Query 006936
Match_columns 625
No_of_seqs 222 out of 670
Neff 5.1
Searched_HMMs 46136
Date Thu Mar 28 16:36:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006936.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006936hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0937 Adaptor complexes medi 100.0 3.6E-75 7.9E-80 617.9 23.9 392 150-612 5-424 (424)
2 KOG0938 Adaptor complexes medi 100.0 2.7E-74 5.9E-79 590.3 25.1 290 261-611 105-446 (446)
3 PF00928 Adap_comp_sub: Adapto 100.0 8.8E-52 1.9E-56 418.9 32.5 247 305-612 1-262 (262)
4 KOG2740 Clathrin-associated pr 100.0 4.6E-50 1E-54 415.3 24.8 285 261-612 108-418 (418)
5 KOG2677 Stoned B synaptic vesi 99.9 5.3E-25 1.2E-29 240.6 4.6 278 269-613 548-897 (922)
6 PF10291 muHD: Muniscin C-term 98.9 4.4E-07 9.5E-12 93.9 22.6 231 318-610 3-256 (257)
7 KOG2635 Medium subunit of clat 98.7 9.6E-06 2.1E-10 88.2 27.0 225 317-610 276-511 (512)
8 PF01217 Clat_adaptor_s: Clath 97.1 0.0036 7.9E-08 58.7 9.6 29 261-289 108-136 (141)
9 KOG0937 Adaptor complexes medi 92.1 0.7 1.5E-05 51.4 9.2 115 7-197 1-128 (424)
10 PF10555 MraY_sig1: Phospho-N- 36.1 15 0.00031 21.9 0.3 9 201-209 3-11 (13)
No 1
>KOG0937 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=3.6e-75 Score=617.93 Aligned_cols=392 Identities=21% Similarity=0.237 Sum_probs=343.2
Q ss_pred cCCCCCCCcccCCCCCccccCC-cchhhHHHHHHhhhcccccccccceeEeecCCCccccccccccCccccccccccccc
Q 006936 150 KKSDCGNAVGVDDSLSSLLLDL-PSITGAFMVAHAIGDIITGDVVEPEVVVSASPSVGGLLDSLTGSIGISGISSRAKPV 228 (625)
Q Consensus 150 ~~~~~~~~~~~~~~~~~~l~~~-~~it~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~p~ 228 (625)
...||++ .+.-.|....+. -++++.||. +.+++. .||..+|.++..-++++++..|.|+..+. + |.++.
T Consensus 5 fild~~G---~~lisr~yr~dv~~s~~~~F~~-~l~~~e-~~~~~~p~l~~~g~~~~~ik~s~lylv~~--~---~~n~~ 74 (424)
T KOG0937|consen 5 FILDHKG---EVLISRDYRGDVPMSSTEKFFR-KLFEKE-EGDESPPFLVHDGSRFIHIKHSNLYLVAG--T---RPNVS 74 (424)
T ss_pred EEEcCCC---cEeEeecccccCChhhhhhHHH-HHhhhc-ccCCCCCeEEeCCceEEEEeecceEEEEE--e---ccCCC
Confidence 3345543 333334444455 578999998 667777 99999999999999999999999999884 2 88899
Q ss_pred ccccccCCCCCcccccccccCCCCCCCCCCchhHHHHHHHhhCCCCcccccCchhhhheeecCC---CCC--CCCCCCCC
Q 006936 229 AAPVASTAPSGAAAVGTVASDAPKLGSRPLEKDALRSFISSAMPFGTPVDLSYSNIFAIKVNGF---PSS--ELPPQDLK 303 (625)
Q Consensus 229 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lyELLDE~mdFG~Pq~T~~~~Lk~~i~~~~---~~~--~~~~~~~k 303 (625)
|+++.+.-.+.+..++...+ +.+-++...+-.++||||||+|||||||.|+.+.|+.||++.. ... +++.+.++
T Consensus 75 a~~v~~~l~~~~~v~~~y~~-~l~e~si~~n~vlvyElLde~mDFGypQ~t~s~iL~~yi~~~~~~l~~~~~~~p~avtn 153 (424)
T KOG0937|consen 75 AALVLSFLYAVADVFGDYLS-ELEEESIRDNFVLVYELLDEVMDFGYPQTTDSEILKNYITQKANRLQDAQPRPPLAVTN 153 (424)
T ss_pred HHHHHHHHHHHHHHHHHHhc-cCCccceecchHHHHHHHHHHhccCCcccchHHHHHHHhcccccceeecCCCCCccccc
Confidence 99999999999999999999 5555666668899999999999999999999999999998742 111 35889999
Q ss_pred CCccCCCCCCccc-EEEEEEEEEEEEEEEcCCCCeEEEEEEEEEEEeeeecCCCeEEEeecCCCC------------ccc
Q 006936 304 QPAWKPYLYKGKQ-RLLFTIHETVHAAMYDRDEIPDSLSVSGQINCRAELEGMPDVSFPLTGLNS------------AHV 370 (625)
Q Consensus 304 ~~~WR~~giKykk-EIfvDViE~Vn~~l~d~~G~vl~seI~G~I~~Ks~LSGmPev~L~LN~~~~------------~~L 370 (625)
+++||+.+++|+| |+|+||+|+|++ +++++|++++++|.|+|+|||||+|||+|+|+||+..+ +.|
T Consensus 154 avsWrs~gi~~~KnevflDViE~Vs~-l~~~~G~vl~s~i~G~I~~k~~LsGmPelrl~ln~~~~~~~~~~~~~s~~v~l 232 (424)
T KOG0937|consen 154 AVSWRSEGIYYGKNEVFLDVIESVSL-LYDSNGIVLLSEIVGTIKLKCYLSGMPELRLGLNDKVLFDKQGPRSKSKGVEL 232 (424)
T ss_pred ceeecccccccccceEEEEhhhhhhH-hhhcCCcEEEeeeeeEEEEEEEcCCCceeeeecCcccccccccccccCcceEe
Confidence 9999999999988 999999999997 99999999999999999999999999999999999853 489
Q ss_pred cccccccccccCCccCcCCEEEEeCCCCeEEEEEEeeccCCCCCeEEEEEEEEecCCcceEEEEEEEEecCCCCceeeEE
Q 006936 371 EVLSFHPSAQVPEQGVDKQAVMFSPPLGNFVLMRYQAICGLGPPVKGFYQLSMVSEDEGAFLFKLCLMESYKAPLTMEFC 450 (625)
Q Consensus 371 dDvsFHqCV~l~~fe~d~r~IsFiPPDGeF~LM~Yri~~~~~pPf~v~~qv~~~s~~~~~f~v~Lkl~~~~k~~~~ae~v 450 (625)
+|++|||||++++|+.| |+|+|+||||+|+||+||++...+ |+..++++.+. ..+.++++.+|++++||++..|++|
T Consensus 233 edi~fh~~v~l~~fd~d-r~i~FiPPdGeF~Lm~Y~ls~~vk-Pli~~~~~~~~-~~~~ri~i~~K~~~~fk~~~~a~~v 309 (424)
T KOG0937|consen 233 EDIKFHECVRLSRFDND-RTISFIPPDGEFELMRYRLSTHVK-PLIWFYQLIEE-HSRSRIEVMVKLREQFKSRSSANNV 309 (424)
T ss_pred eecccceeechhhccCC-ceEEecCCCCceEEEEEEecCCCC-CeEEeeeeeee-ccceeEEEEEechhhcCCccccceE
Confidence 99999999999999999 999999999999999999997655 77778888876 5567899999999999999999999
Q ss_pred EEEEecCCCCeeeeEeeecceeEEeeC--CeEEEEEecCCccccCCCceEEEEEEEEeccccccccCCCCCCCCCCcccc
Q 006936 451 NVTMLFPRRRVVSFDGTPSIGTVSNNE--HSVEWKIMTSGRALTGRSLEATFPGTVKFAPWQTQRSSSGGTVDEDSDIET 528 (625)
Q Consensus 451 ~V~IP~P~~~i~s~~~~~S~G~v~~~~--~~liW~I~~~gkkf~~g~~E~tL~g~v~l~~~~~~r~~~~~~~~ed~~~~~ 528 (625)
+|+||+|. .+.+++++.+.|+++|.+ ++++|+| ++| +|+.|++|++++.|++..+
T Consensus 310 ~I~iP~P~-~a~~~~fk~s~G~~~~~~e~~~l~W~I----~~~-~gg~e~~~r~~~~lp~~~~----------------- 366 (424)
T KOG0937|consen 310 EICIPVPD-DASSPSFKTSLGSAKYDPEKSALRWTI----KKF-VGGKEYSLRARMDLPSEEH----------------- 366 (424)
T ss_pred EEEeeCCC-ccccceEeccCCceeeecccceEEEEe----ccc-cCCceEEEEEeecCCcccc-----------------
Confidence 99999998 799999999999999954 9999999 556 8999999999999975321
Q ss_pred ccCCCcchhHHHHHhhhccCCCCCCCCCccccccCceEEEEEEECceecccceEEeeee-------EeecccccCCCCcc
Q 006936 529 DNTNNVVNIEEFLMEKMNMDLPPVDLEEPFCWQAYNYAKVSFKIIGASISGMSIDPKSV-------SIYPAVKAPVEFSA 601 (625)
Q Consensus 529 ~~t~~~~n~~e~~~~k~~~~~~~~d~~dp~c~~~~~pIsl~FeIP~~T~SGLkVd~LkV-------~~~kwVKY~~~~s~ 601 (625)
+++ |++...||+|+|+||+||+||+||+|+++ ++++||||
T Consensus 367 --------------------------e~~-~~~~~~pi~v~FeIp~~T~SgiqVrylki~ep~~~y~s~~WVRy------ 413 (424)
T KOG0937|consen 367 --------------------------EEQ-CTEGLGPIKVKFEIPYFTVSGIQVRYLKIIEPKSQYQSLPWVRY------ 413 (424)
T ss_pred --------------------------CCC-CcccCCceEEEEEecccccCCeEEEEEEecccccCCCccceEEE------
Confidence 111 77888899999999999999999999999 49999999
Q ss_pred eEEeccEEEEc
Q 006936 602 QVTSGDYILWN 612 (625)
Q Consensus 602 ~T~Sg~Y~Iwn 612 (625)
.|+||+|++|.
T Consensus 414 ~T~s~~Y~~r~ 424 (424)
T KOG0937|consen 414 NTQSGPYEIRV 424 (424)
T ss_pred EccCCceEeeC
Confidence 99999999973
No 2
>KOG0938 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=2.7e-74 Score=590.31 Aligned_cols=290 Identities=19% Similarity=0.284 Sum_probs=263.8
Q ss_pred hHHHHHHHhhCCCCcccccCchhhhheeecCCC-------C------CC----CCCCCCCCCccCCCCCCccc-EEEEEE
Q 006936 261 DALRSFISSAMPFGTPVDLSYSNIFAIKVNGFP-------S------SE----LPPQDLKQPAWKPYLYKGKQ-RLLFTI 322 (625)
Q Consensus 261 ~~lyELLDE~mdFG~Pq~T~~~~Lk~~i~~~~~-------~------~~----~~~~~~k~~~WR~~giKykk-EIfvDV 322 (625)
-+|||||||||||||||+|+++.|+.+|++... + .. .+.+.++++.||+.|++||+ |+|+||
T Consensus 105 ~lI~ElLDemld~G~pqnte~~al~~~is~~~Vrs~g~~ls~k~s~~sq~~~~~ssqv~G~i~WRr~Gi~ykknevfldv 184 (446)
T KOG0938|consen 105 VLIYELLDEMLDFGIPQNTEPNALKAQISQKGVRSMGGVLSSKSSPTSQATELRSSQVTGKIGWRREGIKYKKNEVFLDV 184 (446)
T ss_pred EeHHHHHHHHHhcCCCccCChhHHHhhhhhhhhhccccccCCcCCCCcccccccccccccccccccccceeccceeEeEe
Confidence 589999999999999999999999999977211 0 01 23567789999999999999 999999
Q ss_pred EEEEEEEEEcCCCCeEEEEEEEEEEEeeeecCCCeEEEeecCCCC-------------------------cccccccccc
Q 006936 323 HETVHAAMYDRDEIPDSLSVSGQINCRAELEGMPDVSFPLTGLNS-------------------------AHVEVLSFHP 377 (625)
Q Consensus 323 iE~Vn~~l~d~~G~vl~seI~G~I~~Ks~LSGmPev~L~LN~~~~-------------------------~~LdDvsFHq 377 (625)
+|++|+ +++++|++++++|.|+|.|||+|||||+|++||||+.. +.||||.|||
T Consensus 185 vErvNl-LmS~~GnVLrs~VsG~V~mk~~LSGmPeckfGlNDkl~~e~kq~esks~~~n~~~~sks~~g~v~leDc~FHq 263 (446)
T KOG0938|consen 185 VERVNL-LMSSDGNVLRSDVSGTVDMKTHLSGMPECKFGLNDKLGMESKQSESKSDFGNKNFPSKSGKGSVLLEDCTFHQ 263 (446)
T ss_pred hheeee-EEcCCCCEEEeecccEEEEEEeccCCcccccccCcccceeeccccccccccccCCCcccCCceEEeeccchhe
Confidence 999999 99999999999999999999999999999999999831 6799999999
Q ss_pred ccccCCccCcCCEEEEeCCCCeEEEEEEeeccCCCCCeEEEEEEEEecCCcceEEEEEEEEecCCCCceeeEEEEEEecC
Q 006936 378 SAQVPEQGVDKQAVMFSPPLGNFVLMRYQAICGLGPPVKGFYQLSMVSEDEGAFLFKLCLMESYKAPLTMEFCNVTMLFP 457 (625)
Q Consensus 378 CV~l~~fe~d~r~IsFiPPDGeF~LM~Yri~~~~~pPf~v~~qv~~~s~~~~~f~v~Lkl~~~~k~~~~ae~v~V~IP~P 457 (625)
||+|++|+++ +.|+|+||||+|+||+||++.++++||++.|.+++.+.+ ++++++++++.|+..+.+..++++||+|
T Consensus 264 CV~L~kFn~e-h~IsFvPPDGe~ELMkYr~~enInlPFrV~PiV~el~r~--kie~ri~iks~f~~kl~a~~v~~rIPvP 340 (446)
T KOG0938|consen 264 CVRLDKFNSE-HIISFVPPDGEFELMKYRVTENINLPFRVTPIVTELGRT--KIEYRITIKSLFPPKLLAKDVVVRIPVP 340 (446)
T ss_pred eecccccccc-ceEEEeCCCCceEeEeeeeccCcccceEeeeheecccce--eEEEEEEEeccCCchhhhcceEEEecCC
Confidence 9999999999 999999999999999999999999999999999988754 7779999999999999999999999999
Q ss_pred CCCeeeeEeeecceeEEeeC--CeEEEEEecCCccccCCCceEEEEEEEEeccccccccCCCCCCCCCCccccccCCCcc
Q 006936 458 RRRVVSFDGTPSIGTVSNNE--HSVEWKIMTSGRALTGRSLEATFPGTVKFAPWQTQRSSSGGTVDEDSDIETDNTNNVV 535 (625)
Q Consensus 458 ~~~i~s~~~~~S~G~v~~~~--~~liW~I~~~gkkf~~g~~E~tL~g~v~l~~~~~~r~~~~~~~~ed~~~~~~~t~~~~ 535 (625)
+ ++..+++.++.|+++|.+ ++++|+| +|| .|.+|.+|+|++++.+.++ |
T Consensus 341 ~-ntv~~n~~v~~Gkaky~psen~ivWki----~kf-~G~tE~tlsAevels~Tt~---------------------n-- 391 (446)
T KOG0938|consen 341 P-NTVKCNISVSNGKAKYVPSENAIVWKI----NKF-NGLTESTLSAEVELSDTTQ---------------------N-- 391 (446)
T ss_pred C-ccccceeEEecCccccCcccceEEEEe----ccc-CCcccceeEEEEEeccCcc---------------------c--
Confidence 9 899999999999999965 9999999 667 9999999999999986431 1
Q ss_pred hhHHHHHhhhccCCCCCCCCCccccccCceEEEEEEECceecccceEEeeeeE-------eecccccCCCCcceEEeccE
Q 006936 536 NIEEFLMEKMNMDLPPVDLEEPFCWQAYNYAKVSFKIIGASISGMSIDPKSVS-------IYPAVKAPVEFSAQVTSGDY 608 (625)
Q Consensus 536 n~~e~~~~k~~~~~~~~d~~dp~c~~~~~pIsl~FeIP~~T~SGLkVd~LkV~-------~~kwVKY~~~~s~~T~Sg~Y 608 (625)
+|.| .+| ||+|+|++||||.|||.|+||+|. ..||||| +|++|+|
T Consensus 392 -------kq~W-trP--------------PIsleFeV~MFt~SGL~VrylkV~e~~Sk~~~vkWVrY------itkaGsy 443 (446)
T KOG0938|consen 392 -------KQQW-TRP--------------PISLEFEVPMFTNSGLVVRYLKVSEKDSKHRAVKWVRY------ITKAGSY 443 (446)
T ss_pred -------cccc-cCC--------------CceeEEeeeeecCCceEEEEEEEecccCCCceEEEEEE------eccccee
Confidence 2557 556 999999999999999999999994 8899999 9999999
Q ss_pred EEE
Q 006936 609 ILW 611 (625)
Q Consensus 609 ~Iw 611 (625)
+||
T Consensus 444 EiR 446 (446)
T KOG0938|consen 444 EIR 446 (446)
T ss_pred eeC
Confidence 986
No 3
>PF00928 Adap_comp_sub: Adaptor complexes medium subunit family; InterPro: IPR008968 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. AP (adaptor protein) complexes are found in coated vesicles and clathrin-coated pits. AP complexes connect cargo proteins and lipids to clathrin at vesicle budding sites, as well as binding accessory proteins that regulate coat assembly and disassembly (such as AP180, epsins and auxilin). There are different AP complexes in mammals. AP1 is responsible for the transport of lysosomal hydrolases between the TGN and endosomes []. AP2 associates with the plasma membrane and is responsible for endocytosis []. AP3 is responsible for protein trafficking to lysosomes and other related organelles []. AP4 is less well characterised. AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). For example, in AP1 these subunits are gamma-1-adaptin, beta-1-adaptin, mu-1 and sigma-1, while in AP2 they are alpha-adaptin, beta-2-adaptin, mu-2 and sigma-2. Each subunit has a specific function. Adaptins recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal ear (appendage) domains. Mu recognises tyrosine-based sorting signals within the cytoplasmic domains of transmembrane cargo proteins []. One function of clathrin and AP2 complex-mediated endocytosis is to regulate the number of GABA(A) receptors available at the cell surface []. This entry represents the C-terminal domain of the mu subunit from various clathrin adaptors (AP1, AP2 and AP3) []. The C-teminal domain has an immunoglobulin-like beta-sandwich fold consisting of 9 strands in 2 sheets with a Greek key topology, similar to that found in cytochrome f and certain transcription factors []. The mu subunit regulates the coupling of clathrin lattices with particular membrane proteins by self-phosphorylation via a mechanism that is still unclear []. The mu subunit possesses a highly conserved N-terminal domain of around 230 amino acids, which may be the region of interaction with other AP proteins; a linker region of between 10 and 42 amino acids; and a less well-conserved C-terminal domain of around 190 amino acids, which may be the site of specific interaction with the protein being transported in the vesicle []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005515 protein binding, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030131 clathrin adaptor complex; PDB: 1H6E_A 3L81_A 1W63_V 4EMZ_A 4EN2_A 2VGL_M 3ML6_F 2PR9_A 2JKT_M 1I31_A ....
Probab=100.00 E-value=8.8e-52 Score=418.94 Aligned_cols=247 Identities=27% Similarity=0.438 Sum_probs=203.1
Q ss_pred CccCCCCCCccc-EEEEEEEEEEEEEEEcCCCCeEEEEEEEEEEEeeeecCCCeEEEeecCC-----CCccccccccccc
Q 006936 305 PAWKPYLYKGKQ-RLLFTIHETVHAAMYDRDEIPDSLSVSGQINCRAELEGMPDVSFPLTGL-----NSAHVEVLSFHPS 378 (625)
Q Consensus 305 ~~WR~~giKykk-EIfvDViE~Vn~~l~d~~G~vl~seI~G~I~~Ks~LSGmPev~L~LN~~-----~~~~LdDvsFHqC 378 (625)
||||+.+++|++ ||||||+|+|++ ++|++|.++.++|.|+|.|+|+|+|||+|+|+||++ ....|+|++||+|
T Consensus 1 ~~wR~~~~~~~~nei~vdv~E~i~~-~~~~~G~~~~~~v~G~v~~~~~l~g~p~i~l~l~~~~~~~~~~~~l~~~~fH~c 79 (262)
T PF00928_consen 1 VPWRPSGIKYKKNEIFVDVVEKISA-VLDRDGNILSSEVKGSVQCKSFLSGMPEIKLTLNNPLVVSKNGIKLDDVSFHPC 79 (262)
T ss_dssp -TTS-STB--SSEEEEEEEEEEEEE-EEETTSEEEEEEEEEEEEEEEE-SST-EEEEEESSSCCCTSSSBEESEEEEETT
T ss_pred CCcccCCcccccceEEEEEEEEEEE-EEccCCcEEEEEEEEEEEEEEeCCCCCeEEEEecCccccccCceeeeceeeccc
Confidence 689999999999 999999999999 999999999999999999999999999999999998 2367999999999
Q ss_pred cccCCccCcCCEEEEeCCCCeEEEEEEeeccCCCCCeEEEEEEEEecCCcceEEEEEEEEecCCCCceeeEEEEEEecCC
Q 006936 379 AQVPEQGVDKQAVMFSPPLGNFVLMRYQAICGLGPPVKGFYQLSMVSEDEGAFLFKLCLMESYKAPLTMEFCNVTMLFPR 458 (625)
Q Consensus 379 V~l~~fe~d~r~IsFiPPDGeF~LM~Yri~~~~~pPf~v~~qv~~~s~~~~~f~v~Lkl~~~~k~~~~ae~v~V~IP~P~ 458 (625)
|++++|+.+ |.|+|+||||+|+||+||++....+||.+.+++...+ ++++++.+++..++++...+++|.|+||+|+
T Consensus 80 V~~~~~~~~-~~i~f~PPdg~f~Ll~Yr~~~~~~~P~~i~~~~~~~~--~~~~~v~i~~~~~~~~~~~~~~v~I~iplP~ 156 (262)
T PF00928_consen 80 VDLSKFESD-RVISFIPPDGEFTLLRYRVSSNSPLPFKITCWVSEKS--SGRFEVTIELESNFPNKISLENVVIRIPLPP 156 (262)
T ss_dssp EECCCCCSH-TEEEE---SEEEEEEEEEEESSS--SEEEEEEEEEET--TTEEEEEEEEEE-S-TTSEEEEEEEEEE--T
T ss_pred cCccccccc-cceecCCCCceEEEEEEEccCCCCCCcEEEEEeccCC--CceEEEEEEecccCCCCceeceEEEEeecCC
Confidence 999999999 9999999999999999999988889999999999743 4578899999888888778999999999999
Q ss_pred CCeeeeEeeecceeEEeeC--CeEEEEEecCCccccCCCceEEEEEEEEeccccccccCCCCCCCCCCccccccCCCcch
Q 006936 459 RRVVSFDGTPSIGTVSNNE--HSVEWKIMTSGRALTGRSLEATFPGTVKFAPWQTQRSSSGGTVDEDSDIETDNTNNVVN 536 (625)
Q Consensus 459 ~~i~s~~~~~S~G~v~~~~--~~liW~I~~~gkkf~~g~~E~tL~g~v~l~~~~~~r~~~~~~~~ed~~~~~~~t~~~~n 536 (625)
.+..+++..+.|+++|+. +.++|+| +++ +++.+.+|+|++.|...... ++.
T Consensus 157 -~~~~~~~~~~~G~~~~~~~~~~l~W~I----~~~-~~~~~~~l~~~l~~~~~~~~---------~~~------------ 209 (262)
T PF00928_consen 157 -GTSSPSIESSDGSAEYDEEENALVWKI----KKL-PGGSESTLSGTLEFSSPSSV---------PSD------------ 209 (262)
T ss_dssp -TEEEEEEEESSSEEEEETGCTEEEEEE----EEE-ETSEEEEEEEEEEEEEECCS---------S-S------------
T ss_pred -ccccceeeecCceEEEEccCCEEEEEE----CCc-cCcccccEEEEEEecCCCcc---------ccc------------
Confidence 788999999999999966 8999999 556 88999999999999753210 000
Q ss_pred hHHHHHhhhccCCCCCCCCCccccccCceEEEEEEECceecccceEEeeeeE-------eecccccCCCCcceEEeccEE
Q 006936 537 IEEFLMEKMNMDLPPVDLEEPFCWQAYNYAKVSFKIIGASISGMSIDPKSVS-------IYPAVKAPVEFSAQVTSGDYI 609 (625)
Q Consensus 537 ~~e~~~~k~~~~~~~~d~~dp~c~~~~~pIsl~FeIP~~T~SGLkVd~LkV~-------~~kwVKY~~~~s~~T~Sg~Y~ 609 (625)
+ ..+ ||+|+|++|++++|||+|++++|. +|||||| .|+||+|+
T Consensus 210 ---------~-~~~--------------pi~v~F~~~~~~~Sgl~V~~l~v~~~~~~~~~~k~vky------~t~s~~Y~ 259 (262)
T PF00928_consen 210 ---------W-SFF--------------PISVEFTIPGYTLSGLKVRSLDVVNEDENYKPYKWVKY------VTKSGSYE 259 (262)
T ss_dssp -----------------------------EEEEEEESTSETTT-EEEEEEEE-SSCGGGSEEEEEE------EEEEEEEE
T ss_pred ---------c-cce--------------eEEEEEEeCCcccCCCEEEEEEeEecCCCCCCcccEEE------EEEcCcEE
Confidence 0 122 899999999999999999999985 8999999 99999999
Q ss_pred EEc
Q 006936 610 LWN 612 (625)
Q Consensus 610 Iwn 612 (625)
||.
T Consensus 260 iR~ 262 (262)
T PF00928_consen 260 IRT 262 (262)
T ss_dssp E--
T ss_pred EcC
Confidence 984
No 4
>KOG2740 consensus Clathrin-associated protein medium chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=4.6e-50 Score=415.29 Aligned_cols=285 Identities=22% Similarity=0.340 Sum_probs=245.1
Q ss_pred hHHHHHHHhhCCCCcccccCchhhhheeecC------CC--------CCCCCCCCCCCCccCCCCCCccc-EEEEEEEEE
Q 006936 261 DALRSFISSAMPFGTPVDLSYSNIFAIKVNG------FP--------SSELPPQDLKQPAWKPYLYKGKQ-RLLFTIHET 325 (625)
Q Consensus 261 ~~lyELLDE~mdFG~Pq~T~~~~Lk~~i~~~------~~--------~~~~~~~~~k~~~WR~~giKykk-EIfvDViE~ 325 (625)
..||||||||+|+|+|..|+++.||++|... +. +...|.+....+|||+.+.||.+ |+||||+|+
T Consensus 108 ~vv~ell~emiDnGfpl~tE~NiLke~i~pps~l~~~~~svTg~~n~~~~lPtg~~s~VPWR~~~~Ky~nNE~yvdvlEe 187 (418)
T KOG2740|consen 108 VVVYELLDEMIDNGFPLVTEPNILKELIPPPSFLSKKFNSVTGNSNVSDTLPTGALSNVPWRTAGVKYTNNEAYVDVLEE 187 (418)
T ss_pred eeHHHHHHHHHHcCCCcccChhHHHhhcCChHHHHHHHhhhhccccccccCCCcccccccccccCcccccchhhhhhhhe
Confidence 6899999999999999999999999999641 11 12356677788999999999999 999999999
Q ss_pred EEEEEEcCCCCeEEEEEEEEEEEeeeecCCCeEEEeecCCCCccccccccccccccCCccCcCCEEEEeCCCCeEEEEEE
Q 006936 326 VHAAMYDRDEIPDSLSVSGQINCRAELEGMPDVSFPLTGLNSAHVEVLSFHPSAQVPEQGVDKQAVMFSPPLGNFVLMRY 405 (625)
Q Consensus 326 Vn~~l~d~~G~vl~seI~G~I~~Ks~LSGmPev~L~LN~~~~~~LdDvsFHqCV~l~~fe~d~r~IsFiPPDGeF~LM~Y 405 (625)
+++ ++|++|..+.++|+|.|+|+|+|+|||++.|.|+++ ..|+|++|||||++.+|+.+ +.|+||||||+|+||+|
T Consensus 188 ida-i~~k~gslv~~eI~g~vd~~~qLsgmPdltlsl~np--~~L~dvsfHpcVr~krwe~~-~~lsFIPPDGkFrLlsy 263 (418)
T KOG2740|consen 188 IDA-IVDKKGSLVFGEIQGIVDVCSQLSGMPDLTLSLNNP--RLLGDVSFHPCVRYKRWESH-SVLSFIPPDGKFRLLSY 263 (418)
T ss_pred ehe-EecCCCCEEEEEEEEEEEEEEeecCCCceEEEccCc--cccCCcccccceeecccccc-cceEEcCCCCcEEEEEE
Confidence 999 999999999999999999999999999999999998 67999999999999999999 99999999999999999
Q ss_pred eecc--CCCCCeEEEEEEEEecCCcceEEEEEEEEecCCCC--ceeeEEEEEEecCCCCeeeeEeeecceeEEeeC--Ce
Q 006936 406 QAIC--GLGPPVKGFYQLSMVSEDEGAFLFKLCLMESYKAP--LTMEFCNVTMLFPRRRVVSFDGTPSIGTVSNNE--HS 479 (625)
Q Consensus 406 ri~~--~~~pPf~v~~qv~~~s~~~~~f~v~Lkl~~~~k~~--~~ae~v~V~IP~P~~~i~s~~~~~S~G~v~~~~--~~ 479 (625)
|++. ....|..+..+++..+.. ++++.+..+.+.. -..+-+.|+...|+ .+.......++|+..++. +.
T Consensus 264 ~v~~~~~v~~pvyv~~~i~l~~~~----~~ri~~tvg~~~~~gK~ie~itVt~~~pn-~i~~~~k~~~~g~~~~~~~~k~ 338 (418)
T KOG2740|consen 264 RVDAQNQVAIPVYVKNSISLDSNH----QGRISLTVGPKKKMGKTIELITVTVQDPN-EIAYASKILTHGTFTNSIIMKQ 338 (418)
T ss_pred EEehhhccccceEEeeeeccCCCc----eEEEEEeccccccccceeEeEEEEecCcc-ceeeeecccccceeEeecccce
Confidence 9875 356899999999876422 3555555443332 34788899999998 788888888999999876 99
Q ss_pred EEEEEecCCccccCCCceEEEEEEEEeccccccccCCCCCCCCCCccccccCCCcchhHHHHHhhhccCCCCCCCCCccc
Q 006936 480 VEWKIMTSGRALTGRSLEATFPGTVKFAPWQTQRSSSGGTVDEDSDIETDNTNNVVNIEEFLMEKMNMDLPPVDLEEPFC 559 (625)
Q Consensus 480 liW~I~~~gkkf~~g~~E~tL~g~v~l~~~~~~r~~~~~~~~ed~~~~~~~t~~~~n~~e~~~~k~~~~~~~~d~~dp~c 559 (625)
+.|.+ |+ +..++-+.|+|++.+.+..+ +.. ++|
T Consensus 339 l~W~~---~~--i~tg~lp~Lkg~~~~e~~~s--------------------------------k~~-~l~--------- 371 (418)
T KOG2740|consen 339 LTWTF---GS--IATGKLPVLKGTINLEPGFS--------------------------------KKV-DLP--------- 371 (418)
T ss_pred eEEEe---ec--ccCCcccccccccccCCCCC--------------------------------ccc-cCc---------
Confidence 99999 66 57888899999999874220 000 344
Q ss_pred cccCceEEEEEEECceecccceEEeeeeE-----eecccccCCCCcceEEeccEEEEc
Q 006936 560 WQAYNYAKVSFKIIGASISGMSIDPKSVS-----IYPAVKAPVEFSAQVTSGDYILWN 612 (625)
Q Consensus 560 ~~~~~pIsl~FeIP~~T~SGLkVd~LkV~-----~~kwVKY~~~~s~~T~Sg~Y~Iwn 612 (625)
.++++|+|.+.++||++|+.|++. +||+||| .|++|.+++|.
T Consensus 372 -----t~~Lqykiqg~alsglkVe~Ldm~~~~~k~yKGvKy------~t~agnfqvR~ 418 (418)
T KOG2740|consen 372 -----TLSLQYKIQGQALSGLKVERLDMYGEPYKPYKGVKY------KTKAGNFQVRL 418 (418)
T ss_pred -----ccceeeeeeeeeccceEEEeeeecCCCCccccceEE------EEeeeeEEEeC
Confidence 899999999999999999999995 9999999 99999999984
No 5
>KOG2677 consensus Stoned B synaptic vesicle biogenesis protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.90 E-value=5.3e-25 Score=240.61 Aligned_cols=278 Identities=17% Similarity=0.252 Sum_probs=207.1
Q ss_pred hhCCCCcccccCchhhhheeecCCCCCCCCCCCCCCCccCCCCCCccc-EEEEEEEEEEEEEEEcCCCCeEEEEEEEEEE
Q 006936 269 SAMPFGTPVDLSYSNIFAIKVNGFPSSELPPQDLKQPAWKPYLYKGKQ-RLLFTIHETVHAAMYDRDEIPDSLSVSGQIN 347 (625)
Q Consensus 269 E~mdFG~Pq~T~~~~Lk~~i~~~~~~~~~~~~~~k~~~WR~~giKykk-EIfvDViE~Vn~~l~d~~G~vl~seI~G~I~ 347 (625)
+++-||. ||+.-+..||+.- .+. ..+-+.-|...-.|++ ||-|||...... +++++|+++...|.-+|.
T Consensus 548 q~lKlGs---tny~dfl~FittV---ed~---Lmklpv~s~~k~nY~e~EI~v~~~Defsg-~V~Keg~~~~~~v~tri~ 617 (922)
T KOG2677|consen 548 QVLKLGS---TNYDDFLSFITTV---EDR---LMKLPVLSMDKSNYLEEEITVDVRDEFSG-IVSKEGQILQHHVLTRIH 617 (922)
T ss_pred hhhhccC---CcHHHHHHHHHHH---HHH---HhcCccccccccccccceeEEEEEeccce-eecccchhhhhhhhhhhh
Confidence 5567886 7888888888650 000 0011111222337888 999999999999 999999999999999999
Q ss_pred EeeeecCCCeEEEeecCCCC-------------------ccccccccccccccCCccCcCCEEEEeCCCC-eEEEEEEee
Q 006936 348 CRAELEGMPDVSFPLTGLNS-------------------AHVEVLSFHPSAQVPEQGVDKQAVMFSPPLG-NFVLMRYQA 407 (625)
Q Consensus 348 ~Ks~LSGmPev~L~LN~~~~-------------------~~LdDvsFHqCV~l~~fe~d~r~IsFiPPDG-eF~LM~Yri 407 (625)
|-|||+|.|+|.|||||... +.|.+|.||-||+...|+++ |+|-|.|||| .|+||+||.
T Consensus 618 cL~FlsG~~ec~lgLND~~~kg~Eiv~rkDimp~~t~kwI~~~~~~FH~cVn~~eF~~s-rVI~F~PlDaCrFElMRFrt 696 (922)
T KOG2677|consen 618 CLSFLSGLAECRLGLNDILVKGNEIVLRKDIMPTTTTKWIKLHECRFHGCVNEDEFHNS-RVILFNPLDACRFELMRFRT 696 (922)
T ss_pred hhhhccCCceeEeecchhhhcccceeEeccccccccccceeeeeeeeecccchhhcccc-ceEEecCcccceeeeeeeee
Confidence 99999999999999999831 78999999999999999999 9999999999 799999997
Q ss_pred cc-CCCCCeEEEEEEEEecCCcceEEEEEEEEe--cCC------CCceeeEEEEEEecCCCCee-----------e----
Q 006936 408 IC-GLGPPVKGFYQLSMVSEDEGAFLFKLCLME--SYK------APLTMEFCNVTMLFPRRRVV-----------S---- 463 (625)
Q Consensus 408 ~~-~~~pPf~v~~qv~~~s~~~~~f~v~Lkl~~--~~k------~~~~ae~v~V~IP~P~~~i~-----------s---- 463 (625)
-. ....||.+.-.++.. +.+++++.-++. ++. ....|+|+.|+.|+|...|. +
T Consensus 697 ~~~~~~lpftlks~~~V~---Ga~VEvq~~~~mat~~qr~rd~~~~vpCenI~IrfPVPs~WIk~fr~e~~~g~kSlkaK 773 (922)
T KOG2677|consen 697 VFAEKTLPFTLKSATSVN---GAEVEVQSWLRMATGFQRNRDPLTQVPCENIMIRFPVPSEWIKNFRRESVLGEKSLKAK 773 (922)
T ss_pred ecCCCcCceeeeeeeeec---cceeehHHHHHHHhhhhhccCccccCcccceeEeccCcHHHHHHHHHHhhhccchhhhh
Confidence 54 347899998888765 234445443321 222 22569999999999963332 1
Q ss_pred ----------------eEeeecceeEEeeC--CeEEEEEecCCccccC-C----CceEEEEEEEEeccccccccCCCCCC
Q 006936 464 ----------------FDGTPSIGTVSNNE--HSVEWKIMTSGRALTG-R----SLEATFPGTVKFAPWQTQRSSSGGTV 520 (625)
Q Consensus 464 ----------------~~~~~S~G~v~~~~--~~liW~I~~~gkkf~~-g----~~E~tL~g~v~l~~~~~~r~~~~~~~ 520 (625)
.-++++.|+++|+. ++|+|+| .+ + + + +..+.|.+.++|++..
T Consensus 774 ~nR~a~~gsl~~~~sepvi~vt~G~AKYEhay~siVWrI---~R-L-PdKnsa~~hpHcl~c~lELgSd~---------- 838 (922)
T KOG2677|consen 774 VNRGASFGSLSVSGSEPVIRVTLGTAKYEHAYNSIVWRI---NR-L-PDKNSASGHPHCLFCHLELGSDR---------- 838 (922)
T ss_pred hcccccccchhhccCCceEEEeecchhhHHhhhhheeec---cc-C-CccccccCCCeeEEEEEeccccc----------
Confidence 12567889999966 9999999 44 4 4 2 2457899999997532
Q ss_pred CCCCccccccCCCcchhHHHHHhhhccCCCCCCCCCccccccCceEEEEEEECceecccceEEeeeeE----eecccccC
Q 006936 521 DEDSDIETDNTNNVVNIEEFLMEKMNMDLPPVDLEEPFCWQAYNYAKVSFKIIGASISGMSIDPKSVS----IYPAVKAP 596 (625)
Q Consensus 521 ~ed~~~~~~~t~~~~n~~e~~~~k~~~~~~~~d~~dp~c~~~~~pIsl~FeIP~~T~SGLkVd~LkV~----~~kwVKY~ 596 (625)
.+|. ++ .+ .+.|+|.+|.-++|...||.+.|. +-|||+|.
T Consensus 839 ------------evPs--~f--------~p--------------~~~V~FsmP~t~aS~t~VRSisVE~~~~v~K~V~y~ 882 (922)
T KOG2677|consen 839 ------------EVPS--RF--------AP--------------HVNVEFSMPTTSASKTSVRSISVEDKTDVRKWVNYS 882 (922)
T ss_pred ------------cCch--hh--------cc--------------ccceeeeccccccccceeeeeeccccccHHHHHhhh
Confidence 1110 11 12 789999999999999999999994 99999996
Q ss_pred CCCcceEEeccEEEEcC
Q 006936 597 VEFSAQVTSGDYILWNT 613 (625)
Q Consensus 597 ~~~s~~T~Sg~Y~Iwns 613 (625)
.-++|+..=| .+|.-
T Consensus 883 A~Y~yqv~l~--~~~~~ 897 (922)
T KOG2677|consen 883 AHYSYQVALG--SIWLM 897 (922)
T ss_pred hheeeeeeec--chhhc
Confidence 5555555444 45553
No 6
>PF10291 muHD: Muniscin C-terminal mu homology domain; InterPro: IPR018808 The muniscins are a family of endocytic adaptors that is conserved from yeast to humans.This C-terminal domain is structurally similar to mu homology domains, and is the region of the muniscin proteins involved in the interactions with the endocytic adaptor-scaffold proteins Ede1-eps15. This interaction influences muniscin localisation. The muniscins provide a combined adaptor-membrane-tubulation activity that is important for regulating endocytosis.; PDB: 3G9H_A.
Probab=98.86 E-value=4.4e-07 Score=93.92 Aligned_cols=231 Identities=19% Similarity=0.285 Sum_probs=129.3
Q ss_pred EEEEEEEEEEEEEEcCCCCeEEEEEEEEEEEeeeecC-------CCeEEEeecCCCCccccccccccccccCCccCcCCE
Q 006936 318 LLFTIHETVHAAMYDRDEIPDSLSVSGQINCRAELEG-------MPDVSFPLTGLNSAHVEVLSFHPSAQVPEQGVDKQA 390 (625)
Q Consensus 318 IfvDViE~Vn~~l~d~~G~vl~seI~G~I~~Ks~LSG-------mPev~L~LN~~~~~~LdDvsFHqCV~l~~fe~d~r~ 390 (625)
+-..|+|+||+ .| ++|.+.+..|.|+|.+. |..| .+.+.+.|++. ..|+.+.-.+..=......+ ..
T Consensus 3 l~asi~E~VnA-~F-k~g~~~~v~v~GEv~ls-~~~~~~~~~~~~~~l~~rl~n~--~~le~i~pN~~~v~~~~~~~-~~ 76 (257)
T PF10291_consen 3 LNASITETVNA-YF-KGGQLSKVKVTGEVALS-YPAGISSSLTSPPPLSFRLNNF--SRLEKIAPNPQFVSSSSQSD-GE 76 (257)
T ss_dssp EEEEEEEEEEE-EE-ETTEEEEEEEEEEEEEE-EE--SSS-----SEEEEEEETG--GGEEEEEE-TTTE--EEEET-TE
T ss_pred eeEEEEEEEEE-EE-ECCcEEEEEEEEEEEEe-cCCChhhcccCCCcEEEEEcCc--chhceeecCHhHeecCCCCC-Cc
Confidence 34679999999 76 57889999999999985 3333 45788999877 45665444432211122223 45
Q ss_pred EEEeCC--CCeE--EEEEEeeccC----CCCCeEEEEEEEEecCCcceEEEEEEEEe-cCCCCceeeEEEEEEecCCCCe
Q 006936 391 VMFSPP--LGNF--VLMRYQAICG----LGPPVKGFYQLSMVSEDEGAFLFKLCLME-SYKAPLTMEFCNVTMLFPRRRV 461 (625)
Q Consensus 391 IsFiPP--DGeF--~LM~Yri~~~----~~pPf~v~~qv~~~s~~~~~f~v~Lkl~~-~~k~~~~ae~v~V~IP~P~~~i 461 (625)
..|.++ .... ..++|++... ..+|+.+.+.-+.. +....+.+..+++. .+......+||.|.+++..+.+
T Consensus 77 f~~n~~~l~~~~~~~alKYqv~~~~~~~~~~Pl~l~~~Wk~e-~~~tsl~l~Y~~Np~~~~~~~~L~nv~~~v~l~g~~~ 155 (257)
T PF10291_consen 77 FWLNMSALTSHLPKQALKYQVHSDPSNLSSVPLILKPVWKCE-PSQTSLILDYKLNPDAFASPVPLENVVFSVPLDGGRA 155 (257)
T ss_dssp EEE-TTTTBT-E-EEEEEEEEES--------SEEEEEEEEE--SSEEEEEEEEEE-TTT--E-EEEEEEEEEEEB-SS-E
T ss_pred EEEehHHhhhhhhhceEEEEEeccccccCCCCeEEEeEEEeC-CceEEEEEEEEeChhhccccceeeeEEEEEEcCCccc
Confidence 777665 3333 5799998862 46799998888764 33334334444433 2333456899999999997338
Q ss_pred eeeEeeecceeEEeeCCeEEEEEecCCcccc-CCCce-EEEEEEEEeccccccccCCCCCCCCCCccccccCCCcchhHH
Q 006936 462 VSFDGTPSIGTVSNNEHSVEWKIMTSGRALT-GRSLE-ATFPGTVKFAPWQTQRSSSGGTVDEDSDIETDNTNNVVNIEE 539 (625)
Q Consensus 462 ~s~~~~~S~G~v~~~~~~liW~I~~~gkkf~-~g~~E-~tL~g~v~l~~~~~~r~~~~~~~~ed~~~~~~~t~~~~n~~e 539 (625)
+++..++. |++.-+.+.+.|+| +. +. .++.+ ..|.|.+......
T Consensus 156 ts~~skP~-g~~~~e~~ri~Wrl---~e-l~~~~~~~~~kL~ARf~~~~~~----------------------------- 201 (257)
T PF10291_consen 156 TSAQSKPQ-GTWNKEKNRITWRL---PE-LSLTSEGEGGKLIARFMTSGGP----------------------------- 201 (257)
T ss_dssp EEEEESSS---B-SSS-EEEEE----SS-EEEETT---EEEEEEEEESS-------------------------------
T ss_pred cccccCCC-ccccCCCcEEEEEC---Cc-ccccCCCCCceEEEEEECCCCC-----------------------------
Confidence 88888777 87766779999999 55 32 12322 7899999876321
Q ss_pred HHHhhhccCCCCCCCCCccccccCceEEEEEEEC-ceecccceEEeeeeE--ee-cccccC-CCCcceEEeccEEE
Q 006936 540 FLMEKMNMDLPPVDLEEPFCWQAYNYAKVSFKII-GASISGMSIDPKSVS--IY-PAVKAP-VEFSAQVTSGDYIL 610 (625)
Q Consensus 540 ~~~~k~~~~~~~~d~~dp~c~~~~~pIsl~FeIP-~~T~SGLkVd~LkV~--~~-kwVKY~-~~~s~~T~Sg~Y~I 610 (625)
..+ .+|.++|++. +-+.||+.|.-..=. -- .+..|+ +.+.|...||.|..
T Consensus 202 --------~~p-------------~~v~vkF~~~~~~~~sg~~i~~~~~~~~~dp~~~~w~~~~~~r~~~sGkY~~ 256 (257)
T PF10291_consen 202 --------SRP-------------GGVEVKFEIEGGSTLSGLGISLVYQDDEEDPPGGGWRLVLVKRKLVSGKYIA 256 (257)
T ss_dssp ----------S-------------S-EEEEEEE---S-SS----EEEEEESSS-TT----EE-EEEEEEEEEEEE-
T ss_pred --------CCC-------------ceEEEEEEEcCCCcccCcEEEEeecccccCCCCCcceEEEEEEEEeeeEEec
Confidence 001 2899999999 899999888777100 00 133344 56677899999974
No 7
>KOG2635 consensus Medium subunit of clathrin adaptor complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.70 E-value=9.6e-06 Score=88.16 Aligned_cols=225 Identities=16% Similarity=0.190 Sum_probs=155.3
Q ss_pred EEEEEEEEEEEEEEEcCCCCeEEEEEEEEEEEeeeecCCCeEEEeecCCCCccccccccccccccCCccCcCCEEEEeCC
Q 006936 317 RLLFTIHETVHAAMYDRDEIPDSLSVSGQINCRAELEGMPDVSFPLTGLNSAHVEVLSFHPSAQVPEQGVDKQAVMFSPP 396 (625)
Q Consensus 317 EIfvDViE~Vn~~l~d~~G~vl~seI~G~I~~Ks~LSGmPev~L~LN~~~~~~LdDvsFHqCV~l~~fe~d~r~IsFiPP 396 (625)
-+++-|-|++++ .++++|.+-..++.|.+.++--=.-.-.+.|.|++-. ..=-++++||=++-..|.+. ..|..-+|
T Consensus 276 ~v~i~ieEkln~-~~~RDGgi~s~E~qG~lsLrI~d~e~~~i~lkl~n~~-~~g~q~ktHPNlDK~~f~s~-s~iglk~~ 352 (512)
T KOG2635|consen 276 SVHIVIEEKLNV-RLSRDGGIKSGEVQGTLSLRIKDEEYGDIELKLANGR-DKGTQLKTHPNLDKKVFLSS-SLIGLKRP 352 (512)
T ss_pred eEEEEEeeeEeE-EEcccCCccceeeeeeEEEEEccccccceEEEEcCCC-CcceeeeeCCCcchhhhccc-cccccccC
Confidence 699999999999 9999999999999999888765555556777776632 12346899999999999888 88999998
Q ss_pred CCeEE------EEEEeecc--CCCCCeEEEEEEEEecCCcceEEEEEEEEecCCCCceeeEEEEEEecCCCCeeeeEeee
Q 006936 397 LGNFV------LMRYQAIC--GLGPPVKGFYQLSMVSEDEGAFLFKLCLMESYKAPLTMEFCNVTMLFPRRRVVSFDGTP 468 (625)
Q Consensus 397 DGeF~------LM~Yri~~--~~~pPf~v~~qv~~~s~~~~~f~v~Lkl~~~~k~~~~ae~v~V~IP~P~~~i~s~~~~~ 468 (625)
+--|- |++||... ....|+.+.+=-++. .+ .+.+.|.... ......++|.|.||+|. ++ .+....
T Consensus 353 ~K~FPvn~~VGvLkWR~~~~des~iPlTincWPSes-~~--g~dV~iEYe~--~~~~eL~dV~i~iPlP~-~i-apsv~~ 425 (512)
T KOG2635|consen 353 EKPFPVNSDVGVLKWRMVDEDESEIPLTINCWPSES-GN--GYDVNIEYEA--VLECELNDVIITIPLPA-NI-APSVGE 425 (512)
T ss_pred CCCCCcCCcceEEEEeecccccccCceEEEeccccC-CC--CeEEEEEEee--hhcccccceEEEeeccc-cc-CCccce
Confidence 88775 78999764 345688876654433 22 3445554443 22234789999999998 66 666667
Q ss_pred cceeEEeeC--CeEEEEEecCCccccCCCceEEEEEEEEeccccccccCCCCCCCCCCccccccCCCcchhHHHHHhhhc
Q 006936 469 SIGTVSNNE--HSVEWKIMTSGRALTGRSLEATFPGTVKFAPWQTQRSSSGGTVDEDSDIETDNTNNVVNIEEFLMEKMN 546 (625)
Q Consensus 469 S~G~v~~~~--~~liW~I~~~gkkf~~g~~E~tL~g~v~l~~~~~~r~~~~~~~~ed~~~~~~~t~~~~n~~e~~~~k~~ 546 (625)
.-|.+.|++ +.+.|.| +. +..+ .+|++.|.-....
T Consensus 426 ~Dge~~~~~~~~~leW~I---~~--Ia~N----~SGslEFs~~~~~---------------------------------- 462 (512)
T KOG2635|consen 426 CDGEYRYDERKNVLEWSI---GV--IAKN----FSGSLEFSCPASD---------------------------------- 462 (512)
T ss_pred ecceEEeccccceeEEEe---ee--eccC----CCCcEEEeecCCC----------------------------------
Confidence 778888866 9999999 43 2222 3444455311100
Q ss_pred cCCCCCCCCCccccccCceEEEEEEECceecccceEEeeeeE-eecccccCCCCcceEEeccEEE
Q 006936 547 MDLPPVDLEEPFCWQAYNYAKVSFKIIGASISGMSIDPKSVS-IYPAVKAPVEFSAQVTSGDYIL 610 (625)
Q Consensus 547 ~~~~~~d~~dp~c~~~~~pIsl~FeIP~~T~SGLkVd~LkV~-~~kwVKY~~~~s~~T~Sg~Y~I 610 (625)
.+-| .|++|+|.-.. +.+|+.|..+--. -.--+|| ++.....+..|+|
T Consensus 463 --------~~~f-----FPl~VsF~s~~-~ftgl~vqkVv~~~~~~~~~y--~~~t~f~~dky~V 511 (512)
T KOG2635|consen 463 --------PDGF-----FPLSVSFTSDT-VFTGLFVQKVVRNDGHAPVRY--SVETTFEVDKYEV 511 (512)
T ss_pred --------CCce-----eeEEEEEEecc-cccceEEEEEEEcCCCCCcee--EEEEEEEeeeeEe
Confidence 1122 29999998774 8999999876321 1234666 3333555677765
No 8
>PF01217 Clat_adaptor_s: Clathrin adaptor complex small chain; InterPro: IPR022775 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the small sigma and mu subunits of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and the zeta and delta subunits of various coatomer (COP) adaptors. The small sigma subunit of AP proteins have been characterised in several species [, , , ]. The sigma subunit plays a role in protein sorting in the late-Golgi/trans-Golgi network (TGN) and/or endosomes. The zeta subunit of coatomers (zeta-COP) is required for coatomer binding to Golgi membranes and for coat-vesicle assembly [, ]. More information about these proteins can be found at Protein of the Month: Clathrin [].; PDB: 1W63_W 2JKR_I 2VGL_S 2JKT_I 2XA7_S 2HF6_A 3TJZ_C.
Probab=97.06 E-value=0.0036 Score=58.69 Aligned_cols=29 Identities=10% Similarity=0.070 Sum_probs=24.5
Q ss_pred hHHHHHHHhhCCCCcccccCchhhhheee
Q 006936 261 DALRSFISSAMPFGTPVDLSYSNIFAIKV 289 (625)
Q Consensus 261 ~~lyELLDE~mdFG~Pq~T~~~~Lk~~i~ 289 (625)
+.+|++|||++|+|+|+.||++.|.+.+.
T Consensus 108 ~~v~~~LDEiid~G~i~etd~~~I~~~v~ 136 (141)
T PF01217_consen 108 DLVYLILDEIIDGGIILETDPNVILKRVT 136 (141)
T ss_dssp HHHHHHHHHHEETTEES--THHHHHHHHH
T ss_pred HHHHHHHHHHHhCCEEEECCHHHHHHHHH
Confidence 78999999999999999999998887664
No 9
>KOG0937 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]
Probab=92.07 E-value=0.7 Score=51.35 Aligned_cols=115 Identities=12% Similarity=0.133 Sum_probs=76.2
Q ss_pred eeEEEEeecCCeEEEeecchhHHHHHHHHhhcccCCcccCCccCCccCCCCCcHHHHHHHHHHHhhcCccccceeeeccc
Q 006936 7 IRALWILNNFDAVVFSRRFPVVERRWREACKTENESCIEDPIKYNVLPLVPTDSELASAFAERKRREGSVRGFGVRVSQS 86 (625)
Q Consensus 7 ~r~~wi~~~~~~v~fsrr~~~ve~r~~~~~~~~~~~~~~~~~~~~~~~~~p~d~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (625)
++|+||+++.|++.+||||+.. ++++.+..|...+.++. .+|...
T Consensus 1 ~sa~fild~~G~~lisr~yr~d-------------------------v~~s~~~~F~~~l~~~e-~~~~~~--------- 45 (424)
T KOG0937|consen 1 ASAVFILDHKGEVLISRDYRGD-------------------------VPMSSTEKFFRKLFEKE-EGDESP--------- 45 (424)
T ss_pred CceEEEEcCCCcEeEeeccccc-------------------------CChhhhhhHHHHHhhhc-ccCCCC---------
Confidence 4799999999999999999754 46677777776544432 222222
Q ss_pred cCCCCccccCCCcceEEEEEEecCCCcccceeeeEEEEEecCEEEEEeeec--cc-----------hhhHHHHhhhcCCC
Q 006936 87 TEGSDSWVDDPITRHVIGLYIDTEEGGENHLLWPLILHVKGPYCILVLPQV--EP-----------RHLKAYARLCKKSD 153 (625)
Q Consensus 87 ~~~~~~~~d~~~~~~~~~l~~~~~~~~~~~~lwp~~~~~~~~~~~~~~p~v--e~-----------~~~~~y~~~~~~~~ 153 (625)
|. |.. +| |+++..+..+||++..-.. .+ +.+.+|.+ .
T Consensus 46 ----------p~------l~~---~g------~~~~~ik~s~lylv~~~~~n~~a~~v~~~l~~~~~v~~~y~~--~--- 95 (424)
T KOG0937|consen 46 ----------PF------LVH---DG------SRFIHIKHSNLYLVAGTRPNVSAALVLSFLYAVADVFGDYLS--E--- 95 (424)
T ss_pred ----------Ce------EEe---CC------ceEEEEeecceEEEEEeccCCCHHHHHHHHHHHHHHHHHHhc--c---
Confidence 21 222 33 6666666666666655422 11 22334422 1
Q ss_pred CCCCcccCCCCCccccCCcchhhHHHHHHhhhccccccccccee
Q 006936 154 CGNAVGVDDSLSSLLLDLPSITGAFMVAHAIGDIITGDVVEPEV 197 (625)
Q Consensus 154 ~~~~~~~~~~~~~~l~~~~~it~~~~~~~~~~~~~~~~~~~~~~ 197 (625)
.+.+.-.-.+..-+.+|..+.||-.+.+-|+|+
T Consensus 96 -----------l~e~si~~n~vlvyElLde~mDFGypQ~t~s~i 128 (424)
T KOG0937|consen 96 -----------LEEESIRDNFVLVYELLDEVMDFGYPQTTDSEI 128 (424)
T ss_pred -----------CCccceecchHHHHHHHHHHhccCCcccchHHH
Confidence 446666778899999999999999889999998
No 10
>PF10555 MraY_sig1: Phospho-N-acetylmuramoyl-pentapeptide-transferase signature 1 ; InterPro: IPR018480 Phospho-N-acetylmuramoyl-pentapeptide-transferase (2.7.8.13 from EC) (MraY) is a bacterial enzyme responsible for the formation of the first lipid intermediate of the cell wall peptidoglycan synthesis []. It catalyses the formation of undecaprenyl-pyrophosphoryl-N-acetylmuramoyl-pentapeptide from UDP-MurNAc-pentapeptide and undecaprenyl-phosphate. MraY is an integral membrane protein with probably ten transmembrane domains. It belongs to family 4 of glycosyl transferases. Homologues of MraY have been found in archaebacteria Methanobacterium thermoautotrophicum and in Arabidopsis thaliana (Mouse-ear cress). This entry represents two conserved sites found in these proteins. The first site is located at the end of the first cytoplasmic loop and the beginning of the second transmembrane domain. The second site is located in the third cytoplasmic loop.
Probab=36.09 E-value=15 Score=21.92 Aligned_cols=9 Identities=33% Similarity=1.128 Sum_probs=7.4
Q ss_pred cCCCccccc
Q 006936 201 ASPSVGGLL 209 (625)
Q Consensus 201 ~~~~~~~~~ 209 (625)
-.|+|||++
T Consensus 3 gTPTMGGi~ 11 (13)
T PF10555_consen 3 GTPTMGGIV 11 (13)
T ss_pred CCccceeEE
Confidence 479999985
Done!