translation initiation could be regulated through intra- and inter-protein interactions involving the ARM repeats []. In eIF4G, the MIF4G domain binds eIF4A, eIF3, RNA and DNA.; GO: 0016070 RNA metabolic process; PDB: 3FEY_A 3FEX_A 1H6K_C 1H2V_C 1H2U_A 1H2T_C 1N54_A 1N52_A.
Probab=21.10 E-value=2.3e+02 Score=25.95 Aligned_cols=92 Identities=21% Similarity=0.163 Sum_probs=65.9
Q ss_pred cccCcchHHHhhhhHHHHHHHHHHhhc---CcchhhhHHHHHHHHHhCCChh-------hhhhhhhccHHHHHHHHhhcc
Q 022328 150 CLLHRESAILAHKHKAIKILMNILSTR---GALEQGACLDALTSLMLDSSAN-------QLDFEACNGIEEVAELIRDKQ 219 (299)
Q Consensus 150 cLLh~~s~~~a~r~~AvevllniL~~r---g~leq~AcLDtLl~lmvDSs~N-------~~dFE~~~Gl~~Va~llK~~q 219 (299)
|++|-.||.+-|-..+++-+.+.|..- ..-.|.++|+++...--++|-. .+.+.=++...=|.-++.+.+
T Consensus 59 ~ll~~GSkS~SH~~~~lery~~~Lk~l~~~~~~~q~~il~~v~~~W~~~~q~~~li~dkll~~~ii~~~~Vv~w~f~~~~ 138 (253)
T PF09090_consen 59 CLLHIGSKSFSHVLSALERYKEVLKELEAESEEAQFWILDAVFRFWKNNPQMGFLIIDKLLNYGIISPSAVVNWVFSPEN 138 (253)
T ss_dssp HHHHHTTTSHHHHHHHHHHTHHHHHHH-TSSHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTTSS-HHHHHHHHTSGGG
T ss_pred HHHHhcCchHHHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHhcCCceehHHHHHHHhcCCCCHHHHHHHHcCccc
Confidence 678999999999999999999998864 4567899999999888777743 222333333334444555555
Q ss_pred -cccchhhhHhHHHHHHhhcccC
Q 022328 220 -VDENLRLRCGEFLLLLIGHVNG 241 (299)
Q Consensus 220 -~d~~vRlKC~EFLl~yl~~~~~ 241 (299)
...-.+.-|-|-+.--+..++.
T Consensus 139 ~~~~~~~~~~wE~l~~tl~k~~~ 161 (253)
T PF09090_consen 139 GNQELTRSYVWEILNRTLRKVTK 161 (253)
T ss_dssp -TTTTTSHHHHHHHHHHHHHHHH
T ss_pred cccchhhchHHHHHHHHHHHHHH
Confidence 4556788888888888877666
Done!