Query 026668
Match_columns 235
No_of_seqs 24 out of 26
Neff 2.5
Searched_HMMs 46136
Date Fri Mar 29 11:03:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026668.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026668hhsearch_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 1.3E-51 2.7E-56 363.8 8.2 202 29-234 1-207 (257)
2 cd00020 ARM Armadillo/beta-cat 95.8 0.049 1.1E-06 38.6 6.7 93 133-227 18-110 (120)
3 KOG2160 Armadillo/beta-catenin 94.2 0.22 4.7E-06 47.2 8.1 107 121-227 122-230 (342)
4 PF06371 Drf_GBD: Diaphanous G 88.6 4.3 9.2E-05 32.3 8.6 120 25-192 65-186 (187)
5 cd00020 ARM Armadillo/beta-cat 88.1 2.2 4.7E-05 30.1 6.0 65 161-227 4-68 (120)
6 PF10508 Proteasom_PSMB: Prote 76.0 5.7 0.00012 38.1 5.5 183 26-222 60-259 (503)
7 cd03567 VHS_GGA VHS domain fam 74.8 14 0.00031 30.4 6.9 82 129-221 46-137 (139)
8 PLN03200 cellulose synthase-in 71.2 11 0.00023 43.4 6.9 90 128-217 195-285 (2102)
9 PF01365 RYDR_ITPR: RIH domain 70.6 7.5 0.00016 32.5 4.3 80 139-221 78-157 (207)
10 PF11841 DUF3361: Domain of un 67.7 15 0.00033 31.7 5.6 138 61-220 7-150 (160)
11 PF05536 Neurochondrin: Neuroc 66.1 39 0.00085 33.4 8.8 90 134-227 69-161 (543)
12 PLN03200 cellulose synthase-in 62.9 25 0.00053 40.7 7.6 202 23-227 10-251 (2102)
13 cd03561 VHS VHS domain family; 62.5 36 0.00077 27.0 6.5 82 129-217 45-133 (133)
14 KOG4199 Uncharacterized conser 58.2 11 0.00024 37.2 3.5 76 149-225 89-164 (461)
15 PF08454 RIH_assoc: RyR and IP 56.6 39 0.00085 26.9 5.8 79 139-217 10-107 (109)
16 PF00790 VHS: VHS domain; Int 54.8 68 0.0015 25.6 7.0 83 129-219 50-140 (140)
17 smart00288 VHS Domain present 53.4 77 0.0017 25.4 7.1 80 129-219 45-133 (133)
18 PF00514 Arm: Armadillo/beta-c 40.0 23 0.00049 22.4 1.8 31 195-227 1-31 (41)
19 cd03569 VHS_Hrs_Vps27p VHS dom 39.4 1.6E+02 0.0035 24.1 7.1 82 129-221 49-138 (142)
20 cd03561 VHS VHS domain family; 36.5 1.4E+02 0.0031 23.6 6.2 73 159-231 32-106 (133)
21 smart00185 ARM Armadillo/beta- 36.0 45 0.00097 19.9 2.6 30 196-227 2-31 (41)
22 KOG1048 Neural adherens juncti 35.0 80 0.0017 33.2 5.6 89 136-225 247-337 (717)
23 cd03565 VHS_Tom1 VHS domain fa 34.7 2.3E+02 0.0049 23.2 7.2 83 129-221 46-139 (141)
24 PF12755 Vac14_Fab1_bd: Vacuol 33.5 1E+02 0.0022 23.9 4.8 61 149-217 34-97 (97)
25 PF14293 YWFCY: YWFCY protein 26.6 50 0.0011 24.9 1.9 15 64-78 6-20 (61)
26 COG5218 YCG1 Chromosome conden 23.8 1.8E+02 0.0038 31.1 5.8 86 143-231 551-654 (885)
27 PF12830 Nipped-B_C: Sister ch 23.7 1.3E+02 0.0028 25.2 4.1 72 144-221 12-101 (187)
28 PF09269 DUF1967: Domain of un 23.2 37 0.00081 24.9 0.7 29 198-226 23-51 (69)
29 cd00923 Cyt_c_Oxidase_Va Cytoc 23.2 47 0.001 27.4 1.3 14 137-150 56-69 (103)
30 PRK04358 hypothetical protein; 22.9 80 0.0017 28.8 2.9 34 25-63 136-169 (217)
31 PF09090 MIF4G_like_2: MIF4G l 22.5 56 0.0012 28.7 1.8 54 142-196 52-108 (253)
32 TIGR03798 ocin_TIGR03798 bacte 20.6 1.9E+02 0.0041 20.5 3.9 37 185-221 4-40 (64)
33 TIGR03595 Obg_CgtA_exten Obg f 20.5 46 0.001 24.4 0.7 30 198-227 23-52 (69)
34 PF07027 DUF1318: Protein of u 20.3 97 0.0021 24.5 2.5 31 24-54 34-66 (95)
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=1.3e-51 Score=363.85 Aligned_cols=202 Identities=33% Similarity=0.468 Sum_probs=192.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhcccchhHHhhchHHHHHHHHHhhhcccchhhhhccCCcCCccchhhhhccccc
Q 026668 29 GELANSLKQQRVQREITLALRTGLRDARAEFSFLRVRGLRSLLKILRSVAESDSTIHFFCQSQSVPELQVVPVLFQHSFK 108 (235)
Q Consensus 29 ~elv~sl~~qR~yRevtlaLr~gLRDa~AeFSFlR~rgLr~ll~fLrs~a~sd~~i~LF~~sQs~~~lQvvPvLF~hsl~ 108 (235)
+|-.-|+..++||+|.+.++|+|||++++.|+|++.++.++.-++.|+.+.++++|..|+++|+++++|++|+.|+|++.
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 35667899999999999999999999999999999999888888889999999999999999999999999999999994
Q ss_pred cccccccccccccccccCc-ccccCCCchHHHHHHHHHhhhccccCcchHHHhhhhhHHHHHHHHH-hhcCccchhhHHH
Q 026668 109 EDSVDERVTSLDHIFTVDP-MRVTSPSTDAEVALALRVLEGCCLLHRESAILAHKHKAIKILMNIL-STRGALEQGACLD 186 (235)
Q Consensus 109 ~~~~~~~V~~l~~i~g~ep-~kitsp~Td~EvaLALrVLEGcCLlh~~s~~~ah~~~av~VlldlL-~arg~leq~acLD 186 (235)
...|..+++++|.++ ++.++|++|.+|++||||||||||+||+|+.++|++++|+++||+| .++++.+|.+|||
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 9999999999999999999999999999999999999999999999 5588999999999
Q ss_pred HHHHHHhCCchhhhhhhhhccHHHHHHHHhhcCCCchhhHH---Hhhhhhc
Q 026668 187 ALTSLMLDSSANQLDFEACNGIEEVAELIRDKQVDENLRFM---FYLLLIS 234 (235)
Q Consensus 187 aLl~lmvDSs~Nq~dFE~~~Gle~Va~llKd~~vd~~vRlK---FllLlig 234 (235)
||+|+|+|+|+|+|+||+++|++.|++++|++++++++||| ||.++++
T Consensus 157 tLv~iLld~p~N~r~FE~~~Gl~~v~~llk~~~~~~~~r~K~~EFL~fyl~ 207 (257)
T PF08045_consen 157 TLVCILLDSPENQRDFEELNGLSTVCSLLKSKSTDRELRLKCIEFLYFYLM 207 (257)
T ss_pred HHHHHHHcChHHHHHHHHhCCHHHHHHHHccccccHHHhHHHHHHHHHHHc
Confidence 99999999999999999999999999999999999999999 8888764
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=95.80 E-value=0.049 Score=38.61 Aligned_cols=93 Identities=16% Similarity=0.167 Sum_probs=79.2
Q ss_pred CCchHHHHHHHHHhhhccccCcchHHHhhhhhHHHHHHHHHhhcCccchhhHHHHHHHHHhCCchhhhhhhhhccHHHHH
Q 026668 133 PSTDAEVALALRVLEGCCLLHRESAILAHKHKAIKILMNILSTRGALEQGACLDALTSLMLDSSANQLDFEACNGIEEVA 212 (235)
Q Consensus 133 p~Td~EvaLALrVLEGcCLlh~~s~~~ah~~~av~VlldlL~arg~leq~acLDaLl~lmvDSs~Nq~dFE~~~Gle~Va 212 (235)
.+...-..-|++.|...|...+.+....-+..+++.++++|....+-.+..|+=+|-.+.-+.+++...+.+.+++..+.
T Consensus 18 ~~~~~~~~~a~~~l~~l~~~~~~~~~~~~~~~~i~~l~~~l~~~~~~v~~~a~~~L~~l~~~~~~~~~~~~~~g~l~~l~ 97 (120)
T cd00020 18 SSDENVQREAAWALSNLSAGNNDNIQAVVEAGGLPALVQLLKSEDEEVVKAALWALRNLAAGPEDNKLIVLEAGGVPKLV 97 (120)
T ss_pred cCCHHHHHHHHHHHHHHhcCCHHHHHHHHHCCChHHHHHHHhCCCHHHHHHHHHHHHHHccCcHHHHHHHHHCCChHHHH
Confidence 33456667788999999999888888888889999999999998888889999999999888888889999999999999
Q ss_pred HHHhhcCCCchhhHH
Q 026668 213 ELIRDKQVDENLRFM 227 (235)
Q Consensus 213 ~llKd~~vd~~vRlK 227 (235)
+++.+. +.++|-.
T Consensus 98 ~~l~~~--~~~~~~~ 110 (120)
T cd00020 98 NLLDSS--NEDIQKN 110 (120)
T ss_pred HHHhcC--CHHHHHH
Confidence 999887 5566655
No 3
>KOG2160 consensus Armadillo/beta-catenin-like repeat-containing protein [Posttranslational modification, protein turnover, chaperones]
Probab=94.23 E-value=0.22 Score=47.21 Aligned_cols=107 Identities=21% Similarity=0.239 Sum_probs=94.8
Q ss_pred cccccCcccccCCCchHHH-HHHHHHhhhccccCcchHHHhhhhhHHHHHHHHHhhcCccch-hhHHHHHHHHHhCCchh
Q 026668 121 HIFTVDPMRVTSPSTDAEV-ALALRVLEGCCLLHRESAILAHKHKAIKILMNILSTRGALEQ-GACLDALTSLMLDSSAN 198 (235)
Q Consensus 121 ~i~g~ep~kitsp~Td~Ev-aLALrVLEGcCLlh~~s~~~ah~~~av~VlldlL~arg~leq-~acLDaLl~lmvDSs~N 198 (235)
..-|..|+---.-.+|++| ++|.|||--|-=+-|.|-..+=+..|.+-|+-+|+..++.+- +..|=|+-|++---++-
T Consensus 122 ~~ggl~~ll~~l~~~~~~lR~~Aa~Vigt~~qNNP~~Qe~v~E~~~L~~Ll~~ls~~~~~~~r~kaL~AissLIRn~~~g 201 (342)
T KOG2160|consen 122 SLGGLVPLLGYLENSDAELRELAARVIGTAVQNNPKSQEQVIELGALSKLLKILSSDDPNTVRTKALFAISSLIRNNKPG 201 (342)
T ss_pred hccCHHHHHHHhcCCcHHHHHHHHHHHHHHHhcCHHHHHHHHHcccHHHHHHHHccCCCchHHHHHHHHHHHHHhcCcHH
Confidence 3456666333555677777 799999999999999999999999999999999998777765 88899999999999999
Q ss_pred hhhhhhhccHHHHHHHHhhcCCCchhhHH
Q 026668 199 QLDFEACNGIEEVAELIRDKQVDENLRFM 227 (235)
Q Consensus 199 q~dFE~~~Gle~Va~llKd~~vd~~vRlK 227 (235)
+..|-+.+|.+-..+++.+.+.+..+++|
T Consensus 202 ~~~fl~~~G~~~L~~vl~~~~~~~~lkrK 230 (342)
T KOG2160|consen 202 QDEFLKLNGYQVLRDVLQSNNTSVKLKRK 230 (342)
T ss_pred HHHHHhcCCHHHHHHHHHcCCcchHHHHH
Confidence 99999999999999999999999999999
No 4
>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=88.65 E-value=4.3 Score=32.33 Aligned_cols=120 Identities=18% Similarity=0.224 Sum_probs=78.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhcccc--hhHHhhchHHHHHHHHHhhhcccchhhhhccCCcCCccchhhh
Q 026668 25 ATAVGELANSLKQQRVQREITLALRTGLRDARAEF--SFLRVRGLRSLLKILRSVAESDSTIHFFCQSQSVPELQVVPVL 102 (235)
Q Consensus 25 ~~~v~elv~sl~~qR~yRevtlaLr~gLRDa~AeF--SFlR~rgLr~ll~fLrs~a~sd~~i~LF~~sQs~~~lQvvPvL 102 (235)
.......++.+.....-.++--.|+..||-....| .|+-..|+..|++.|.........-
T Consensus 65 ~~~p~~~i~~L~~~~~~~~~L~~L~v~Lrt~~~~Wv~~Fl~~~G~~~L~~~L~~~~~~~~~~------------------ 126 (187)
T PF06371_consen 65 KSSPEWYIKKLKSRPSTSKILKSLRVSLRTNPISWVQEFLELGGLEALLNVLSKLNKKKEKS------------------ 126 (187)
T ss_dssp CHHHHHHHHHHTTT--HHHHHHHHHHHHHHS-HHHHHHH-HHHHHHHHHHHHHHHHTHHCTC------------------
T ss_pred hhhHHHHHHHHHccCccHHHHHHHHHHhccCCchHHHHhccCCCHHHHHHHHHHhhhhhhhc------------------
Confidence 34555666767665555466677777777777777 8999999999999998843321110
Q ss_pred hccccccccccccccccccccccCcccccCCCchHHHHHHHHHhhhccccCcchHHHhhhhhHHHHHHHHHhhcCccchh
Q 026668 103 FQHSFKEDSVDERVTSLDHIFTVDPMRVTSPSTDAEVALALRVLEGCCLLHRESAILAHKHKAIKILMNILSTRGALEQG 182 (235)
Q Consensus 103 F~hsl~~~~~~~~V~~l~~i~g~ep~kitsp~Td~EvaLALrVLEGcCLlh~~s~~~ah~~~av~VlldlL~arg~leq~ 182 (235)
..........+|-|--+|-.+.+...+.....++..+...|....+-...
T Consensus 127 ------------------------------~~~~~~~~~~l~Clkal~n~~~G~~~v~~~~~~v~~i~~~L~s~~~~~r~ 176 (187)
T PF06371_consen 127 ------------------------------EEDIDIEHECLRCLKALMNTKYGLEAVLSHPDSVNLIALSLDSPNIKTRK 176 (187)
T ss_dssp ------------------------------TTCHHHHHHHHHHHHHHTSSHHHHHHHHCSSSHHHHHHHT--TTSHHHHH
T ss_pred ------------------------------chhHHHHHHHHHHHHHHHccHHHHHHHHcCcHHHHHHHHHHCCCCHHHHH
Confidence 11222334457777777777777788888888888888888877777777
Q ss_pred hHHHHHHHHH
Q 026668 183 ACLDALTSLM 192 (235)
Q Consensus 183 acLDaLl~lm 192 (235)
.++|.|.++-
T Consensus 177 ~~leiL~~lc 186 (187)
T PF06371_consen 177 LALEILAALC 186 (187)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHH
Confidence 8888777653
No 5
>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=88.08 E-value=2.2 Score=30.13 Aligned_cols=65 Identities=18% Similarity=0.241 Sum_probs=55.5
Q ss_pred hhhhHHHHHHHHHhhcCccchhhHHHHHHHHHhCCchhhhhhhhhccHHHHHHHHhhcCCCchhhHH
Q 026668 161 HKHKAIKILMNILSTRGALEQGACLDALTSLMLDSSANQLDFEACNGIEEVAELIRDKQVDENLRFM 227 (235)
Q Consensus 161 h~~~av~VlldlL~arg~leq~acLDaLl~lmvDSs~Nq~dFE~~~Gle~Va~llKd~~vd~~vRlK 227 (235)
.+...++.++++|....+-....++.+|-.+-.+++++...|-+.++++.+.+++.+. +.+++..
T Consensus 4 ~~~~~i~~l~~~l~~~~~~~~~~a~~~l~~l~~~~~~~~~~~~~~~~i~~l~~~l~~~--~~~v~~~ 68 (120)
T cd00020 4 IQAGGLPALVSLLSSSDENVQREAAWALSNLSAGNNDNIQAVVEAGGLPALVQLLKSE--DEEVVKA 68 (120)
T ss_pred HHcCChHHHHHHHHcCCHHHHHHHHHHHHHHhcCCHHHHHHHHHCCChHHHHHHHhCC--CHHHHHH
Confidence 3556788899999877777889999999999999999999999999999999999984 5677655
No 6
>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=75.97 E-value=5.7 Score=38.11 Aligned_cols=183 Identities=16% Similarity=0.244 Sum_probs=109.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHhhhhhhcccchhHHhhchHHHHHHHHHhhhcccchhhhhccCCcCCccchhhhhcc
Q 026668 26 TAVGELANSLKQQRVQREITLALRTGLRDARAEFSFLRVRGLRSLLKILRSVAESDSTIHFFCQSQSVPELQVVPVLFQH 105 (235)
Q Consensus 26 ~~v~elv~sl~~qR~yRevtlaLr~gLRDa~AeFSFlR~rgLr~ll~fLrs~a~sd~~i~LF~~sQs~~~lQvvPvLF~h 105 (235)
.....+.....-.-+.....-.|..||.- ...-+|.-+++.|-+..+. ++..+.++ .+-.++|.+..
T Consensus 60 ~iL~~~l~~~~~~~l~~~~~~~L~~gL~h---~~~~Vr~l~l~~l~~~~~~---~~~~~~~~------~~~~l~~~i~~- 126 (503)
T PF10508_consen 60 DILKRLLSALSPDSLLPQYQPFLQRGLTH---PSPKVRRLALKQLGRIARH---SEGAAQLL------VDNELLPLIIQ- 126 (503)
T ss_pred HHHHHHHhccCHHHHHHHHHHHHHHHhcC---CCHHHHHHHHHHHHHHhcC---CHHHHHHh------cCccHHHHHHH-
Confidence 33444444444444455555667777764 3456666666664444332 33333333 33445665443
Q ss_pred ccccccc---cccccccccccccCc-cc-ccCCCchHHH---------HHHHHHhhhccccCcchHHHhhhhh---HHHH
Q 026668 106 SFKEDSV---DERVTSLDHIFTVDP-MR-VTSPSTDAEV---------ALALRVLEGCCLLHRESAILAHKHK---AIKI 168 (235)
Q Consensus 106 sl~~~~~---~~~V~~l~~i~g~ep-~k-itsp~Td~Ev---------aLALrVLEGcCLlh~~s~~~ah~~~---av~V 168 (235)
.++.+.. ......+..+.+.++ ++ +-+|....++ ..=+||++=.|-+...|...+.-.. .+.-
T Consensus 127 ~L~~~d~~Va~~A~~~L~~l~~~~~~~~~l~~~~~~~~L~~l~~~~~~~vR~Rv~el~v~i~~~S~~~~~~~~~sgll~~ 206 (503)
T PF10508_consen 127 CLRDPDLSVAKAAIKALKKLASHPEGLEQLFDSNLLSKLKSLMSQSSDIVRCRVYELLVEIASHSPEAAEAVVNSGLLDL 206 (503)
T ss_pred HHcCCcHHHHHHHHHHHHHHhCCchhHHHHhCcchHHHHHHHHhccCHHHHHHHHHHHHHHHhcCHHHHHHHHhccHHHH
Confidence 3333321 011122222222222 11 1111111111 1237999988888777777666555 5777
Q ss_pred HHHHHhhcCccchhhHHHHHHHHHhCCchhhhhhhhhccHHHHHHHHhhcCCCc
Q 026668 169 LMNILSTRGALEQGACLDALTSLMLDSSANQLDFEACNGIEEVAELIRDKQVDE 222 (235)
Q Consensus 169 lldlL~arg~leq~acLDaLl~lmvDSs~Nq~dFE~~~Gle~Va~llKd~~vd~ 222 (235)
+++-|.+.-++.|-+|++.|--+-- ++.|..-.++.+.++++.+++.+...|+
T Consensus 207 ll~eL~~dDiLvqlnalell~~La~-~~~g~~yL~~~gi~~~L~~~l~~~~~dp 259 (503)
T PF10508_consen 207 LLKELDSDDILVQLNALELLSELAE-TPHGLQYLEQQGIFDKLSNLLQDSEEDP 259 (503)
T ss_pred HHHHhcCccHHHHHHHHHHHHHHHc-ChhHHHHHHhCCHHHHHHHHHhccccCC
Confidence 8888888889999999998877777 9999999999999999999999999998
No 7
>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=74.79 E-value=14 Score=30.39 Aligned_cols=82 Identities=22% Similarity=0.313 Sum_probs=56.5
Q ss_pred cccCCCchHHHHHHHHHhhhccccCcchHHHhhhhhHHH----HHHHHHhhc--C----ccchhhHHHHHHHHHhCCchh
Q 026668 129 RVTSPSTDAEVALALRVLEGCCLLHRESAILAHKHKAIK----ILMNILSTR--G----ALEQGACLDALTSLMLDSSAN 198 (235)
Q Consensus 129 kitsp~Td~EvaLALrVLEGcCLlh~~s~~~ah~~~av~----VlldlL~ar--g----~leq~acLDaLl~lmvDSs~N 198 (235)
||.+|. ..+.-+||.+||-|.-++- .--|+..|-+ .++.+++.. | +-.+.-+|+.+-..
T Consensus 46 rl~~~n-~~v~l~AL~LLe~~vkNCG---~~fh~evas~~Fl~el~kl~~~k~~~~~~~~~Vk~kil~li~~W------- 114 (139)
T cd03567 46 KIQSPQ-EKEALQALTVLEACMKNCG---ERFHSEVGKFRFLNELIKLVSPKYLGSRTSEKVKTKIIELLYSW------- 114 (139)
T ss_pred HHcCCC-HHHHHHHHHHHHHHHHHcC---HHHHHHHHhHHHHHHHHHHhccccCCCCCCHHHHHHHHHHHHHH-------
Confidence 456655 5678889999999987653 3345555544 455555432 1 23556777766554
Q ss_pred hhhhhhhccHHHHHHHHhhcCCC
Q 026668 199 QLDFEACNGIEEVAELIRDKQVD 221 (235)
Q Consensus 199 q~dFE~~~Gle~Va~llKd~~vd 221 (235)
...|.+.+.+.++-..||..|+=
T Consensus 115 ~~~f~~~p~~~~~Y~~Lk~~G~i 137 (139)
T cd03567 115 TLELPHEPKIKEAYDMLKKQGII 137 (139)
T ss_pred HHHhcccchHHHHHHHHHHCCCc
Confidence 46788999999999999999974
No 8
>PLN03200 cellulose synthase-interactive protein; Provisional
Probab=71.16 E-value=11 Score=43.40 Aligned_cols=90 Identities=17% Similarity=0.167 Sum_probs=73.0
Q ss_pred ccccCCCchHHHHHHHHHhhhccccCcchHHHhhhhhHHHHHHHHHhhcC-ccchhhHHHHHHHHHhCCchhhhhhhhhc
Q 026668 128 MRVTSPSTDAEVALALRVLEGCCLLHRESAILAHKHKAIKILMNILSTRG-ALEQGACLDALTSLMLDSSANQLDFEACN 206 (235)
Q Consensus 128 ~kitsp~Td~EvaLALrVLEGcCLlh~~s~~~ah~~~av~VlldlL~arg-~leq~acLDaLl~lmvDSs~Nq~dFE~~~ 206 (235)
+++-+-+.+....-|..+|.-.|..+++.+...-+..+|..|+.+|.... +-.|..|.-+|..|--|+++|...--+++
T Consensus 195 V~LLsS~d~~lQ~eAa~aLa~Lass~ee~~~aVIeaGaVP~LV~LL~sg~~~~VRE~AA~AL~nLAs~s~e~r~~Iv~aG 274 (2102)
T PLN03200 195 VKLLSSGNSDAQANAASLLARLMMAFESSISKVLDAGAVKQLLKLLGQGNEVSVRAEAAGALEALSSQSKEAKQAIADAG 274 (2102)
T ss_pred HHHHcCCCHHHHHHHHHHHHHHHcCChHHHHHHHHCCCHHHHHHHHccCCChHHHHHHHHHHHHHhcCCHHHHHHHHHCC
Confidence 34434345566667788888888888878887788999999999996543 45689999999888889999999999999
Q ss_pred cHHHHHHHHhh
Q 026668 207 GIEEVAELIRD 217 (235)
Q Consensus 207 Gle~Va~llKd 217 (235)
|++...+++..
T Consensus 275 gIp~LI~lL~s 285 (2102)
T PLN03200 275 GIPALINATVA 285 (2102)
T ss_pred CHHHHHHHHhC
Confidence 99999999974
No 9
>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=70.59 E-value=7.5 Score=32.48 Aligned_cols=80 Identities=25% Similarity=0.279 Sum_probs=37.6
Q ss_pred HHHHHHHhhhccccCcchHHHhhhhhHHHHHHHHHhhcCccchhhHHHHHHHHHhCCchhhhhhhhhccHHHHHHHHhhc
Q 026668 139 VALALRVLEGCCLLHRESAILAHKHKAIKILMNILSTRGALEQGACLDALTSLMLDSSANQLDFEACNGIEEVAELIRDK 218 (235)
Q Consensus 139 vaLALrVLEGcCLlh~~s~~~ah~~~av~VlldlL~arg~leq~acLDaLl~lmvDSs~Nq~dFE~~~Gle~Va~llKd~ 218 (235)
+..+.|+|...|-..+.-....++|... ++..+..........-+|+|.+++=|.++-...+.+-. |+.++.+|+..
T Consensus 78 ~~~~~~lL~~f~~~n~~NQ~~l~~~~~~--l~~~~~~~~~~~~~~~~d~l~~i~~dN~~L~~~i~e~~-I~~~i~ll~~~ 154 (207)
T PF01365_consen 78 FRLCYRLLRQFCRGNRENQKYLFKHLDF--LISIFMQLQIGYGLGALDVLTEIFRDNPELCESISEEH-IEKFIELLRKH 154 (207)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHH-------HHCCCH-TTHHHHHHHHHHHTT------------------------
T ss_pred HHHHHHHHHHHHHhCHHHHHHHHHHHhH--HHHHHHHhhccCCchHHHHHHHHHHCcHHHHHHhhHHH-HHHHHHHHHHc
Confidence 4678999999999999888888887652 25555554444445679999999999999999998877 99999999997
Q ss_pred CCC
Q 026668 219 QVD 221 (235)
Q Consensus 219 ~vd 221 (235)
|.+
T Consensus 155 gr~ 157 (207)
T PF01365_consen 155 GRQ 157 (207)
T ss_dssp ---
T ss_pred CCC
Confidence 733
No 10
>PF11841 DUF3361: Domain of unknown function (DUF3361)
Probab=67.74 E-value=15 Score=31.65 Aligned_cols=138 Identities=22% Similarity=0.310 Sum_probs=96.2
Q ss_pred hHHhhchHHHHHHHHHhhhc----ccchhhhhccCCcCCccchhhhhccccccccccccccccccccccCc-ccccCCCc
Q 026668 61 FLRVRGLRSLLKILRSVAES----DSTIHFFCQSQSVPELQVVPVLFQHSFKEDSVDERVTSLDHIFTVDP-MRVTSPST 135 (235)
Q Consensus 61 FlR~rgLr~ll~fLrs~a~s----d~~i~LF~~sQs~~~lQvvPvLF~hsl~~~~~~~~V~~l~~i~g~ep-~kitsp~T 135 (235)
|.+..|+.-|.+.+.+--+. .++... -||-..-|.+|..=.- .++++-|=..= --+++++.
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 88899999998877763320 111111 2566667778754111 12222221111 12345666
Q ss_pred hHHHH-HHHHHhhhccccCcchHHHhhhhhHHHHHHHHHhhcCccchhhHHHHHHHHHhCCchhhhhhhhhccHHHHHHH
Q 026668 136 DAEVA-LALRVLEGCCLLHRESAILAHKHKAIKILMNILSTRGALEQGACLDALTSLMLDSSANQLDFEACNGIEEVAEL 214 (235)
Q Consensus 136 d~Eva-LALrVLEGcCLlh~~s~~~ah~~~av~VlldlL~arg~leq~acLDaLl~lmvDSs~Nq~dFE~~~Gle~Va~l 214 (235)
|+.|. .||.+||-.++.++.=.....+.--++-|+..|-....-.|...+=.+-|+++=+++..|. ++++.
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 88887 5799999999998887888888888899999998877788999999999999999888775 67777
Q ss_pred HhhcCC
Q 026668 215 IRDKQV 220 (235)
Q Consensus 215 lKd~~v 220 (235)
+..+|.
T Consensus 145 l~~k~~ 150 (160)
T PF11841_consen 145 LSQKQI 150 (160)
T ss_pred HHHHHH
Confidence 766654
No 11
>PF05536 Neurochondrin: Neurochondrin
Probab=66.06 E-value=39 Score=33.35 Aligned_cols=90 Identities=18% Similarity=0.326 Sum_probs=71.7
Q ss_pred CchHHHHHHHHHhhhccccCcchHHHhhhh--hHHHHHHHHHhhcCc-cchhhHHHHHHHHHhCCchhhhhhhhhccHHH
Q 026668 134 STDAEVALALRVLEGCCLLHRESAILAHKH--KAIKILMNILSTRGA-LEQGACLDALTSLMLDSSANQLDFEACNGIEE 210 (235)
Q Consensus 134 ~Td~EvaLALrVLEGcCLlh~~s~~~ah~~--~av~VlldlL~arg~-leq~acLDaLl~lmvDSs~Nq~dFE~~~Gle~ 210 (235)
++.+=..||+-||-.-|- .++ ..+|.. .-|.+|+++++..+. -...-|+..|.+|- =+|+.++.|=+.+++..
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 566778999999999987 333 233333 346679999999887 66788999999888 89999999999999999
Q ss_pred HHHHHhhcCCCchhhHH
Q 026668 211 VAELIRDKQVDENLRFM 227 (235)
Q Consensus 211 Va~llKd~~vd~~vRlK 227 (235)
.++++.+.....+.=++
T Consensus 145 L~ei~~~~~~~~E~Al~ 161 (543)
T PF05536_consen 145 LCEIIPNQSFQMEIALN 161 (543)
T ss_pred HHHHHHhCcchHHHHHH
Confidence 99999996665555555
No 12
>PLN03200 cellulose synthase-interactive protein; Provisional
Probab=62.88 E-value=25 Score=40.71 Aligned_cols=202 Identities=17% Similarity=0.199 Sum_probs=120.8
Q ss_pred hhhhhHHHHHHHHHHH----HHHHHHHHHHHhhhhhhcccchhHH--hhchHHHHHHHHH---hhhcccchhhhhccCCc
Q 026668 23 AAATAVGELANSLKQQ----RVQREITLALRTGLRDARAEFSFLR--VRGLRSLLKILRS---VAESDSTIHFFCQSQSV 93 (235)
Q Consensus 23 ~~~~~v~elv~sl~~q----R~yRevtlaLr~gLRDa~AeFSFlR--~rgLr~ll~fLrs---~a~sd~~i~LF~~sQs~ 93 (235)
...+.|..+++.|... ...+..+-.||.=.+.-.-.-.|+- --.+..|+.+|+| .+.-+..--|+.-+.-
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 3456777888888755 6666666666665555443455552 2357778888863 1111111122222211
Q ss_pred CC-------ccchhhhhccccccccc---ccccccc---------cc----c---cccCc--ccccCCCc--hHHH-HHH
Q 026668 94 PE-------LQVVPVLFQHSFKEDSV---DERVTSL---------DH----I---FTVDP--MRVTSPST--DAEV-ALA 142 (235)
Q Consensus 94 ~~-------lQvvPvLF~hsl~~~~~---~~~V~~l---------~~----i---~g~ep--~kitsp~T--d~Ev-aLA 142 (235)
++ --.||-|.+= |+.... ++....+ || | .|+=| +++-.+++ |.-| ..|
T Consensus 89 e~nk~~Iv~~GaIppLV~L-L~sGs~eaKe~AA~AL~sLS~~~~~D~~~~~I~v~~GaVp~Lv~lL~~gsk~d~~L~~~A 167 (2102)
T PLN03200 89 EDLRVKVLLGGCIPPLLSL-LKSGSAEAQKAAAEAIYAVSSGGLSDHVGSKIFSTEGVVPSLWDQLQPGNKQDKVVEGLL 167 (2102)
T ss_pred HHHHHHHHHcCChHHHHHH-HHCCCHHHHHHHHHHHHHHHcCcchhhhhhhhhhhcCChHHHHHHHhCCchhhHHHHHHH
Confidence 22 2355554331 222210 1111111 21 1 23333 34333332 3311 356
Q ss_pred HHHhhhccccCcchHHHhhhhhHHHHHHHHHhhcCccchhhHHHHHHHHHhCCchhhhhhhhhccHHHHHHHHhhcCCCc
Q 026668 143 LRVLEGCCLLHRESAILAHKHKAIKILMNILSTRGALEQGACLDALTSLMLDSSANQLDFEACNGIEEVAELIRDKQVDE 222 (235)
Q Consensus 143 LrVLEGcCLlh~~s~~~ah~~~av~VlldlL~arg~leq~acLDaLl~lmvDSs~Nq~dFE~~~Gle~Va~llKd~~vd~ 222 (235)
..+|...|..+.......-+..++..++++|....+-.|..|.-+|.+++..++.+-...-+.++|...+++|++ +.+.
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 788888898666555555566799999999998778889999999999999988777777789999999999976 4555
Q ss_pred hhhHH
Q 026668 223 NLRFM 227 (235)
Q Consensus 223 ~vRlK 227 (235)
++|-.
T Consensus 247 ~VRE~ 251 (2102)
T PLN03200 247 SVRAE 251 (2102)
T ss_pred HHHHH
Confidence 67755
No 13
>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=62.49 E-value=36 Score=27.04 Aligned_cols=82 Identities=18% Similarity=0.118 Sum_probs=51.7
Q ss_pred cccCCCchHHHHHHHHHhhhccccCcchHHHhhhhhHH----HHHHHHHhhc-C--ccchhhHHHHHHHHHhCCchhhhh
Q 026668 129 RVTSPSTDAEVALALRVLEGCCLLHRESAILAHKHKAI----KILMNILSTR-G--ALEQGACLDALTSLMLDSSANQLD 201 (235)
Q Consensus 129 kitsp~Td~EvaLALrVLEGcCLlh~~s~~~ah~~~av----~VlldlL~ar-g--~leq~acLDaLl~lmvDSs~Nq~d 201 (235)
||.+| ...+.-+||.+|+-|.-++. ..-|+..+- ..+++++... . +-.+.-||+.+...=..-+.++
T Consensus 45 rl~~~-n~~vql~AL~lLd~~vkNcg---~~f~~~i~s~~fl~~l~~l~~~~~~~~~~Vk~kil~ll~~W~~~f~~~~-- 118 (133)
T cd03561 45 KIKYG-NPHVQLLALTLLELLVKNCG---KPFHLQVADKEFLLELVKIAKNSPKYDPKVREKALELILAWSESFGGHS-- 118 (133)
T ss_pred HHcCC-CHHHHHHHHHHHHHHHHhCC---hHHHHHHhhHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHhcCCC--
Confidence 45665 56888899999999988753 333444443 3366666654 2 3356788888877632222211
Q ss_pred hhhhccHHHHHHHHhh
Q 026668 202 FEACNGIEEVAELIRD 217 (235)
Q Consensus 202 FE~~~Gle~Va~llKd 217 (235)
.+++|+.++-..||.
T Consensus 119 -~~~~~~~~~y~~lk~ 133 (133)
T cd03561 119 -EDLPGIEDAYKLLKR 133 (133)
T ss_pred -ccchHHHHHHHHHhC
Confidence 347888888888773
No 14
>KOG4199 consensus Uncharacterized conserved protein [Function unknown]
Probab=58.21 E-value=11 Score=37.23 Aligned_cols=76 Identities=18% Similarity=0.184 Sum_probs=62.9
Q ss_pred ccccCcchHHHhhhhhHHHHHHHHHhhcCccchhhHHHHHHHHHhCCchhhhhhhhhccHHHHHHHHhhcCCCchhh
Q 026668 149 CCLLHRESAILAHKHKAIKILMNILSTRGALEQGACLDALTSLMLDSSANQLDFEACNGIEEVAELIRDKQVDENLR 225 (235)
Q Consensus 149 cCLlh~~s~~~ah~~~av~VlldlL~arg~leq~acLDaLl~lmvDSs~Nq~dFE~~~Gle~Va~llKd~~vd~~vR 225 (235)
-|--...|..+||+..|...++-.+-.+....|+.|+-+|=++-.|.-. |-||-++.|++-|+++|-++--+++|-
T Consensus 89 ~ck~~~A~r~la~~~ga~~~~it~~~la~~~~~~~l~ksL~al~~lt~~-qpdl~da~g~~vvv~lL~~~~~~~dlt 164 (461)
T KOG4199|consen 89 ECKKSLAHRVLAGKNGAHDALITLLELAESPNESVLKKSLEAINSLTHK-QPDLFDAEAMAVVLKLLALKVESEEVT 164 (461)
T ss_pred HHhhhHHHHHHhccCCCcchhhhHHHHhhCCchhHHHHHHHHHHHhhcC-CcchhccccHHHHHHHHhcccchHHHH
Confidence 4555556778899988888888877778888999999999888776543 778999999999999999998888875
No 15
>PF08454 RIH_assoc: RyR and IP3R Homology associated; InterPro: IPR013662 This eukaryotic domain is found in ryanodine receptors (RyR) and inositol 1, 4, 5-trisphosphate receptors (IP3R) which together form a superfamily of homotetrameric ligand-gated intracellular Ca2+ channels []. There seems to be no known function for this domain []. Also see the IP3-binding domain IPR000699 from INTERPRO and IPR003608 from INTERPRO.
Probab=56.56 E-value=39 Score=26.91 Aligned_cols=79 Identities=18% Similarity=0.256 Sum_probs=59.9
Q ss_pred HHHHHHHhhhccccCcchH--------HHhhhhhHHHHHHHHHhhc---C-c-c-----chhhHHHHHHHHHhC-Cchhh
Q 026668 139 VALALRVLEGCCLLHRESA--------ILAHKHKAIKILMNILSTR---G-A-L-----EQGACLDALTSLMLD-SSANQ 199 (235)
Q Consensus 139 vaLALrVLEGcCLlh~~s~--------~~ah~~~av~VlldlL~ar---g-~-l-----eq~acLDaLl~lmvD-Ss~Nq 199 (235)
+-.-||+||-+|-.|..-- .--+-++-|..++++|..- + . - --.-|+|||.-..-- +.+||
T Consensus 10 ~~~ilr~LQLlCEghn~~lQnylR~Q~~~~~s~nlV~~~~~ll~~l~~~~~~~~~~~~~~~~q~~~tL~E~iQGPC~eNQ 89 (109)
T PF08454_consen 10 IQRILRFLQLLCEGHNLDLQNYLRQQPNNKNSYNLVSETVDLLDSLQEFGKDINSDNIELIIQCFDTLTEFIQGPCIENQ 89 (109)
T ss_pred HHHHHHHHHHHHCcCCHHHHHHHhcCCCCCCccHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHcCCCHHhH
Confidence 4456999999999885321 1124567788888888663 2 1 1 126799999999999 99999
Q ss_pred hhhhhhccHHHHHHHHhh
Q 026668 200 LDFEACNGIEEVAELIRD 217 (235)
Q Consensus 200 ~dFE~~~Gle~Va~llKd 217 (235)
...-....++.|..+|+.
T Consensus 90 ~~l~~s~~~~~i~~lL~~ 107 (109)
T PF08454_consen 90 IALANSKFLDIINDLLSK 107 (109)
T ss_pred HHHHHccHHHHHHHHHhh
Confidence 999999999999999853
No 16
>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=54.80 E-value=68 Score=25.58 Aligned_cols=83 Identities=12% Similarity=0.109 Sum_probs=48.7
Q ss_pred cccCCCchHHHHHHHHHhhhccccCc-chHHHhhhhhHHHHHHHHHhhcCcc----chhhHHHHHHHHHhCCchhhhhhh
Q 026668 129 RVTSPSTDAEVALALRVLEGCCLLHR-ESAILAHKHKAIKILMNILSTRGAL----EQGACLDALTSLMLDSSANQLDFE 203 (235)
Q Consensus 129 kitsp~Td~EvaLALrVLEGcCLlh~-~s~~~ah~~~av~VlldlL~arg~l----eq~acLDaLl~lmvDSs~Nq~dFE 203 (235)
+|.+ +...++-+||.+|+-|.-++. .-........=+..+..++...... .+..+++.+... ...|.
T Consensus 50 rl~~-~~~~vq~~aL~lld~lvkNcg~~f~~ev~~~~fl~~l~~l~~~~~~~~~~~Vk~k~l~ll~~W-------~~~f~ 121 (140)
T PF00790_consen 50 RLKH-GNPNVQLLALTLLDALVKNCGPRFHREVASKEFLDELVKLIKSKKTDPETPVKEKILELLQEW-------AEAFK 121 (140)
T ss_dssp HHTT-SSHHHHHHHHHHHHHHHHHSHHHHHHHHTSHHHHHHHHHHHHHTTTHHHSHHHHHHHHHHHHH-------HHHTT
T ss_pred HHhC-CCHHHHHHHHHHHHHHHHcCCHHHHHHHhHHHHHHHHHHHHccCCCCchhHHHHHHHHHHHHH-------HHHHC
Confidence 4555 556788899999999988752 2222222333344455555544433 477788777765 56675
Q ss_pred hhccHHH---HHHHHhhcC
Q 026668 204 ACNGIEE---VAELIRDKQ 219 (235)
Q Consensus 204 ~~~Gle~---Va~llKd~~ 219 (235)
..+.... .-+.||++|
T Consensus 122 ~~~~~~~i~~~y~~Lk~~G 140 (140)
T PF00790_consen 122 SDPELSLIQDTYKRLKRKG 140 (140)
T ss_dssp TSTTGHHHHHHHHHHHHTT
T ss_pred CCCCchHHHHHHHHHHHCc
Confidence 5454444 444555544
No 17
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=53.36 E-value=77 Score=25.36 Aligned_cols=80 Identities=21% Similarity=0.297 Sum_probs=48.3
Q ss_pred cccCCCchHHHHHHHHHhhhccccCcchHHHhhhhhHHHHHHH----HHhhcCcc--chhhHHHHHHHHHhCCchhhhhh
Q 026668 129 RVTSPSTDAEVALALRVLEGCCLLHRESAILAHKHKAIKILMN----ILSTRGAL--EQGACLDALTSLMLDSSANQLDF 202 (235)
Q Consensus 129 kitsp~Td~EvaLALrVLEGcCLlh~~s~~~ah~~~av~Vlld----lL~arg~l--eq~acLDaLl~lmvDSs~Nq~dF 202 (235)
||.+ +...+.-+||.+|+-|.-++ -.--|+..+-+-++| ++..+... .+..+|..+... ...|
T Consensus 45 rl~~-~n~~v~l~AL~lLe~~vkNc---g~~f~~ev~s~~fl~~L~~l~~~~~~~~~Vk~kil~li~~W-------~~~f 113 (133)
T smart00288 45 RLNN-KNPHVALLALTLLDACVKNC---GSKFHLEVASKEFLNELVKLIKPKYPLPLVKKRILELIQEW-------ADAF 113 (133)
T ss_pred HHcC-CCHHHHHHHHHHHHHHHHHC---CHHHHHHHHhHHHHHHHHHHHcCCCCcHHHHHHHHHHHHHH-------HHHH
Confidence 4555 34678889999999998765 333445555554444 44444433 466677666554 5567
Q ss_pred h---hhccHHHHHHHHhhcC
Q 026668 203 E---ACNGIEEVAELIRDKQ 219 (235)
Q Consensus 203 E---~~~Gle~Va~llKd~~ 219 (235)
. ++.++.++-+.||..|
T Consensus 114 ~~~~~~~~i~~~y~~L~~~g 133 (133)
T smart00288 114 KNDPDLSQIVDVYDLLKKKG 133 (133)
T ss_pred cCCCCchHHHHHHHHHHHCc
Confidence 4 4555566666666554
No 18
>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=40.00 E-value=23 Score=22.42 Aligned_cols=31 Identities=19% Similarity=0.320 Sum_probs=24.9
Q ss_pred CchhhhhhhhhccHHHHHHHHhhcCCCchhhHH
Q 026668 195 SSANQLDFEACNGIEEVAELIRDKQVDENLRFM 227 (235)
Q Consensus 195 Ss~Nq~dFE~~~Gle~Va~llKd~~vd~~vRlK 227 (235)
||+|.+..-+++|+...+++|+ .-|++++..
T Consensus 1 ~~~~~~~i~~~g~i~~Lv~ll~--~~~~~v~~~ 31 (41)
T PF00514_consen 1 SPENKQAIVEAGGIPPLVQLLK--SPDPEVQEE 31 (41)
T ss_dssp SHHHHHHHHHTTHHHHHHHHTT--SSSHHHHHH
T ss_pred CHHHHHHHHHcccHHHHHHHHc--CCCHHHHHH
Confidence 5778888889999999999999 556666654
No 19
>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=39.44 E-value=1.6e+02 Score=24.07 Aligned_cols=82 Identities=17% Similarity=0.208 Sum_probs=53.7
Q ss_pred cccCCCchHHHHHHHHHhhhccccCcchHHHhhhhhHHHHHHHHHhh----cC-ccchhhHHHHHHHHHhCCchhhhhhh
Q 026668 129 RVTSPSTDAEVALALRVLEGCCLLHRESAILAHKHKAIKILMNILST----RG-ALEQGACLDALTSLMLDSSANQLDFE 203 (235)
Q Consensus 129 kitsp~Td~EvaLALrVLEGcCLlh~~s~~~ah~~~av~VlldlL~a----rg-~leq~acLDaLl~lmvDSs~Nq~dFE 203 (235)
||.+ +...+.-+||.+||-|.-++ -.-.|+..|-+-++|-|.. .. +-.+.-||..+-+. ...|+
T Consensus 49 rl~~-~n~~vql~AL~LLe~~vkNC---G~~fh~evas~~fl~~l~~l~~~~~~~~Vk~kil~li~~W-------~~~f~ 117 (142)
T cd03569 49 RLLS-KNPNVQLYALLLLESCVKNC---GTHFHDEVASREFMDELKDLIKTTKNEEVRQKILELIQAW-------ALAFR 117 (142)
T ss_pred HHcC-CChHHHHHHHHHHHHHHHHC---CHHHHHHHhhHHHHHHHHHHHcccCCHHHHHHHHHHHHHH-------HHHhC
Confidence 5656 45778889999999998764 4445566665555554433 22 23557777776654 45565
Q ss_pred h---hccHHHHHHHHhhcCCC
Q 026668 204 A---CNGIEEVAELIRDKQVD 221 (235)
Q Consensus 204 ~---~~Gle~Va~llKd~~vd 221 (235)
. ++++.+.-+.||+.|++
T Consensus 118 ~~~~l~~i~~~y~~L~~~G~~ 138 (142)
T cd03569 118 NKPQLKYVVDTYQILKAEGHK 138 (142)
T ss_pred CCcccHHHHHHHHHHHHcCCC
Confidence 4 45577888889998874
No 20
>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=36.52 E-value=1.4e+02 Score=23.63 Aligned_cols=73 Identities=14% Similarity=0.095 Sum_probs=57.9
Q ss_pred HhhhhhHHHHHHHHHhhcCccchhhHHHHHHHHHhCCch-hhhhhhhhccHHHHHHHHhhc-CCCchhhHHHhhh
Q 026668 159 LAHKHKAIKILMNILSTRGALEQGACLDALTSLMLDSSA-NQLDFEACNGIEEVAELIRDK-QVDENLRFMFYLL 231 (235)
Q Consensus 159 ~ah~~~av~VlldlL~arg~leq~acLDaLl~lmvDSs~-Nq~dFE~~~Gle~Va~llKd~-~vd~~vRlKFllL 231 (235)
-.+...|++.+..-|..+.+-+|..-|..|=+++--+.. =...|-.-.-+++..++++++ +++.+||.|.+-+
T Consensus 32 ~~~~k~a~raL~krl~~~n~~vql~AL~lLd~~vkNcg~~f~~~i~s~~fl~~l~~l~~~~~~~~~~Vk~kil~l 106 (133)
T cd03561 32 PNGPKEAARAIRKKIKYGNPHVQLLALTLLELLVKNCGKPFHLQVADKEFLLELVKIAKNSPKYDPKVREKALEL 106 (133)
T ss_pred CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCChHHHHHHhhHHHHHHHHHHhCCCCCCCHHHHHHHHHH
Confidence 356677888888888888888998889988888888765 455555666788899999988 9999999994443
No 21
>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=36.00 E-value=45 Score=19.93 Aligned_cols=30 Identities=17% Similarity=0.285 Sum_probs=22.8
Q ss_pred chhhhhhhhhccHHHHHHHHhhcCCCchhhHH
Q 026668 196 SANQLDFEACNGIEEVAELIRDKQVDENLRFM 227 (235)
Q Consensus 196 s~Nq~dFE~~~Gle~Va~llKd~~vd~~vRlK 227 (235)
++|.+.+-+.+|++..+++++ +-+++++..
T Consensus 2 ~~~~~~i~~~g~i~~L~~ll~--~~~~~i~~~ 31 (41)
T smart00185 2 DEQKQAVVDAGGLPALVELLK--SEDEEVVKE 31 (41)
T ss_pred cHHHHHHHHCCCHHHHHHHHc--CCCHHHHHH
Confidence 457888889999999999998 335555544
No 22
>KOG1048 consensus Neural adherens junction protein Plakophilin and related Armadillo repeat proteins [Signal transduction mechanisms; Extracellular structures]
Probab=35.00 E-value=80 Score=33.19 Aligned_cols=89 Identities=24% Similarity=0.332 Sum_probs=77.8
Q ss_pred hHHHHHHHHHhhhccccCcchHHHhhhhhHHHHHHHHHhhcCccchhhHHHHHHHHHhCCch--hhhhhhhhccHHHHHH
Q 026668 136 DAEVALALRVLEGCCLLHRESAILAHKHKAIKILMNILSTRGALEQGACLDALTSLMLDSSA--NQLDFEACNGIEEVAE 213 (235)
Q Consensus 136 d~EvaLALrVLEGcCLlh~~s~~~ah~~~av~VlldlL~arg~leq~acLDaLl~lmvDSs~--Nq~dFE~~~Gle~Va~ 213 (235)
++=.+.|---||=.|--|..-|.-+-|..+|..++++|--+-.=.|.+-.-||==+..+++. |--.-.+|+||-+.++
T Consensus 247 ~~~qsnaaaylQHlcfgd~~ik~~vrqlggI~kLv~Ll~~~~~evq~~acgaLRNLvf~~~~~~NKlai~~~~Gv~~l~~ 326 (717)
T KOG1048|consen 247 PSVQSNAAAYLQHLCFGDNKIKSRVRQLGGIPKLVALLDHRNDEVQRQACGALRNLVFGKSTDSNKLAIKELNGVPTLVR 326 (717)
T ss_pred hhhhHHHHHHHHHHHhhhHHHHHHHHHhccHHHHHHHhcCCcHHHHHHHHHHHHhhhcccCCcccchhhhhcCChHHHHH
Confidence 34456667789999999999999999999999999999999988898888899888888888 9999999999999999
Q ss_pred HHhhcCCCchhh
Q 026668 214 LIRDKQVDENLR 225 (235)
Q Consensus 214 llKd~~vd~~vR 225 (235)
+||..| |.++|
T Consensus 327 ~Lr~t~-D~ev~ 337 (717)
T KOG1048|consen 327 LLRHTQ-DDEVR 337 (717)
T ss_pred HHHhhc-chHHH
Confidence 999765 45555
No 23
>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=34.71 E-value=2.3e+02 Score=23.21 Aligned_cols=83 Identities=25% Similarity=0.335 Sum_probs=48.8
Q ss_pred cccCCCchHHHHHHHHHhhhccccCcchHHHhhhhhHHHH-----HHHHHhhcC-c--cchhhHHHHHHHHHhCCchhhh
Q 026668 129 RVTSPSTDAEVALALRVLEGCCLLHRESAILAHKHKAIKI-----LMNILSTRG-A--LEQGACLDALTSLMLDSSANQL 200 (235)
Q Consensus 129 kitsp~Td~EvaLALrVLEGcCLlh~~s~~~ah~~~av~V-----lldlL~arg-~--leq~acLDaLl~lmvDSs~Nq~ 200 (235)
||.+.+-..++-+||.+||-|.-++- .--|+..|-+. |++++..++ + -.+.-||..+-.. ..
T Consensus 46 Rl~~~~n~~v~l~aL~LLe~~vkNCG---~~fh~eiask~Fl~e~L~~~i~~~~~~~~~Vk~kil~li~~W-------~~ 115 (141)
T cd03565 46 RLNGNKNHKEVMLTLTVLETCVKNCG---HRFHVLVAKKDFIKDVLVKLINPKNNPPTIVQEKVLALIQAW-------AD 115 (141)
T ss_pred HHccCCCHHHHHHHHHHHHHHHHHcc---HHHHHHHHHHHhhhHHHHHHHcccCCCcHHHHHHHHHHHHHH-------HH
Confidence 45543333345559999999987754 33444444443 555555444 2 2356666655443 23
Q ss_pred hhh---hhccHHHHHHHHhhcCCC
Q 026668 201 DFE---ACNGIEEVAELIRDKQVD 221 (235)
Q Consensus 201 dFE---~~~Gle~Va~llKd~~vd 221 (235)
.|. +++++..+-+.||+.|++
T Consensus 116 ~f~~~~~l~~i~~~y~~L~~~G~~ 139 (141)
T cd03565 116 AFRGSPDLTGVVEVYEELKKKGIE 139 (141)
T ss_pred HhCCCccchHHHHHHHHHHHcCCC
Confidence 443 355678888889988864
No 24
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=33.53 E-value=1e+02 Score=23.87 Aligned_cols=61 Identities=30% Similarity=0.409 Sum_probs=46.1
Q ss_pred ccccCcchHHHhhhhhHHHHHHHHHhh-cC-ccch-hhHHHHHHHHHhCCchhhhhhhhhccHHHHHHHHhh
Q 026668 149 CCLLHRESAILAHKHKAIKILMNILST-RG-ALEQ-GACLDALTSLMLDSSANQLDFEACNGIEEVAELIRD 217 (235)
Q Consensus 149 cCLlh~~s~~~ah~~~av~VlldlL~a-rg-~leq-~acLDaLl~lmvDSs~Nq~dFE~~~Gle~Va~llKd 217 (235)
-|+.+++.++ ||+|.|-+.||.-. ++ +++. ...+|+|.-++-|+.+|-+ +|-+-.-++|||
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 5888888888 99999999999877 33 3333 6789999999999998854 344555555554
No 25
>PF14293 YWFCY: YWFCY protein
Probab=26.59 E-value=50 Score=24.92 Aligned_cols=15 Identities=27% Similarity=0.793 Sum_probs=13.1
Q ss_pred hhchHHHHHHHHHhh
Q 026668 64 VRGLRSLLKILRSVA 78 (235)
Q Consensus 64 ~rgLr~ll~fLrs~a 78 (235)
+||||+++.|+|-+.
T Consensus 6 lr~L~KImdf~R~iS 20 (61)
T PF14293_consen 6 LRALRKIMDFMRAIS 20 (61)
T ss_pred HHHHHHHHHHHHHHH
Confidence 689999999999754
No 26
>COG5218 YCG1 Chromosome condensation complex Condensin, subunit G [Chromatin structure and dynamics / Cell division and chromosome partitioning]
Probab=23.75 E-value=1.8e+02 Score=31.14 Aligned_cols=86 Identities=19% Similarity=0.276 Sum_probs=54.0
Q ss_pred HHHhhhccccC--------c---chHH---HhhhhhHHHHHHHHHhhcCccchhhHHHHHHHHHhCCchhhhhhhh----
Q 026668 143 LRVLEGCCLLH--------R---ESAI---LAHKHKAIKILMNILSTRGALEQGACLDALTSLMLDSSANQLDFEA---- 204 (235)
Q Consensus 143 LrVLEGcCLlh--------~---~s~~---~ah~~~av~VlldlL~arg~leq~acLDaLl~lmvDSs~Nq~dFE~---- 204 (235)
+-.|+=|||+. + .|-+ ..-++.|++++.|+++..|.-.-+-.=|+|=.|+.-- ...||-
T Consensus 551 ve~L~l~clldv~La~~n~~i~~~cv~KGn~~lk~~A~q~~vDl~~~hg~~g~~k~ds~l~~Il~~~---l~~~e~~E~q 627 (885)
T COG5218 551 VEILELGCLLDVALARPNHAIIQSCVHKGNMELKSMAFQMCVDLVLSHGDEGEGKLDSLLGDILRHI---LQGLETKERQ 627 (885)
T ss_pred hhhhhhhhhhhHhhcCCchHHHHHHHhccchhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHH---HhccCchhHH
Confidence 56899999982 1 2221 2337889999999999988554444333333343221 222321
Q ss_pred hccHHHHHHHHhhcCCCchhhHHHhhh
Q 026668 205 CNGIEEVAELIRDKQVDENLRFMFYLL 231 (235)
Q Consensus 205 ~~Gle~Va~llKd~~vd~~vRlKFllL 231 (235)
.=|.+.+++++---..++++|.|||.+
T Consensus 628 ~i~aegl~Kl~l~~~~~Ddl~~~~l~~ 654 (885)
T COG5218 628 DIIAEGLSKLALSHRMPDDLRSRFLAF 654 (885)
T ss_pred HHhhhHHHHHHHHHhCchHHHHhHHHH
Confidence 125566777777778899999997754
No 27
>PF12830 Nipped-B_C: Sister chromatid cohesion C-terminus
Probab=23.72 E-value=1.3e+02 Score=25.23 Aligned_cols=72 Identities=21% Similarity=0.323 Sum_probs=46.8
Q ss_pred HHhhhccccCcchHHHhhhhhHHHHHHHHHhhcCccchhhHHHHHHHHHhCCchhhh---------hhhhh---------
Q 026668 144 RVLEGCCLLHRESAILAHKHKAIKILMNILSTRGALEQGACLDALTSLMLDSSANQL---------DFEAC--------- 205 (235)
Q Consensus 144 rVLEGcCLlh~~s~~~ah~~~av~VlldlL~arg~leq~acLDaLl~lmvDSs~Nq~---------dFE~~--------- 205 (235)
+||+ ||+.. ....++.|++++ .+....|-.-+.-|.-+|||+.-|..+.-+ -||++
T Consensus 12 ~Il~-~~~~~----~~~vr~~Al~~l-~~il~qGLvnP~~cvp~lIAL~ts~~~~ir~~A~~~l~~l~eK~~s~v~~~~~ 85 (187)
T PF12830_consen 12 NILE-LCLSS----DDSVRLAALQVL-ELILRQGLVNPKQCVPTLIALETSPNPSIRSRAYQLLKELHEKHESLVESRYS 85 (187)
T ss_pred HHHH-HHhCC----CHHHHHHHHHHH-HHHHhcCCCChHHHHhHhhhhhCCCChHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 4566 66543 334566777764 666679999999999999999998554432 35555
Q ss_pred ccHHHHHHHHhhcCCC
Q 026668 206 NGIEEVAELIRDKQVD 221 (235)
Q Consensus 206 ~Gle~Va~llKd~~vd 221 (235)
.|++..-+.-++-+.+
T Consensus 86 ~gi~~af~~~~~l~~~ 101 (187)
T PF12830_consen 86 EGIRLAFDYQRRLSSD 101 (187)
T ss_pred HHHHHHHHHHHHhcCC
Confidence 3555555555553333
No 28
>PF09269 DUF1967: Domain of unknown function (DUF1967); InterPro: IPR015349 The Obg family comprises a group of ancient P-loop small G proteins (GTPases) belonging to the TRAFAC (for translation factors) class and can be subdivided into several distinct protein subfamilies []. OBG GTPases have been found in both prokaryotes and eukaryotes []. The structure of the OBG GTPase from Thermus thermophilus has been determined []. This entry represents a C-terminal domain found in certain OBG GTPases. This domain contains a four-stranded beta sheet and three alpha helices flanked by an additional beta strand. It is predominantly found in the bacterial GTP-binding protein Obg, and is functionally uncharacterised. ; GO: 0000166 nucleotide binding; PDB: 1UDX_A.
Probab=23.18 E-value=37 Score=24.87 Aligned_cols=29 Identities=14% Similarity=0.290 Sum_probs=24.3
Q ss_pred hhhhhhhhccHHHHHHHHhhcCCCchhhH
Q 026668 198 NQLDFEACNGIEEVAELIRDKQVDENLRF 226 (235)
Q Consensus 198 Nq~dFE~~~Gle~Va~llKd~~vd~~vRl 226 (235)
+..+|+...+++...+.||..|+++.||-
T Consensus 23 ~~~~~~~~e~~~rf~~~L~~~Gv~~~L~~ 51 (69)
T PF09269_consen 23 AMTNFDDEESLRRFQRKLKKMGVEKALRK 51 (69)
T ss_dssp TTEEE-TGGGHHHHHHHHHHTTHHHHHHT
T ss_pred HhcCCCCHHHHHHHHHHHHHCCHHHHHHH
Confidence 46788888999999999999999998874
No 29
>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.
Probab=23.17 E-value=47 Score=27.35 Aligned_cols=14 Identities=43% Similarity=0.598 Sum_probs=11.8
Q ss_pred HHHHHHHHHhhhcc
Q 026668 137 AEVALALRVLEGCC 150 (235)
Q Consensus 137 ~EvaLALrVLEGcC 150 (235)
+..|+|+|+|||+=
T Consensus 56 ND~alAVR~lE~vK 69 (103)
T cd00923 56 NDFALAVRILEAIK 69 (103)
T ss_pred hhHHHHHHHHHHHH
Confidence 46899999999974
No 30
>PRK04358 hypothetical protein; Provisional
Probab=22.86 E-value=80 Score=28.80 Aligned_cols=34 Identities=32% Similarity=0.553 Sum_probs=27.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhcccchhHH
Q 026668 25 ATAVGELANSLKQQRVQREITLALRTGLRDARAEFSFLR 63 (235)
Q Consensus 25 ~~~v~elv~sl~~qR~yRevtlaLr~gLRDa~AeFSFlR 63 (235)
...++++++.|. .=||| |||+|..|-+.++.++=
T Consensus 136 ~~~v~~~I~~lR--ekYRe---Alr~G~ldS~~Didvla 169 (217)
T PRK04358 136 REVVGKIISKLR--EKYRE---ALRKGILDSAEDLDVLL 169 (217)
T ss_pred hhhHHHHHHHHH--HHHHH---HHHcCcccchhhHHHHH
Confidence 355777777774 45888 89999999999999873
No 31
>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=22.49 E-value=56 Score=28.72 Aligned_cols=54 Identities=24% Similarity=0.269 Sum_probs=41.0
Q ss_pred HHHHhhhccccCcchHHHhhhhhHHHHHHHHHhhc---CccchhhHHHHHHHHHhCCc
Q 026668 142 ALRVLEGCCLLHRESAILAHKHKAIKILMNILSTR---GALEQGACLDALTSLMLDSS 196 (235)
Q Consensus 142 ALrVLEGcCLlh~~s~~~ah~~~av~VlldlL~ar---g~leq~acLDaLl~lmvDSs 196 (235)
++.|+- -|++|-+||-|-|-..+++-..+.|..- +.-.|..+||++..+--++|
T Consensus 52 ~i~v~~-q~ll~~GSkS~SH~~~~lery~~~Lk~l~~~~~~~q~~il~~v~~~W~~~~ 108 (253)
T PF09090_consen 52 VIDVFV-QCLLHIGSKSFSHVLSALERYKEVLKELEAESEEAQFWILDAVFRFWKNNP 108 (253)
T ss_dssp HHHHHH-HHHHHHTTTSHHHHHHHHHHTHHHHHHH-TSSHHHHHHHHHHHHHHHTT-H
T ss_pred HHHHHH-HHHHHhcCchHHHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHhcCC
Confidence 344333 4788999999999999999988888764 45578899999887666655
No 32
>TIGR03798 ocin_TIGR03798 bacteriocin propeptide, TIGR03798 family. This model describes a conserved, fairly long (about 65 residue) propeptide region for a family of putative microcins, that is, bacteriocins of small size. Members of the seed alignment tend to have the Gly-Gly motif as the last two residues of the matched region. This is a cleavage site for a combination processing/export ABC transporter with a peptidase domain.
Probab=20.58 E-value=1.9e+02 Score=20.54 Aligned_cols=37 Identities=11% Similarity=0.180 Sum_probs=31.9
Q ss_pred HHHHHHHHhCCchhhhhhhhhccHHHHHHHHhhcCCC
Q 026668 185 LDALTSLMLDSSANQLDFEACNGIEEVAELIRDKQVD 221 (235)
Q Consensus 185 LDaLl~lmvDSs~Nq~dFE~~~Gle~Va~llKd~~vd 221 (235)
|++++.-|.=.|.=+..+..+.-+++++++.|..|.+
T Consensus 4 l~~Fl~~~~~d~~L~~~l~~~~~~e~~~~lA~~~Gf~ 40 (64)
T TIGR03798 4 LKAFLEKVKTDPDLREKLKAAEDPEDRVAIAKEAGFE 40 (64)
T ss_pred HHHHHHHHHcCHHHHHHHHHcCCHHHHHHHHHHcCCC
Confidence 5677777887888888899999999999999999875
No 33
>TIGR03595 Obg_CgtA_exten Obg family GTPase CgtA, C-terminal extension. CgtA (see model TIGR02729) is a broadly conserved member of the obg family of GTPases associated with ribosome maturation. This model represents a unique C-terminal domain found in some but not all sequences of CgtA. This region is preceded, and may be followed, by a region of low-complexity sequence.
Probab=20.49 E-value=46 Score=24.44 Aligned_cols=30 Identities=17% Similarity=0.284 Sum_probs=25.1
Q ss_pred hhhhhhhhccHHHHHHHHhhcCCCchhhHH
Q 026668 198 NQLDFEACNGIEEVAELIRDKQVDENLRFM 227 (235)
Q Consensus 198 Nq~dFE~~~Gle~Va~llKd~~vd~~vRlK 227 (235)
+..+|+...++....++||+.|+++.|+-+
T Consensus 23 ~~~~~~~~e~~~~f~~~L~~~Gv~~~L~~~ 52 (69)
T TIGR03595 23 AKTPFNNDENLRRFARKLKKLGVEDALRKA 52 (69)
T ss_pred HHcCCCCHHHHHHHHHHHHHCCHHHHHHHc
Confidence 356788888888999999999999988743
No 34
>PF07027 DUF1318: Protein of unknown function (DUF1318); InterPro: IPR008309 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=20.26 E-value=97 Score=24.50 Aligned_cols=31 Identities=19% Similarity=0.272 Sum_probs=22.6
Q ss_pred hhhhHHHHHHHHHHHH--HHHHHHHHHHhhhhh
Q 026668 24 AATAVGELANSLKQQR--VQREITLALRTGLRD 54 (235)
Q Consensus 24 ~~~~v~elv~sl~~qR--~yRevtlaLr~gLRD 54 (235)
+...+..||++.|+.| +|+|++-.--..+.+
T Consensus 34 ~~~~~~~lV~~~N~~R~~~Y~~iA~~ng~t~~~ 66 (95)
T PF07027_consen 34 ASAEVRALVAAINADRRALYQEIAKKNGITVEQ 66 (95)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHH
Confidence 5577899999998665 899998765443333
Done!