Query 021678
Match_columns 309
No_of_seqs 120 out of 768
Neff 8.0
Searched_HMMs 46136
Date Fri Mar 29 04:50:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021678.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021678hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0938 Adaptor complexes medi 100.0 8.1E-82 1.8E-86 560.3 25.9 305 1-307 114-446 (446)
2 KOG0937 Adaptor complexes medi 100.0 1.9E-72 4.2E-77 520.5 27.9 308 1-308 115-424 (424)
3 PF00928 Adap_comp_sub: Adapto 100.0 3E-64 6.5E-69 456.6 30.9 261 40-308 1-262 (262)
4 KOG2740 Clathrin-associated pr 100.0 1.9E-59 4E-64 420.9 24.1 288 1-308 117-418 (418)
5 KOG2677 Stoned B synaptic vesi 100.0 9.5E-39 2.1E-43 303.7 8.4 255 47-307 582-890 (922)
6 KOG2635 Medium subunit of clat 100.0 6.1E-27 1.3E-31 215.8 23.1 230 47-306 270-511 (512)
7 PF10291 muHD: Muniscin C-term 99.3 3.3E-09 7.1E-14 95.8 24.2 228 54-306 3-256 (257)
8 PF13598 DUF4139: Domain of un 60.7 92 0.002 28.6 10.2 108 130-246 194-313 (317)
9 PF03504 Chlam_OMP6: Chlamydia 44.7 1.3E+02 0.0028 22.3 7.0 43 190-236 43-85 (95)
10 KOG0647 mRNA export protein (c 44.2 55 0.0012 30.4 5.5 111 61-181 203-314 (347)
11 PF08460 SH3_5: Bacterial SH3 43.9 98 0.0021 21.6 5.7 34 264-304 27-60 (65)
12 PF14400 Transglut_i_TM: Inact 39.0 2.4E+02 0.0051 23.8 8.7 55 193-247 33-94 (165)
13 TIGR01451 B_ant_repeat conserv 34.9 1.1E+02 0.0023 20.4 4.5 31 172-204 11-41 (53)
14 PF07151 DUF1391: Protein of u 32.7 49 0.0011 21.2 2.4 17 139-155 16-32 (49)
15 TIGR02231 conserved hypothetic 30.5 4E+02 0.0086 26.6 9.8 68 174-246 443-516 (525)
16 cd06494 p23_NUDCD2_like p23-li 24.6 83 0.0018 23.7 2.9 17 190-206 13-29 (93)
17 PRK09750 hypothetical protein; 23.5 67 0.0015 22.1 1.9 14 285-298 11-24 (64)
18 PF11609 DUF3248: Protein of u 20.7 1.8E+02 0.0038 20.1 3.5 25 222-248 5-29 (63)
19 PRK06764 hypothetical protein; 20.6 1.6E+02 0.0035 21.9 3.5 48 258-309 40-91 (105)
No 1
>KOG0938 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=8.1e-82 Score=560.31 Aligned_cols=305 Identities=44% Similarity=0.778 Sum_probs=279.1
Q ss_pred CCccccccccChhhhhccccCcceecccc----c-----CCC----CcccccccccccCccceeceEEEEEEEeEEEEEc
Q 021678 1 MMDFGYPQYTEANILSEFIKTDAYRMEVT----Q-----RPP----MAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVN 67 (309)
Q Consensus 1 m~D~G~p~~t~~~~L~~~i~~~~~~~~~~----~-----~~~----~~~~~~v~wR~~~~~~~~neI~vdV~E~l~~~~~ 67 (309)
||||||||+||+++|+.+|..+++..+-+ + +.+ +..++.++||+.|++|++||+|+||.|++|..++
T Consensus 114 mld~G~pqnte~~al~~~is~~~Vrs~g~~ls~k~s~~sq~~~~~ssqv~G~i~WRr~Gi~ykknevfldvvErvNlLmS 193 (446)
T KOG0938|consen 114 MLDFGIPQNTEPNALKAQISQKGVRSMGGVLSSKSSPTSQATELRSSQVTGKIGWRREGIKYKKNEVFLDVVERVNLLMS 193 (446)
T ss_pred HHhcCCCccCChhHHHhhhhhhhhhccccccCCcCCCCcccccccccccccccccccccceeccceeEeEehheeeeEEc
Confidence 79999999999999999999988876521 1 111 3346679999999999999999999999999999
Q ss_pred cCCcEEEEEEEEEEEEEEEecCCCeEEEEEccchhhhhcCCC-------------CCCceeeecccccceeeccccccCC
Q 021678 68 SNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRS-------------TKGKAIDLDDIKFHQCVRLARFEND 134 (309)
Q Consensus 68 ~~G~v~~~~V~G~i~~~s~LsG~P~~~l~Ln~~~~~~~~~~~-------------~~~~~~~l~~~~fH~cV~~~~f~~~ 134 (309)
++|++++++|+|.|.|+++|||||+|+++|||...+++.+.. ++...+.|+||.||+||++++|+++
T Consensus 194 ~~GnVLrs~VsG~V~mk~~LSGmPeckfGlNDkl~~e~kq~esks~~~n~~~~sks~~g~v~leDc~FHqCV~L~kFn~e 273 (446)
T KOG0938|consen 194 SDGNVLRSDVSGTVDMKTHLSGMPECKFGLNDKLGMESKQSESKSDFGNKNFPSKSGKGSVLLEDCTFHQCVRLDKFNSE 273 (446)
T ss_pred CCCCEEEeecccEEEEEEeccCCcccccccCcccceeeccccccccccccCCCcccCCceEEeeccchheeecccccccc
Confidence 999999999999999999999999999999999877633211 2445688999999999999999999
Q ss_pred ceEEEeCCCCcEEEEEEEecCCCcCcEEEEEEEEECcCeEEEEEEEEeecCCCcceeeeEEEEecCCCCCCCceEEecce
Q 021678 135 RTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMG 214 (309)
Q Consensus 135 ~~l~F~PPdG~F~Lm~Yr~~~~~~pp~~v~~~~~~~~~~~ve~~l~~~~~~~~~~~~~~v~i~iPlP~~~~~~~~~~~~G 214 (309)
+.|+|+||||+|+||+||+..++..||.|.|.+++.+.+++||++++++.|++++.+.+|.++||+|+++..+.++++.|
T Consensus 274 h~IsFvPPDGe~ELMkYr~~enInlPFrV~PiV~el~r~kie~ri~iks~f~~kl~a~~v~~rIPvP~ntv~~n~~v~~G 353 (446)
T KOG0938|consen 274 HIISFVPPDGEFELMKYRVTENINLPFRVTPIVTELGRTKIEYRITIKSLFPPKLLAKDVVVRIPVPPNTVKCNISVSNG 353 (446)
T ss_pred ceEEEeCCCCceEeEeeeeccCcccceEeeeheecccceeEEEEEEEeccCCchhhhcceEEEecCCCccccceeEEecC
Confidence 99999999999999999999999888999999998888899999999999999999999999999999999999999999
Q ss_pred eEEEeCCCCEEEEEeceeCCCCeeEEEEEEEecCCC-CCCCCCCCCCcEEEEEEECcccccceEEEEEEEEE-cCCCccc
Q 021678 215 SASYVPEDEALIWKIRSFPGGKEYMLRAEFTLPSIT-AEEATPERKAPIRVKFEIPYFTVSGIQVRYLKIIE-KSGYHAL 292 (309)
Q Consensus 215 ~~~~~~~~~~l~W~I~~~~g~~~~~l~~~~~l~~~~-~~~~~~~~~~pi~v~F~ip~~s~SGl~V~~l~v~~-~~~~~~~ 292 (309)
+++|.+++++++|+|+++.|.+|.++++++++.+.. +...| ..+||+++|++||++.|||.|++++|.+ +++|+..
T Consensus 354 kaky~psen~ivWki~kf~G~tE~tlsAevels~Tt~nkq~W--trPPIsleFeV~MFt~SGL~VrylkV~e~~Sk~~~v 431 (446)
T KOG0938|consen 354 KAKYVPSENAIVWKINKFNGLTESTLSAEVELSDTTQNKQQW--TRPPISLEFEVPMFTNSGLVVRYLKVSEKDSKHRAV 431 (446)
T ss_pred ccccCcccceEEEEecccCCcccceeEEEEEeccCccccccc--cCCCceeEEeeeeecCCceEEEEEEEecccCCCceE
Confidence 999999999999999999999999999999997765 44457 8899999999999999999999999999 5889999
Q ss_pred cceEEEEEeccEEEE
Q 021678 293 PWVRYITMAGEYELR 307 (309)
Q Consensus 293 k~vrY~t~sg~Y~~R 307 (309)
|||||+|+||+||+|
T Consensus 432 kWVrYitkaGsyEiR 446 (446)
T KOG0938|consen 432 KWVRYITKAGSYEIR 446 (446)
T ss_pred EEEEEecccceeeeC
Confidence 999999999999998
No 2
>KOG0937 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.9e-72 Score=520.52 Aligned_cols=308 Identities=63% Similarity=1.076 Sum_probs=282.3
Q ss_pred CCccccccccChhhhhccccCcceecccc-cCCCCcccccccccccCccceeceEEEEEEEeEEEEEccCCcEEEEEEEE
Q 021678 1 MMDFGYPQYTEANILSEFIKTDAYRMEVT-QRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVG 79 (309)
Q Consensus 1 m~D~G~p~~t~~~~L~~~i~~~~~~~~~~-~~~~~~~~~~v~wR~~~~~~~~neI~vdV~E~l~~~~~~~G~v~~~~V~G 79 (309)
||||||||.|+++.|++||..+++..+.. .++|++.++.+.||+.+++|+|||+|+||+|++++.++++|.++.++|.|
T Consensus 115 ~mDFGypQ~t~s~iL~~yi~~~~~~l~~~~~~~p~avtnavsWrs~gi~~~KnevflDViE~Vs~l~~~~G~vl~s~i~G 194 (424)
T KOG0937|consen 115 VMDFGYPQTTDSEILKNYITQKANRLQDAQPRPPLAVTNAVSWRSEGIYYGKNEVFLDVIESVSLLYDSNGIVLLSEIVG 194 (424)
T ss_pred HhccCCcccchHHHHHHHhcccccceeecCCCCCcccccceeecccccccccceEEEEhhhhhhHhhhcCCcEEEeeeee
Confidence 68999999999999999999997765432 25688888999999999999999999999999999999999999999999
Q ss_pred EEEEEEEecCCCeEEEEEccchhhhhcCCCCCCceeeecccccceeeccccccCCceEEEeCCCCcEEEEEEEecCCCcC
Q 021678 80 ALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKP 159 (309)
Q Consensus 80 ~i~~~s~LsG~P~~~l~Ln~~~~~~~~~~~~~~~~~~l~~~~fH~cV~~~~f~~~~~l~F~PPdG~F~Lm~Yr~~~~~~p 159 (309)
+|+|||+|+|||+++|+||+....+..+..+.+..+.++|++||+||++++|+.+|+|+|+||||+|+||+||++....|
T Consensus 195 ~I~~k~~LsGmPelrl~ln~~~~~~~~~~~~~s~~v~ledi~fh~~v~l~~fd~dr~i~FiPPdGeF~Lm~Y~ls~~vkP 274 (424)
T KOG0937|consen 195 TIKLKCYLSGMPELRLGLNDKVLFDKQGPRSKSKGVELEDIKFHECVRLSRFDNDRTISFIPPDGEFELMRYRLSTHVKP 274 (424)
T ss_pred EEEEEEEcCCCceeeeecCcccccccccccccCcceEeeecccceeechhhccCCceEEecCCCCceEEEEEEecCCCCC
Confidence 99999999999999999999988766654444568899999999999999999999999999999999999999999889
Q ss_pred cEEEEEEEEECcCeEEEEEEEEeecCCCcceeeeEEEEecCCCCCCCceEEecceeEEEeCCCCEEEEEeceeCCCCeeE
Q 021678 160 LIWVEAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPGGKEYM 239 (309)
Q Consensus 160 p~~v~~~~~~~~~~~ve~~l~~~~~~~~~~~~~~v~i~iPlP~~~~~~~~~~~~G~~~~~~~~~~l~W~I~~~~g~~~~~ 239 (309)
++.+......++..++++.++++++|+.+..+++|.|.||+|..+..+....+.|+++|.+++++++|+|++++|+.+.+
T Consensus 275 li~~~~~~~~~~~~ri~i~~K~~~~fk~~~~a~~v~I~iP~P~~a~~~~fk~s~G~~~~~~e~~~l~W~I~~~~gg~e~~ 354 (424)
T KOG0937|consen 275 LIWFYQLIEEHSRSRIEVMVKLREQFKSRSSANNVEICIPVPDDASSPSFKTSLGSAKYDPEKSALRWTIKKFVGGKEYS 354 (424)
T ss_pred eEEeeeeeeeccceeEEEEEechhhcCCccccceEEEEeeCCCccccceEeccCCceeeecccceEEEEeccccCCceEE
Confidence 98886655556778999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEecCCCCCCCCCCCCCcEEEEEEECcccccceEEEEEEEEE-cCCCccccceEEEEEeccEEEEe
Q 021678 240 LRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRYLKIIE-KSGYHALPWVRYITMAGEYELRL 308 (309)
Q Consensus 240 l~~~~~l~~~~~~~~~~~~~~pi~v~F~ip~~s~SGl~V~~l~v~~-~~~~~~~k~vrY~t~sg~Y~~R~ 308 (309)
+++++.+++...++......+||+|+|+||++|.||++|+++++.+ +.+|++++||||.|+||.|++|.
T Consensus 355 ~r~~~~lp~~~~e~~~~~~~~pi~v~FeIp~~T~SgiqVrylki~ep~~~y~s~~WVRy~T~s~~Y~~r~ 424 (424)
T KOG0937|consen 355 LRARMDLPSEEHEEQCTEGLGPIKVKFEIPYFTVSGIQVRYLKIIEPKSQYQSLPWVRYNTQSGPYEIRV 424 (424)
T ss_pred EEEeecCCccccCCCCcccCCceEEEEEecccccCCeEEEEEEecccccCCCccceEEEEccCCceEeeC
Confidence 9999999886654411138999999999999999999999999998 68999999999999999999995
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=3e-64 Score=456.61 Aligned_cols=261 Identities=40% Similarity=0.788 Sum_probs=218.4
Q ss_pred ccccccCccceeceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEEecCCCeEEEEEccchhhhhcCCCCCCceeeecc
Q 021678 40 VSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDD 119 (309)
Q Consensus 40 v~wR~~~~~~~~neI~vdV~E~l~~~~~~~G~v~~~~V~G~i~~~s~LsG~P~~~l~Ln~~~~~~~~~~~~~~~~~~l~~ 119 (309)
+|||+.+++|++|||||||.|+|+++++++|.++.++|.|+|.|+++|+|+|+|+|.||++... ..+++.++|
T Consensus 1 ~~wR~~~~~~~~nei~vdv~E~i~~~~~~~G~~~~~~v~G~v~~~~~l~g~p~i~l~l~~~~~~-------~~~~~~l~~ 73 (262)
T PF00928_consen 1 VPWRPSGIKYKKNEIFVDVVEKISAVLDRDGNILSSEVKGSVQCKSFLSGMPEIKLTLNNPLVV-------SKNGIKLDD 73 (262)
T ss_dssp -TTS-STB--SSEEEEEEEEEEEEEEEETTSEEEEEEEEEEEEEEEE-SST-EEEEEESSSCCC-------TSSSBEESE
T ss_pred CCcccCCcccccceEEEEEEEEEEEEEccCCcEEEEEEEEEEEEEEeCCCCCeEEEEecCcccc-------ccCceeeec
Confidence 5899999999999999999999999999999999999999999999999999999999987432 124567999
Q ss_pred cccceeeccccccCCceEEEeCCCCcEEEEEEEecCCCcCcEEEEEEEEECcCeEEEEEEEEeecCCCcceeeeEEEEec
Q 021678 120 IKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERSTATNVEIELP 199 (309)
Q Consensus 120 ~~fH~cV~~~~f~~~~~l~F~PPdG~F~Lm~Yr~~~~~~pp~~v~~~~~~~~~~~ve~~l~~~~~~~~~~~~~~v~i~iP 199 (309)
++||||||+++|++++.|+|+||||+|+||+||++....+|+.+.|++...+++++++.++++++++....++||.|+||
T Consensus 74 ~~fH~cV~~~~~~~~~~i~f~PPdg~f~Ll~Yr~~~~~~~P~~i~~~~~~~~~~~~~v~i~~~~~~~~~~~~~~v~I~ip 153 (262)
T PF00928_consen 74 VSFHPCVDLSKFESDRVISFIPPDGEFTLLRYRVSSNSPLPFKITCWVSEKSSGRFEVTIELESNFPNKISLENVVIRIP 153 (262)
T ss_dssp EEEETTEECCCCCSHTEEEE---SEEEEEEEEEEESSS--SEEEEEEEEEETTTEEEEEEEEEE-S-TTSEEEEEEEEEE
T ss_pred eeeccccCccccccccceecCCCCceEEEEEEEccCCCCCCcEEEEEeccCCCceEEEEEEecccCCCCceeceEEEEee
Confidence 99999999999999999999999999999999998888889999999988556799999999999888788999999999
Q ss_pred CCCCCCCceEEecceeEEEeCCCCEEEEEeceeCCCCeeEEEEEEEecCCCCCCCCCCCCCcEEEEEEECcccccceEEE
Q 021678 200 VSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVR 279 (309)
Q Consensus 200 lP~~~~~~~~~~~~G~~~~~~~~~~l~W~I~~~~g~~~~~l~~~~~l~~~~~~~~~~~~~~pi~v~F~ip~~s~SGl~V~ 279 (309)
+|.++..+++..+.|+++|+.+++.++|+|++++++.+++++|++++....+.+. ...++||+|+|++|++++||++|+
T Consensus 154 lP~~~~~~~~~~~~G~~~~~~~~~~l~W~I~~~~~~~~~~l~~~l~~~~~~~~~~-~~~~~pi~v~F~~~~~~~Sgl~V~ 232 (262)
T PF00928_consen 154 LPPGTSSPSIESSDGSAEYDEEENALVWKIKKLPGGSESTLSGTLEFSSPSSVPS-DWSFFPISVEFTIPGYTLSGLKVR 232 (262)
T ss_dssp --TTEEEEEEEESSSEEEEETGCTEEEEEEEEEETSEEEEEEEEEEEEEECCSS--S-----EEEEEEESTSETTT-EEE
T ss_pred cCCccccceeeecCceEEEEccCCEEEEEECCccCcccccEEEEEEecCCCcccc-cccceeEEEEEEeCCcccCCCEEE
Confidence 9998888999999999999999999999999999999999999999876554333 127899999999999999999999
Q ss_pred EEEEEEc-CCCccccceEEEEEeccEEEEe
Q 021678 280 YLKIIEK-SGYHALPWVRYITMAGEYELRL 308 (309)
Q Consensus 280 ~l~v~~~-~~~~~~k~vrY~t~sg~Y~~R~ 308 (309)
+++|.+. .+|+|+|||||+|+||+|+||+
T Consensus 233 ~l~v~~~~~~~~~~k~vky~t~s~~Y~iR~ 262 (262)
T PF00928_consen 233 SLDVVNEDENYKPYKWVKYVTKSGSYEIRT 262 (262)
T ss_dssp EEEEE-SSCGGGSEEEEEEEEEEEEEEE--
T ss_pred EEEeEecCCCCCCcccEEEEEEcCcEEEcC
Confidence 9999883 6899999999999999999995
No 4
>KOG2740 consensus Clathrin-associated protein medium chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.9e-59 Score=420.89 Aligned_cols=288 Identities=28% Similarity=0.546 Sum_probs=253.2
Q ss_pred CCccccccccChhhhhccccCcceeccc----------ccCCCCcccccccccccCccceeceEEEEEEEeEEEEEccCC
Q 021678 1 MMDFGYPQYTEANILSEFIKTDAYRMEV----------TQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNG 70 (309)
Q Consensus 1 m~D~G~p~~t~~~~L~~~i~~~~~~~~~----------~~~~~~~~~~~v~wR~~~~~~~~neI~vdV~E~l~~~~~~~G 70 (309)
|||+|||..||+|.||++|.+++.+++. +..+|+++.+.||||+.+.+|.+||.||||.|+++|+++++|
T Consensus 117 miDnGfpl~tE~NiLke~i~pps~l~~~~~svTg~~n~~~~lPtg~~s~VPWR~~~~Ky~nNE~yvdvlEeidai~~k~g 196 (418)
T KOG2740|consen 117 MIDNGFPLVTEPNILKELIPPPSFLSKKFNSVTGNSNVSDTLPTGALSNVPWRTAGVKYTNNEAYVDVLEEIDAIVDKKG 196 (418)
T ss_pred HHHcCCCcccChhHHHhhcCChHHHHHHHhhhhccccccccCCCcccccccccccCcccccchhhhhhhheeheEecCCC
Confidence 8999999999999999999999998742 346788888899999999999999999999999999999999
Q ss_pred cEEEEEEEEEEEEEEEecCCCeEEEEEccchhhhhcCCCCCCceeeecccccceeeccccccCCceEEEeCCCCcEEEEE
Q 021678 71 QIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMT 150 (309)
Q Consensus 71 ~v~~~~V~G~i~~~s~LsG~P~~~l~Ln~~~~~~~~~~~~~~~~~~l~~~~fH~cV~~~~f~~~~~l~F~PPdG~F~Lm~ 150 (309)
..+.++|.|.|.|+|+|+|||++.|.|+++. .|+|++|||||++.+|++++.|+|+||||+|+||+
T Consensus 197 slv~~eI~g~vd~~~qLsgmPdltlsl~np~--------------~L~dvsfHpcVr~krwe~~~~lsFIPPDGkFrLls 262 (418)
T KOG2740|consen 197 SLVFGEIQGIVDVCSQLSGMPDLTLSLNNPR--------------LLGDVSFHPCVRYKRWESHSVLSFIPPDGKFRLLS 262 (418)
T ss_pred CEEEEEEEEEEEEEEeecCCCceEEEccCcc--------------ccCCcccccceeecccccccceEEcCCCCcEEEEE
Confidence 9999999999999999999999999998865 38999999999999999999999999999999999
Q ss_pred EEecCC--CcCcEEEEEEEEECcCe--EEEEEEEEeecCCCcceeeeEEEEecCCCCCCCceEEecceeEEEeCCCCEEE
Q 021678 151 YRLNTQ--VKPLIWVEAQVERHSRS--RVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSASYVPEDEALI 226 (309)
Q Consensus 151 Yr~~~~--~~pp~~v~~~~~~~~~~--~ve~~l~~~~~~~~~~~~~~v~i~iPlP~~~~~~~~~~~~G~~~~~~~~~~l~ 226 (309)
||++.. ...|..+.++....+.. ++++.+..+...++ ..+.+.|+...|+.........++|+..++...+.+-
T Consensus 263 y~v~~~~~v~~pvyv~~~i~l~~~~~~ri~~tvg~~~~~gK--~ie~itVt~~~pn~i~~~~k~~~~g~~~~~~~~k~l~ 340 (418)
T KOG2740|consen 263 YRVDAQNQVAIPVYVKNSISLDSNHQGRISLTVGPKKKMGK--TIELITVTVQDPNEIAYASKILTHGTFTNSIIMKQLT 340 (418)
T ss_pred EEEehhhccccceEEeeeeccCCCceEEEEEeccccccccc--eeEeEEEEecCccceeeeecccccceeEeecccceeE
Confidence 999865 36677888887765543 44444443333333 4667788889999888888888999999999999999
Q ss_pred EEeceeCCCCeeEEEEEEEecCCCCCCCCCCCCCcEEEEEEECcccccceEEEEEEEEEcCCCccccceEEEEEeccEEE
Q 021678 227 WKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRYLKIIEKSGYHALPWVRYITMAGEYEL 306 (309)
Q Consensus 227 W~I~~~~g~~~~~l~~~~~l~~~~~~~~~~~~~~pi~v~F~ip~~s~SGl~V~~l~v~~~~~~~~~k~vrY~t~sg~Y~~ 306 (309)
|.++++..+.-++|++.+++.+.... +..+..++++|++.+.++||++|..|++.+ ..|+|||||||.|+||++++
T Consensus 341 W~~~~i~tg~lp~Lkg~~~~e~~~sk---~~~l~t~~Lqykiqg~alsglkVe~Ldm~~-~~~k~yKGvKy~t~agnfqv 416 (418)
T KOG2740|consen 341 WTFGSIATGKLPVLKGTINLEPGFSK---KVDLPTLSLQYKIQGQALSGLKVERLDMYG-EPYKPYKGVKYKTKAGNFQV 416 (418)
T ss_pred EEeecccCCcccccccccccCCCCCc---cccCcccceeeeeeeeeccceEEEeeeecC-CCCccccceEEEEeeeeEEE
Confidence 99999998888999999988754332 237899999999999999999999999988 56899999999999999999
Q ss_pred Ee
Q 021678 307 RL 308 (309)
Q Consensus 307 R~ 308 (309)
|+
T Consensus 417 R~ 418 (418)
T KOG2740|consen 417 RL 418 (418)
T ss_pred eC
Confidence 96
No 5
>KOG2677 consensus Stoned B synaptic vesicle biogenesis protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=9.5e-39 Score=303.67 Aligned_cols=255 Identities=27% Similarity=0.463 Sum_probs=215.1
Q ss_pred ccceeceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEEecCCCeEEEEEccchhhhhcC-------CCCCCceeeecc
Q 021678 47 IQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQG-------RSTKGKAIDLDD 119 (309)
Q Consensus 47 ~~~~~neI~vdV~E~l~~~~~~~G~v~~~~V~G~i~~~s~LsG~P~~~l~Ln~~~~~~~~~-------~~~~~~~~~l~~ 119 (309)
..|..+||.|||.++.+.+++++|+++...|..+|.|.|||+|.++|.|+|||..+.+.+- ..+...||+|.+
T Consensus 582 ~nY~e~EI~v~~~Defsg~V~Keg~~~~~~v~tri~cL~FlsG~~ec~lgLND~~~kg~Eiv~rkDimp~~t~kwI~~~~ 661 (922)
T KOG2677|consen 582 SNYLEEEITVDVRDEFSGIVSKEGQILQHHVLTRIHCLSFLSGLAECRLGLNDILVKGNEIVLRKDIMPTTTTKWIKLHE 661 (922)
T ss_pred cccccceeEEEEEeccceeecccchhhhhhhhhhhhhhhhccCCceeEeecchhhhcccceeEeccccccccccceeeee
Confidence 4699999999999999999999999999999999999999999999999999987644321 014678999999
Q ss_pred cccceeeccccccCCceEEEeCCCC-cEEEEEEEecCC-CcCcEEEEEEEEECcCeEEEEEEEEe--e------cCCCcc
Q 021678 120 IKFHQCVRLARFENDRTISFIPPDG-SFDLMTYRLNTQ-VKPLIWVEAQVERHSRSRVEILVKAR--S------QFKERS 189 (309)
Q Consensus 120 ~~fH~cV~~~~f~~~~~l~F~PPdG-~F~Lm~Yr~~~~-~~pp~~v~~~~~~~~~~~ve~~l~~~--~------~~~~~~ 189 (309)
|.||.||+.+.|+++|+|.|.|+|| .|+|||||+..+ ...||+++..+... |.+||+..-++ + ......
T Consensus 662 ~~FH~cVn~~eF~~srVI~F~PlDaCrFElMRFrt~~~~~~lpftlks~~~V~-Ga~VEvq~~~~mat~~qr~rd~~~~v 740 (922)
T KOG2677|consen 662 CRFHGCVNEDEFHNSRVILFNPLDACRFELMRFRTVFAEKTLPFTLKSATSVN-GAEVEVQSWLRMATGFQRNRDPLTQV 740 (922)
T ss_pred eeeecccchhhccccceEEecCcccceeeeeeeeeecCCCcCceeeeeeeeec-cceeehHHHHHHHhhhhhccCccccC
Confidence 9999999999999999999999999 899999999654 34556776665543 45677754332 1 123356
Q ss_pred eeeeEEEEecCCCCC--------------------------------CCceEEecceeEEEeCCCCEEEEEeceeCCC--
Q 021678 190 TATNVEIELPVSSDA--------------------------------SNPDVRTSMGSASYVPEDEALIWKIRSFPGG-- 235 (309)
Q Consensus 190 ~~~~v~i~iPlP~~~--------------------------------~~~~~~~~~G~~~~~~~~~~l~W~I~~~~g~-- 235 (309)
.|+||.|++|+|..| +.+.++++.|+++|++..+.|+|+|++++..
T Consensus 741 pCenI~IrfPVPs~WIk~fr~e~~~g~kSlkaK~nR~a~~gsl~~~~sepvi~vt~G~AKYEhay~siVWrI~RLPdKns 820 (922)
T KOG2677|consen 741 PCENIMIRFPVPSEWIKNFRRESVLGEKSLKAKVNRGASFGSLSVSGSEPVIRVTLGTAKYEHAYNSIVWRINRLPDKNS 820 (922)
T ss_pred cccceeEeccCcHHHHHHHHHHhhhccchhhhhhcccccccchhhccCCceEEEeecchhhHHhhhhheeecccCCcccc
Confidence 899999999999864 2356789999999999999999999998863
Q ss_pred ---CeeEEEEEEEecCCCCCCCCCCCCCcEEEEEEECcccccceEEEEEEEEEcCCCccccceEEEEEeccEEEE
Q 021678 236 ---KEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRYLKIIEKSGYHALPWVRYITMAGEYELR 307 (309)
Q Consensus 236 ---~~~~l~~~~~l~~~~~~~~~~~~~~pi~v~F~ip~~s~SGl~V~~l~v~~~~~~~~~k~vrY~t~sg~Y~~R 307 (309)
..+.|.|.|+|+++++.+.+ ..+.+.|+|.+|..++|...||+|.|+. ...+.|||+|.... +|++.
T Consensus 821 a~~hpHcl~c~lELgSd~evPs~--f~p~~~V~FsmP~t~aS~t~VRSisVE~--~~~v~K~V~y~A~Y-~yqv~ 890 (922)
T KOG2677|consen 821 ASGHPHCLFCHLELGSDREVPSR--FAPHVNVEFSMPTTSASKTSVRSISVED--KTDVRKWVNYSAHY-SYQVA 890 (922)
T ss_pred ccCCCeeEEEEEeccccccCchh--hccccceeeeccccccccceeeeeeccc--cccHHHHHhhhhhe-eeeee
Confidence 47899999999999887665 7888999999999999999999999976 35699999999774 77764
No 6
>KOG2635 consensus Medium subunit of clathrin adaptor complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.96 E-value=6.1e-27 Score=215.79 Aligned_cols=230 Identities=18% Similarity=0.267 Sum_probs=184.4
Q ss_pred ccceeceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEEecCCCeEEEEEccchhhhhcCCCCCCceeeecccccceee
Q 021678 47 IQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCV 126 (309)
Q Consensus 47 ~~~~~neI~vdV~E~l~~~~~~~G~v~~~~V~G~i~~~s~LsG~P~~~l~Ln~~~~~~~~~~~~~~~~~~l~~~~fH~cV 126 (309)
....++.||+.+.|+|++.+++||.+.++++.|.+.++....-...+.|.|++... .-.++++||++
T Consensus 270 p~v~~e~v~i~ieEkln~~~~RDGgi~s~E~qG~lsLrI~d~e~~~i~lkl~n~~~-------------~g~q~ktHPNl 336 (512)
T KOG2635|consen 270 PDVPEESVHIVIEEKLNVRLSRDGGIKSGEVQGTLSLRIKDEEYGDIELKLANGRD-------------KGTQLKTHPNL 336 (512)
T ss_pred CCCccceEEEEEeeeEeEEEcccCCccceeeeeeEEEEEccccccceEEEEcCCCC-------------cceeeeeCCCc
Confidence 33456779999999999999999999999999999999999999999999976431 13589999999
Q ss_pred ccccccCCceEEEeCCCCcEE------EEEEEecCC--CcCcEEEEEEEEECcC-e--EEEEEEEEeecCCCcceeeeEE
Q 021678 127 RLARFENDRTISFIPPDGSFD------LMTYRLNTQ--VKPLIWVEAQVERHSR-S--RVEILVKARSQFKERSTATNVE 195 (309)
Q Consensus 127 ~~~~f~~~~~l~F~PPdG~F~------Lm~Yr~~~~--~~pp~~v~~~~~~~~~-~--~ve~~l~~~~~~~~~~~~~~v~ 195 (309)
|++.|.++..|.+.+|+..|+ |++||.... ...|++++||+++.+. + .+||++... ..++||.
T Consensus 337 DK~~f~s~s~iglk~~~K~FPvn~~VGvLkWR~~~~des~iPlTincWPSes~~g~dV~iEYe~~~~------~eL~dV~ 410 (512)
T KOG2635|consen 337 DKKVFLSSSLIGLKRPEKPFPVNSDVGVLKWRMVDEDESEIPLTINCWPSESGNGYDVNIEYEAVLE------CELNDVI 410 (512)
T ss_pred chhhhccccccccccCCCCCCcCCcceEEEEeecccccccCceEEEeccccCCCCeEEEEEEeehhc------ccccceE
Confidence 999999999999999999996 899999764 3667799999998764 3 567766322 2578999
Q ss_pred EEecCCCCCCCceEEecceeEEEeCCCCEEEEEeceeCCCCeeEEEEEEEecCCCCCCCCCCCCCcEEEEEEECcccccc
Q 021678 196 IELPVSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSG 275 (309)
Q Consensus 196 i~iPlP~~~~~~~~~~~~G~~~~~~~~~~l~W~I~~~~g~~~~~l~~~~~l~~~~~~~~~~~~~~pi~v~F~ip~~s~SG 275 (309)
|.||+|.+. .|++.+.+|.+.|+..++.+.|+|+.+. +..+++.+|..+..+ ++ .++|++|.|... .+++|
T Consensus 411 i~iPlP~~i-apsv~~~Dge~~~~~~~~~leW~I~~Ia--~N~SGslEFs~~~~~---~~--~fFPl~VsF~s~-~~ftg 481 (512)
T KOG2635|consen 411 ITIPLPANI-APSVGECDGEYRYDERKNVLEWSIGVIA--KNFSGSLEFSCPASD---PD--GFFPLSVSFTSD-TVFTG 481 (512)
T ss_pred EEeeccccc-CCccceecceEEeccccceeEEEeeeec--cCCCCcEEEeecCCC---CC--ceeeEEEEEEec-ccccc
Confidence 999999987 8999999999999999999999999993 235666666654432 33 899999999977 89999
Q ss_pred eEEEEEEEEEcCCCcccc-ceEEEEEeccEEE
Q 021678 276 IQVRYLKIIEKSGYHALP-WVRYITMAGEYEL 306 (309)
Q Consensus 276 l~V~~l~v~~~~~~~~~k-~vrY~t~sg~Y~~ 306 (309)
|.|.++.-.+. + .|.+ -++=.-.+..|+|
T Consensus 482 l~vqkVv~~~~-~-~~~~y~~~t~f~~dky~V 511 (512)
T KOG2635|consen 482 LFVQKVVRNDG-H-APVRYSVETTFEVDKYEV 511 (512)
T ss_pred eEEEEEEEcCC-C-CCceeEEEEEEEeeeeEe
Confidence 99999877542 2 2322 2222223566765
No 7
>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=99.27 E-value=3.3e-09 Score=95.83 Aligned_cols=228 Identities=18% Similarity=0.267 Sum_probs=120.0
Q ss_pred EEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEEecC------CCeEEEEEccchhhhhcCCCCCCceeeecccccceeec
Q 021678 54 VFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSG------MPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVR 127 (309)
Q Consensus 54 I~vdV~E~l~~~~~~~G~v~~~~V~G~i~~~s~LsG------~P~~~l~Ln~~~~~~~~~~~~~~~~~~l~~~~fH~cV~ 127 (309)
+-..|.|.|||.+. +|.+....|.|+|.+.---.- .+.+.+.|++...+ +.+.-.+..=
T Consensus 3 l~asi~E~VnA~Fk-~g~~~~v~v~GEv~ls~~~~~~~~~~~~~~l~~rl~n~~~l--------------e~i~pN~~~v 67 (257)
T PF10291_consen 3 LNASITETVNAYFK-GGQLSKVKVTGEVALSYPAGISSSLTSPPPLSFRLNNFSRL--------------EKIAPNPQFV 67 (257)
T ss_dssp EEEEEEEEEEEEEE-TTEEEEEEEEEEEEEEEE--SSS-----SEEEEEEETGGGE--------------EEEEE-TTTE
T ss_pred eeEEEEEEEEEEEE-CCcEEEEEEEEEEEEecCCChhhcccCCCcEEEEEcCcchh--------------ceeecCHhHe
Confidence 55789999999998 788999999999988533222 34567888765432 2221111110
Q ss_pred cccccCCceEEEeCCC--CcE--EEEEEEecCC----CcCcEEEEEEEEE-CcCeEEEEEEEEee-cCCCcceeeeEEEE
Q 021678 128 LARFENDRTISFIPPD--GSF--DLMTYRLNTQ----VKPLIWVEAQVER-HSRSRVEILVKARS-QFKERSTATNVEIE 197 (309)
Q Consensus 128 ~~~f~~~~~l~F~PPd--G~F--~Lm~Yr~~~~----~~pp~~v~~~~~~-~~~~~ve~~l~~~~-~~~~~~~~~~v~i~ 197 (309)
...-.++....|.++- ... ..|+|++... ..+|+.+.+...- .....+-+.+++.+ .+.....++||.|.
T Consensus 68 ~~~~~~~~~f~~n~~~l~~~~~~~alKYqv~~~~~~~~~~Pl~l~~~Wk~e~~~tsl~l~Y~~Np~~~~~~~~L~nv~~~ 147 (257)
T PF10291_consen 68 SSSSQSDGEFWLNMSALTSHLPKQALKYQVHSDPSNLSSVPLILKPVWKCEPSQTSLILDYKLNPDAFASPVPLENVVFS 147 (257)
T ss_dssp --EEEETTEEEE-TTTTBT-E-EEEEEEEEES--------SEEEEEEEEE-SSEEEEEEEEEE-TTT--E-EEEEEEEEE
T ss_pred ecCCCCCCcEEEehHHhhhhhhhceEEEEEeccccccCCCCeEEEeEEEeCCceEEEEEEEEeChhhccccceeeeEEEE
Confidence 0011112234444322 222 4699999762 3445555554443 33334444444444 44445689999999
Q ss_pred ecCCCC-CCCceEEecceeEEEeCCCCEEEEEeceeC--CCCe-eEEEEEEEecCCCCCCCCCCCCCcEEEEEEEC-ccc
Q 021678 198 LPVSSD-ASNPDVRTSMGSASYVPEDEALIWKIRSFP--GGKE-YMLRAEFTLPSITAEEATPERKAPIRVKFEIP-YFT 272 (309)
Q Consensus 198 iPlP~~-~~~~~~~~~~G~~~~~~~~~~l~W~I~~~~--g~~~-~~l~~~~~l~~~~~~~~~~~~~~pi~v~F~ip-~~s 272 (309)
+++..+ ++++.... ...|..+++.+.|+|+.+. ++.+ ..|.|+|...... . .-.+|.++|++. +.+
T Consensus 148 v~l~g~~~ts~~skP---~g~~~~e~~ri~Wrl~el~~~~~~~~~kL~ARf~~~~~~----~--~p~~v~vkF~~~~~~~ 218 (257)
T PF10291_consen 148 VPLDGGRATSAQSKP---QGTWNKEKNRITWRLPELSLTSEGEGGKLIARFMTSGGP----S--RPGGVEVKFEIEGGST 218 (257)
T ss_dssp EEB-SS-EEEEEESS---S--B-SSS-EEEEE-SSEEEETT---EEEEEEEEESS----------SS-EEEEEEE---S-
T ss_pred EEcCCccccccccCC---CccccCCCcEEEEECCcccccCCCCCceEEEEEECCCCC----C--CCceEEEEEEEcCCCc
Confidence 999876 33333333 2568899999999999765 3333 7899999875432 1 578899999999 899
Q ss_pred ccceEEEEEEEEEc-----CCCccccceEEEEEeccEEE
Q 021678 273 VSGIQVRYLKIIEK-----SGYHALPWVRYITMAGEYEL 306 (309)
Q Consensus 273 ~SGl~V~~l~v~~~-----~~~~~~k~vrY~t~sg~Y~~ 306 (309)
.||+.|.-+.-.+. .+|+.. -++-...+|.|..
T Consensus 219 ~sg~~i~~~~~~~~~dp~~~~w~~~-~~~r~~~sGkY~~ 256 (257)
T PF10291_consen 219 LSGLGISLVYQDDEEDPPGGGWRLV-LVKRKLVSGKYIA 256 (257)
T ss_dssp SS----EEEEEESSS-TT----EE--EEEEEEEEEEEE-
T ss_pred ccCcEEEEeecccccCCCCCcceEE-EEEEEEeeeEEec
Confidence 99998888732221 123322 4455566899974
No 8
>PF13598 DUF4139: Domain of unknown function (DUF4139)
Probab=60.66 E-value=92 Score=28.63 Aligned_cols=108 Identities=19% Similarity=0.359 Sum_probs=57.4
Q ss_pred cccCCceEEEeCCCCcEEEEEEEecCCCcCcEEEEEEE---EE-C---c---CeEEEEEEEEeecCCCcceeeeEEEEec
Q 021678 130 RFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQV---ER-H---S---RSRVEILVKARSQFKERSTATNVEIELP 199 (309)
Q Consensus 130 ~f~~~~~l~F~PPdG~F~Lm~Yr~~~~~~pp~~v~~~~---~~-~---~---~~~ve~~l~~~~~~~~~~~~~~v~i~iP 199 (309)
.|-.+..|.+.+|+++|.| .+-.+.. +.|.-.. +. . + ..+.+++++++...+. .-.|.|.=+
T Consensus 194 ~~vG~~~l~~~~~ge~~~l-~~G~d~~----v~v~r~~~~~~~~~g~~~~~~~~~~~~~itv~N~~~~---~v~v~v~d~ 265 (317)
T PF13598_consen 194 TFVGESRLPHTAPGEEFEL-SFGVDPD----VRVERKLLKKEEERGFFGKSQRRTYEYTITVRNNKDE---PVTVTVEDQ 265 (317)
T ss_pred EEEEeeecCCCCCCCEEEE-EcccCCC----EEEEEEecceecccccccccEEEEEEEEEEEECCCCC---CEEEEEEeC
Confidence 4556677888888888874 2433332 1221111 00 0 1 1245566666643332 235777767
Q ss_pred CCCCCC-CceEEecc-eeEEEeCCCCEEEEEeceeCCCCeeEEEEEEEe
Q 021678 200 VSSDAS-NPDVRTSM-GSASYVPEDEALIWKIRSFPGGKEYMLRAEFTL 246 (309)
Q Consensus 200 lP~~~~-~~~~~~~~-G~~~~~~~~~~l~W~I~~~~g~~~~~l~~~~~l 246 (309)
+|-... ..++.... .....+...+.+.|++..-+|+ ..++...+.+
T Consensus 266 iPvs~~~~I~V~~~~~~~~~~~~~~g~~~W~~~l~~g~-~~~l~~~y~v 313 (317)
T PF13598_consen 266 IPVSEDEDIKVELLEPPEPNEDEKDGILEWKVTLPPGE-SRTLEFSYEV 313 (317)
T ss_pred CCCCCCceEEEEEcCCCCCcccCCCCEEEEEEEECCCC-EEEEEEEEEE
Confidence 775432 22332222 1235678899999999955554 4566666554
No 9
>PF03504 Chlam_OMP6: Chlamydia cysteine-rich outer membrane protein 6; InterPro: IPR003506 Three cysteine-rich proteins (also believed to be lipoproteins) make up the extracellular matrix of the Chlamydial outer membrane []. They are involved in the essential structural integrity of both the elementary body (EB) and recticulate body (RB) phase. As these bacteria lack the peptidoglycan layer common to most Gram-negative microbes, such proteins are highly important in the pathogenicity of the organism. The largest of these is the major outer membrane protein (MOMP), and constitutes around 60% of the total protein for the membrane []. OMP6 is the second largest, with a molecular mass of 58kDa, while the OMP3 protein is ~15kDa []. MOMP is believed to elicit the strongest immune response, and has recently been linked to heart disease through its sequence similarity to a murine heart-muscle specific alpha myosin []. The OMP6 family plays a structural role in the outer membrane during the EB stage of the Chlamydial cell, and different biovars show a small, yet highly significant, change at peptide charge level []. Members of this family include Chlamydia trachomatis, Chlamydia pneumoniae and Chlamydia psittaci.; GO: 0005201 extracellular matrix structural constituent
Probab=44.71 E-value=1.3e+02 Score=22.34 Aligned_cols=43 Identities=23% Similarity=0.383 Sum_probs=28.1
Q ss_pred eeeeEEEEecCCCCCCCceEEecceeEEEeCCCCEEEEEeceeCCCC
Q 021678 190 TATNVEIELPVSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPGGK 236 (309)
Q Consensus 190 ~~~~v~i~iPlP~~~~~~~~~~~~G~~~~~~~~~~l~W~I~~~~g~~ 236 (309)
.+-||.|+-.||... ++-.+.-.++ -...+.|+|+|+.+-.++
T Consensus 43 DcvnVviTqqLPce~---eFV~SdPett-p~~D~kLVW~Ig~l~~G~ 85 (95)
T PF03504_consen 43 DCVNVVITQQLPCEV---EFVRSDPETT-PTPDGKLVWKIGRLGQGE 85 (95)
T ss_pred ceeEEEEeecCCcce---EEEecCCccc-cCCCCEEEEEeccccCCc
Confidence 366899999999854 3332222222 125678999999987665
No 10
>KOG0647 consensus mRNA export protein (contains WD40 repeats) [RNA processing and modification]
Probab=44.22 E-value=55 Score=30.37 Aligned_cols=111 Identities=16% Similarity=0.161 Sum_probs=69.7
Q ss_pred eEEEEEccCCcEEEEEEEEEEEEEEEecCCCeEEEEEccchhhhhcCCCCCCceeeecccccceee-ccccccCCceEEE
Q 021678 61 HVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCV-RLARFENDRTISF 139 (309)
Q Consensus 61 ~l~~~~~~~G~v~~~~V~G~i~~~s~LsG~P~~~l~Ln~~~~~~~~~~~~~~~~~~l~~~~fH~cV-~~~~f~~~~~l~F 139 (309)
.|.+..|++|. ....|.|++.++.-..|+|.-.+.+......+. . ..+-.-+.++.|||-- -+..-.+|.+++|
T Consensus 203 ~va~f~d~~~~-alGsiEGrv~iq~id~~~~~~nFtFkCHR~~~~-~---~~~VYaVNsi~FhP~hgtlvTaGsDGtf~F 277 (347)
T KOG0647|consen 203 CVACFQDKDGF-ALGSIEGRVAIQYIDDPNPKDNFTFKCHRSTNS-V---NDDVYAVNSIAFHPVHGTLVTAGSDGTFSF 277 (347)
T ss_pred EEEEEecCCce-EeeeecceEEEEecCCCCccCceeEEEeccCCC-C---CCceEEecceEeecccceEEEecCCceEEE
Confidence 45667788887 667799999999999999987888866542111 0 0112235678999922 1233346788888
Q ss_pred eCCCCcEEEEEEEecCCCcCcEEEEEEEEECcCeEEEEEEEE
Q 021678 140 IPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKA 181 (309)
Q Consensus 140 ~PPdG~F~Lm~Yr~~~~~~pp~~v~~~~~~~~~~~ve~~l~~ 181 (309)
-.-|.+-.|..|..-. -|+.+ |.+... |.-+-|-+.-
T Consensus 278 WDkdar~kLk~s~~~~---qpItc-c~fn~~-G~ifaYA~gY 314 (347)
T KOG0647|consen 278 WDKDARTKLKTSETHP---QPITC-CSFNRN-GSIFAYALGY 314 (347)
T ss_pred ecchhhhhhhccCcCC---Cccce-eEecCC-CCEEEEEeec
Confidence 8888888787775322 23443 555433 3445565544
No 11
>PF08460 SH3_5: Bacterial SH3 domain; InterPro: IPR013667 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. The SH3 domain has been found in a number of different bacterial proteins including glycyl-glycine endopeptidase, bacteriocin and some hypothetical proteins.; GO: 0016787 hydrolase activity; PDB: 1R77_B.
Probab=43.88 E-value=98 Score=21.64 Aligned_cols=34 Identities=32% Similarity=0.670 Sum_probs=22.1
Q ss_pred EEEEECcccccceEEEEEEEEEcCCCccccceEEEEEeccE
Q 021678 264 VKFEIPYFTVSGIQVRYLKIIEKSGYHALPWVRYITMAGEY 304 (309)
Q Consensus 264 v~F~ip~~s~SGl~V~~l~v~~~~~~~~~k~vrY~t~sg~Y 304 (309)
+-+..+ -|-.|.+-.+....+ +.|++|+..+|.+
T Consensus 27 ~~~~~~----~G~~V~YD~~~~~dG---y~Wisy~~~sG~r 60 (65)
T PF08460_consen 27 VVGTYP----KGQSVNYDQVIKADG---YVWISYISYSGQR 60 (65)
T ss_dssp EEEEE-----TT-EEEEEEEEEETT---EEEEEEE-TT--E
T ss_pred eEEEEC----CCCEEEEEEEEEeCC---EEEEEEECCCCeE
Confidence 345555 788898888877555 7999999888854
No 12
>PF14400 Transglut_i_TM: Inactive transglutaminase fused to 7 transmembrane helices
Probab=38.97 E-value=2.4e+02 Score=23.78 Aligned_cols=55 Identities=16% Similarity=0.263 Sum_probs=35.6
Q ss_pred eEEEEecCCCCCCCceE------Eecce-eEEEeCCCCEEEEEeceeCCCCeeEEEEEEEec
Q 021678 193 NVEIELPVSSDASNPDV------RTSMG-SASYVPEDEALIWKIRSFPGGKEYMLRAEFTLP 247 (309)
Q Consensus 193 ~v~i~iPlP~~~~~~~~------~~~~G-~~~~~~~~~~l~W~I~~~~g~~~~~l~~~~~l~ 247 (309)
-|+|++.+|..-..-.+ +..-| ++.=+..++..+|+|....|.+..-.+..|...
T Consensus 33 pvkvsl~lP~~~pgf~il~E~~~SpGYGls~~~~~~~RrA~WS~R~A~G~QtLYYr~~~~~~ 94 (165)
T PF14400_consen 33 PVKVSLALPDTQPGFTILDENFASPGYGLSIVDDDGNRRAEWSIRRASGPQTLYYRVQLLPD 94 (165)
T ss_pred CEEEEEcCCCCCCCeEEEccccccCCCCeEEEecCCCcEEEEecccCCCceEEEEEEEEEEc
Confidence 57889999885333222 22234 233344688999999999997766667766543
No 13
>TIGR01451 B_ant_repeat conserved repeat domain. This model represents the conserved region of about 53 amino acids shared between regions, usually repeated, of proteins from a small number of phylogenetically distant prokaryotes. Examples include a 132-residue region found repeated in three of the five longest proteins of Bacillus anthracis, a 131-residue repeat in a cell wall-anchored protein of Enterococcus faecalis, and a 120-residue repeat in Methanobacterium thermoautotrophicum. A similar region is found in some Chlamydial outer membrane proteins.
Probab=34.88 E-value=1.1e+02 Score=20.36 Aligned_cols=31 Identities=16% Similarity=0.125 Sum_probs=23.5
Q ss_pred CeEEEEEEEEeecCCCcceeeeEEEEecCCCCC
Q 021678 172 RSRVEILVKARSQFKERSTATNVEIELPVSSDA 204 (309)
Q Consensus 172 ~~~ve~~l~~~~~~~~~~~~~~v~i~iPlP~~~ 204 (309)
+..++|++.++..-. ..+++|.|.=+||.+.
T Consensus 11 Gd~v~Yti~v~N~g~--~~a~~v~v~D~lP~g~ 41 (53)
T TIGR01451 11 GDTITYTITVTNNGN--VPATNVVVTDILPSGT 41 (53)
T ss_pred CCEEEEEEEEEECCC--CceEeEEEEEcCCCCC
Confidence 447999998875433 3578999999999864
No 14
>PF07151 DUF1391: Protein of unknown function (DUF1391); InterPro: IPR009821 This family consists of several Enterobacterial proteins of around 50 residues in length. Members of this family are found in Escherichia coli and Salmonella typhi where they are often known as YdfA. The function of this family is unknown.
Probab=32.70 E-value=49 Score=21.22 Aligned_cols=17 Identities=41% Similarity=0.690 Sum_probs=13.6
Q ss_pred EeCCCCcEEEEEEEecC
Q 021678 139 FIPPDGSFDLMTYRLNT 155 (309)
Q Consensus 139 F~PPdG~F~Lm~Yr~~~ 155 (309)
|---||.|+.|.|.-+.
T Consensus 16 fpn~dgtftamtytksk 32 (49)
T PF07151_consen 16 FPNQDGTFTAMTYTKSK 32 (49)
T ss_pred eeCCCCcEEEEEEeecc
Confidence 66679999999998543
No 15
>TIGR02231 conserved hypothetical protein. This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.
Probab=30.53 E-value=4e+02 Score=26.56 Aligned_cols=68 Identities=22% Similarity=0.341 Sum_probs=34.0
Q ss_pred EEEEEEEEeecCCCcceeeeEEEEecCCCCC-CCceEEe--cceeEEEe---CCCCEEEEEeceeCCCCeeEEEEEEEe
Q 021678 174 RVEILVKARSQFKERSTATNVEIELPVSSDA-SNPDVRT--SMGSASYV---PEDEALIWKIRSFPGGKEYMLRAEFTL 246 (309)
Q Consensus 174 ~ve~~l~~~~~~~~~~~~~~v~i~iPlP~~~-~~~~~~~--~~G~~~~~---~~~~~l~W~I~~~~g~~~~~l~~~~~l 246 (309)
...++++++...+. .-.|.|.=++|-.. ...++.. ..+ ..++ ...+.+.|++..-+|+ +..++..+++
T Consensus 443 ~~~~~i~v~N~~~~---~v~v~v~d~~PvS~d~~i~V~~~~~~~-~~~~~~~~~~G~~~W~l~L~pg~-~~~l~~~y~v 516 (525)
T TIGR02231 443 EYAYRITLKNLRKE---PERVQIEEQLPVSENEDIKVKLLSPTT-PGYDEEDKKDGILEWKLTLKPGE-KRDLKFKFKV 516 (525)
T ss_pred EEEEEEEEEcCCCC---ceEEEEEeeccCCCCCeeEEEEecCCC-ccccccccCCCeEEEEEEECCCC-eEEEEEEEEE
Confidence 34566666543222 23566665666422 1223322 122 2222 2358999999955554 3555555544
No 16
>cd06494 p23_NUDCD2_like p23-like NUD (nuclear distribution) C-like found in human NUDC domain-containing protein 2 (NUDCD2) and similar proteins. Little is known about the function of the proteins in this subgroup.
Probab=24.65 E-value=83 Score=23.66 Aligned_cols=17 Identities=29% Similarity=0.298 Sum_probs=11.4
Q ss_pred eeeeEEEEecCCCCCCC
Q 021678 190 TATNVEIELPVSSDASN 206 (309)
Q Consensus 190 ~~~~v~i~iPlP~~~~~ 206 (309)
+.++|.|+||+|.++..
T Consensus 13 T~~eV~v~i~lp~~~~~ 29 (93)
T cd06494 13 TMDEVFIEVNVPPGTRA 29 (93)
T ss_pred EcCEEEEEEECCCCCce
Confidence 34677778888776543
No 17
>PRK09750 hypothetical protein; Provisional
Probab=23.46 E-value=67 Score=22.11 Aligned_cols=14 Identities=43% Similarity=0.769 Sum_probs=11.2
Q ss_pred EcCCCccccceEEE
Q 021678 285 EKSGYHALPWVRYI 298 (309)
Q Consensus 285 ~~~~~~~~k~vrY~ 298 (309)
++++..|.+|+||.
T Consensus 11 ~KpGg~P~~W~r~s 24 (64)
T PRK09750 11 EKEGGTPTNWTRYS 24 (64)
T ss_pred ECCCCCccceeEec
Confidence 35677899999996
No 18
>PF11609 DUF3248: Protein of unknown function (DUF3248); InterPro: IPR021650 This family of proteins is thought to be the product of the gene TT1592 from Thermus thermophilus however this cannot be confirmed. Currently there is no known function. ; PDB: 2E6X_A.
Probab=20.72 E-value=1.8e+02 Score=20.13 Aligned_cols=25 Identities=20% Similarity=0.403 Sum_probs=14.1
Q ss_pred CCEEEEEeceeCCCCeeEEEEEEEecC
Q 021678 222 DEALIWKIRSFPGGKEYMLRAEFTLPS 248 (309)
Q Consensus 222 ~~~l~W~I~~~~g~~~~~l~~~~~l~~ 248 (309)
.+.++|+|++-..... +-..+.+.+
T Consensus 5 g~~LvWRiGk~e~e~~--vvVRvG~As 29 (63)
T PF11609_consen 5 GQHLVWRIGKAEAEEV--VVVRVGLAS 29 (63)
T ss_dssp T--EEEEEEE-TTSSS--EEEEEEEGG
T ss_pred cceeEEEeccccccCe--EEEEEeccc
Confidence 4679999998766554 444444544
No 19
>PRK06764 hypothetical protein; Provisional
Probab=20.57 E-value=1.6e+02 Score=21.91 Aligned_cols=48 Identities=21% Similarity=0.426 Sum_probs=28.2
Q ss_pred CCCcEEEEEEE-CcccccceEEEEEEEEEcCCCccccceEEEE---EeccEEEEeC
Q 021678 258 RKAPIRVKFEI-PYFTVSGIQVRYLKIIEKSGYHALPWVRYIT---MAGEYELRLI 309 (309)
Q Consensus 258 ~~~pi~v~F~i-p~~s~SGl~V~~l~v~~~~~~~~~k~vrY~t---~sg~Y~~R~~ 309 (309)
.+..|.|.... ..|.+||=.| ++... +..+..--||.. +-|.|++|.+
T Consensus 40 nfn~i~v~mn~~e~y~lsgrsi---dilsg-dkeaiqlnkyti~f~kpg~yvirvn 91 (105)
T PRK06764 40 NFNAIDVSMNINELYVLSGRSI---DVLSG-DKEAIQLNKYTIRFSKPGKYVIRVN 91 (105)
T ss_pred ccceEEEEEeccceEEEcCcee---eeecC-ChhheEeeeeEEEecCCccEEEEEc
Confidence 57777777654 3477888554 45441 222333334443 4699999975
Done!