Query 022308
Match_columns 299
No_of_seqs 153 out of 766
Neff 7.9
Searched_HMMs 46136
Date Fri Mar 29 02:33:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022308.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022308hhsearch_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 1.8E-79 4E-84 544.7 26.0 296 1-298 114-446 (446)
2 KOG0937 Adaptor complexes medi 100.0 5.6E-67 1.2E-71 483.3 26.2 287 1-299 115-424 (424)
3 KOG2740 Clathrin-associated pr 100.0 8.2E-67 1.8E-71 467.7 24.7 297 1-299 117-418 (418)
4 PF00928 Adap_comp_sub: Adapto 100.0 2.8E-64 6.1E-69 455.0 30.4 247 51-299 1-262 (262)
5 KOG2677 Stoned B synaptic vesi 100.0 6.9E-35 1.5E-39 277.0 6.3 239 54-297 578-889 (922)
6 KOG2635 Medium subunit of clat 100.0 7.4E-30 1.6E-34 234.6 23.5 228 61-297 273-511 (512)
7 PF10291 muHD: Muniscin C-term 99.2 3.9E-09 8.5E-14 95.1 22.8 226 65-297 3-256 (257)
8 PF03504 Chlam_OMP6: Chlamydia 81.3 10 0.00022 27.9 6.9 44 184-231 41-85 (95)
9 TIGR01451 B_ant_repeat conserv 73.0 12 0.00026 25.0 5.1 32 170-201 11-42 (53)
10 PRK06764 hypothetical protein; 56.0 41 0.00089 25.0 5.4 66 234-299 17-90 (105)
11 PF01345 DUF11: Domain of unkn 49.8 41 0.00088 23.8 4.7 32 170-201 40-71 (76)
12 PF10633 NPCBM_assoc: NPCBM-as 32.7 82 0.0018 22.4 4.0 32 170-201 4-35 (78)
13 KOG0647 mRNA export protein (c 31.2 2E+02 0.0044 26.7 7.0 102 72-180 203-315 (347)
14 PF06919 Phage_T4_Gp30_7: Phag 31.1 59 0.0013 25.1 3.0 22 103-124 62-83 (121)
15 PF07151 DUF1391: Protein of u 29.1 60 0.0013 20.8 2.3 18 135-152 15-32 (49)
16 PF13598 DUF4139: Domain of un 25.7 5.1E+02 0.011 23.5 10.5 97 127-230 194-303 (317)
17 cd06494 p23_NUDCD2_like p23-li 25.5 85 0.0018 23.6 3.1 19 186-204 13-31 (93)
18 COG4719 Uncharacterized protei 24.6 1.5E+02 0.0032 24.6 4.4 29 173-201 73-101 (176)
19 PF05753 TRAP_beta: Translocon 20.3 5.4E+02 0.012 21.8 8.5 79 170-262 37-116 (181)
No 1
>KOG0938 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.8e-79 Score=544.68 Aligned_cols=296 Identities=29% Similarity=0.544 Sum_probs=264.7
Q ss_pred CcccccccccChhhHccccCCCcccccc--eeeccCCCCcccccCCCCCcccCcccCCCCCcccceEEEEEEEeEEEEEc
Q 022308 1 MIDNGFPLTTEPNILREMIAPPNIVSKM--LSVVTGNSSNVSDILPGATASCVPWRPTDVKYANNEVYVDLVEEMDAIIN 78 (299)
Q Consensus 1 ~~D~G~p~~t~~~~Lk~~i~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~WR~~~~~~~~neI~vdV~E~i~~~~~ 78 (299)
||||||||+|||++|+.+|..+++-++- ++......++......+..++.++||+.|++|++||+|+||.|++|.+++
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 7899999999999999999998875441 11111111222222224667889999999999999999999999999999
Q ss_pred cCCcEEEEEEEEEEEEEEEeCCCCeEEEEecCCc---------------------------ccccceecceeecCCCCCC
Q 022308 79 RDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPS---------------------------ILHDVRFHPCVRFRPWESH 131 (299)
Q Consensus 79 ~~G~v~~~~i~G~i~~~~~LsG~P~~~l~ln~~~---------------------------~l~d~~fH~cV~~~~f~~~ 131 (299)
++|++++++|.|.|.|+++|||||+|+++|||+. .|+||+||+||++++|+++
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 9999999999999999999999999999999864 3999999999999999999
Q ss_pred ceEEEeCCCCcEEEEEEEecCCCCCCEEEEEEEEEcCCeeEEEEEEEeecCCC--CceeeEEEEEECCCCceeeEEEecc
Q 022308 132 QILSFVPPDGQFKLMSYRVKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPG--KTIDSIILQFQLPPCILSADLTSNH 209 (299)
Q Consensus 132 ~~l~f~PPdG~F~Lm~Yr~~~~~~~P~~i~~~~~~~~~~~~~ei~l~~~~~~~--~~~~~v~I~iPlP~~~~~~~~~~~~ 209 (299)
+.|+|+||||+|+||+||+..+.++||+|.|.++.. +..++||++.+++.++ ..+.+|.++||+|+++..++++++.
T Consensus 274 h~IsFvPPDGe~ELMkYr~~enInlPFrV~PiV~el-~r~kie~ri~iks~f~~kl~a~~v~~rIPvP~ntv~~n~~v~~ 352 (446)
T KOG0938|consen 274 HIISFVPPDGEFELMKYRVTENINLPFRVTPIVTEL-GRTKIEYRITIKSLFPPKLLAKDVVVRIPVPPNTVKCNISVSN 352 (446)
T ss_pred ceEEEeCCCCceEeEeeeeccCcccceEeeeheecc-cceeEEEEEEEeccCCchhhhcceEEEecCCCccccceeEEec
Confidence 999999999999999999999999999999999964 4799999999999985 3899999999999999999999999
Q ss_pred eeceeEeC--cEEEEEeCCcCCCCceEEEEEEEeecCC--ccCCCCccEEEEEEECceeccccEEeEEEee--cCCCccc
Q 022308 210 GTVNVLSN--KICTWSIGRIPKDKAPSLSGTMVLETGL--ETLRVFPTFQVEFRIMGVALSGLQIDKLDLQ--NVPNRLY 283 (299)
Q Consensus 210 G~~~~~~~--~~l~W~i~~~~~~~~~~l~g~~~~~~~~--~~~~~~~pi~v~F~i~~~~~Sgl~V~~l~v~--~~~~~~~ 283 (299)
|++ +|.+ ++++|+|+++.|.+|.++++++++.... ...|..+||+|+|++||++.|||.|++++|. +++|+..
T Consensus 353 Gka-ky~psen~ivWki~kf~G~tE~tlsAevels~Tt~nkq~WtrPPIsleFeV~MFt~SGL~VrylkV~e~~Sk~~~v 431 (446)
T KOG0938|consen 353 GKA-KYVPSENAIVWKINKFNGLTESTLSAEVELSDTTQNKQQWTRPPISLEFEVPMFTNSGLVVRYLKVSEKDSKHRAV 431 (446)
T ss_pred Ccc-ccCcccceEEEEecccCCcccceeEEEEEeccCccccccccCCCceeEEeeeeecCCceEEEEEEEecccCCCceE
Confidence 999 9999 9999999999999999999999996544 3458899999999999999999999999993 4789999
Q ss_pred ccEEEEEecccEEEc
Q 022308 284 KGFRAVTRAGEYEVR 298 (299)
Q Consensus 284 k~vry~t~sg~Y~~R 298 (299)
|||||+|+||+||+|
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=5.6e-67 Score=483.28 Aligned_cols=287 Identities=28% Similarity=0.537 Sum_probs=255.6
Q ss_pred CcccccccccChhhHccccCCCcccccceeeccCCCCcccccCCCCCcccCcccCCCCCcccceEEEEEEEeEEEEEccC
Q 022308 1 MIDNGFPLTTEPNILREMIAPPNIVSKMLSVVTGNSSNVSDILPGATASCVPWRPTDVKYANNEVYVDLVEEMDAIINRD 80 (299)
Q Consensus 1 ~~D~G~p~~t~~~~Lk~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~WR~~~~~~~~neI~vdV~E~i~~~~~~~ 80 (299)
||||||||+|+++.|++||..++. ++.. ...+.|.+.+..+.||+.+++|+|||+|+||+|+++++++++
T Consensus 115 ~mDFGypQ~t~s~iL~~yi~~~~~--~l~~--------~~~~~p~avtnavsWrs~gi~~~KnevflDViE~Vs~l~~~~ 184 (424)
T KOG0937|consen 115 VMDFGYPQTTDSEILKNYITQKAN--RLQD--------AQPRPPLAVTNAVSWRSEGIYYGKNEVFLDVIESVSLLYDSN 184 (424)
T ss_pred HhccCCcccchHHHHHHHhccccc--ceee--------cCCCCCcccccceeecccccccccceEEEEhhhhhhHhhhcC
Confidence 689999999999999999999854 2211 111245677888899999999999999999999999999999
Q ss_pred CcEEEEEEEEEEEEEEEeCCCCeEEEEecCCc--------------ccccceecceeecCCCCCCceEEEeCCCCcEEEE
Q 022308 81 GVLVKCEIYGEVQVNCLLSGLPDLTLSFANPS--------------ILHDVRFHPCVRFRPWESHQILSFVPPDGQFKLM 146 (299)
Q Consensus 81 G~v~~~~i~G~i~~~~~LsG~P~~~l~ln~~~--------------~l~d~~fH~cV~~~~f~~~~~l~f~PPdG~F~Lm 146 (299)
|.++.++|.|+|+|||+|+|||+++|+||+.. .++|++||+||++++|+.+|.|+|+||||+|+||
T Consensus 185 G~vl~s~i~G~I~~k~~LsGmPelrl~ln~~~~~~~~~~~~~s~~v~ledi~fh~~v~l~~fd~dr~i~FiPPdGeF~Lm 264 (424)
T KOG0937|consen 185 GIVLLSEIVGTIKLKCYLSGMPELRLGLNDKVLFDKQGPRSKSKGVELEDIKFHECVRLSRFDNDRTISFIPPDGEFELM 264 (424)
T ss_pred CcEEEeeeeeEEEEEEEcCCCceeeeecCcccccccccccccCcceEeeecccceeechhhccCCceEEecCCCCceEEE
Confidence 99999999999999999999999999999753 4789999999999999999999999999999999
Q ss_pred EEEecCCCCCCEEEEEEEEEcCCeeEEEEEEEeecCCCC--ceeeEEEEEECCCCceeeEEEecceeceeEeC--cEEEE
Q 022308 147 SYRVKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGK--TIDSIILQFQLPPCILSADLTSNHGTVNVLSN--KICTW 222 (299)
Q Consensus 147 ~Yr~~~~~~~P~~i~~~~~~~~~~~~~ei~l~~~~~~~~--~~~~v~I~iPlP~~~~~~~~~~~~G~~~~~~~--~~l~W 222 (299)
+||++....|++.+ +.+.+..+..++++.++++++++. .+++|+|+||+|..++++.++++.|++ +|.+ ++|+|
T Consensus 265 ~Y~ls~~vkPli~~-~~~~~~~~~~ri~i~~K~~~~fk~~~~a~~v~I~iP~P~~a~~~~fk~s~G~~-~~~~e~~~l~W 342 (424)
T KOG0937|consen 265 RYRLSTHVKPLIWF-YQLIEEHSRSRIEVMVKLREQFKSRSSANNVEICIPVPDDASSPSFKTSLGSA-KYDPEKSALRW 342 (424)
T ss_pred EEEecCCCCCeEEe-eeeeeeccceeEEEEEechhhcCCccccceEEEEeeCCCccccceEeccCCce-eeecccceEEE
Confidence 99999877755555 555555567899999999999864 999999999999999999999999999 9999 99999
Q ss_pred EeCCcCCCCceEEEEEEEeecCCcc---CCCCccEEEEEEECceeccccEEeEEEee--cCCCcccccEEEEEecccEEE
Q 022308 223 SIGRIPKDKAPSLSGTMVLETGLET---LRVFPTFQVEFRIMGVALSGLQIDKLDLQ--NVPNRLYKGFRAVTRAGEYEV 297 (299)
Q Consensus 223 ~i~~~~~~~~~~l~g~~~~~~~~~~---~~~~~pi~v~F~i~~~~~Sgl~V~~l~v~--~~~~~~~k~vry~t~sg~Y~~ 297 (299)
+|++++|+.|..+++++.|.+...+ ....+||+|+|+||+++.||++|+++++. ..+|.+++||||.|+||.|++
T Consensus 343 ~I~~~~gg~e~~~r~~~~lp~~~~e~~~~~~~~pi~v~FeIp~~T~SgiqVrylki~ep~~~y~s~~WVRy~T~s~~Y~~ 422 (424)
T KOG0937|consen 343 TIKKFVGGKEYSLRARMDLPSEEHEEQCTEGLGPIKVKFEIPYFTVSGIQVRYLKIIEPKSQYQSLPWVRYNTQSGPYEI 422 (424)
T ss_pred EeccccCCceEEEEEeecCCccccCCCCcccCCceEEEEEecccccCCeEEEEEEecccccCCCccceEEEEccCCceEe
Confidence 9999999999999999999654332 25589999999999999999999999994 468999999999999999999
Q ss_pred cC
Q 022308 298 RS 299 (299)
Q Consensus 298 R~ 299 (299)
|+
T Consensus 423 r~ 424 (424)
T KOG0937|consen 423 RV 424 (424)
T ss_pred eC
Confidence 95
No 3
>KOG2740 consensus Clathrin-associated protein medium chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=8.2e-67 Score=467.71 Aligned_cols=297 Identities=51% Similarity=0.857 Sum_probs=278.4
Q ss_pred CcccccccccChhhHccccCCCcccccceeeccCCCCcccccCCCCCcccCcccCCCCCcccceEEEEEEEeEEEEEccC
Q 022308 1 MIDNGFPLTTEPNILREMIAPPNIVSKMLSVVTGNSSNVSDILPGATASCVPWRPTDVKYANNEVYVDLVEEMDAIINRD 80 (299)
Q Consensus 1 ~~D~G~p~~t~~~~Lk~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~WR~~~~~~~~neI~vdV~E~i~~~~~~~ 80 (299)
|+|+|||..||+|+||++|++++++++.++.++| +++++.++|.++.+.+|||+++.||.+||.||||.|+++|+++++
T Consensus 117 miDnGfpl~tE~NiLke~i~pps~l~~~~~svTg-~~n~~~~lPtg~~s~VPWR~~~~Ky~nNE~yvdvlEeidai~~k~ 195 (418)
T KOG2740|consen 117 MIDNGFPLVTEPNILKELIPPPSFLSKKFNSVTG-NSNVSDTLPTGALSNVPWRTAGVKYTNNEAYVDVLEEIDAIVDKK 195 (418)
T ss_pred HHHcCCCcccChhHHHhhcCChHHHHHHHhhhhc-cccccccCCCcccccccccccCcccccchhhhhhhheeheEecCC
Confidence 7999999999999999999999999988888888 688899999999999999999999999999999999999999999
Q ss_pred CcEEEEEEEEEEEEEEEeCCCCeEEEEecCCcccccceecceeecCCCCCCceEEEeCCCCcEEEEEEEecC--CCCCCE
Q 022308 81 GVLVKCEIYGEVQVNCLLSGLPDLTLSFANPSILHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKK--LKSTPI 158 (299)
Q Consensus 81 G~v~~~~i~G~i~~~~~LsG~P~~~l~ln~~~~l~d~~fH~cV~~~~f~~~~~l~f~PPdG~F~Lm~Yr~~~--~~~~P~ 158 (299)
|.++.++|.|.|.|+|+|+|||++.|.|+++..|+|++|||||+.++|+++++|+|+||||+|+||+||++. ..+.|.
T Consensus 196 gslv~~eI~g~vd~~~qLsgmPdltlsl~np~~L~dvsfHpcVr~krwe~~~~lsFIPPDGkFrLlsy~v~~~~~v~~pv 275 (418)
T KOG2740|consen 196 GSLVFGEIQGIVDVCSQLSGMPDLTLSLNNPRLLGDVSFHPCVRYKRWESHSVLSFIPPDGKFRLLSYRVDAQNQVAIPV 275 (418)
T ss_pred CCEEEEEEEEEEEEEEeecCCCceEEEccCccccCCcccccceeecccccccceEEcCCCCcEEEEEEEEehhhccccce
Confidence 999999999999999999999999999999999999999999999999999999999999999999999976 467899
Q ss_pred EEEEEEEEcCCe-eEEEEEEEeecCCCCceeeEEEEEECCCCceeeEEEecceeceeEeC--cEEEEEeCCcCCCCceEE
Q 022308 159 YVKPQLTSDAGT-CRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLTSNHGTVNVLSN--KICTWSIGRIPKDKAPSL 235 (299)
Q Consensus 159 ~i~~~~~~~~~~-~~~ei~l~~~~~~~~~~~~v~I~iPlP~~~~~~~~~~~~G~~~~~~~--~~l~W~i~~~~~~~~~~l 235 (299)
.+...++..++. ++++++++.+....+.++-+.|+...|+.+.......++|+. .++. +.+-|+++++..+.-+.|
T Consensus 276 yv~~~i~l~~~~~~ri~~tvg~~~~~gK~ie~itVt~~~pn~i~~~~k~~~~g~~-~~~~~~k~l~W~~~~i~tg~lp~L 354 (418)
T KOG2740|consen 276 YVKNSISLDSNHQGRISLTVGPKKKMGKTIELITVTVQDPNEIAYASKILTHGTF-TNSIIMKQLTWTFGSIATGKLPVL 354 (418)
T ss_pred EEeeeeccCCCceEEEEEeccccccccceeEeEEEEecCccceeeeeccccccee-EeecccceeEEEeecccCCccccc
Confidence 999999977654 666667666666667899999999999999888888899999 8988 999999999988888999
Q ss_pred EEEEEeecCCccCCCCccEEEEEEECceeccccEEeEEEeecCCCcccccEEEEEecccEEEcC
Q 022308 236 SGTMVLETGLETLRVFPTFQVEFRIMGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVRS 299 (299)
Q Consensus 236 ~g~~~~~~~~~~~~~~~pi~v~F~i~~~~~Sgl~V~~l~v~~~~~~~~k~vry~t~sg~Y~~R~ 299 (299)
+|+++++.+.+...+++.++++|++.+.++||++|+.|++.+..|++||||||.|+||.+++|+
T Consensus 355 kg~~~~e~~~sk~~~l~t~~Lqykiqg~alsglkVe~Ldm~~~~~k~yKGvKy~t~agnfqvR~ 418 (418)
T KOG2740|consen 355 KGTINLEPGFSKKVDLPTLSLQYKIQGQALSGLKVERLDMYGEPYKPYKGVKYKTKAGNFQVRL 418 (418)
T ss_pred ccccccCCCCCccccCcccceeeeeeeeeccceEEEeeeecCCCCccccceEEEEeeeeEEEeC
Confidence 9999999877777889999999999999999999999999999999999999999999999996
No 4
>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=2.8e-64 Score=455.03 Aligned_cols=247 Identities=35% Similarity=0.713 Sum_probs=211.1
Q ss_pred CcccCCCCCcccceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEEeCCCCeEEEEecCC-------cccccceeccee
Q 022308 51 VPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANP-------SILHDVRFHPCV 123 (299)
Q Consensus 51 ~~WR~~~~~~~~neI~vdV~E~i~~~~~~~G~v~~~~i~G~i~~~~~LsG~P~~~l~ln~~-------~~l~d~~fH~cV 123 (299)
+|||+.+++|++|||||||.|+|+++++++|.++.++|.|+|.|+|+|+|+|+|+|+|+++ ..++|++|||||
T Consensus 1 ~~wR~~~~~~~~nei~vdv~E~i~~~~~~~G~~~~~~v~G~v~~~~~l~g~p~i~l~l~~~~~~~~~~~~l~~~~fH~cV 80 (262)
T PF00928_consen 1 VPWRPSGIKYKKNEIFVDVVEKISAVLDRDGNILSSEVKGSVQCKSFLSGMPEIKLTLNNPLVVSKNGIKLDDVSFHPCV 80 (262)
T ss_dssp -TTS-STB--SSEEEEEEEEEEEEEEEETTSEEEEEEEEEEEEEEEE-SST-EEEEEESSSCCCTSSSBEESEEEEETTE
T ss_pred CCcccCCcccccceEEEEEEEEEEEEEccCCcEEEEEEEEEEEEEEeCCCCCeEEEEecCccccccCceeeeceeecccc
Confidence 6999999999999999999999999999999999999999999999999999999999998 679999999999
Q ss_pred ecCCCCCCceEEEeCCCCcEEEEEEEecCCCCCCEEEEEEEEEcCCeeEEEEEEEeecCCCC--ceeeEEEEEECCCCce
Q 022308 124 RFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGK--TIDSIILQFQLPPCIL 201 (299)
Q Consensus 124 ~~~~f~~~~~l~f~PPdG~F~Lm~Yr~~~~~~~P~~i~~~~~~~~~~~~~ei~l~~~~~~~~--~~~~v~I~iPlP~~~~ 201 (299)
|+++|++++.|+|+||||+|+||+||++....+||.++|++.. .+++++++.++++++.+. .++||.|+||+|.++.
T Consensus 81 ~~~~~~~~~~i~f~PPdg~f~Ll~Yr~~~~~~~P~~i~~~~~~-~~~~~~~v~i~~~~~~~~~~~~~~v~I~iplP~~~~ 159 (262)
T PF00928_consen 81 DLSKFESDRVISFIPPDGEFTLLRYRVSSNSPLPFKITCWVSE-KSSGRFEVTIELESNFPNKISLENVVIRIPLPPGTS 159 (262)
T ss_dssp ECCCCCSHTEEEE---SEEEEEEEEEEESSS--SEEEEEEEEE-ETTTEEEEEEEEEE-S-TTSEEEEEEEEEE--TTEE
T ss_pred CccccccccceecCCCCceEEEEEEEccCCCCCCcEEEEEecc-CCCceEEEEEEecccCCCCceeceEEEEeecCCccc
Confidence 9999999999999999999999999999889999999999997 446899999999987654 9999999999999999
Q ss_pred eeEEEecceeceeEeC--cEEEEEeCCcCCCCceEEEEEEEeecCCccC--CCCccEEEEEEECceeccccEEeEEEeec
Q 022308 202 SADLTSNHGTVNVLSN--KICTWSIGRIPKDKAPSLSGTMVLETGLETL--RVFPTFQVEFRIMGVALSGLQIDKLDLQN 277 (299)
Q Consensus 202 ~~~~~~~~G~~~~~~~--~~l~W~i~~~~~~~~~~l~g~~~~~~~~~~~--~~~~pi~v~F~i~~~~~Sgl~V~~l~v~~ 277 (299)
.+++..+.|++ +|+. ++|+|+|++++++.+++++|+++|....... ..++||+|+|++|++++||++|++++|.+
T Consensus 160 ~~~~~~~~G~~-~~~~~~~~l~W~I~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~pi~v~F~~~~~~~Sgl~V~~l~v~~ 238 (262)
T PF00928_consen 160 SPSIESSDGSA-EYDEEENALVWKIKKLPGGSESTLSGTLEFSSPSSVPSDWSFFPISVEFTIPGYTLSGLKVRSLDVVN 238 (262)
T ss_dssp EEEEEESSSEE-EEETGCTEEEEEEEEEETSEEEEEEEEEEEEEECCSS-S-----EEEEEEESTSETTT-EEEEEEEE-
T ss_pred cceeeecCceE-EEEccCCEEEEEECCccCcccccEEEEEEecCCCcccccccceeEEEEEEeCCcccCCCEEEEEEeEe
Confidence 99999999999 9999 9999999999999999999999997654433 26899999999999999999999999965
Q ss_pred --CCCcccccEEEEEecccEEEcC
Q 022308 278 --VPNRLYKGFRAVTRAGEYEVRS 299 (299)
Q Consensus 278 --~~~~~~k~vry~t~sg~Y~~R~ 299 (299)
.+++|+|||||+|+||+|+||+
T Consensus 239 ~~~~~~~~k~vky~t~s~~Y~iR~ 262 (262)
T PF00928_consen 239 EDENYKPYKWVKYVTKSGSYEIRT 262 (262)
T ss_dssp SSCGGGSEEEEEEEEEEEEEEE--
T ss_pred cCCCCCCcccEEEEEEcCcEEEcC
Confidence 6899999999999999999996
No 5
>KOG2677 consensus Stoned B synaptic vesicle biogenesis protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=6.9e-35 Score=277.00 Aligned_cols=239 Identities=22% Similarity=0.406 Sum_probs=203.0
Q ss_pred cCCCCCcccceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEEeCCCCeEEEEecCCc---------------------
Q 022308 54 RPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPS--------------------- 112 (299)
Q Consensus 54 R~~~~~~~~neI~vdV~E~i~~~~~~~G~v~~~~i~G~i~~~~~LsG~P~~~l~ln~~~--------------------- 112 (299)
|.....|..+||.|||.+..+++++++|.++...|.-+|.|.|||+|.++|+|+||+..
T Consensus 578 s~~k~nY~e~EI~v~~~Defsg~V~Keg~~~~~~v~tri~cL~FlsG~~ec~lgLND~~~kg~Eiv~rkDimp~~t~kwI 657 (922)
T KOG2677|consen 578 SMDKSNYLEEEITVDVRDEFSGIVSKEGQILQHHVLTRIHCLSFLSGLAECRLGLNDILVKGNEIVLRKDIMPTTTTKWI 657 (922)
T ss_pred cccccccccceeEEEEEeccceeecccchhhhhhhhhhhhhhhhccCCceeEeecchhhhcccceeEeccccccccccce
Confidence 34445789999999999999999999999999999999999999999999999999853
Q ss_pred ccccceecceeecCCCCCCceEEEeCCCC-cEEEEEEEecC-CCCCCEEEEEEEEEcCCeeEEEEEEEeecC--C-----
Q 022308 113 ILHDVRFHPCVRFRPWESHQILSFVPPDG-QFKLMSYRVKK-LKSTPIYVKPQLTSDAGTCRISVMVGIRND--P----- 183 (299)
Q Consensus 113 ~l~d~~fH~cV~~~~f~~~~~l~f~PPdG-~F~Lm~Yr~~~-~~~~P~~i~~~~~~~~~~~~~ei~l~~~~~--~----- 183 (299)
.+.+|.||-||+.+.|+++|+|.|.|||| .|+|||||+-. ...+||+++..++.. |.++|++.-++.. +
T Consensus 658 ~~~~~~FH~cVn~~eF~~srVI~F~PlDaCrFElMRFrt~~~~~~lpftlks~~~V~--Ga~VEvq~~~~mat~~qr~rd 735 (922)
T KOG2677|consen 658 KLHECRFHGCVNEDEFHNSRVILFNPLDACRFELMRFRTVFAEKTLPFTLKSATSVN--GAEVEVQSWLRMATGFQRNRD 735 (922)
T ss_pred eeeeeeeecccchhhccccceEEecCcccceeeeeeeeeecCCCcCceeeeeeeeec--cceeehHHHHHHHhhhhhccC
Confidence 38899999999999999999999999999 79999999975 467999999888754 5677776543321 1
Q ss_pred C---CceeeEEEEEECCCCcee--------------------------------eEEEecceeceeEeC--cEEEEEeCC
Q 022308 184 G---KTIDSIILQFQLPPCILS--------------------------------ADLTSNHGTVNVLSN--KICTWSIGR 226 (299)
Q Consensus 184 ~---~~~~~v~I~iPlP~~~~~--------------------------------~~~~~~~G~~~~~~~--~~l~W~i~~ 226 (299)
. ..|+||.|++|+|..|.. +.++++.|++ +|+. +.|+|+|++
T Consensus 736 ~~~~vpCenI~IrfPVPs~WIk~fr~e~~~g~kSlkaK~nR~a~~gsl~~~~sepvi~vt~G~A-KYEhay~siVWrI~R 814 (922)
T KOG2677|consen 736 PLTQVPCENIMIRFPVPSEWIKNFRRESVLGEKSLKAKVNRGASFGSLSVSGSEPVIRVTLGTA-KYEHAYNSIVWRINR 814 (922)
T ss_pred ccccCcccceeEeccCcHHHHHHHHHHhhhccchhhhhhcccccccchhhccCCceEEEeecch-hhHHhhhhheeeccc
Confidence 1 399999999999986641 3578899999 9999 999999999
Q ss_pred cCC-----CCceEEEEEEEeecCCccCCCC-ccEEEEEEECceeccccEEeEEEeecCCCcccccEEEEEecccEEE
Q 022308 227 IPK-----DKAPSLSGTMVLETGLETLRVF-PTFQVEFRIMGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEV 297 (299)
Q Consensus 227 ~~~-----~~~~~l~g~~~~~~~~~~~~~~-~pi~v~F~i~~~~~Sgl~V~~l~v~~~~~~~~k~vry~t~sg~Y~~ 297 (299)
++. +..+.|.|.|++.+..+.+..+ +.+.|+|.+|..++|...|+++.|+. .-.+.|||+|..+ .+|++
T Consensus 815 LPdKnsa~~hpHcl~c~lELgSd~evPs~f~p~~~V~FsmP~t~aS~t~VRSisVE~-~~~v~K~V~y~A~-Y~yqv 889 (922)
T KOG2677|consen 815 LPDKNSASGHPHCLFCHLELGSDREVPSRFAPHVNVEFSMPTTSASKTSVRSISVED-KTDVRKWVNYSAH-YSYQV 889 (922)
T ss_pred CCccccccCCCeeEEEEEeccccccCchhhccccceeeeccccccccceeeeeeccc-cccHHHHHhhhhh-eeeee
Confidence 875 3468999999998766656555 45999999999999999999999965 5579999999876 35554
No 6
>KOG2635 consensus Medium subunit of clathrin adaptor complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.97 E-value=7.4e-30 Score=234.64 Aligned_cols=228 Identities=18% Similarity=0.303 Sum_probs=190.7
Q ss_pred ccceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEEeCCCCeEEEEecCC-cccccceecceeecCCCCCCceEEEeCC
Q 022308 61 ANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANP-SILHDVRFHPCVRFRPWESHQILSFVPP 139 (299)
Q Consensus 61 ~~neI~vdV~E~i~~~~~~~G~v~~~~i~G~i~~~~~LsG~P~~~l~ln~~-~~l~d~~fH~cV~~~~f~~~~~l~f~PP 139 (299)
.++-||+.+.|+|++.++|||.+.++++.|.+.+++...-...+.|.|++. ...-++++||++|++.|.++..|.+++|
T Consensus 273 ~~e~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 273 PEESVHIVIEEKLNVRLSRDGGIKSGEVQGTLSLRIKDEEYGDIELKLANGRDKGTQLKTHPNLDKKVFLSSSLIGLKRP 352 (512)
T ss_pred ccceEEEEEeeeEeEEEcccCCccceeeeeeEEEEEccccccceEEEEcCCCCcceeeeeCCCcchhhhccccccccccC
Confidence 456699999999999999999999999999999999999999999999763 3466799999999999999999999999
Q ss_pred CCcEE------EEEEEecC--CCCCCEEEEEEEEEcCCeeEEEEEEEeecCCCCceeeEEEEEECCCCceeeEEEeccee
Q 022308 140 DGQFK------LMSYRVKK--LKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLTSNHGT 211 (299)
Q Consensus 140 dG~F~------Lm~Yr~~~--~~~~P~~i~~~~~~~~~~~~~ei~l~~~~~~~~~~~~v~I~iPlP~~~~~~~~~~~~G~ 211 (299)
+..|+ |++||... ...+|++++||++..++++. +.++++....-.++||.|.||+|.++ .|.+..++|.
T Consensus 353 ~K~FPvn~~VGvLkWR~~~~des~iPlTincWPSes~~g~d--V~iEYe~~~~~eL~dV~i~iPlP~~i-apsv~~~Dge 429 (512)
T KOG2635|consen 353 EKPFPVNSDVGVLKWRMVDEDESEIPLTINCWPSESGNGYD--VNIEYEAVLECELNDVIITIPLPANI-APSVGECDGE 429 (512)
T ss_pred CCCCCcCCcceEEEEeecccccccCceEEEeccccCCCCeE--EEEEEeehhcccccceEEEeeccccc-CCccceecce
Confidence 99996 79999976 57899999999997654433 33333332234799999999999998 8899999999
Q ss_pred ceeEeC--cEEEEEeCCcCCCCceEEEEEEEeecCCccCCCCccEEEEEEECceeccccEEeEEEeecCCCcccccEEEE
Q 022308 212 VNVLSN--KICTWSIGRIPKDKAPSLSGTMVLETGLETLRVFPTFQVEFRIMGVALSGLQIDKLDLQNVPNRLYKGFRAV 289 (299)
Q Consensus 212 ~~~~~~--~~l~W~i~~~~~~~~~~l~g~~~~~~~~~~~~~~~pi~v~F~i~~~~~Sgl~V~~l~v~~~~~~~~k~vry~ 289 (299)
+ .|++ +.+.|+|+.+. .+.+|+++|..+..+++.|||++|.|... .+++|+.|.++.-.++...+.--++=.
T Consensus 430 ~-~~~~~~~~leW~I~~Ia----~N~SGslEFs~~~~~~~~fFPl~VsF~s~-~~ftgl~vqkVv~~~~~~~~~y~~~t~ 503 (512)
T KOG2635|consen 430 Y-RYDERKNVLEWSIGVIA----KNFSGSLEFSCPASDPDGFFPLSVSFTSD-TVFTGLFVQKVVRNDGHAPVRYSVETT 503 (512)
T ss_pred E-EeccccceeEEEeeeec----cCCCCcEEEeecCCCCCceeeEEEEEEec-ccccceEEEEEEEcCCCCCceeEEEEE
Confidence 9 9999 99999999993 36899999998888889999999999999 699999999986644332222224444
Q ss_pred EecccEEE
Q 022308 290 TRAGEYEV 297 (299)
Q Consensus 290 t~sg~Y~~ 297 (299)
-.+..|+|
T Consensus 504 f~~dky~V 511 (512)
T KOG2635|consen 504 FEVDKYEV 511 (512)
T ss_pred EEeeeeEe
Confidence 55777776
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=99.24 E-value=3.9e-09 Score=95.07 Aligned_cols=226 Identities=19% Similarity=0.251 Sum_probs=127.9
Q ss_pred EEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEEeCC------CCeEEEEecCCcccccceecceeecCCCCCCceEEEeC
Q 022308 65 VYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSG------LPDLTLSFANPSILHDVRFHPCVRFRPWESHQILSFVP 138 (299)
Q Consensus 65 I~vdV~E~i~~~~~~~G~v~~~~i~G~i~~~~~LsG------~P~~~l~ln~~~~l~d~~fH~cV~~~~f~~~~~l~f~P 138 (299)
+-.-|.|.|||.+. +|.+....|.|+|.+.---+- .+.+.+.|++...|+.+.-.+..=...-.++....|.+
T Consensus 3 l~asi~E~VnA~Fk-~g~~~~v~v~GEv~ls~~~~~~~~~~~~~~l~~rl~n~~~le~i~pN~~~v~~~~~~~~~f~~n~ 81 (257)
T PF10291_consen 3 LNASITETVNAYFK-GGQLSKVKVTGEVALSYPAGISSSLTSPPPLSFRLNNFSRLEKIAPNPQFVSSSSQSDGEFWLNM 81 (257)
T ss_dssp EEEEEEEEEEEEEE-TTEEEEEEEEEEEEEEEE--SSS-----SEEEEEEETGGGEEEEEE-TTTE--EEEETTEEEE-T
T ss_pred eeEEEEEEEEEEEE-CCcEEEEEEEEEEEEecCCChhhcccCCCcEEEEEcCcchhceeecCHhHeecCCCCCCcEEEeh
Confidence 45678999999995 588999999999998654322 35678899887777776544422211111223355544
Q ss_pred CC--CcE--EEEEEEecCC----CCCCEEEEEEEEEcCCeeEEEEEEEeec-CCC--CceeeEEEEEECCCC-ceeeEEE
Q 022308 139 PD--GQF--KLMSYRVKKL----KSTPIYVKPQLTSDAGTCRISVMVGIRN-DPG--KTIDSIILQFQLPPC-ILSADLT 206 (299)
Q Consensus 139 Pd--G~F--~Lm~Yr~~~~----~~~P~~i~~~~~~~~~~~~~ei~l~~~~-~~~--~~~~~v~I~iPlP~~-~~~~~~~ 206 (299)
+. ... ..|+|++... ...|+.+.+.-+.+.....+-+.+++.. .+. ..++||.|.+++..+ +++++..
T Consensus 82 ~~l~~~~~~~alKYqv~~~~~~~~~~Pl~l~~~Wk~e~~~tsl~l~Y~~Np~~~~~~~~L~nv~~~v~l~g~~~ts~~sk 161 (257)
T PF10291_consen 82 SALTSHLPKQALKYQVHSDPSNLSSVPLILKPVWKCEPSQTSLILDYKLNPDAFASPVPLENVVFSVPLDGGRATSAQSK 161 (257)
T ss_dssp TTTBT-E-EEEEEEEEES--------SEEEEEEEEE-SSEEEEEEEEEE-TTT--E-EEEEEEEEEEEB-SS-EEEEEES
T ss_pred HHhhhhhhhceEEEEEeccccccCCCCeEEEeEEEeCCceEEEEEEEEeChhhccccceeeeEEEEEEcCCccccccccC
Confidence 32 333 5699999863 5689999998887654344433433333 222 389999999999887 5555444
Q ss_pred ecceeceeEeCcEEEEEeCCcC--CCCc-eEEEEEEEeecCCccCCCCccEEEEEEEC-ceeccccEEeEEEee------
Q 022308 207 SNHGTVNVLSNKICTWSIGRIP--KDKA-PSLSGTMVLETGLETLRVFPTFQVEFRIM-GVALSGLQIDKLDLQ------ 276 (299)
Q Consensus 207 ~~~G~~~~~~~~~l~W~i~~~~--~~~~-~~l~g~~~~~~~~~~~~~~~pi~v~F~i~-~~~~Sgl~V~~l~v~------ 276 (299)
. .|++ .=+.+.+.|+|+.+. ++.+ ..|.|.|....... .-.+|.++|++. +.+.||+.|.-+.-.
T Consensus 162 P-~g~~-~~e~~ri~Wrl~el~~~~~~~~~kL~ARf~~~~~~~---~p~~v~vkF~~~~~~~~sg~~i~~~~~~~~~dp~ 236 (257)
T PF10291_consen 162 P-QGTW-NKEKNRITWRLPELSLTSEGEGGKLIARFMTSGGPS---RPGGVEVKFEIEGGSTLSGLGISLVYQDDEEDPP 236 (257)
T ss_dssp S-S--B--SSS-EEEEE-SSEEEETT---EEEEEEEEESS-------SS-EEEEEEE---S-SS----EEEEEESSS-TT
T ss_pred C-Cccc-cCCCcEEEEECCcccccCCCCCceEEEEEECCCCCC---CCceEEEEEEEcCCCcccCcEEEEeecccccCCC
Confidence 3 3776 333399999999964 2222 68999988754332 567899999999 888999888776211
Q ss_pred cCCCcccccEEEEEecccEEE
Q 022308 277 NVPNRLYKGFRAVTRAGEYEV 297 (299)
Q Consensus 277 ~~~~~~~k~vry~t~sg~Y~~ 297 (299)
+..|+.. =++-...||.|..
T Consensus 237 ~~~w~~~-~~~r~~~sGkY~~ 256 (257)
T PF10291_consen 237 GGGWRLV-LVKRKLVSGKYIA 256 (257)
T ss_dssp ----EE--EEEEEEEEEEEE-
T ss_pred CCcceEE-EEEEEEeeeEEec
Confidence 2234433 3555566899974
No 8
>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=81.25 E-value=10 Score=27.95 Aligned_cols=44 Identities=18% Similarity=0.365 Sum_probs=30.4
Q ss_pred CCceeeEEEEEECCCCceeeEEEecceeceeEeC-cEEEEEeCCcCCCC
Q 022308 184 GKTIDSIILQFQLPPCILSADLTSNHGTVNVLSN-KICTWSIGRIPKDK 231 (299)
Q Consensus 184 ~~~~~~v~I~iPlP~~~~~~~~~~~~G~~~~~~~-~~l~W~i~~~~~~~ 231 (299)
...+-||.|+=.||-.. ++-.++-.. .--+ +.|+|+|+.+..++
T Consensus 41 k~DcvnVviTqqLPce~---eFV~SdPet-tp~~D~kLVW~Ig~l~~G~ 85 (95)
T PF03504_consen 41 KKDCVNVVITQQLPCEV---EFVRSDPET-TPTPDGKLVWKIGRLGQGE 85 (95)
T ss_pred ccceeEEEEeecCCcce---EEEecCCcc-ccCCCCEEEEEeccccCCc
Confidence 35788999999999864 344343333 2223 88999999997654
No 9
>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=73.02 E-value=12 Score=24.98 Aligned_cols=32 Identities=13% Similarity=0.181 Sum_probs=27.7
Q ss_pred eeEEEEEEEeecCCCCceeeEEEEEECCCCce
Q 022308 170 TCRISVMVGIRNDPGKTIDSIILQFQLPPCIL 201 (299)
Q Consensus 170 ~~~~ei~l~~~~~~~~~~~~v~I~iPlP~~~~ 201 (299)
+..++|++.++......+++|.|.=+||.+..
T Consensus 11 Gd~v~Yti~v~N~g~~~a~~v~v~D~lP~g~~ 42 (53)
T TIGR01451 11 GDTITYTITVTNNGNVPATNVVVTDILPSGTT 42 (53)
T ss_pred CCEEEEEEEEEECCCCceEeEEEEEcCCCCCE
Confidence 57899999998877778999999999998754
No 10
>PRK06764 hypothetical protein; Provisional
Probab=56.01 E-value=41 Score=24.95 Aligned_cols=66 Identities=29% Similarity=0.355 Sum_probs=36.4
Q ss_pred EEEEEEEeecCCcc-------CCCCccEEEEEEE-CceeccccEEeEEEeecCCCcccccEEEEEecccEEEcC
Q 022308 234 SLSGTMVLETGLET-------LRVFPTFQVEFRI-MGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVRS 299 (299)
Q Consensus 234 ~l~g~~~~~~~~~~-------~~~~~pi~v~F~i-~~~~~Sgl~V~~l~v~~~~~~~~k~vry~t~sg~Y~~R~ 299 (299)
-|+|-+-+++.... ...+..|.|.... ..|.+||-.|+-|.=..+.....|+---..+-|.|.||.
T Consensus 17 glsgllflepsvs~ae~~q~~~enfn~i~v~mn~~e~y~lsgrsidilsgdkeaiqlnkyti~f~kpg~yvirv 90 (105)
T PRK06764 17 GLSGLLFLEPSVSAAESQQVKEENFNAIDVSMNINELYVLSGRSIDVLSGDKEAIQLNKYTIRFSKPGKYVIRV 90 (105)
T ss_pred ccceEEEeccccchhcchhhhhcccceEEEEEeccceEEEcCceeeeecCChhheEeeeeEEEecCCccEEEEE
Confidence 36676666543221 1235567777664 568899965544332222333444422334578899883
No 11
>PF01345 DUF11: Domain of unknown function DUF11; InterPro: IPR001434 This group of sequences is represented by a 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 (Streptococcus faecalis), and a 120-residue repeat in Methanobacterium thermoautotrophicum. A similar region is found in some Chlamydia trachomatis outer membrane proteins. In C. trachomatis, three cysteine-rich proteins (also believed to be lipoproteins), MOMP, OMP6 and OMP3, make up the extracellular matrix of the outer membrane []. They are involved in the essential structural integrity of both the elementary body (EB) and recticulate body (RB) phase. They are thought to be involved in porin formation and, as these bacteria lack the peptidoglycan layer common to most Gram-negative microbes, such proteins are highly important in the pathogenicity of the organism.; GO: 0005727 extrachromosomal circular DNA
Probab=49.78 E-value=41 Score=23.77 Aligned_cols=32 Identities=9% Similarity=0.196 Sum_probs=27.7
Q ss_pred eeEEEEEEEeecCCCCceeeEEEEEECCCCce
Q 022308 170 TCRISVMVGIRNDPGKTIDSIILQFQLPPCIL 201 (299)
Q Consensus 170 ~~~~ei~l~~~~~~~~~~~~v~I~iPlP~~~~ 201 (299)
+..++|+|.++......+.||.|.=+||.+..
T Consensus 40 Gd~v~ytitvtN~G~~~a~nv~v~D~lp~g~~ 71 (76)
T PF01345_consen 40 GDTVTYTITVTNTGPAPATNVVVTDTLPAGLT 71 (76)
T ss_pred CCEEEEEEEEEECCCCeeEeEEEEEcCCCCCE
Confidence 57899999999877778999999999998753
No 12
>PF10633 NPCBM_assoc: NPCBM-associated, NEW3 domain of alpha-galactosidase; InterPro: IPR018905 This domain has been named NEW3, but its function is not known. It is found on proteins which are bacterial galactosidases [].; PDB: 1EUT_A 2BZD_A 1WCQ_C 2BER_A 1W8O_A 1EUU_A 1W8N_A.
Probab=32.68 E-value=82 Score=22.35 Aligned_cols=32 Identities=16% Similarity=0.261 Sum_probs=19.7
Q ss_pred eeEEEEEEEeecCCCCceeeEEEEEECCCCce
Q 022308 170 TCRISVMVGIRNDPGKTIDSIILQFQLPPCIL 201 (299)
Q Consensus 170 ~~~~ei~l~~~~~~~~~~~~v~I~iPlP~~~~ 201 (299)
+..+.+++.++......+.++.+.+-+|.+|.
T Consensus 4 G~~~~~~~tv~N~g~~~~~~v~~~l~~P~GW~ 35 (78)
T PF10633_consen 4 GETVTVTLTVTNTGTAPLTNVSLSLSLPEGWT 35 (78)
T ss_dssp TEEEEEEEEEE--SSS-BSS-EEEEE--TTSE
T ss_pred CCEEEEEEEEEECCCCceeeEEEEEeCCCCcc
Confidence 34566677777665567899999999999986
No 13
>KOG0647 consensus mRNA export protein (contains WD40 repeats) [RNA processing and modification]
Probab=31.23 E-value=2e+02 Score=26.71 Aligned_cols=102 Identities=19% Similarity=0.273 Sum_probs=63.3
Q ss_pred eEEEEEccCCcEEEEEEEEEEEEEEEeCCCCeEEEEecCCc----------ccccceecceee-cCCCCCCceEEEeCCC
Q 022308 72 EMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPS----------ILHDVRFHPCVR-FRPWESHQILSFVPPD 140 (299)
Q Consensus 72 ~i~~~~~~~G~v~~~~i~G~i~~~~~LsG~P~~~l~ln~~~----------~l~d~~fH~cV~-~~~f~~~~~l~f~PPd 140 (299)
.|.+.-+++|. .-..|.|.+-+..-..++|.-.+.|.... ...++.|||--. +..-.+|.+++|=.-|
T Consensus 203 ~va~f~d~~~~-alGsiEGrv~iq~id~~~~~~nFtFkCHR~~~~~~~~VYaVNsi~FhP~hgtlvTaGsDGtf~FWDkd 281 (347)
T KOG0647|consen 203 CVACFQDKDGF-ALGSIEGRVAIQYIDDPNPKDNFTFKCHRSTNSVNDDVYAVNSIAFHPVHGTLVTAGSDGTFSFWDKD 281 (347)
T ss_pred EEEEEecCCce-EeeeecceEEEEecCCCCccCceeEEEeccCCCCCCceEEecceEeecccceEEEecCCceEEEecch
Confidence 45666777777 67889999999999999987777774322 144578888211 1222355666666666
Q ss_pred CcEEEEEEEecCCCCCCEEEEEEEEEcCCeeEEEEEEEee
Q 022308 141 GQFKLMSYRVKKLKSTPIYVKPQLTSDAGTCRISVMVGIR 180 (299)
Q Consensus 141 G~F~Lm~Yr~~~~~~~P~~i~~~~~~~~~~~~~ei~l~~~ 180 (299)
-+-.|..|.. -..|+.. |.+. .+|.-+-|-+.+.
T Consensus 282 ar~kLk~s~~---~~qpItc-c~fn--~~G~ifaYA~gYD 315 (347)
T KOG0647|consen 282 ARTKLKTSET---HPQPITC-CSFN--RNGSIFAYALGYD 315 (347)
T ss_pred hhhhhhccCc---CCCccce-eEec--CCCCEEEEEeecc
Confidence 6556655543 2346665 5554 2345667776553
No 14
>PF06919 Phage_T4_Gp30_7: Phage Gp30.7 protein; InterPro: IPR009690 This family consists of several phage Gp30.7 proteins of 121 residues in length. Family members seem to be exclusively from the T4-like viruses. The function of this family is unknown.
Probab=31.09 E-value=59 Score=25.12 Aligned_cols=22 Identities=18% Similarity=0.395 Sum_probs=18.3
Q ss_pred eEEEEecCCcccccceecceee
Q 022308 103 DLTLSFANPSILHDVRFHPCVR 124 (299)
Q Consensus 103 ~~~l~ln~~~~l~d~~fH~cV~ 124 (299)
.++|++.++..-.|+.+|||-+
T Consensus 62 ~~kI~~~Dd~r~RDLgTHPcwn 83 (121)
T PF06919_consen 62 IFKIGLDDDHRERDLGTHPCWN 83 (121)
T ss_pred EEEEEecCchhhcccCCCcCcc
Confidence 5678888887788899999975
No 15
>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=29.11 E-value=60 Score=20.84 Aligned_cols=18 Identities=39% Similarity=0.654 Sum_probs=14.5
Q ss_pred EEeCCCCcEEEEEEEecC
Q 022308 135 SFVPPDGQFKLMSYRVKK 152 (299)
Q Consensus 135 ~f~PPdG~F~Lm~Yr~~~ 152 (299)
-|-.-||.|+.|.|.-+.
T Consensus 15 vfpn~dgtftamtytksk 32 (49)
T PF07151_consen 15 VFPNQDGTFTAMTYTKSK 32 (49)
T ss_pred EeeCCCCcEEEEEEeecc
Confidence 466679999999998654
No 16
>PF13598 DUF4139: Domain of unknown function (DUF4139)
Probab=25.66 E-value=5.1e+02 Score=23.52 Aligned_cols=97 Identities=14% Similarity=0.222 Sum_probs=51.5
Q ss_pred CCCCCceEEEeCCCCcEEEEEEEecCCCCCCEEEEEEEEEc---C------CeeEEEEEEEeecCCCCceeeEEEEEECC
Q 022308 127 PWESHQILSFVPPDGQFKLMSYRVKKLKSTPIYVKPQLTSD---A------GTCRISVMVGIRNDPGKTIDSIILQFQLP 197 (299)
Q Consensus 127 ~f~~~~~l~f~PPdG~F~Lm~Yr~~~~~~~P~~i~~~~~~~---~------~~~~~ei~l~~~~~~~~~~~~v~I~iPlP 197 (299)
.|-.+..|.+++|.++|.|. +-.+. -+.|....... . ...+.++++.++...+ ..-.|.|.=++|
T Consensus 194 ~~vG~~~l~~~~~ge~~~l~-~G~d~----~v~v~r~~~~~~~~~g~~~~~~~~~~~~~itv~N~~~-~~v~v~v~d~iP 267 (317)
T PF13598_consen 194 TFVGESRLPHTAPGEEFELS-FGVDP----DVRVERKLLKKEEERGFFGKSQRRTYEYTITVRNNKD-EPVTVTVEDQIP 267 (317)
T ss_pred EEEEeeecCCCCCCCEEEEE-cccCC----CEEEEEEecceecccccccccEEEEEEEEEEEECCCC-CCEEEEEEeCCC
Confidence 34455778888888888852 33322 22332222110 0 1234666667776543 334488887887
Q ss_pred CCce-eeEEEecc-eeceeEeC--cEEEEEeCCcCCC
Q 022308 198 PCIL-SADLTSNH-GTVNVLSN--KICTWSIGRIPKD 230 (299)
Q Consensus 198 ~~~~-~~~~~~~~-G~~~~~~~--~~l~W~i~~~~~~ 230 (299)
-... ..++.... ... ..+. +.+.|++.--+|+
T Consensus 268 vs~~~~I~V~~~~~~~~-~~~~~~g~~~W~~~l~~g~ 303 (317)
T PF13598_consen 268 VSEDEDIKVELLEPPEP-NEDEKDGILEWKVTLPPGE 303 (317)
T ss_pred CCCCceEEEEEcCCCCC-cccCCCCEEEEEEEECCCC
Confidence 6432 23332221 111 2333 9999999766654
No 17
>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=25.52 E-value=85 Score=23.56 Aligned_cols=19 Identities=26% Similarity=0.648 Sum_probs=13.6
Q ss_pred ceeeEEEEEECCCCceeeE
Q 022308 186 TIDSIILQFQLPPCILSAD 204 (299)
Q Consensus 186 ~~~~v~I~iPlP~~~~~~~ 204 (299)
+.++|.|.||+|+++.+-.
T Consensus 13 T~~eV~v~i~lp~~~~~kd 31 (93)
T cd06494 13 TMDEVFIEVNVPPGTRAKD 31 (93)
T ss_pred EcCEEEEEEECCCCCceee
Confidence 6778888888888765433
No 18
>COG4719 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.62 E-value=1.5e+02 Score=24.58 Aligned_cols=29 Identities=10% Similarity=0.189 Sum_probs=16.3
Q ss_pred EEEEEEeecCCCCceeeEEEEEECCCCce
Q 022308 173 ISVMVGIRNDPGKTIDSIILQFQLPPCIL 201 (299)
Q Consensus 173 ~ei~l~~~~~~~~~~~~v~I~iPlP~~~~ 201 (299)
+.|+.+.+.-.+.++.++.+.-|+|+++.
T Consensus 73 LqyT~~~eNvs~rs~~gL~lN~pip~~t~ 101 (176)
T COG4719 73 LQYTGRYENVSKRSLSGLVLNGPIPSNTS 101 (176)
T ss_pred HhhcccccccccccccceeEcCccCCCcE
Confidence 33444443333346777777777777654
No 19
>PF05753 TRAP_beta: Translocon-associated protein beta (TRAPB); InterPro: IPR008856 This family consists of several eukaryotic translocon-associated protein beta (TRAPB) or signal sequence receptor beta subunit (SSR-beta) proteins. The normal translocation of nascent polypeptides into the lumen of the endoplasmic reticulum (ER) is thought to be aided in part by a translocon-associated protein (TRAP) complex consisting of 4 protein subunits. The association of mature proteins with the ER and Golgi, or other intracellular locales, such as lysosomes, depends on the initial targeting of the nascent polypeptide to the ER membrane. A similar scenario must also exist for proteins destined for secretion [].; GO: 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=20.30 E-value=5.4e+02 Score=21.82 Aligned_cols=79 Identities=19% Similarity=0.108 Sum_probs=45.0
Q ss_pred eeEEEEEEEeecCCCCceeeEEEEE-ECCCCceeeEEEecceeceeEeCcEEEEEeCCcCCCCceEEEEEEEeecCCccC
Q 022308 170 TCRISVMVGIRNDPGKTIDSIILQF-QLPPCILSADLTSNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTMVLETGLETL 248 (299)
Q Consensus 170 ~~~~ei~l~~~~~~~~~~~~v~I~i-PlP~~~~~~~~~~~~G~~~~~~~~~l~W~i~~~~~~~~~~l~g~~~~~~~~~~~ 248 (299)
+.++.+++.+-......+.||.+.= .+|+.. ++... +...|++++++.+...+. .+.+.+.....
T Consensus 37 g~~v~V~~~iyN~G~~~A~dV~l~D~~fp~~~----F~lvs--------G~~s~~~~~i~pg~~vsh--~~vv~p~~~G~ 102 (181)
T PF05753_consen 37 GEDVTVTYTIYNVGSSAAYDVKLTDDSFPPED----FELVS--------GSLSASWERIPPGENVSH--SYVVRPKKSGY 102 (181)
T ss_pred CcEEEEEEEEEECCCCeEEEEEEECCCCCccc----cEecc--------CceEEEEEEECCCCeEEE--EEEEeeeeeEE
Confidence 4456666666555555777777765 454421 22233 446788889877654433 33333322223
Q ss_pred CCCccEEEEEEECc
Q 022308 249 RVFPTFQVEFRIMG 262 (299)
Q Consensus 249 ~~~~pi~v~F~i~~ 262 (299)
-.+.++.|+|..+.
T Consensus 103 f~~~~a~VtY~~~~ 116 (181)
T PF05753_consen 103 FNFTPAVVTYRDSE 116 (181)
T ss_pred EEccCEEEEEECCC
Confidence 44778899997763
Done!