Citrus Sinensis ID: 025655

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250
Protein Sequence
MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCSDINGICIICT
Secondary Structure (PSIPRED)
cccccccccHHHHHHHHHHHHHHHHHHccccHHHHHcHHHHHHHHHHHHHHcccccEEcccHHHHHHHHccccccEEcccccccEEccccccccccEEEccEEEEEEEEEEEEEEcccccEEEEEEEEEEEEEEEcccccEEEEEEcccHHHHHccccccccEEEEccccccccccccccccccEEEEEcccccEEEEEEEEcccccccEEEEEEEEEEccEEEEEEEEEEEcccccccccEEEEEEEEc
Secondary Structure Prediction (SSPRO)
ccccccHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHccccccccccccccHHcccEcccccccEEcccEEEHHHHHHHHEEEcccccEEEEHEEEEEEEEEEcccccccEcccccEEEEEcccccccccEEEEEccEEEEEEEEcccccccEEEEccccccEEEEEEEccccccccEEEEEEEEEccccEEEEEEEEEEcccccccccEEEEEEEcc
Coil and Loop (DISEMBL)
mtasrqncNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMmdfgypqyteanILSEFIKtdayrmevtqrppmavTNAVSWRsegiqykknevFLDVVEHVNILVNSNGQIIRSDVVGALKMRTylsgmpecklglndrILLEAqgrstkgkaidlddikfhQCVRLArfendrtisfippdgsfdlmTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKerrcsdingiciict
Flexible Loop (DISEMBL)
MTASRQNCNAASLLFFLHRVVDVFKHYFeeleeeslrdNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILvnsngqiirsdVVGALKMRTYLSGMPECKLGLNDRILLEAQGRstkgkaidlddiKFHQCVRLarfendrtisfippdgsFDLMTYRLNTQVKPLIWVEAqverhsrsrvEILVkarsqfkerrcsdingiciict
Low Complexity Region (SEG)
MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCSDINGICIICT
Disordered region (IsUnstruct)
*******CNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCSDINGICIIC*
Disordered Region (DISOPRED)
MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEVTQRP*MAVT***SWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLND****************DLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCSDINGICIICT
Disordered Region (DISEMBL)
********NAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCSDINGICIICT
Disordered Region (DISPRO)
***SRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAY****TQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCSDINGICIICT
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCSDINGICIICT
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	250	2.2.26 [Sep-21-2011]
P35602	422	AP-1 complex subunit mu-1	yes	no	0.98	0.580	0.608	3e-92
P35585	423	AP-1 complex subunit mu-1	yes	no	0.96	0.567	0.611	1e-91
Q32Q06	423	AP-1 complex subunit mu-1	yes	no	0.96	0.567	0.611	1e-91
Q9BXS5	423	AP-1 complex subunit mu-1	yes	no	0.96	0.567	0.607	1e-91
Q2KJ81	423	AP-1 complex subunit mu-1	yes	no	0.96	0.567	0.607	1e-91
Q54HS9	428	AP-1 complex subunit mu O	yes	no	0.964	0.563	0.605	6e-90
Q3SYW1	423	AP-1 complex subunit mu-2	no	no	0.976	0.576	0.600	9e-90
Q9Y6Q5	423	AP-1 complex subunit mu-2	no	no	0.976	0.576	0.596	1e-88
Q9WVP1	423	AP-1 complex subunit mu-2	no	no	0.976	0.576	0.596	3e-88
Q9HFE5	426	AP-1 complex subunit mu-1	yes	no	0.948	0.556	0.582	3e-86

>sp|P35602|AP1M_CAEEL AP-1 complex subunit mu-1-I OS=Caenorhabditis elegans GN=unc-101 PE=2 SV=2

 Score =  337 bits (865), Expect = 3e-92,   Method: Compositional matrix adjust.
 Identities = 151/248 (60%), Positives = 201/248 (81%), Gaps = 3/248 (1%)

Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
           ++A R N N   +L FL++ V+VF  YF+++EEES+RDNFVV+YELLDEMMDFG+PQ TE
Sbjct: 68  VSACRSNVNVTMILSFLYKCVEVFSEYFKDVEEESVRDNFVVIYELLDEMMDFGFPQTTE 127

Query: 61  ANILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQ 120
           + IL E+I  +  ++    RPPMAVTNAVSWRSEGI+Y+KNEVFLDV+E VN+L ++NG 
Sbjct: 128 SRILQEYITQEGQKLISAPRPPMAVTNAVSWRSEGIKYRKNEVFLDVIESVNMLASANGT 187

Query: 121 IIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARF 180
           +++S++VG++KMR YL+GMPE +LGLND++L E  GR  K K+++L+D+KFHQCVRL+RF
Sbjct: 188 VLQSEIVGSVKMRVYLTGMPELRLGLNDKVLFEGSGRG-KSKSVELEDVKFHQCVRLSRF 246

Query: 181 ENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCS 240
           + DRTISFIPPDG+F+LM+YRL T VKPLIW+E  +ERHS SRV  ++KA+SQFK R  S
Sbjct: 247 DTDRTISFIPPDGAFELMSYRLTTVVKPLIWIETSIERHSHSRVSFIIKAKSQFKRR--S 304

Query: 241 DINGICII 248
             N + II
Sbjct: 305 TANNVEII 312

Required for many aspects of development and behavior, including negative regulation of vulval differentiation.
Caenorhabditis elegans (taxid: 6239)

>sp|P35585|AP1M1_MOUSE AP-1 complex subunit mu-1 OS=Mus musculus GN=Ap1m1 PE=1 SV=3

 Score =  336 bits (861), Expect = 1e-91,   Method: Compositional matrix adjust.
 Identities = 148/242 (61%), Positives = 201/242 (83%), Gaps = 2/242 (0%)

Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
           +  S++N   + +  FL++VV VF  YF+ELEEES+RDNFV++YELLDE+MDFGYPQ T+
Sbjct: 68  VATSKKNACVSLVFSFLYKVVQVFSEYFKELEEESIRDNFVIIYELLDELMDFGYPQTTD 127

Query: 61  ANILSEFIKTDAYRMEV-TQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNG 119
           + IL E+I  + +++E    RPP  VTNAVSWRSEGI+Y+KNEVFLDV+E VN+LV++NG
Sbjct: 128 SKILQEYITQEGHKLETGAPRPPATVTNAVSWRSEGIKYRKNEVFLDVIEAVNLLVSANG 187

Query: 120 QIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLAR 179
            ++RS++VG++KMR +LSGMPE +LGLND++L +  GR  K K+++L+D+KFHQCVRL+R
Sbjct: 188 NVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRG-KSKSVELEDVKFHQCVRLSR 246

Query: 180 FENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRC 239
           FENDRTISFIPPDG F+LM+YRLNT VKPLIW+E+ +E+HS SR+E +VKA+SQFK R  
Sbjct: 247 FENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIEKHSHSRIEYMVKAKSQFKRRST 306

Query: 240 SD 241
           ++
Sbjct: 307 AN 308

Subunit of clathrin-associated adaptor protein complex 1 that plays a role in protein sorting in the trans-Golgi network (TGN) and endosomes. The AP complexes mediate the recruitment of clathrin to membranes and the recognition of sorting signals within the cytosolic tails of transmembrane cargo molecules.

Mus musculus (taxid: 10090)

>sp|Q32Q06|AP1M1_RAT AP-1 complex subunit mu-1 OS=Rattus norvegicus GN=Ap1m1 PE=1 SV=3

 Score =  335 bits (860), Expect = 1e-91,   Method: Compositional matrix adjust.
 Identities = 148/242 (61%), Positives = 201/242 (83%), Gaps = 2/242 (0%)

Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
           +  S++N   + +  FL++VV VF  YF+ELEEES+RDNFV++YELLDE+MDFGYPQ T+
Sbjct: 68  VATSKKNACVSLVFSFLYKVVQVFSEYFKELEEESIRDNFVIIYELLDELMDFGYPQTTD 127

Query: 61  ANILSEFIKTDAYRMEV-TQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNG 119
           + IL E+I  + +++E    RPP  VTNAVSWRSEGI+Y+KNEVFLDV+E VN+LV++NG
Sbjct: 128 SKILQEYITQEGHKLETGAPRPPATVTNAVSWRSEGIKYRKNEVFLDVIEAVNLLVSANG 187

Query: 120 QIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLAR 179
            ++RS++VG++KMR +LSGMPE +LGLND++L +  GR  K K+++L+D+KFHQCVRL+R
Sbjct: 188 NVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRG-KSKSVELEDVKFHQCVRLSR 246

Query: 180 FENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRC 239
           FENDRTISFIPPDG F+LM+YRLNT VKPLIW+E+ +E+HS SR+E +VKA+SQFK R  
Sbjct: 247 FENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIEKHSHSRIEYMVKAKSQFKRRST 306

Query: 240 SD 241
           ++
Sbjct: 307 AN 308

Subunit of clathrin-associated adaptor protein complex 1 that plays a role in protein sorting in the trans-Golgi network (TGN) and endosomes. The AP complexes mediate the recruitment of clathrin to membranes and the recognition of sorting signals within the cytosolic tails of transmembrane cargo molecules.

Rattus norvegicus (taxid: 10116)

>sp|Q9BXS5|AP1M1_HUMAN AP-1 complex subunit mu-1 OS=Homo sapiens GN=AP1M1 PE=1 SV=3

 Score =  335 bits (860), Expect = 1e-91,   Method: Compositional matrix adjust.
 Identities = 147/242 (60%), Positives = 201/242 (83%), Gaps = 2/242 (0%)

Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
           +  S++N   + +  FL++VV VF  YF+ELEEES+RDNFV++YELLDE+MDFGYPQ T+
Sbjct: 68  VATSKKNACVSLVFSFLYKVVQVFSEYFKELEEESIRDNFVIIYELLDELMDFGYPQTTD 127

Query: 61  ANILSEFIKTDAYRMEV-TQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNG 119
           + IL E+I  + +++E    RPP  VTNAVSWRSEGI+Y+KNEVFLDV+E VN+LV++NG
Sbjct: 128 SKILQEYITQEGHKLETGAPRPPATVTNAVSWRSEGIKYRKNEVFLDVIESVNLLVSANG 187

Query: 120 QIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLAR 179
            ++RS++VG++KMR +LSGMPE +LGLND++L +  GR  K K+++L+D+KFHQCVRL+R
Sbjct: 188 NVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRG-KSKSVELEDVKFHQCVRLSR 246

Query: 180 FENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRC 239
           FENDRTISFIPPDG F+LM+YRLNT VKPLIW+E+ +E+HS SR+E ++KA+SQFK R  
Sbjct: 247 FENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIEKHSHSRIEYMIKAKSQFKRRST 306

Query: 240 SD 241
           ++
Sbjct: 307 AN 308

Subunit of clathrin-associated adaptor protein complex 1 that plays a role in protein sorting in the trans-Golgi network (TGN) and endosomes. The AP complexes mediate the recruitment of clathrin to membranes and the recognition of sorting signals within the cytosolic tails of transmembrane cargo molecules.

Homo sapiens (taxid: 9606)

>sp|Q2KJ81|AP1M1_BOVIN AP-1 complex subunit mu-1 OS=Bos taurus GN=AP1M1 PE=1 SV=3

 Score =  335 bits (860), Expect = 1e-91,   Method: Compositional matrix adjust.
 Identities = 147/242 (60%), Positives = 201/242 (83%), Gaps = 2/242 (0%)

Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
           +  S++N   + +  FL++VV VF  YF+ELEEES+RDNFV++YELLDE+MDFGYPQ T+
Sbjct: 68  VATSKKNACVSLVFSFLYKVVQVFSEYFKELEEESIRDNFVIIYELLDELMDFGYPQTTD 127

Query: 61  ANILSEFIKTDAYRMEV-TQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNG 119
           + IL E+I  + +++E    RPP  VTNAVSWRSEGI+Y+KNEVFLDV+E VN+LV++NG
Sbjct: 128 SKILQEYITQEGHKLETGAPRPPATVTNAVSWRSEGIKYRKNEVFLDVIESVNLLVSANG 187

Query: 120 QIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLAR 179
            ++RS++VG++KMR +LSGMPE +LGLND++L +  GR  K K+++L+D+KFHQCVRL+R
Sbjct: 188 NVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRG-KSKSVELEDVKFHQCVRLSR 246

Query: 180 FENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRC 239
           FENDRTISFIPPDG F+LM+YRLNT VKPLIW+E+ +E+HS SR+E ++KA+SQFK R  
Sbjct: 247 FENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIEKHSHSRIEYMIKAKSQFKRRST 306

Query: 240 SD 241
           ++
Sbjct: 307 AN 308

Subunit of clathrin-associated adaptor protein complex 1 that plays a role in protein sorting in the trans-Golgi network (TGN) and endosomes. The AP complexes mediate the recruitment of clathrin to membranes and the recognition of sorting signals within the cytosolic tails of transmembrane cargo molecules.

Bos taurus (taxid: 9913)

>sp|Q54HS9|AP1M_DICDI AP-1 complex subunit mu OS=Dictyostelium discoideum GN=apm1 PE=1 SV=1

 Score =  330 bits (846), Expect = 6e-90,   Method: Compositional matrix adjust.
 Identities = 149/246 (60%), Positives = 199/246 (80%), Gaps = 5/246 (2%)

Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
           +  + +N NAA++L FL+++++VF  YF+ELEEES+RDNFVV+YEL+DEMMDFGYPQ TE
Sbjct: 67  LATTERNANAATILLFLYKMIEVFNEYFKELEEESIRDNFVVIYELMDEMMDFGYPQSTE 126

Query: 61  ANILSEFIKTDAYRMEVTQRP---PMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNS 117
             IL E+I  + Y++E   R    P A+T AVSWR EGI+Y KNEVFLDVVE +N+LV++
Sbjct: 127 PKILQEYITQEGYKLERGARGMVLPAAITGAVSWRKEGIKYNKNEVFLDVVESINLLVSA 186

Query: 118 NGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLE--AQGRSTKGKAIDLDDIKFHQCV 175
           NG ++RS++VGA+KM++ LSGMPE +LGLND+IL E  A+  + KGK ++L+D+KFHQCV
Sbjct: 187 NGTVLRSEIVGAVKMKSKLSGMPELRLGLNDKILFENSAKTGAPKGKGVELEDVKFHQCV 246

Query: 176 RLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFK 235
           RL++FENDRTISFIPPDG F+LM+YRLNT VKPLIWVE   + H+ SRVE +VKA+SQFK
Sbjct: 247 RLSKFENDRTISFIPPDGEFELMSYRLNTTVKPLIWVECISDTHAHSRVEYMVKAKSQFK 306

Query: 236 ERRCSD 241
            +  ++
Sbjct: 307 GKSIAN 312

Subunit of clathrin-associated adaptor protein complex 1 that plays a role in protein sorting in the trans-Golgi network (TGN) and endosomes. The AP complexes mediate the recruitment of clathrin to membranes and the recognition of sorting signals within the cytosolic tails of transmembrane cargo molecules. Also involved in early steps of phagocytosis and macropinocytosis.

Dictyostelium discoideum (taxid: 44689)

>sp|Q3SYW1|AP1M2_BOVIN AP-1 complex subunit mu-2 OS=Bos taurus GN=AP1M2 PE=1 SV=3

 Score =  329 bits (844), Expect = 9e-90,   Method: Compositional matrix adjust.
 Identities = 149/248 (60%), Positives = 205/248 (82%), Gaps = 4/248 (1%)

Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
           +  + +N NA+ +  FL+++V+VF  YF+ELEEES+RDNFV+VYELLDE+MDFG+PQ T+
Sbjct: 68  VATTLKNANASLVYSFLYKIVEVFSEYFKELEEESIRDNFVIVYELLDELMDFGFPQTTD 127

Query: 61  ANILSEFIKTDAYRMEVTQ-RPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNG 119
           + IL E+I     ++E  + R P  VTNAVSWRSEGI+YKKNEVF+DV+E VN+LVN+NG
Sbjct: 128 SKILQEYITQQGNKLETGKSRVPPTVTNAVSWRSEGIKYKKNEVFIDVIESVNLLVNANG 187

Query: 120 QIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLAR 179
            ++ S++VG++K++ +LSGMPE +LGLNDR+L E  GRS K K+++L+D+KFHQCVRL+R
Sbjct: 188 SVLLSEIVGSIKLKVFLSGMPELRLGLNDRVLFELTGRS-KNKSVELEDVKFHQCVRLSR 246

Query: 180 FENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRC 239
           F+NDRTISFIPPDG F+LM+YRL+TQVKPLIW+E+ +E+ S SRVEI+VKA+ QFK++  
Sbjct: 247 FDNDRTISFIPPDGDFELMSYRLSTQVKPLIWIESVIEKFSHSRVEIMVKAKGQFKKQSV 306

Query: 240 SDINGICI 247
           +  NG+ I
Sbjct: 307 A--NGVEI 312

Subunit of clathrin-associated adaptor protein complex 1 that plays a role in protein sorting in the trans-Golgi network (TGN) and endosomes. The AP complexes mediate the recruitment of clathrin to membranes and the recognition of sorting signals within the cytosolic tails of transmembrane cargo molecules.

Bos taurus (taxid: 9913)

>sp|Q9Y6Q5|AP1M2_HUMAN AP-1 complex subunit mu-2 OS=Homo sapiens GN=AP1M2 PE=1 SV=4

 Score =  326 bits (835), Expect = 1e-88,   Method: Compositional matrix adjust.
 Identities = 148/248 (59%), Positives = 204/248 (82%), Gaps = 4/248 (1%)

Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
           +  + +N NA+ +  FL++ ++VF  YF+ELEEES+RDNFV+VYELLDE+MDFG+PQ T+
Sbjct: 68  VATTSKNANASLVYSFLYKTIEVFCEYFKELEEESIRDNFVIVYELLDELMDFGFPQTTD 127

Query: 61  ANILSEFIKTDAYRMEVTQ-RPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNG 119
           + IL E+I   + ++E  + R P  VTNAVSWRSEGI+YKKNEVF+DV+E VN+LVN+NG
Sbjct: 128 SKILQEYITQQSNKLETGKSRVPPTVTNAVSWRSEGIKYKKNEVFIDVIESVNLLVNANG 187

Query: 120 QIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLAR 179
            ++ S++VG +K++ +LSGMPE +LGLNDR+L E  GRS K K+++L+D+KFHQCVRL+R
Sbjct: 188 SVLLSEIVGTIKLKVFLSGMPELRLGLNDRVLFELTGRS-KNKSVELEDVKFHQCVRLSR 246

Query: 180 FENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRC 239
           F+NDRTISFIPPDG F+LM+YRL+TQVKPLIW+E+ +E+ S SRVEI+VKA+ QFK++  
Sbjct: 247 FDNDRTISFIPPDGDFELMSYRLSTQVKPLIWIESVIEKFSHSRVEIMVKAKGQFKKQSV 306

Query: 240 SDINGICI 247
           +  NG+ I
Sbjct: 307 A--NGVEI 312

Subunit of clathrin-associated adaptor protein complex 1 that plays a role in protein sorting in the trans-Golgi network (TGN) and endosomes. The AP complexes mediate the recruitment of clathrin to membranes and the recognition of sorting signals within the cytosolic tails of transmembrane cargo molecules.

Homo sapiens (taxid: 9606)

>sp|Q9WVP1|AP1M2_MOUSE AP-1 complex subunit mu-2 OS=Mus musculus GN=Ap1m2 PE=1 SV=3

 Score =  324 bits (831), Expect = 3e-88,   Method: Compositional matrix adjust.
 Identities = 148/248 (59%), Positives = 203/248 (81%), Gaps = 4/248 (1%)

Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
           +  + +N NA+ +  FL++ V+VF  YF+ELEEES+RDNFV+VY+LLDE+MDFG+PQ T+
Sbjct: 68  VATTLKNANASLVYSFLYKTVEVFCEYFKELEEESIRDNFVIVYDLLDELMDFGFPQTTD 127

Query: 61  ANILSEFIKTDAYRMEVTQ-RPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNG 119
           + IL E+I     ++E  + R P  VTNAVSWRSEGI+YKKNEVF+DV+E VN+LVN+NG
Sbjct: 128 SKILQEYITQQGNKLETGKSRVPPTVTNAVSWRSEGIKYKKNEVFIDVIESVNLLVNANG 187

Query: 120 QIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLAR 179
            ++ S++VG +K++ +LSGMPE +LGLNDR+L E  GRS K K+++L+D+KFHQCVRL+R
Sbjct: 188 SVLLSEIVGTIKLKVFLSGMPELRLGLNDRVLFELTGRS-KNKSVELEDVKFHQCVRLSR 246

Query: 180 FENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRC 239
           F+NDRTISFIPPDG F+LM+YRL+TQVKPLIW+E+ +E+ S SRVEI+VKA+ QFK++  
Sbjct: 247 FDNDRTISFIPPDGDFELMSYRLSTQVKPLIWIESVIEKFSHSRVEIMVKAKGQFKKQSV 306

Query: 240 SDINGICI 247
           +  NG+ I
Sbjct: 307 A--NGVEI 312

Subunit of clathrin-associated adaptor protein complex 1 that plays a role in protein sorting in the trans-Golgi network (TGN) and endosomes. The AP complexes mediate the recruitment of clathrin to membranes and the recognition of sorting signals within the cytosolic tails of transmembrane cargo molecules.

Mus musculus (taxid: 10090)

>sp|Q9HFE5|AP1M1_SCHPO AP-1 complex subunit mu-1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=apm1 PE=1 SV=1

 Score =  317 bits (813), Expect = 3e-86,   Method: Compositional matrix adjust.
 Identities = 138/237 (58%), Positives = 192/237 (81%)

Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
           +  S+ N +A  +L FL ++ DVF  YF+EL+EES+RDNFV+VYELLDE+MDFG+PQ TE
Sbjct: 68  LALSKMNSDAMEMLVFLRKMADVFIDYFKELQEESIRDNFVLVYELLDEIMDFGFPQTTE 127

Query: 61  ANILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQ 120
             IL E+I   +  ++    PP+A+TNA+SWRSEGI Y+KNEVFLDV+E VN++  ++G 
Sbjct: 128 TKILQEYITQTSNTVKKHAPPPIAMTNAISWRSEGIHYRKNEVFLDVIESVNLIAAADGT 187

Query: 121 IIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARF 180
           +I+S+++G ++++ YLSGMPE +LGLND++L EA GR+ KG  ++++D+KFHQCVRLARF
Sbjct: 188 VIQSEILGKVRLKCYLSGMPELRLGLNDKVLFEAAGRTIKGNTVEMEDVKFHQCVRLARF 247

Query: 181 ENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKER 237
           ENDRTISFIPPDG FDLM+YR+++ V+PLIWVE +   HS SR+E +VKA++QFK+R
Sbjct: 248 ENDRTISFIPPDGEFDLMSYRMSSNVRPLIWVECESIVHSGSRIEFMVKAKAQFKKR 304

Component of the adaptor complexes which 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.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	250
225470599	428	PREDICTED: AP-1 complex subunit mu-1 [Vi	0.96	0.560	0.945	1e-132
297843902	428	clathrin adaptor complexes medium subuni	0.96	0.560	0.933	1e-132
297837421	428	clathrin adaptor complexes medium subuni	0.96	0.560	0.925	1e-132
413951036	632	hypothetical protein ZEAMMB73_283352 [Ze	0.96	0.379	0.916	1e-132
15219810	428	AP-1 complex subunit mu [Arabidopsis tha	0.96	0.560	0.925	1e-132
148910706	428	unknown [Picea sitchensis]	0.96	0.560	0.941	1e-131
242054145	429	hypothetical protein SORBIDRAFT_03g03229	0.96	0.559	0.920	1e-131
56784185	357	clathrin-associated protein unc-101-like	0.96	0.672	0.920	1e-131
125527406	429	hypothetical protein OsI_03424 [Oryza sa	0.96	0.559	0.920	1e-131
115439443	429	Os01g0703600 [Oryza sativa Japonica Grou	0.96	0.559	0.920	1e-131

>gi|225470599|ref|XP_002274463.1| PREDICTED: AP-1 complex subunit mu-1 [Vitis vinifera] gi|296083422|emb|CBI23375.3| unnamed protein product [Vitis vinifera]

 Score =  477 bits (1228), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 227/240 (94%), Positives = 234/240 (97%)

Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
           MTASRQNCNAAS L FLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE
Sbjct: 71  MTASRQNCNAASHLLFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 130

Query: 61  ANILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQ 120
           A ILSEFIKTDAYRMEV+QRPPMAVTNAVSWRSEGI+YKKNEVFLDVVE VNILVNSNGQ
Sbjct: 131 AKILSEFIKTDAYRMEVSQRPPMAVTNAVSWRSEGIRYKKNEVFLDVVESVNILVNSNGQ 190

Query: 121 IIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARF 180
           IIRSDVVGALKMRTYLSGMPECKLGLNDR+LLEAQGRSTKGKAIDLDDIKFHQCVRLARF
Sbjct: 191 IIRSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRSTKGKAIDLDDIKFHQCVRLARF 250

Query: 181 ENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCS 240
           ENDRTISFIPPDGSFDLMTYRL+TQVKPLIWVEAQVERHSRSR+EI+VKARSQFKER  +
Sbjct: 251 ENDRTISFIPPDGSFDLMTYRLSTQVKPLIWVEAQVERHSRSRIEIMVKARSQFKERSTA 310

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297843902|ref|XP_002889832.1| clathrin adaptor complexes medium subunit family protein [Arabidopsis lyrata subsp. lyrata] gi|297335674|gb|EFH66091.1| clathrin adaptor complexes medium subunit family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  477 bits (1227), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 224/240 (93%), Positives = 235/240 (97%)

Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
           M ASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE
Sbjct: 71  MIASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 130

Query: 61  ANILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQ 120
           A ILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEG+Q+KKNEVFLDV+E VNILVNSNGQ
Sbjct: 131 ARILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGLQFKKNEVFLDVIESVNILVNSNGQ 190

Query: 121 IIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARF 180
           I+RSDVVGALKMRTYLSGMPECKLGLNDR+LLEAQGR+TKGKAIDL+DIKFHQCVRLARF
Sbjct: 191 IVRSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRATKGKAIDLEDIKFHQCVRLARF 250

Query: 181 ENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCS 240
           ENDRTISFIPPDGSFDLMTYRL+TQVKPLIWVEAQ+ERHSRSRVE+LVKARSQFKER  +
Sbjct: 251 ENDRTISFIPPDGSFDLMTYRLSTQVKPLIWVEAQIERHSRSRVEMLVKARSQFKERSTA 310

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297837421|ref|XP_002886592.1| clathrin adaptor complexes medium subunit family protein [Arabidopsis lyrata subsp. lyrata] gi|297332433|gb|EFH62851.1| clathrin adaptor complexes medium subunit family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  476 bits (1224), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 222/240 (92%), Positives = 235/240 (97%)

Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
           M ASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE
Sbjct: 71  MIASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 130

Query: 61  ANILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQ 120
           A ILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDV+E+VNILVNSNGQ
Sbjct: 131 ARILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVIENVNILVNSNGQ 190

Query: 121 IIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARF 180
           I+RSDVVGALKMRTYL+GMPECKLGLNDR+LLEAQGR+TKGKAIDL+DIKFHQCVRLARF
Sbjct: 191 IVRSDVVGALKMRTYLTGMPECKLGLNDRVLLEAQGRATKGKAIDLEDIKFHQCVRLARF 250

Query: 181 ENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCS 240
           ENDRTISFIPPDG+FDLMTYRL+TQVKPLIWVEAQ+E HSRSRVE+L+KARSQFKER  +
Sbjct: 251 ENDRTISFIPPDGAFDLMTYRLSTQVKPLIWVEAQIESHSRSRVEMLIKARSQFKERSTA 310

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|413951036|gb|AFW83685.1| hypothetical protein ZEAMMB73_283352 [Zea mays]

 Score =  476 bits (1224), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 220/240 (91%), Positives = 235/240 (97%)

Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
           +TA+RQNCNAAS+L FLHRV+DVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE
Sbjct: 275 LTAARQNCNAASILLFLHRVIDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 334

Query: 61  ANILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQ 120
           A ILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGI+YKKNEVFLDVVE VNILVNSNGQ
Sbjct: 335 AKILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIRYKKNEVFLDVVESVNILVNSNGQ 394

Query: 121 IIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARF 180
           I+RSDVVGALKMRTYLSGMPECKLGLNDR+LLEAQGR+TKGKAIDLDDIKFHQCVRLARF
Sbjct: 395 IVRSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRATKGKAIDLDDIKFHQCVRLARF 454

Query: 181 ENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCS 240
           ENDRTISFIPPDGSFDLMTYRL+TQVKPLIWVEAQ+E+HSRSR+E++VKARSQFKER  +
Sbjct: 455 ENDRTISFIPPDGSFDLMTYRLSTQVKPLIWVEAQIEKHSRSRIELMVKARSQFKERSTA 514

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15219810|ref|NP_176277.1| AP-1 complex subunit mu [Arabidopsis thaliana] gi|2462748|gb|AAB71967.1| putative Clathrin Coat Assembly protein [Arabidopsis thaliana] gi|20466372|gb|AAM20503.1| clathrin adaptor medium chain protein MU1B, putative [Arabidopsis thaliana] gi|25084014|gb|AAN72155.1| clathrin adaptor medium chain protein MU1B, putative [Arabidopsis thaliana] gi|332195610|gb|AEE33731.1| AP-1 complex subunit mu [Arabidopsis thaliana]

 Score =  476 bits (1224), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 222/240 (92%), Positives = 235/240 (97%)

Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
           M ASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE
Sbjct: 71  MIASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 130

Query: 61  ANILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQ 120
           A ILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDV+E+VNILVNSNGQ
Sbjct: 131 ARILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVIENVNILVNSNGQ 190

Query: 121 IIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARF 180
           I+RSDVVGALKMRTYL+GMPECKLGLNDR+LLEAQGR+TKGKAIDL+DIKFHQCVRLARF
Sbjct: 191 IVRSDVVGALKMRTYLTGMPECKLGLNDRVLLEAQGRATKGKAIDLEDIKFHQCVRLARF 250

Query: 181 ENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCS 240
           ENDRTISFIPPDG+FDLMTYRL+TQVKPLIWVEAQ+E HSRSRVE+L+KARSQFKER  +
Sbjct: 251 ENDRTISFIPPDGAFDLMTYRLSTQVKPLIWVEAQIESHSRSRVEMLIKARSQFKERSTA 310

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|148910706|gb|ABR18420.1| unknown [Picea sitchensis]

 Score =  474 bits (1220), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 226/240 (94%), Positives = 232/240 (96%)

Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
           M ASRQNCNAASLL FLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE
Sbjct: 71  MIASRQNCNAASLLLFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 130

Query: 61  ANILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQ 120
           A ILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGI+YKKNEVFLDVVE+VNILVNSNGQ
Sbjct: 131 AKILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIRYKKNEVFLDVVENVNILVNSNGQ 190

Query: 121 IIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARF 180
           I+RSDVVGALKMRTYLSGMPECKLGLNDR+LLEAQGRSTKGKAIDLDDIKFHQCVRLARF
Sbjct: 191 IVRSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRSTKGKAIDLDDIKFHQCVRLARF 250

Query: 181 ENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCS 240
            NDRTISFIPPDGSFDLMTYRL+TQVKPLIWVEAQVERHSRSRVE  VKARSQFKER  +
Sbjct: 251 GNDRTISFIPPDGSFDLMTYRLSTQVKPLIWVEAQVERHSRSRVEFTVKARSQFKERSTA 310

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242054145|ref|XP_002456218.1| hypothetical protein SORBIDRAFT_03g032290 [Sorghum bicolor] gi|224030047|gb|ACN34099.1| unknown [Zea mays] gi|241928193|gb|EES01338.1| hypothetical protein SORBIDRAFT_03g032290 [Sorghum bicolor] gi|414880829|tpg|DAA57960.1| TPA: hypothetical protein ZEAMMB73_448798 [Zea mays]

 Score =  474 bits (1219), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 221/240 (92%), Positives = 235/240 (97%)

Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
           +TA+RQNCNAAS+L FLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE
Sbjct: 72  LTAARQNCNAASILLFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 131

Query: 61  ANILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQ 120
           A ILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGI+YKKNEVFLDVVE VNILVNSNGQ
Sbjct: 132 AKILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIRYKKNEVFLDVVESVNILVNSNGQ 191

Query: 121 IIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARF 180
           I+RSDVVGALKMRTYLSGMPECKLGLNDR+LLEAQGR+TKGKAIDLDDIKFHQCVRLARF
Sbjct: 192 IVRSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRATKGKAIDLDDIKFHQCVRLARF 251

Query: 181 ENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCS 240
           ENDRTISFIPPDGSFDLMTYRL+TQVKPLIWVEAQ+E+HSRSR+E++VKARSQFKER  +
Sbjct: 252 ENDRTISFIPPDGSFDLMTYRLSTQVKPLIWVEAQIEKHSRSRIELMVKARSQFKERSTA 311

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|56784185|dbj|BAD81570.1| clathrin-associated protein unc-101-like [Oryza sativa Japonica Group] gi|56785137|dbj|BAD81792.1| clathrin-associated protein unc-101-like [Oryza sativa Japonica Group]

 Score =  474 bits (1219), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 221/240 (92%), Positives = 235/240 (97%)

Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
           +TASRQNCNAAS+L FLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE
Sbjct: 72  LTASRQNCNAASILLFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 131

Query: 61  ANILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQ 120
           A ILSEFIKTDAYRMEV+QRPPMAVTNAVSWRSEGI+YKKNEVFLDVVE VNILVNSNGQ
Sbjct: 132 AKILSEFIKTDAYRMEVSQRPPMAVTNAVSWRSEGIRYKKNEVFLDVVESVNILVNSNGQ 191

Query: 121 IIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARF 180
           I+RSDVVGALKMRTYLSGMPECKLGLNDR+LLEAQGR+TKGKAIDLDDIKFHQCVRLARF
Sbjct: 192 IVRSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRATKGKAIDLDDIKFHQCVRLARF 251

Query: 181 ENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCS 240
           ENDRTISFIPPDGSFDLMTYRL+TQVKPLIWVEAQ+E+HSRSR+E++VKARSQFKER  +
Sbjct: 252 ENDRTISFIPPDGSFDLMTYRLSTQVKPLIWVEAQIEKHSRSRIELMVKARSQFKERSTA 311

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125527406|gb|EAY75520.1| hypothetical protein OsI_03424 [Oryza sativa Indica Group]

 Score =  473 bits (1218), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 221/240 (92%), Positives = 235/240 (97%)

Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
           +TASRQNCNAAS+L FLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE
Sbjct: 72  LTASRQNCNAASILLFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 131

Query: 61  ANILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQ 120
           A ILSEFIKTDAYRMEV+QRPPMAVTNAVSWRSEGI+YKKNEVFLDVVE VNILVNSNGQ
Sbjct: 132 AKILSEFIKTDAYRMEVSQRPPMAVTNAVSWRSEGIRYKKNEVFLDVVESVNILVNSNGQ 191

Query: 121 IIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARF 180
           I+RSDVVGALKMRTYLSGMPECKLGLNDR+LLEAQGR+TKGKAIDLDDIKFHQCVRLARF
Sbjct: 192 IVRSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRATKGKAIDLDDIKFHQCVRLARF 251

Query: 181 ENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCS 240
           ENDRTISFIPPDGSFDLMTYRL+TQVKPLIWVEAQ+E+HSRSR+E++VKARSQFKER  +
Sbjct: 252 ENDRTISFIPPDGSFDLMTYRLSTQVKPLIWVEAQIEKHSRSRIELMVKARSQFKERSTA 311

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115439443|ref|NP_001044001.1| Os01g0703600 [Oryza sativa Japonica Group] gi|113533532|dbj|BAF05915.1| Os01g0703600 [Oryza sativa Japonica Group] gi|125571729|gb|EAZ13244.1| hypothetical protein OsJ_03168 [Oryza sativa Japonica Group]

 Score =  473 bits (1217), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 221/240 (92%), Positives = 235/240 (97%)

Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
           +TASRQNCNAAS+L FLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE
Sbjct: 72  LTASRQNCNAASILLFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 131

Query: 61  ANILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQ 120
           A ILSEFIKTDAYRMEV+QRPPMAVTNAVSWRSEGI+YKKNEVFLDVVE VNILVNSNGQ
Sbjct: 132 AKILSEFIKTDAYRMEVSQRPPMAVTNAVSWRSEGIRYKKNEVFLDVVESVNILVNSNGQ 191

Query: 121 IIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARF 180
           I+RSDVVGALKMRTYLSGMPECKLGLNDR+LLEAQGR+TKGKAIDLDDIKFHQCVRLARF
Sbjct: 192 IVRSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRATKGKAIDLDDIKFHQCVRLARF 251

Query: 181 ENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCS 240
           ENDRTISFIPPDGSFDLMTYRL+TQVKPLIWVEAQ+E+HSRSR+E++VKARSQFKER  +
Sbjct: 252 ENDRTISFIPPDGSFDLMTYRLSTQVKPLIWVEAQIEKHSRSRIELMVKARSQFKERSTA 311

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	250
TAIR|locus:2036606	428	HAP13 "HAPLESS 13" [Arabidopsi	0.948	0.553	0.936	2e-118
TAIR|locus:2019913	428	AT1G10730 [Arabidopsis thalian	0.948	0.553	0.924	2.1e-116
ASPGD|ASPL0000077433	446	AN8795 [Emericella nidulans (t	0.984	0.551	0.629	1.6e-88
FB|FBgn0024833	426	AP-1mu "Adaptor Protein comple	0.976	0.572	0.623	4.3e-86
UNIPROTKB|F1NZQ2	416	AP1M1 "Uncharacterized protein	0.94	0.564	0.627	1.5e-83
UNIPROTKB|Q2KJ81	423	AP1M1 "AP-1 complex subunit mu	0.94	0.555	0.627	1.5e-83
UNIPROTKB|J9P1I0	423	AP1M1 "Uncharacterized protein	0.94	0.555	0.627	1.5e-83
UNIPROTKB|Q9BXS5	423	AP1M1 "AP-1 complex subunit mu	0.94	0.555	0.627	1.5e-83
UNIPROTKB|F2Z5I7	423	AP1M1 "Uncharacterized protein	0.94	0.555	0.627	1.5e-83
MGI|MGI:102776	423	Ap1m1 "adaptor-related protein	0.94	0.555	0.631	1.5e-83

TAIR|locus:2036606 HAP13 "HAPLESS 13" [Arabidopsis thaliana (taxid:3702)]

 Score = 1166 (415.5 bits), Expect = 2.0e-118, P = 2.0e-118
 Identities = 222/237 (93%), Positives = 234/237 (98%)

Query:     1 MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
             M ASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE
Sbjct:    71 MIASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 130

Query:    61 ANILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQ 120
             A ILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDV+E+VNILVNSNGQ
Sbjct:   131 ARILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVIENVNILVNSNGQ 190

Query:   121 IIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARF 180
             I+RSDVVGALKMRTYL+GMPECKLGLNDR+LLEAQGR+TKGKAIDL+DIKFHQCVRLARF
Sbjct:   191 IVRSDVVGALKMRTYLTGMPECKLGLNDRVLLEAQGRATKGKAIDLEDIKFHQCVRLARF 250

Query:   181 ENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKER 237
             ENDRTISFIPPDG+FDLMTYRL+TQVKPLIWVEAQ+E HSRSRVE+L+KARSQFKER
Sbjct:   251 ENDRTISFIPPDGAFDLMTYRLSTQVKPLIWVEAQIESHSRSRVEMLIKARSQFKER 307

GO:0006810 "transport" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA;ISS

GO:0016192 "vesicle-mediated transport" evidence=IEA

GO:0030125 "clathrin vesicle coat" evidence=ISS

GO:0030131 "clathrin adaptor complex" evidence=IEA

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2019913 AT1G10730 [Arabidopsis thaliana (taxid:3702)]

 Score = 1147 (408.8 bits), Expect = 2.1e-116, P = 2.1e-116
 Identities = 219/237 (92%), Positives = 232/237 (97%)

Query:     1 MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
             M ASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQ+TE
Sbjct:    71 MIASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQFTE 130

Query:    61 ANILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQ 120
             A ILSEFIKTDAYRMEVTQRPPMAVTN+VSWRSEG+++KKNEVFLDV+E VNILVNSNGQ
Sbjct:   131 ARILSEFIKTDAYRMEVTQRPPMAVTNSVSWRSEGLKFKKNEVFLDVIESVNILVNSNGQ 190

Query:   121 IIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARF 180
             I+RSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGR+ KGKAIDL+DIKFHQCVRLARF
Sbjct:   191 IVRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRAIKGKAIDLEDIKFHQCVRLARF 250

Query:   181 ENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKER 237
             ENDRTISFIPPDGSFDLMTYRL+TQVKPLIWVEA +ERHSRSRVE+LVKARSQFK+R
Sbjct:   251 ENDRTISFIPPDGSFDLMTYRLSTQVKPLIWVEAHIERHSRSRVEMLVKARSQFKDR 307

GO:0006810 "transport" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA;ISS

GO:0016192 "vesicle-mediated transport" evidence=IEA

GO:0030125 "clathrin vesicle coat" evidence=ISS

GO:0030131 "clathrin adaptor complex" evidence=IEA

GO:0006486 "protein glycosylation" evidence=RCA

ASPGD|ASPL0000077433 AN8795 [Emericella nidulans (taxid:162425)]

 Score = 884 (316.2 bits), Expect = 1.6e-88, P = 1.6e-88
 Identities = 156/248 (62%), Positives = 211/248 (85%)

Query:     1 MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
             +  +++N NA  +L FLH++V+VF  YF+ LEEES+RDNFV++YELLDEMMDFGYPQ TE
Sbjct:    68 LALTKKNTNATEILLFLHKIVEVFTEYFKVLEEESIRDNFVIIYELLDEMMDFGYPQTTE 127

Query:    61 ANILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQ 120
             + IL E+I  +++++EV  RPP+AVTNAVSWRSEGI+Y+KNEVFLDVVE +N+LV++ G 
Sbjct:   128 SKILQEYITQESHKLEVQARPPIAVTNAVSWRSEGIRYRKNEVFLDVVESLNLLVSATGN 187

Query:   121 IIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARF 180
             ++RS+++GA+KM+ YLSGMPE +LGLND+++ E  GR+++GKA++++D+KFHQCVRL+RF
Sbjct:   188 VLRSEILGAIKMKCYLSGMPELRLGLNDKVMFETTGRASRGKAVEMEDVKFHQCVRLSRF 247

Query:   181 ENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCS 240
             ENDRTISFIPPDG F+LM+YRLNTQVKPLIWVE  VE HS SR+E ++KA++QFK R  S
Sbjct:   248 ENDRTISFIPPDGEFELMSYRLNTQVKPLIWVECLVESHSGSRIEYMLKAKAQFKRR--S 305

Query:   241 DINGICII 248
               N + I+
Sbjct:   306 TANNVEIL 313

GO:0003674 "molecular_function" evidence=ND

GO:0016197 "endosomal transport" evidence=IEA

GO:0060237 "regulation of fungal-type cell wall organization" evidence=IEA

GO:0032889 "regulation of vacuole fusion, non-autophagic" evidence=IEA

GO:0071775 "regulation of cell cycle cytokinesis" evidence=IEA

GO:0016192 "vesicle-mediated transport" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0051286 "cell tip" evidence=IEA

GO:0044732 "mitotic spindle pole body" evidence=IEA

GO:0032153 "cell division site" evidence=IEA

GO:0005768 "endosome" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0030121 "AP-1 adaptor complex" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

FB|FBgn0024833 AP-1mu "Adaptor Protein complex 1, mu subunit" [Drosophila melanogaster (taxid:7227)]

 Score = 861 (308.1 bits), Expect = 4.3e-86, P = 4.3e-86
 Identities = 154/247 (62%), Positives = 204/247 (82%)

Query:     2 TASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEA 61
             T   +N N A +  FLH++  VF  YF+ELEEES+RDNFV++YELLDE++DFGYPQ T++
Sbjct:    72 TPRNKNVNIALVFVFLHKIAQVFVEYFKELEEESIRDNFVIIYELLDELLDFGYPQTTDS 131

Query:    62 NILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQI 121
              IL E+I  + +++E+  R P+AVTNAVSWRSEGI+Y+KNEVFLDV+E VN+L N+NG +
Sbjct:   132 KILQEYITQEGHKLELQPRIPVAVTNAVSWRSEGIKYRKNEVFLDVIESVNLLANANGNV 191

Query:   122 IRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFE 181
             +RS++VGA+KMR YLSGMPE +LGLND++L E+ GR  K K+++L+D+KFHQCVRL+RFE
Sbjct:   192 LRSEIVGAIKMRVYLSGMPELRLGLNDKVLFESTGRG-KSKSVELEDVKFHQCVRLSRFE 250

Query:   182 NDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCSD 241
             NDRTISFIPPDG F+LM+YRLNT VKPLIW+E+ +ERH+ SRVE ++KA+SQFK R  S 
Sbjct:   251 NDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIERHAHSRVEYMIKAKSQFKRR--ST 308

Query:   242 INGICII 248
              N + I+
Sbjct:   309 ANNVEIV 315

GO:0030135 "coated vesicle" evidence=TAS

GO:0016183 "synaptic vesicle coating" evidence=TAS

GO:0008021 "synaptic vesicle" evidence=TAS

GO:0006901 "vesicle coating" evidence=TAS

GO:0007269 "neurotransmitter secretion" evidence=NAS

GO:0030131 "clathrin adaptor complex" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0030136 "clathrin-coated vesicle" evidence=IDA

GO:0045746 "negative regulation of Notch signaling pathway" evidence=IGI

GO:2001136 "negative regulation of endocytic recycling" evidence=IMP

GO:0033363 "secretory granule organization" evidence=IMP

GO:0035976 "AP1 complex" evidence=IMP;IPI

GO:0048749 "compound eye development" evidence=IMP

GO:0046907 "intracellular transport" evidence=IMP

GO:0008565 "protein transporter activity" evidence=IMP

UNIPROTKB|F1NZQ2 AP1M1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 837 (299.7 bits), Expect = 1.5e-83, P = 1.5e-83
 Identities = 150/239 (62%), Positives = 201/239 (84%)

Query:     1 MTASRQNCNAASLLF-FLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYT 59
             +  S++N    SL+F FL++VV VF  YF+ELEEES+RDNFV++YELLDE+MDFGYPQ T
Sbjct:    68 VATSKKNA-CVSLVFSFLYKVVQVFSEYFKELEEESIRDNFVIIYELLDELMDFGYPQTT 126

Query:    60 EANILSEFIKTDAYRMEV-TQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSN 118
             ++ IL E+I  + +++E    RPP  VTNAVSWRSEGI+Y+KNEVFLDV+E VN+LV++N
Sbjct:   127 DSKILQEYITQEGHKLETGAPRPPATVTNAVSWRSEGIKYRKNEVFLDVIESVNLLVSAN 186

Query:   119 GQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLA 178
             G ++RS++VG++KMR +LSGMPE +LGLND++L +  GR  K K+++L+D+KFHQCVRL+
Sbjct:   187 GNVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRG-KSKSVELEDVKFHQCVRLS 245

Query:   179 RFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKER 237
             RFENDRTISFIPPDG F+LM+YRLNT VKPLIW+E+ +E+HS SR+E ++KA+SQFK R
Sbjct:   246 RFENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIEKHSHSRIEYMIKAKSQFKRR 304

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0016192 "vesicle-mediated transport" evidence=IEA

GO:0030131 "clathrin adaptor complex" evidence=IEA

GO:0032438 "melanosome organization" evidence=IEA

GO:0035646 "endosome to melanosome transport" evidence=IEA

UNIPROTKB|Q2KJ81 AP1M1 "AP-1 complex subunit mu-1" [Bos taurus (taxid:9913)]

 Score = 837 (299.7 bits), Expect = 1.5e-83, P = 1.5e-83
 Identities = 150/239 (62%), Positives = 201/239 (84%)

Query:     1 MTASRQNCNAASLLF-FLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYT 59
             +  S++N    SL+F FL++VV VF  YF+ELEEES+RDNFV++YELLDE+MDFGYPQ T
Sbjct:    68 VATSKKNA-CVSLVFSFLYKVVQVFSEYFKELEEESIRDNFVIIYELLDELMDFGYPQTT 126

Query:    60 EANILSEFIKTDAYRMEV-TQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSN 118
             ++ IL E+I  + +++E    RPP  VTNAVSWRSEGI+Y+KNEVFLDV+E VN+LV++N
Sbjct:   127 DSKILQEYITQEGHKLETGAPRPPATVTNAVSWRSEGIKYRKNEVFLDVIESVNLLVSAN 186

Query:   119 GQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLA 178
             G ++RS++VG++KMR +LSGMPE +LGLND++L +  GR  K K+++L+D+KFHQCVRL+
Sbjct:   187 GNVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRG-KSKSVELEDVKFHQCVRLS 245

Query:   179 RFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKER 237
             RFENDRTISFIPPDG F+LM+YRLNT VKPLIW+E+ +E+HS SR+E ++KA+SQFK R
Sbjct:   246 RFENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIEKHSHSRIEYMIKAKSQFKRR 304

GO:0030665 "clathrin-coated vesicle membrane" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0035646 "endosome to melanosome transport" evidence=IEA

GO:0032438 "melanosome organization" evidence=IEA

GO:0030131 "clathrin adaptor complex" evidence=IEA

GO:0016192 "vesicle-mediated transport" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

UNIPROTKB|J9P1I0 AP1M1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 837 (299.7 bits), Expect = 1.5e-83, P = 1.5e-83
 Identities = 150/239 (62%), Positives = 201/239 (84%)

Query:     1 MTASRQNCNAASLLF-FLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYT 59
             +  S++N    SL+F FL++VV VF  YF+ELEEES+RDNFV++YELLDE+MDFGYPQ T
Sbjct:    68 VATSKKNA-CVSLVFSFLYKVVQVFSEYFKELEEESIRDNFVIIYELLDELMDFGYPQTT 126

Query:    60 EANILSEFIKTDAYRMEV-TQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSN 118
             ++ IL E+I  + +++E    RPP  VTNAVSWRSEGI+Y+KNEVFLDV+E VN+LV++N
Sbjct:   127 DSKILQEYITQEGHKLETGAPRPPATVTNAVSWRSEGIKYRKNEVFLDVIESVNLLVSAN 186

Query:   119 GQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLA 178
             G ++RS++VG++KMR +LSGMPE +LGLND++L +  GR  K K+++L+D+KFHQCVRL+
Sbjct:   187 GNVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRG-KSKSVELEDVKFHQCVRLS 245

Query:   179 RFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKER 237
             RFENDRTISFIPPDG F+LM+YRLNT VKPLIW+E+ +E+HS SR+E ++KA+SQFK R
Sbjct:   246 RFENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIEKHSHSRIEYMIKAKSQFKRR 304

GO:0030131 "clathrin adaptor complex" evidence=IEA

GO:0016192 "vesicle-mediated transport" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

UNIPROTKB|Q9BXS5 AP1M1 "AP-1 complex subunit mu-1" [Homo sapiens (taxid:9606)]

 Score = 837 (299.7 bits), Expect = 1.5e-83, P = 1.5e-83
 Identities = 150/239 (62%), Positives = 201/239 (84%)

Query:     1 MTASRQNCNAASLLF-FLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYT 59
             +  S++N    SL+F FL++VV VF  YF+ELEEES+RDNFV++YELLDE+MDFGYPQ T
Sbjct:    68 VATSKKNA-CVSLVFSFLYKVVQVFSEYFKELEEESIRDNFVIIYELLDELMDFGYPQTT 126

Query:    60 EANILSEFIKTDAYRMEV-TQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSN 118
             ++ IL E+I  + +++E    RPP  VTNAVSWRSEGI+Y+KNEVFLDV+E VN+LV++N
Sbjct:   127 DSKILQEYITQEGHKLETGAPRPPATVTNAVSWRSEGIKYRKNEVFLDVIESVNLLVSAN 186

Query:   119 GQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLA 178
             G ++RS++VG++KMR +LSGMPE +LGLND++L +  GR  K K+++L+D+KFHQCVRL+
Sbjct:   187 GNVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRG-KSKSVELEDVKFHQCVRLS 245

Query:   179 RFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKER 237
             RFENDRTISFIPPDG F+LM+YRLNT VKPLIW+E+ +E+HS SR+E ++KA+SQFK R
Sbjct:   246 RFENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIEKHSHSRIEYMIKAKSQFKRR 304

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0030131 "clathrin adaptor complex" evidence=IEA

GO:0019048 "virus-host interaction" evidence=IEA

GO:0030665 "clathrin-coated vesicle membrane" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0032438 "melanosome organization" evidence=IMP

GO:0035646 "endosome to melanosome transport" evidence=IMP

GO:0000139 "Golgi membrane" evidence=TAS

GO:0005765 "lysosomal membrane" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

GO:0006892 "post-Golgi vesicle-mediated transport" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0016044 "cellular membrane organization" evidence=TAS

GO:0019886 "antigen processing and presentation of exogenous peptide antigen via MHC class II" evidence=TAS

GO:0030659 "cytoplasmic vesicle membrane" evidence=TAS

GO:0032588 "trans-Golgi network membrane" evidence=TAS

GO:0050690 "regulation of defense response to virus by virus" evidence=TAS

UNIPROTKB|F2Z5I7 AP1M1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 837 (299.7 bits), Expect = 1.5e-83, P = 1.5e-83
 Identities = 150/239 (62%), Positives = 201/239 (84%)

Query:     1 MTASRQNCNAASLLF-FLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYT 59
             +  S++N    SL+F FL++VV VF  YF+ELEEES+RDNFV++YELLDE+MDFGYPQ T
Sbjct:    68 VATSKKNA-CVSLVFSFLYKVVQVFSEYFKELEEESIRDNFVIIYELLDELMDFGYPQTT 126

Query:    60 EANILSEFIKTDAYRMEV-TQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSN 118
             ++ IL E+I  + +++E    RPP  VTNAVSWRSEGI+Y+KNEVFLDV+E VN+LV++N
Sbjct:   127 DSKILQEYITQEGHKLETGAPRPPATVTNAVSWRSEGIKYRKNEVFLDVIESVNLLVSAN 186

Query:   119 GQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLA 178
             G ++RS++VG++KMR +LSGMPE +LGLND++L +  GR  K K+++L+D+KFHQCVRL+
Sbjct:   187 GNVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRG-KSKSVELEDVKFHQCVRLS 245

Query:   179 RFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKER 237
             RFENDRTISFIPPDG F+LM+YRLNT VKPLIW+E+ +E+HS SR+E ++KA+SQFK R
Sbjct:   246 RFENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIEKHSHSRIEYMIKAKSQFKRR 304

GO:0035646 "endosome to melanosome transport" evidence=IEA

GO:0032438 "melanosome organization" evidence=IEA

GO:0030131 "clathrin adaptor complex" evidence=IEA

GO:0016192 "vesicle-mediated transport" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

MGI|MGI:102776 Ap1m1 "adaptor-related protein complex AP-1, mu subunit 1" [Mus musculus (taxid:10090)]

 Score = 837 (299.7 bits), Expect = 1.5e-83, P = 1.5e-83
 Identities = 151/239 (63%), Positives = 201/239 (84%)

Query:     1 MTASRQNCNAASLLF-FLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYT 59
             +  S++N    SL+F FL++VV VF  YF+ELEEES+RDNFV++YELLDE+MDFGYPQ T
Sbjct:    68 VATSKKNA-CVSLVFSFLYKVVQVFSEYFKELEEESIRDNFVIIYELLDELMDFGYPQTT 126

Query:    60 EANILSEFIKTDAYRMEV-TQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSN 118
             ++ IL E+I  + +++E    RPP  VTNAVSWRSEGI+Y+KNEVFLDV+E VN+LV++N
Sbjct:   127 DSKILQEYITQEGHKLETGAPRPPATVTNAVSWRSEGIKYRKNEVFLDVIEAVNLLVSAN 186

Query:   119 GQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLA 178
             G ++RS++VG++KMR +LSGMPE +LGLND++L +  GR  K K+++L+D+KFHQCVRL+
Sbjct:   187 GNVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRG-KSKSVELEDVKFHQCVRLS 245

Query:   179 RFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKER 237
             RFENDRTISFIPPDG F+LM+YRLNT VKPLIW+E+ +E+HS SR+E +VKA+SQFK R
Sbjct:   246 RFENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIEKHSHSRIEYMVKAKSQFKRR 304

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005802 "trans-Golgi network" evidence=TAS

GO:0006810 "transport" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=TAS

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0016192 "vesicle-mediated transport" evidence=TAS

GO:0030131 "clathrin adaptor complex" evidence=IEA

GO:0031410 "cytoplasmic vesicle" evidence=IEA

GO:0032438 "melanosome organization" evidence=ISO

GO:0035646 "endosome to melanosome transport" evidence=ISO

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Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	250
cd09250	268	cd09250, AP-1_Mu1_Cterm, C-terminal domain of medi	1e-106
cd09258	270	cd09258, AP-1_Mu1A_Cterm, C-terminal domain of med	3e-91
cd09259	264	cd09259, AP-1_Mu1B_Cterm, C-terminal domain of med	6e-85
cd09251	263	cd09251, AP-2_Mu2_Cterm, C-terminal domain of medi	1e-67
pfam00928	228	pfam00928, Adap_comp_sub, Adaptor complexes medium	3e-57
cd09253	271	cd09253, AP-4_Mu4_Cterm, C-terminal domain of medi	8e-46
cd09252	248	cd09252, AP-3_Mu3_Cterm, C-terminal domain of medi	2e-40
cd07954	239	cd07954, AP_MHD_Cterm, C-terminal domain of adapto	1e-39
cd09260	254	cd09260, AP-3_Mu3A_Cterm, C-terminal domain of med	1e-24
cd09261	254	cd09261, AP-3_Mu3B_Cterm, C-terminal domain of med	1e-24
cd09255	308	cd09255, AP-like_stonins_MHD, Mu homology domain (	7e-22
cd09263	314	cd09263, AP_stonin-2_MHD, Mu homology domain (MHD)	2e-14
cd09262	309	cd09262, AP_stonin-1_MHD, Mu homology domain (MHD)	2e-13
cd09256	271	cd09256, AP_MuD_MHD, Mu-homology domain (MHD) of a	0.003

>gnl|CDD|211361 cd09250, AP-1_Mu1_Cterm, C-terminal domain of medium Mu1 subunit in clathrin-associated adaptor protein (AP) complex AP-1

 Score =  307 bits (788), Expect = e-106
 Identities = 119/163 (73%), Positives = 146/163 (89%), Gaps = 2/163 (1%)

Query: 86  TNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLG 145
           TNAVSWR EGI+YKKNEVFLDV+E VN+LV+ NGQ++RS++VG +KMR+YLSGMPE KLG
Sbjct: 1   TNAVSWRPEGIKYKKNEVFLDVIESVNLLVDLNGQVLRSEIVGTIKMRSYLSGMPELKLG 60

Query: 146 LNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQ 205
           LND++L EA GRS+KGKA++L+D+KFHQCVRL+RFENDRTISFIPPDG F+LM+YRL+TQ
Sbjct: 61  LNDKVLFEATGRSSKGKAVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLSTQ 120

Query: 206 VKPLIWVEAQVERHSRSRVEILVKARSQFKERR-CSDINGICI 247
           VKPLIWVE  VERHSRSRVEI+VKA++QFK R   +++  I I
Sbjct: 121 VKPLIWVEPTVERHSRSRVEIMVKAKTQFKRRSTANNVE-IRI 162

AP complexes participate in the formation of intracellular coated transport vesicles and select cargo molecules for incorporation into the coated vesicles in the late secretory and endocytic pathways. There are four AP complexes, AP-1, AP-2, AP-3, and AP-4, described in various eukaryotic organisms. Each AP complex consists of four subunits: two large chains (one each of gamma/alpha/delta/epsilon and beta1-4, respectively), a medium mu chain (mu1-4), and a small sigma chain (sigma1-4). Each of the four subunits from the different AP complexes exhibits similarity with each other. This family corresponds to the C-terminal domain of heterotetrameric clathrin-associated adaptor protein complex 1 (AP-1) medium mu1 subunit, which includes two closely related homologs, mu1A (encoded by ap1m1) and mu1B (encoded by ap1m2). Mu1A is ubiquitously expressed, but mu1B is expressed exclusively in polarized epithelial cells. AP-1 has been implicated in bi-directional transport between the trans-Golgi network (TGN) and endosomes. It plays an essential role in the formation of clathrin-coated vesicles (CCVs) from the trans-Golgi network (TGN). Epithelial cell-specific AP-1 is also involved in sorting to the basolateral surface of polarized epithelial cells. Recruitment of AP-1 to the TGN membrane is regulated by a small GTPase, ADP-ribosylation factor 1 (ARF1). Phosphorylation/dephosphorylation events can also regulate the function of AP-1. The membrane-anchored cargo molecules can be linked to the outer lattice of CCVs by AP-1. Those cargo molecules interact with adaptors through short sorting signals in their cytosolic segments. Tyrosine-based endocytotic signals are one of the most important sorting signals. They are of the form Y-X-X-Phi, where Y is tyrosine, X is any amino acid and Phi is a bulky hydrophobic residue that can be Leu, Ile, Met, Phe, or Val. These kinds of sorting signals can be recognized by the C-terminal domain of AP-1 mu1 subunit, also known as Y-X-X-Phi signal-binding domain that contains two hydrophobic pockets, one for the tyrosine-binding and one for the bulky hydrophobic residue-binding. Length = 268

>gnl|CDD|211369 cd09258, AP-1_Mu1A_Cterm, C-terminal domain of medium Mu1A subunit in ubiquitously expressed clathrin-associated adaptor protein (AP) complex AP-1

 Score =  269 bits (690), Expect = 3e-91
 Identities = 111/164 (67%), Positives = 141/164 (85%), Gaps = 3/164 (1%)

Query: 85  VTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKL 144
           VTNAVSWRSEGI+Y+KNEVFLDV+E VN+LV++NG ++RS++VG++KMR YLSGMPE +L
Sbjct: 1   VTNAVSWRSEGIKYRKNEVFLDVIESVNLLVSANGNVLRSEIVGSIKMRVYLSGMPELRL 60

Query: 145 GLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNT 204
           GLND++L E  GR  K K+++L+D+KFHQCVRL+RFENDRTISFIPPDG F+LM+YRLNT
Sbjct: 61  GLNDKVLFENTGR-GKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNT 119

Query: 205 QVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCSDINGICII 248
            VKPLIW+E+ +ERHS SRVE ++KA+SQFK R  S  N + I 
Sbjct: 120 HVKPLIWIESVIERHSHSRVEYMIKAKSQFKRR--STANNVEIH 161

AP complexes participate in the formation of intracellular coated transport vesicles and select cargo molecules for incorporation into the coated vesicles in the late secretory and endocytic pathways. There are four AP complexes, AP-1, AP-2, AP-3, and AP-4, described in various eukaryotic organisms. Each AP complex consists of four subunits: two large chains (one each of gamma/alpha/delta/epsilon and beta1-4, respectively), a medium mu chain (mu1-4), and a small sigma chain (sigma1-4). Each of the four subunits from the different AP complexes exhibits similarity with each other. This subfamily corresponds to the C-terminal domain of heterotetrameric clathrin-associated adaptor protein complex 1 (AP-1) medium mu1A subunit encoded by ap1m1 gene, which is ubiquitously expressed in all mammalian tissues and cells. AP-1 has been implicated in bidirectional transport between the trans-Golgi network (TGN) and endosomes. It is involved in the formation of clathrin-coated vesicles (CCVs) from the trans-Golgi network (TGN). The ubiquitous AP-1 is recruited to the TGN membrane, as well as to immature secretory granules. Recruitment of AP-1 to the TGN membrane is regulated by a small GTPase, ADP-ribosylation factor 1 (ARF1). Phosphorylation/dephosphorylation events can also regulate the function of AP-1. The membrane-anchored cargo molecules can be linked to the outer lattice of CCVs by AP-1. Those cargo molecules interact with adaptors through short sorting signals in their cytosolic segments. Tyrosine-based endocytotic signals are one of the most important sorting signals. They are of the form Y-X-X-Phi, where Y is tyrosine, X is any amino acid and Phi is a bulky hydrophobic residue that can be Leu, Ile, Met, Phe, or Val. These kinds of sorting signals can be recognized by the C-terminal domain of AP-1 mu1A subunit, also known as Y-X-X-Phi signal-binding domain that contains two hydrophobic pockets, one for the tyrosine-binding and one for the bulky hydrophobic residue-binding. Length = 270

>gnl|CDD|211370 cd09259, AP-1_Mu1B_Cterm, C-terminal domain of medium Mu1B subunit in epithelial cell-specific clathrin-associated adaptor protein (AP) complex AP-1

 Score =  253 bits (648), Expect = 6e-85
 Identities = 108/162 (66%), Positives = 139/162 (85%), Gaps = 3/162 (1%)

Query: 86  TNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLG 145
           TNAVSWRSEGI+YKKNEVF+DV+E VN+LVN+NG ++RS++VGA+K++ +LSGMPE +LG
Sbjct: 1   TNAVSWRSEGIKYKKNEVFIDVIESVNLLVNANGSVLRSEIVGAIKLKVFLSGMPELRLG 60

Query: 146 LNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQ 205
           LNDR+L E  GR  K K ++L+D+KFHQCVRL+RFENDRTISFIPPDG  +LM+YRLNTQ
Sbjct: 61  LNDRVLFELTGRE-KNKTVELEDVKFHQCVRLSRFENDRTISFIPPDGESELMSYRLNTQ 119

Query: 206 VKPLIWVEAQVERHSRSRVEILVKARSQFKERRCSDINGICI 247
           VKPLIW+E+ +E+ S SRVEI+VKA+ QFK++  S  N + I
Sbjct: 120 VKPLIWIESVIEKFSHSRVEIMVKAKGQFKKQ--SVANNVEI 159

AP complexes participate in the formation of intracellular coated transport vesicles and select cargo molecules for incorporation into the coated vesicles in the late secretory and endocytic pathways. There are four AP complexes, AP-1, AP-2, AP-3, and AP-4, described in various eukaryotic organisms. Each AP complex consists of four subunits: two large chains (one each of gamma/alpha/delta/epsilon and beta1-4, respectively), a medium mu chain (mu1-4), and a small sigma chain (sigma1-4). Each of the four subunits from different AP complexes exhibits similarity with each other. This subfamily corresponds to the C-terminal domain of heterotetrameric clathrin-associated adaptor protein complex 1 (AP-1) medium mu1B subunit encoded by ap1m2 gene exclusively expressed in polarized epithelial cells. Epithelial cell-specific AP-1 is used to sort proteins to the basolateral plasma membrane, which involves the formation of clathrin-coated vesicles (CCVs) from the trans-Golgi network (TGN). Recruitment of AP-1 to the TGN membrane is regulated by a small GTPase, ADP-ribosylation factor 1 (ARF1). The phosphorylation/dephosphorylation events can also regulate the function of AP-1. The membrane-anchored cargo molecules can be linked to the outer lattice of CCVs by AP-1. Those cargo molecules interact with adaptors through short sorting signals in their cytosolic segments. Tyrosine-based endocytotic signals are one of the most important sorting signals. They are of the form Y-X-X-Phi, where Y is tyrosine, X is any amino acid and Phi is a bulky hydrophobic residue that can be Leu, Ile, Met, Phe, or Val. These kinds of sorting signals can be recognized by the C-terminal domain of AP-1 mu1B subunit, also known as Y-X-X-Phi signal-binding domain that contains two hydrophobic pockets, one for the tyrosine-binding and one for the bulky hydrophobic reside-binding. Besides, AP-1 mu1B subunit mediates the basolateral recycling of low-density lipoprotein receptor (LDLR) and transferrin receptor (TfR) from the sorting endosomes, where the basolateral sorting signal does not belong to the tyrosine-based signals. Thus, the binding site in mu1B subunit of AP-1 for the signals of LDLR and TfR might be distinct from that for YXXPhi signals. Length = 264

>gnl|CDD|211362 cd09251, AP-2_Mu2_Cterm, C-terminal domain of medium Mu2 subunit in ubiquitously expressed clathrin-associated adaptor protein (AP) complex AP-2

 Score =  209 bits (534), Expect = 1e-67
 Identities = 71/144 (49%), Positives = 102/144 (70%), Gaps = 5/144 (3%)

Query: 98  YKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGR 157
           Y+KNEVFLDVVE VN+L++S G ++R+DV G + M+ +LSGMPECK GLND+++LE +G+
Sbjct: 1   YRKNEVFLDVVESVNLLMSSTGTVLRADVDGVIVMKAFLSGMPECKFGLNDKLVLEKEGK 60

Query: 158 -----STKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWV 212
                     +++LDD KFHQCVRL++F+++RTISFIPPDG F+LM YR+   +     V
Sbjct: 61  AKSGDKAAKGSVELDDCKFHQCVRLSKFDSERTISFIPPDGEFELMRYRITENINLPFKV 120

Query: 213 EAQVERHSRSRVEILVKARSQFKE 236
              V+   R+++E  VK +S F  
Sbjct: 121 LPLVKEVGRTKLEYKVKIKSNFPP 144

AP complexes participate in the formation of intracellular coated transport vesicles and select cargo molecules for incorporation into the coated vesicles in the late secretory and endocytic pathways. There are four AP complexes, AP-1, -2, -3, and -4, described in various eukaryotic organisms. Each AP complex consists of four subunits: two large chains (one each of gamma/alpha/delta/epsilon and beta1-4, respectively), a medium mu chain (mu1-4), and a small sigma chain (sigma1-4). Each of the four subunits from the different AP complexes exhibits similarity with each other. This family corresponds to the C-terminal domain of heterotetrameric clathrin-associated adaptor protein complex 2 (AP-2) medium mu2 subunit. Mu2 is ubiquitously expressed in mammals. In higher eukaryotes, AP-2 plays a critical role in clathrin-mediated endocytosis from the plasma membrane in different cells. The membrane-anchored cargo molecules can be linked to the outer lattice of CCVs by AP-2. Those cargo molecules interact with adaptors through short sorting signals in their cytosolic segments. Tyrosine-based endocytotic signals are one of the most important sorting signals. They are of the form Y-X-X-Phi, where Y is tyrosine, X is any amino acid and Phi is a bulky hydrophobic residue that can be Leu, Ile, Met, Phe, or Val. These kinds of sorting signals can be recognized by the C-terminal domain of AP-2 mu2 subunit, also known as Y-X-X-Phi signal-binding domain that contains two hydrophobic pockets, one for the tyrosine-binding and one for the bulky hydrophobic residue-binding. Since the Y-X-X-Phi binding site is buried in the core structure of AP-2, a phosphorylation induced conformational change is required when the cargo molecules binds to AP-2. In addition, the C-terminal domain of mu2 subunit has been shown to bind other molecules. For instance, it can bind phosphoinositides, in particular PI[4,5]P2, which might be involved in the recognition process of the tyrosine-based signals. It can also interact with synaptotagmins, a family of important modulators of calcium-dependent neurosecretion within the synaptic vesicle (SV) membrane. Since many of the other endocytic adaptors responsible for biogenesis of synaptic vesicles exist, in the absence of AP-2, clathrin-mediated endocytosis can still occur. However, the cells may not survive in the complete absence of clathrin as well as AP-2. Length = 263

>gnl|CDD|216199 pfam00928, Adap_comp_sub, Adaptor complexes medium subunit family

 Score =  181 bits (461), Expect = 3e-57
 Identities = 65/128 (50%), Positives = 88/128 (68%), Gaps = 2/128 (1%)

Query: 89  VSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLND 148
           V WR  GI+YKKNEVFLDV+E V+++V+ +G I+ S++ G +  + YLSGMPE  LGLND
Sbjct: 1   VPWRPSGIKYKKNEVFLDVIERVSVIVDKDGGILNSEIQGTIDCKCYLSGMPELTLGLND 60

Query: 149 RILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKP 208
            + +     S  G  I+LDD+ FH CVRL+RFE++R ISFIPPDG F LM+YR+++ V  
Sbjct: 61  PLNIGKIASSGNG--IELDDVSFHPCVRLSRFESERVISFIPPDGEFTLMSYRISSNVPL 118

Query: 209 LIWVEAQV 216
              V    
Sbjct: 119 PFKVNPSP 126

This family also contains members which are coatomer subunits. Length = 228

>gnl|CDD|211364 cd09253, AP-4_Mu4_Cterm, C-terminal domain of medium Mu4 subunit in adaptor protein (AP) complex AP-4

 Score =  153 bits (390), Expect = 8e-46
 Identities = 58/156 (37%), Positives = 100/156 (64%), Gaps = 1/156 (0%)

Query: 92  RSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRIL 151
           +    Q KKNE+F+DV+E ++++ ++NGQ++ S++ G+++M++YLSG PE +L LN+ ++
Sbjct: 2   KPRSSQDKKNEIFVDVLERLSVVFSANGQVLNSEIDGSIQMKSYLSGNPELRLALNEDLV 61

Query: 152 LEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIW 211
           +  +       A+ LDD  FH+CV L  FE+DRT+S  PPDG F LM YR++ + KP   
Sbjct: 62  IGKRENRAYSSAVVLDDCNFHECVDLEEFESDRTLSLTPPDGEFTLMNYRISGEFKPPFR 121

Query: 212 VEAQVERHSRSRVEILVKARSQFKER-RCSDINGIC 246
           V   VE  S  ++E+++K R+ F  +   +++    
Sbjct: 122 VFPSVEETSPYKLELVLKLRADFPPKVTATNVVVRI 157

AP complexes participate in the formation of intracellular coated transport vesicles and select cargo molecules for incorporation into the coated vesicles in the late secretory and endocytic pathways. There are four AP complexes, AP-1, AP-2, AP-3, and AP-4, described in various eukaryotic organisms. Each AP complex consists of four subunits: two large chains (one each of gamma/alpha/delta/epsilon and beta1-4, respectively), a medium mu chain (mu1-4), and a small sigma chain (sigma1-4). Each of the four subunits from the different AP complexes exhibits similarity with each other. This family corresponds to the C-terminal domain of heterotetrameric adaptor protein complex 4 (AP-4) medium mu4 subunit. AP-4 plays a role in signal-mediated trafficking of integral membrane proteins in mammalian cells. Unlike other AP complexes, AP-4 is found only in mammals and plants. It is believed to be part of a nonclathrin coat, since it might function independently of clathrin, a scaffolding protein participating in the formation of coated vesicles. Recruitment of AP-4 to the trans-Golgi network (TGN) membrane is regulated by a small GTPase, ADP-ribosylation factor 1 (ARF1) or a related protein. Membrane-anchored cargo molecules interact with adaptors through short sorting signals in their cytosolic segments. One of the most important sorting signals binding to mu subunits of AP complexes are tyrosine-based endocytotic signals, which are of the form Y-X-X-Phi, where Y is tyrosine, X is any amino acid and Phi is a bulky hydrophobic residue that can be Leu, Ile, Met, Phe, or Val. However, AP-4 does not bind most canonical tyrosine-based signals except for two naturally occurring ones from the lysosomal membrane proteins CD63 and LAMP-2a. It binds YX [FYL][FL]E motif, where X can be any residue, from the cytosolic tails of amyloid precursor protein (APP) family members in a distinct way. Length = 271

>gnl|CDD|211363 cd09252, AP-3_Mu3_Cterm, C-terminal domain of medium Mu3 subunit in adaptor protein (AP) complex AP-3

 Score =  139 bits (352), Expect = 2e-40
 Identities = 58/147 (39%), Positives = 87/147 (59%), Gaps = 17/147 (11%)

Query: 89  VSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLND 148
           V WR  G++Y  NE+++DVVE ++ +V+ +G+ +  +V G++   + LSGMP+  L LN+
Sbjct: 1   VPWRRAGVKYTNNEIYVDVVEEIDAIVDKSGKPVSGEVSGSIDCNSRLSGMPDLTLSLNN 60

Query: 149 RILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYR--LNTQV 206
                            LDD  FH CVRL+R+E+DR +SFIPPDG F LM+YR  LN+ V
Sbjct: 61  --------------PGLLDDPSFHPCVRLSRWESDRVLSFIPPDGKFTLMSYRVDLNSLV 106

Query: 207 KPLIWVEAQVE-RHSRSRVEILVKARS 232
           +  ++V+ Q+       R EI V  R 
Sbjct: 107 QLPVYVKPQISLGKGGGRFEISVGPRG 133

AP complexes participate in the formation of intracellular coated transport vesicles and select cargo molecules for incorporation into the coated vesicles in the late secretory and endocytic pathways. There are four AP complexes, AP-1, AP-2, AP-3, and AP-4, described in various eukaryotic organisms. Each AP complex consists of four subunits: two large chains (one each of gamma/alpha/delta/epsilon and beta1-4, respectively), a medium mu chain (mu1-4), and a small sigma chain (sigma1-4). Each of the four subunits from the different AP complexes exhibits similarity with each other. This family corresponds to the C-terminal domain of heterotetrameric adaptor protein complex 3 (AP-3) medium mu3 subunit, which includes two closely related homologs, mu3A (P47A, encoded by ap3m1) and mu1B (P47B, encoded by ap3m2). Mu3A is ubiquitously expressed, but mu3B is specifically expressed in neurons and neuroendocrine cells. AP-3 is particularly important for targeting integral membrane proteins to lysosomes and lysome-related organelles at trans-Golgi network (TGN) and/or endosomes, such as the yeast vacuole, fly pigment granules and mammalian melanosomes, platelet dense bodies and the secretory lysosomes of cytotoxic T lymphocytes. Unlike AP-1 and AP-2, which function in conjunction with clathrin which is a scaffolding protein participating in the formation of coated vesicles, the nature of the outer shell of AP-3 containing coats remains to be elucidated. Membrane-anchored cargo molecules interact with adaptors through short sorting signals in their cytosolic segments. Tyrosine-based endocytotic signals are one of the most important sorting signals. They are of the form Y-X-X-Phi, where Y is tyrosine, X is any amino acid and Phi is a bulky hydrophobic residue that can be Leu, Ile, Met, Phe, or Val. These kinds of sorting signals can be recognized by the C-terminal domain of AP-3 mu3 subunit, also known as Y-X-X-Phi signal-binding domain that contains two hydrophobic pockets, one for the tyrosine-binding and one for the bulky hydrophobic residue-binding. Length = 248

>gnl|CDD|211360 cd07954, AP_MHD_Cterm, C-terminal domain of adaptor protein (AP) complexes medium mu subunits and its homologs (MHD)

 Score =  136 bits (345), Expect = 1e-39
 Identities = 58/137 (42%), Positives = 85/137 (62%), Gaps = 13/137 (9%)

Query: 102 EVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKG 161
           EVFLDV+E VN+L++ +G ++ S+VVG + ++++LSGMPE +LGLN+  +          
Sbjct: 1   EVFLDVIEKVNLLISKDGSLLNSEVVGEIALKSFLSGMPEIRLGLNNPDV---------- 50

Query: 162 KAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLN-TQVKPLIWVEAQVERHS 220
             I LDD+ FH CVRL RFE++R ISFIPPDG F+LM+YR    +    I +   V    
Sbjct: 51  -GIKLDDVSFHPCVRLKRFESERIISFIPPDGEFELMSYRTVLEEPILPITIFPVVSEEG 109

Query: 221 RSRVEILVKARSQFKER 237
             R+E+ VK +     +
Sbjct: 110 -GRLEVTVKLKLSESLQ 125

This family corresponds to the C-terminal domain of heterotetrameric AP complexes medium mu subunits and its homologs existing in monomeric stonins, delta-subunit of the heteroheptameric coat protein I (delta-COPI), a protein encoded by a pro-death gene referred as MuD (also known as MUDENG, mu-2 related death-inducing gene), an endocytic adaptor syp1, the mammalian FCH domain only proteins (FCHo1/2), SH3-containing GRB2-like protein 3-interacting protein 1 (SGIP1), and related proteins. AP complexes participate in the formation of intracellular coated transport vesicles and select cargo molecules for incorporation into the coated vesicles in the late secretory and endocytic pathways. Stonins have been characterized as clathrin-dependent AP-2 mu chain related factors and may act as cargo-specific sorting adaptors in endocytosis. Coat protein complex I (COPI)-coated vesicles function in the early secretory pathway. They mediate the retrograde transport from the Golgi to the ER, and intra-Golgi transport. MuD is distantly related to the C-terminal domain of mu2 subunit of AP-2. It is able to induce cell death by itself and plays an important role in cell death in various tissues. Syp1 represents a novel type of endocytic adaptor protein that participates in endocytosis, promotes vesicle tabulation, and contributes to cell polarity and stress responses. It shares the same domain architecture with its two ubiquitously expressed mammalian counterparts, FCHo1/2, which represent key initial proteins ultimately controlling cellular nutrient uptake, receptor regulation, and synaptic vesicle retrieval. They bind specifically to the plasma membrane and recruit the scaffold proteins eps15 and intersectin, which subsequently engage the adaptor complex AP2 and clathrin, leading to coated vesicle formation. Another mammalian neuronal-specific protein SGIP1 does have a C-terminal MHD and has been classified into this family as well. It is an endophilin-interacting protein that plays an obligatory role in the regulation of energy homeostasis. It is also involved in clathrin-mediated endocytosis by interacting with phospholipids and eps15. Length = 239

>gnl|CDD|211371 cd09260, AP-3_Mu3A_Cterm, C-terminal domain of medium Mu3A subunit in ubiquitously expressed adaptor protein (AP) complex AP-3

 Score = 98.3 bits (244), Expect = 1e-24
 Identities = 42/118 (35%), Positives = 72/118 (61%), Gaps = 16/118 (13%)

Query: 89  VSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLG-LN 147
           + WR  G++Y  NE + DVVE ++ +++ +G  + +++ G +     LSGMP+  L  +N
Sbjct: 1   IPWRRAGVKYTNNEAYFDVVEEIDAIIDKSGSTVFAEIQGVIDACIKLSGMPDLSLSFMN 60

Query: 148 DRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQ 205
            R+L               DD+ FH C+R  R+E++R +SFIPPDG+F L++YR+++Q
Sbjct: 61  PRLL---------------DDVSFHPCIRFKRWESERVLSFIPPDGNFRLISYRVSSQ 103

AP complexes participate in the formation of intracellular coated transport vesicles and select cargo molecules for incorporation into the coated vesicles in the late secretory and endocytic pathways. There are four AP complexes, AP-1, AP-2, AP-3, and AP-4, described in various eukaryotic organisms. Each AP complex consists of four subunits: two large chains (one each of gamma/alpha/delta/epsilon and beta1-4, respectively), a medium mu chain (mu1-4), and a small sigma chain (sigma1-4). Each of the four subunits from the different AP complexes exhibits similarity with each other. This subfamily corresponds to the C-terminal domain of heterotetrameric adaptor protein complex 3 (AP-3) medium mu3A subunit encoded by ap3m1gene. Mu3A is ubiquitously expressed in all mammalian tissues and cells. It appears to be localized to the trans-Golgi network (TGN) and/or endosomes and participates in trafficking to the vacuole/lysosome in yeast, flies, and mammals. Unlike AP-1 and AP-2, which function in conjunction with clathrin which is a scaffolding protein participating in the formation of coated vesicles, the nature of the outer shell of ubiquitous AP-3 containing coats remains to be elucidated. Membrane-anchored cargo molecules interact with adaptors through short sorting signals in their cytosolic segments. Tyrosine-based endocytotic signals are one of the most important sorting signals. They are of the form Y-X-X-Phi, where Y is tyrosine, X is any amino acid and Phi is a bulky hydrophobic residue that can be Leu, Ile, Met, Phe, or Val. These kinds of sorting signals can be recognized by the C-terminal domain of AP-3 mu3A subunit, also known as Y-X-X-Phi signal-binding domain that contains two hydrophobic pockets, one for the tyrosine-binding and one for the bulky hydrophobic residue-binding. Length = 254

>gnl|CDD|211372 cd09261, AP-3_Mu3B_Cterm, C-terminal domain of medium Mu3B subunit in neuron-specific adaptor protein (AP) complex AP-3

 Score = 98.2 bits (244), Expect = 1e-24
 Identities = 49/146 (33%), Positives = 82/146 (56%), Gaps = 21/146 (14%)

Query: 89  VSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLG-LN 147
           V WR  G++Y  NE + DV+E ++ +++ +G  I +++ G +     L+GMP+  L  +N
Sbjct: 1   VPWRRTGVKYTNNEAYFDVIEEIDAIIDKSGSTITAEIQGVIDACVKLTGMPDLTLSFMN 60

Query: 148 DRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQ-- 205
            R+L               DD+ FH CVR  R+E++R +SFIPPDG+F L++Y ++ Q  
Sbjct: 61  PRLL---------------DDVSFHPCVRFKRWESERILSFIPPDGNFRLLSYHVSAQNL 105

Query: 206 VKPLIWVEAQV---ERHSRSRVEILV 228
           V   ++V+  +   E  S  R EI +
Sbjct: 106 VAIPVYVKHNISFREGSSLGRFEITL 131

AP complexes participate in the formation of intracellular coated transport vesicles and select cargo molecules for incorporation into the coated vesicles in the late secretory and endocytic pathways. There are four AP complexes, AP-1, AP-2, AP-3, and AP-4, described in various eukaryotic organisms. Each AP complex consists of four subunits: two large chains (one each of gamma/alpha/delta/epsilon and beta1-4, respectively), a medium mu chain (mu1-4), and a small sigma chain (sigma1-4). Each of the four subunits from the different AP complexes exhibits similarity with each other. This subfamily corresponds to the C-terminal domain of heterotetrameric adaptor protein complex 3 (AP-3) medium mu3B subunit encoded by ap3m2 gene. Mu3B is specifically expressed in neurons and neuroendocrine cells. Neuron-specific AP-3 appears to be involved in synaptic vesicle biogenesis from endosomes in neurons and plays an important role in synaptic transmission in the central nervous system. Unlike AP-1 and AP-2, which function in conjunction with clathrin which is a scaffolding protein participating in the formation of coated vesicles, the nature of the outer shell of neuron-specific AP-3 containing coats remains to be elucidated. Membrane-anchored cargo molecules interact with adaptors through short sorting signals in their cytosolic segments. Tyrosine-based endocytotic signals are one of the most important sorting signals. They are of the form Y-X-X-Phi, where Y is tyrosine, X is any amino acid and Phi is a bulky hydrophobic residue that can be Leu, Ile, Met, Phe, or Val. These kinds of sorting signals can be recognized by the C-terminal domain of AP-3 mu3B subunit, also known as Y-X-X-Phi signal-binding domain that contains two hydrophobic pockets, one for the tyrosine-binding and one for the bulky hydrophobic residue-binding. Length = 254

>gnl|CDD|211366 cd09255, AP-like_stonins_MHD, Mu homology domain (MHD) of adaptor-like proteins (AP-like), stonins

 Score = 91.6 bits (228), Expect = 7e-22
 Identities = 50/174 (28%), Positives = 83/174 (47%), Gaps = 28/174 (16%)

Query: 92  RSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRIL 151
           R  G+ Y+++E+ +DVV+     V   G+I++  V   +    +++GMPEC+LGLND   
Sbjct: 2   RDRGLTYREDEITVDVVDEFRGKVTKEGEILKQAVRVRIFCLAFVTGMPECELGLND--- 58

Query: 152 LEAQGR----------STKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDG-SFDLMTY 200
           ++ +GR           +  + I L++++FH CV    FE  R I F P D   F+LM +
Sbjct: 59  IQRKGREVVRRQDIIPVSTEEWIKLENVEFHSCVNKDEFEQSRVIKFHPLDACRFELMRF 118

Query: 201 R--------LNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERR---CSDIN 243
           R        L   VK ++ V+     H   R ++LV   +         C +I 
Sbjct: 119 RVRPPRERELPLTVKSVVSVK---GAHVELRADLLVPGYTSRNPLGQVPCENIM 169

A small family of proteins named stonins has been characterized as clathrin-dependent AP-2 mu2 chain related factors, which may act as cargo-specific sorting adaptors in endocytosis. Stonins include stonin 1 and stonin 2, which are only mammalian homologs of Drosophila stoned B, a presynaptic protein implicated in neurotransmission and synaptic vesicle (SV) recycling. They are conserved from C. elegans to humans, but are not found in prokaryotes or yeasts. This family corresponds to the mu homology domain of stonins, which is distantly related to the C-terminal domain of mu chains among AP complexes. Due to the low degree of sequence conservation of the corresponding binding site, the mu homology domain of stonins is unable to recognize tyrosine-based endocytic sorting signals. To data, little is known about the localization and function of stonin 1. Stonin 2, also known as stoned B, acts as an AP-2-dependent synaptotagmin-specific sorting adaptors for SV endocytosis. Stoned A is not a stonin. It is structurally unrelated to the adaptins and does not appear to have mammalian homologs. It is not included in this family. Length = 308

>gnl|CDD|211374 cd09263, AP_stonin-2_MHD, Mu homology domain (MHD) of adaptor-like protein (AP-like), stonin-2

 Score = 70.7 bits (173), Expect = 2e-14
 Identities = 43/117 (36%), Positives = 65/117 (55%), Gaps = 11/117 (9%)

Query: 95  GIQYKKNEVFLDVV-EHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILL- 152
           G+ Y + E+ +DV  E   IL   + +I++  V+  + + ++LSG+ EC+LGLND IL+ 
Sbjct: 5   GLNYTEEEITVDVRDEFHGILSKGDSRILQHSVLTRIYILSFLSGLAECRLGLND-ILIK 63

Query: 153 --EAQGR-----STKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDG-SFDLMTYR 201
             E   R     +T  K I L + +FH+CV    F N R I F P D   F+LM +R
Sbjct: 64  GNEVVARQDIMPTTTTKWIQLHECRFHECVDEDMFNNSRAILFNPLDACRFELMRFR 120

A small family of proteins named stonins has been characterized as clathrin-dependent AP-2 mu2 chain related factors, which may act as cargo-specific sorting adaptors in endocytosis. Stonins include stonin 1 and stonin 2, which are the only mammalian homologs of Drosophila stoned B, a presynaptic protein implicated in neurotransmission and synaptic vesicle (SV) recycling. They are conserved from C. elegans to humans, but are not found in prokaryotes or yeasts. This family corresponds to the mu homology domain of stonin 2, which is distantly related to the C-terminal domain of mu chains among AP complexes. Due to the low degree of sequence conservation of the corresponding binding site, the mu homology domain of stonin-2 is unable to recognize tyrosine-based endocytic sorting signals. It acts as an AP-2-dependent synaptotagmin-specific sorting adaptor for SV endocytosis. Length = 314

>gnl|CDD|211373 cd09262, AP_stonin-1_MHD, Mu homology domain (MHD) of adaptor-like protein (AP-like), stonin-1 (also called Stoned B-like factor)

 Score = 68.3 bits (167), Expect = 2e-13
 Identities = 35/109 (32%), Positives = 56/109 (51%), Gaps = 5/109 (4%)

Query: 98  YKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILL---EA 154
           Y++ E+ L++V+H    V+  G+++ S V+  +    +++   EC L LND  L    E 
Sbjct: 8   YEEQELSLEIVDHFWGRVDKEGKVMESSVITQIHCLCFVNAPAECFLTLNDLELQKRDED 67

Query: 155 QGRSTKGKA-IDLDDIKFHQCVRLARFENDRTISFIPPDG-SFDLMTYR 201
                 GK  I++ D  FH+CV    F   R I F PPD   F+LM ++
Sbjct: 68  YFEKEAGKLWIEILDYHFHKCVNAQEFHQSRLIKFCPPDACRFELMRFK 116

A small family of proteins named stonins has been characterized as clathrin-dependent AP-2 mu2 chain related factors, which may act as cargo-specific sorting adaptors in endocytosis. Stonins include stonin 1 and stonin 2, which are the only mammalian homologs of Drosophila stoned B, a presynaptic protein implicated in neurotransmission and synaptic vesicle (SV) recycling. They are conserved from C. elegans to humans, but are not found in prokaryotes or yeasts. This family corresponds to the mu homology domain of stonin 1, which is distantly related to the C-terminal domain of mu chains among AP complexes. Due to the low degree of sequence conservation of the corresponding binding site, the mu homology domain of stonin-1 is unable to recognize tyrosine-based endocytic sorting signals. To data, little is known about the localization and function of stonin-1. Length = 309

>gnl|CDD|211367 cd09256, AP_MuD_MHD, Mu-homology domain (MHD) of a adaptor protein (AP) encoded by mu-2 related death-inducing gene, MuD (also known as MUDENG)

 Score = 37.7 bits (88), Expect = 0.003
 Identities = 21/82 (25%), Positives = 31/82 (37%), Gaps = 18/82 (21%)

Query: 125 DVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVR------LA 178
            V G++  +  L G+P+  + L           S       L +I  H CV+      LA
Sbjct: 37  SVFGSVTCKAELEGLPDVTVSL-----------SLPANGSPLQNIIVHPCVQSVDTGMLA 85

Query: 179 RFENDRTISFIPPDGSFDLMTY 200
                  + F PP G+F L  Y
Sbjct: 86  FSGP-YKLRFSPPLGNFQLCHY 106

This family corresponds to the MHD found in a protein encoded by MuD, which is distantly related to the C-terminal domain of the mu2 subunit of AP complexes that participates in clathrin-mediated endocytosis. MuD is evolutionary conserved from mammals to amphibians. It is able to induce cell death by itself and plays an important role in cell death in various tissues. Length = 271

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	250
KOG0938	446	consensus Adaptor complexes medium subunit family	100.0
KOG0937	424	consensus Adaptor complexes medium subunit family	100.0
KOG2740	418	consensus Clathrin-associated protein medium chain	100.0
PF00928	262	Adap_comp_sub: Adaptor complexes medium subunit fa	100.0
KOG2635	512	consensus Medium subunit of clathrin adaptor compl	99.93
KOG2677	922	consensus Stoned B synaptic vesicle biogenesis pro	99.89
PF01217	141	Clat_adaptor_s: Clathrin adaptor complex small cha	99.52
COG5030	152	APS2 Clathrin adaptor complex, small subunit [Intr	98.04
KOG0934	145	consensus Clathrin adaptor complex, small subunit	98.0
KOG0935	143	consensus Clathrin adaptor complex, small subunit	97.67
KOG0936	182	consensus Clathrin adaptor complex, small subunit	97.19
KOG3343	175	consensus Vesicle coat complex COPI, zeta subunit	96.72
PF10291	257	muHD: Muniscin C-terminal mu homology domain; Inte	96.07
COG5541	187	RET3 Vesicle coat complex COPI, zeta subunit [Post	85.91

>KOG0938 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.6e-70  Score=483.68  Aligned_cols=249  Identities=43%  Similarity=0.752  Sum_probs=225.8

Q ss_pred             CeeecCCCCHHHHHHHHHHHHHHHHHhhcccCHHHHHhhHHHHHHHHHHHhcCCeeeecChhhhhhhhcccccccccc--
Q 025655            1 MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEVT--   78 (250)
Q Consensus         1 v~~t~~~~n~~~~~e~L~~l~~~l~~y~g~l~e~~i~~n~~~iyelLdE~id~G~p~~t~~~~Lk~~i~~~~~~~~~~--   78 (250)
                      |++|++|.|.+.++|||..+..++..|||+++|++|++||.+|||+||||+||||||+|+++.|+.+|..++...+-.  
T Consensus        65 vaitksN~Nva~v~eFl~kl~avm~aYfgk~~Eeaiknnf~lI~ElLDemld~G~pqnte~~al~~~is~~~Vrs~g~~l  144 (446)
T KOG0938|consen   65 VAITKSNANVAAVFEFLYKLDAVMNAYFGKDREEAIKNNFVLIYELLDEMLDFGIPQNTEPNALKAQISQKGVRSMGGVL  144 (446)
T ss_pred             EEEecCCCchhhHHHHHHHHHHHHHHHhcccchhhhhhceEeHHHHHHHHHhcCCCccCChhHHHhhhhhhhhhcccccc
Confidence            689999999999999999999999999999999999999999999999999999999999999999999987765411  


Q ss_pred             -------cCC----CCCccccccccccCcccccceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEEeCCCCeEEEEec
Q 025655           79 -------QRP----PMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLN  147 (250)
Q Consensus        79 -------~~~----~~~~~~~~~wR~~~~~~~~nEi~vdV~E~i~~~~~~~G~i~~~~i~G~I~~~s~LsG~P~~~l~ln  147 (250)
                             ++.    +++.+++++||+.|++|+|||+|+||.|+++.+++++|++++++|+|.|.|+++|||||+|++|||
T Consensus       145 s~k~s~~sq~~~~~ssqv~G~i~WRr~Gi~ykknevfldvvErvNlLmS~~GnVLrs~VsG~V~mk~~LSGmPeckfGlN  224 (446)
T KOG0938|consen  145 SSKSSPTSQATELRSSQVTGKIGWRREGIKYKKNEVFLDVVERVNLLMSSDGNVLRSDVSGTVDMKTHLSGMPECKFGLN  224 (446)
T ss_pred             CCcCCCCcccccccccccccccccccccceeccceeEeEehheeeeEEcCCCCEEEeecccEEEEEEeccCCcccccccC
Confidence                   111    145567899999999999999999999999999999999999999999999999999999999999


Q ss_pred             cchhhhhc-cC-----------C-CCCcceeccccccccccccccccCCceeEecCCCCceEEEEEEecCCC-cCcEEEE
Q 025655          148 DRILLEAQ-GR-----------S-TKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQV-KPLIWVE  213 (250)
Q Consensus       148 ~~~~~~~~-~~-----------~-~~~~~~~l~d~~fH~cV~~~~~~~~r~i~F~PPdg~F~Lm~Yr~~~~~-~P~~~v~  213 (250)
                      |++.+... +.           + ++...+.|+||+||+||++++|++++.|+|+||||+|+||+||++.++ +||. +.
T Consensus       225 Dkl~~e~kq~esks~~~n~~~~sks~~g~v~leDc~FHqCV~L~kFn~eh~IsFvPPDGe~ELMkYr~~enInlPFr-V~  303 (446)
T KOG0938|consen  225 DKLGMESKQSESKSDFGNKNFPSKSGKGSVLLEDCTFHQCVRLDKFNSEHIISFVPPDGEFELMKYRVTENINLPFR-VT  303 (446)
T ss_pred             cccceeeccccccccccccCCCcccCCceEEeeccchheeeccccccccceEEEeCCCCceEeEeeeeccCcccceE-ee
Confidence            99877632 11           0 233458999999999999999999999999999999999999999987 8886 57


Q ss_pred             EEEEECcceEEEEEEEEeecCCccccc-ceeEEeecCC
Q 025655          214 AQVERHSRSRVEILVKARSQFKERRCS-DINGICIICT  250 (250)
Q Consensus       214 ~~~~~~~~~~~e~~v~l~~~~~~~~~a-~v~i~ip~p~  250 (250)
                      |.++..+.+++||++.+++.|+++..| +++++||+|+
T Consensus       304 PiV~el~r~kie~ri~iks~f~~kl~a~~v~~rIPvP~  341 (446)
T KOG0938|consen  304 PIVTELGRTKIEYRITIKSLFPPKLLAKDVVVRIPVPP  341 (446)
T ss_pred             eheecccceeEEEEEEEeccCCchhhhcceEEEecCCC
Confidence            999998889999999999999998888 9999999995

>KOG0937 consensus Adaptor complexes medium subunit family [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=4.5e-61  Score=438.61  Aligned_cols=250  Identities=58%  Similarity=1.003  Sum_probs=231.7

Q ss_pred             CeeecCCCCHHHHHHHHHHHHHHHHHhhcccCHHHHHhhHHHHHHHHHHHhcCCeeeecChhhhhhhhccccccccc-cc
Q 025655            1 MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEV-TQ   79 (250)
Q Consensus         1 v~~t~~~~n~~~~~e~L~~l~~~l~~y~g~l~e~~i~~n~~~iyelLdE~id~G~p~~t~~~~Lk~~i~~~~~~~~~-~~   79 (250)
                      |++++.|+|++.+++||++++.++.+||+.+.|+.+++||.++||+|||+|||||||.|+.+.|++|+.++++..+. +.
T Consensus        66 v~~~~~n~~a~~v~~~l~~~~~v~~~y~~~l~e~si~~n~vlvyElLde~mDFGypQ~t~s~iL~~yi~~~~~~l~~~~~  145 (424)
T KOG0937|consen   66 VAGTRPNVSAALVLSFLYAVADVFGDYLSELEEESIRDNFVLVYELLDEVMDFGYPQTTDSEILKNYITQKANRLQDAQP  145 (424)
T ss_pred             EEEeccCCCHHHHHHHHHHHHHHHHHHhccCCccceecchHHHHHHHHHHhccCCcccchHHHHHHHhcccccceeecCC
Confidence            57789999999999999999999999999999999999999999999999999999999999999999999776543 23


Q ss_pred             CCCCCccccccccccCcccccceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEEeCCCCeEEEEeccchhhhhccCCC
Q 025655           80 RPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRST  159 (250)
Q Consensus        80 ~~~~~~~~~~~wR~~~~~~~~nEi~vdV~E~i~~~~~~~G~i~~~~i~G~I~~~s~LsG~P~~~l~ln~~~~~~~~~~~~  159 (250)
                      +++.+.+++++||+.|++|+|||+|+||+|+++++++++|.++.++|.|+|+|||+|+|||+++|+||+....+..+..+
T Consensus       146 ~~p~avtnavsWrs~gi~~~KnevflDViE~Vs~l~~~~G~vl~s~i~G~I~~k~~LsGmPelrl~ln~~~~~~~~~~~~  225 (424)
T KOG0937|consen  146 RPPLAVTNAVSWRSEGIYYGKNEVFLDVIESVSLLYDSNGIVLLSEIVGTIKLKCYLSGMPELRLGLNDKVLFDKQGPRS  225 (424)
T ss_pred             CCCcccccceeecccccccccceEEEEhhhhhhHhhhcCCcEEEeeeeeEEEEEEEcCCCceeeeecCcccccccccccc
Confidence            67888899999999999999999999999999999999999999999999999999999999999999998877666555


Q ss_pred             CCcceeccccccccccccccccCCceeEecCCCCceEEEEEEecCCCcCcEEEEEEEEECcceEEEEEEEEeecCCcccc
Q 025655          160 KGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRC  239 (250)
Q Consensus       160 ~~~~~~l~d~~fH~cV~~~~~~~~r~i~F~PPdg~F~Lm~Yr~~~~~~P~~~v~~~~~~~~~~~~e~~v~l~~~~~~~~~  239 (250)
                      .+..+.++|++||+||++++|+.+|+|+|+||||+|+||+||.+....|++.+....+.++..++++.+++++.|+++..
T Consensus       226 ~s~~v~ledi~fh~~v~l~~fd~dr~i~FiPPdGeF~Lm~Y~ls~~vkPli~~~~~~~~~~~~ri~i~~K~~~~fk~~~~  305 (424)
T KOG0937|consen  226 KSKGVELEDIKFHECVRLSRFDNDRTISFIPPDGEFELMRYRLSTHVKPLIWFYQLIEEHSRSRIEVMVKLREQFKSRSS  305 (424)
T ss_pred             cCcceEeeecccceeechhhccCCceEEecCCCCceEEEEEEecCCCCCeEEeeeeeeeccceeEEEEEechhhcCCccc
Confidence            55789999999999999999999999999999999999999999988899887665666777899999999999999988


Q ss_pred             c-ceeEEeecCC
Q 025655          240 S-DINGICIICT  250 (250)
Q Consensus       240 a-~v~i~ip~p~  250 (250)
                      | ++.|.+|+|.
T Consensus       306 a~~v~I~iP~P~  317 (424)
T KOG0937|consen  306 ANNVEICIPVPD  317 (424)
T ss_pred             cceEEEEeeCCC
Confidence            8 8899999994

>KOG2740 consensus Clathrin-associated protein medium chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=2.6e-52  Score=370.97  Aligned_cols=218  Identities=39%  Similarity=0.732  Sum_probs=193.4

Q ss_pred             CeeecCCCCHHHHHHHHHHHHHHHHHhhcccCHHHHHhhHHHHHHHHHHHhcCCeeeecChhhhhhhhccccccccc---
Q 025655            1 MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEV---   77 (250)
Q Consensus         1 v~~t~~~~n~~~~~e~L~~l~~~l~~y~g~l~e~~i~~n~~~iyelLdE~id~G~p~~t~~~~Lk~~i~~~~~~~~~---   77 (250)
                      |+++..++.|++++|||+|+++++++|||+++|.+|++|+..||||||||+|+|||..||+|.||++|+.++...+.   
T Consensus        68 ~~~st~e~pPL~~iefL~rv~dv~~eyFg~~s~~~Ik~N~~vv~ell~emiDnGfpl~tE~NiLke~i~pps~l~~~~~s  147 (418)
T KOG2740|consen   68 CAVSTVETPPLMVIEFLHRVVDVLLEYFGGLSESKIKDNVVVVYELLDEMIDNGFPLVTEPNILKELIPPPSFLSKKFNS  147 (418)
T ss_pred             EEEEeccCCChhHHHHHHHHHHHHHHHhcccCHhHhhcceeeHHHHHHHHHHcCCCcccChhHHHhhcCChHHHHHHHhh
Confidence            46788899999999999999999999999999999999999999999999999999999999999999999877632   


Q ss_pred             -------ccCCCCCccccccccccCcccccceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEEeCCCCeEEEEeccch
Q 025655           78 -------TQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRI  150 (250)
Q Consensus        78 -------~~~~~~~~~~~~~wR~~~~~~~~nEi~vdV~E~i~~~~~~~G~i~~~~i~G~I~~~s~LsG~P~~~l~ln~~~  150 (250)
                             +.+.|+++.+.+|||+.+.+|.+||.||||.|+++|+++++|..+.++|.|.|.|+|.|+|||++.|.|+++.
T Consensus       148 vTg~~n~~~~lPtg~~s~VPWR~~~~Ky~nNE~yvdvlEeidai~~k~gslv~~eI~g~vd~~~qLsgmPdltlsl~np~  227 (418)
T KOG2740|consen  148 VTGNSNVSDTLPTGALSNVPWRTAGVKYTNNEAYVDVLEEIDAIVDKKGSLVFGEIQGIVDVCSQLSGMPDLTLSLNNPR  227 (418)
T ss_pred             hhccccccccCCCcccccccccccCcccccchhhhhhhheeheEecCCCCEEEEEEEEEEEEEEeecCCCceEEEccCcc
Confidence                   2356777888899999999999999999999999999999999999999999999999999999999998763


Q ss_pred             hhhhccCCCCCcceeccccccccccccccccCCceeEecCCCCceEEEEEEecCC--C-cCcEEEEEEEEECcce--EEE
Q 025655          151 LLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQ--V-KPLIWVEAQVERHSRS--RVE  225 (250)
Q Consensus       151 ~~~~~~~~~~~~~~~l~d~~fH~cV~~~~~~~~r~i~F~PPdg~F~Lm~Yr~~~~--~-~P~~~v~~~~~~~~~~--~~e  225 (250)
                                    .|+|++|||||+.++|++++.|+|+||||+|+||+||++..  . +|.. +.+.+.-.+..  +++
T Consensus       228 --------------~L~dvsfHpcVr~krwe~~~~lsFIPPDGkFrLlsy~v~~~~~v~~pvy-v~~~i~l~~~~~~ri~  292 (418)
T KOG2740|consen  228 --------------LLGDVSFHPCVRYKRWESHSVLSFIPPDGKFRLLSYRVDAQNQVAIPVY-VKNSISLDSNHQGRIS  292 (418)
T ss_pred             --------------ccCCcccccceeecccccccceEEcCCCCcEEEEEEEEehhhccccceE-EeeeeccCCCceEEEE
Confidence                          48999999999999999999999999999999999999754  2 6664 57877765433  444


Q ss_pred             EEEEEeec
Q 025655          226 ILVKARSQ  233 (250)
Q Consensus       226 ~~v~l~~~  233 (250)
                      +.+..+..
T Consensus       293 ~tvg~~~~  300 (418)
T KOG2740|consen  293 LTVGPKKK  300 (418)
T ss_pred             Eecccccc
Confidence            44444433

>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

Probab=100.00  E-value=2.7e-38  Score=278.90  Aligned_cols=155  Identities=39%  Similarity=0.760  Sum_probs=127.0

Q ss_pred             ccccccCcccccceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEEeCCCCeEEEEeccchhhhhccCCCCCcceeccc
Q 025655           89 VSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDD  168 (250)
Q Consensus        89 ~~wR~~~~~~~~nEi~vdV~E~i~~~~~~~G~i~~~~i~G~I~~~s~LsG~P~~~l~ln~~~~~~~~~~~~~~~~~~l~d  168 (250)
                      +|||+.+.+|++|||||||.|+++++++++|.++.++|.|+|+|+++|+|+|+|+|+||+....       ...++.++|
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            5899999999999999999999999999999999999999999999999999999999998432       125678999


Q ss_pred             cccccccccccccCCceeEecCCCCceEEEEEEecCCCcCcEEEEEEEEECcceEEEEEEEEeecCCcc-cccceeEEee
Q 025655          169 IKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKER-RCSDINGICI  247 (250)
Q Consensus       169 ~~fH~cV~~~~~~~~r~i~F~PPdg~F~Lm~Yr~~~~~~P~~~v~~~~~~~~~~~~e~~v~l~~~~~~~-~~a~v~i~ip  247 (250)
                      ++||+|||++.|+++|.|+|+||||+|+||+||++....+|+.+.|++...+++++++.++++++++.. ...++.|+||
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            999999999999999999999999999999999988775555679999986677999999999999874 4559999999


Q ss_pred             cCC
Q 025655          248 ICT  250 (250)
Q Consensus       248 ~p~  250 (250)
                      +|.
T Consensus       154 lP~  156 (262)
T PF00928_consen  154 LPP  156 (262)
T ss_dssp             --T
T ss_pred             cCC
Confidence            993

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 ....

>KOG2635 consensus Medium subunit of clathrin adaptor complex [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.93  E-value=1.2e-24  Score=198.49  Aligned_cols=231  Identities=17%  Similarity=0.274  Sum_probs=185.7

Q ss_pred             CeeecCCCCHHHHHHHHHHHHHHHHHhhcccCHHHHHhhHHHHHHHHHHHhcCCeeeecChhhhhhhhccccccccccc-
Q 025655            1 MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEVTQ-   79 (250)
Q Consensus         1 v~~t~~~~n~~~~~e~L~~l~~~l~~y~g~l~e~~i~~n~~~iyelLdE~id~G~p~~t~~~~Lk~~i~~~~~~~~~~~-   79 (250)
                      |.+|+++.|++.++++|+.|.+++..||..+.|..|.+|.+.+...|||++..||..+.+..|+|.|..|++|+++++. 
T Consensus        67 vLITtk~SNIleDl~TL~Lfskvipey~~slde~eI~~~~FelifAFDEivsLGyre~v~laQikty~eMdSHEEKi~e~  146 (512)
T KOG2635|consen   67 VLITTKQSNILEDLETLRLFSKVIPEYCSSLDEKEILENAFELIFAFDEIVSLGYRENVNLAQIKTYLEMDSHEEKIHEL  146 (512)
T ss_pred             EEEeccccchhhHHHHHHHHHHhchhhhhhhhHHHHHHhhhhhhhccchhhhhcccccccHHHhhhhhccccHHHHHHHH
Confidence            5789999999999999999999999999999999999999999999999999999999999999999999999887420 


Q ss_pred             --------------------------------------------------------------CCC---CCc-cccccccc
Q 025655           80 --------------------------------------------------------------RPP---MAV-TNAVSWRS   93 (250)
Q Consensus        80 --------------------------------------------------------------~~~---~~~-~~~~~wR~   93 (250)
                                                                                    +.+   +++ ..+.|-+.
T Consensus       147 v~~nke~ea~q~mkrKaKElqr~r~ea~rrgg~~~~~~~~~~s~g~~~~s~~~~~~~~~~~~~~~~~~sa~~~~s~pak~  226 (512)
T KOG2635|consen  147 VMRNKEREAKQEMKRKAKELQRARKEAERRGGSLNPGFDAIGSSGYSSVSTTNAINRVESIAQKPKQQSAAKASSAPAKA  226 (512)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHhhhccccccCCCccccccccccCCcccchhhccccccccccccccccCCCCCchh
Confidence                                                                          000   000 00001000


Q ss_pred             --cC---------------------------------------cccccceEEEEEEEeEEEEEccCCcEEEEEEEEEEEE
Q 025655           94 --EG---------------------------------------IQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKM  132 (250)
Q Consensus        94 --~~---------------------------------------~~~~~nEi~vdV~E~i~~~~~~~G~i~~~~i~G~I~~  132 (250)
                        .|                                       ..-.++-+++.+.|++++.+++||.+-+.++.|.+.+
T Consensus       227 mklG~k~~~s~~~~d~Lk~ege~ia~~~s~~g~~s~aap~~~~p~v~~e~v~i~ieEkln~~~~RDGgi~s~E~qG~lsL  306 (512)
T KOG2635|consen  227 MKLGKKTKNSDTFVDKLKGEGERIAGASSAIGSASSAAPPPTAPDVPEESVHIVIEEKLNVRLSRDGGIKSGEVQGTLSL  306 (512)
T ss_pred             hhhcccccchhhHHHHhhccccccccccccccccccCCCCCCCCCCccceEEEEEeeeEeEEEcccCCccceeeeeeEEE
Confidence              00                                       0012334999999999999999999999999999999


Q ss_pred             EEEeCCCCeEEEEeccchhhhhccCCCCCcceeccccccccccccccccCCceeEecCCCCce------EEEEEEecCC-
Q 025655          133 RTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSF------DLMTYRLNTQ-  205 (250)
Q Consensus       133 ~s~LsG~P~~~l~ln~~~~~~~~~~~~~~~~~~l~d~~fH~cV~~~~~~~~r~i~F~PPdg~F------~Lm~Yr~~~~-  205 (250)
                      +..-.--..+.|.|++..          ..+   .++++||.+|++.|.++..|...+|+..|      .|++||.... 
T Consensus       307 rI~d~e~~~i~lkl~n~~----------~~g---~q~ktHPNlDK~~f~s~s~iglk~~~K~FPvn~~VGvLkWR~~~~d  373 (512)
T KOG2635|consen  307 RIKDEEYGDIELKLANGR----------DKG---TQLKTHPNLDKKVFLSSSLIGLKRPEKPFPVNSDVGVLKWRMVDED  373 (512)
T ss_pred             EEccccccceEEEEcCCC----------Ccc---eeeeeCCCcchhhhccccccccccCCCCCCcCCcceEEEEeecccc
Confidence            998888888888887642          122   57899999999999999999999999999      8999998653 


Q ss_pred             --CcCcEEEEEEEEECcce---EEEEEEEEeecCCcccccceeEEeecCC
Q 025655          206 --VKPLIWVEAQVERHSRS---RVEILVKARSQFKERRCSDINGICIICT  250 (250)
Q Consensus       206 --~~P~~~v~~~~~~~~~~---~~e~~v~l~~~~~~~~~a~v~i~ip~p~  250 (250)
                        ..|+ .++||+++.+..   .+||++...+     ..+||.|.||+|+
T Consensus       374 es~iPl-TincWPSes~~g~dV~iEYe~~~~~-----eL~dV~i~iPlP~  417 (512)
T KOG2635|consen  374 ESEIPL-TINCWPSESGNGYDVNIEYEAVLEC-----ELNDVIITIPLPA  417 (512)
T ss_pred             cccCce-EEEeccccCCCCeEEEEEEeehhcc-----cccceEEEeeccc
Confidence              3666 679999987632   6777764344     3589999999995

>KOG2677 consensus Stoned B synaptic vesicle biogenesis protein [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.89  E-value=1.9e-24  Score=204.03  Aligned_cols=154  Identities=29%  Similarity=0.513  Sum_probs=127.0

Q ss_pred             CcccccceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEEeCCCCeEEEEeccchhhhhc-------cCCCCCcceecc
Q 025655           95 GIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQ-------GRSTKGKAIDLD  167 (250)
Q Consensus        95 ~~~~~~nEi~vdV~E~i~~~~~~~G~i~~~~i~G~I~~~s~LsG~P~~~l~ln~~~~~~~~-------~~~~~~~~~~l~  167 (250)
                      ...|..+||.|||.++.++.++++|+++...|..+|+|.|||+|.|+|.|||||..+.+.+       .+.....||+|.
T Consensus       581 k~nY~e~EI~v~~~Defsg~V~Keg~~~~~~v~tri~cL~FlsG~~ec~lgLND~~~kg~Eiv~rkDimp~~t~kwI~~~  660 (922)
T KOG2677|consen  581 KSNYLEEEITVDVRDEFSGIVSKEGQILQHHVLTRIHCLSFLSGLAECRLGLNDILVKGNEIVLRKDIMPTTTTKWIKLH  660 (922)
T ss_pred             ccccccceeEEEEEeccceeecccchhhhhhhhhhhhhhhhccCCceeEeecchhhhcccceeEeccccccccccceeee
Confidence            3479999999999999999999999999999999999999999999999999999875543       122456899999


Q ss_pred             ccccccccccccccCCceeEecCCCC-ceEEEEEEecCC--CcCcEEEEEEEEECcceEEEEE--EEEeecCCc------
Q 025655          168 DIKFHQCVRLARFENDRTISFIPPDG-SFDLMTYRLNTQ--VKPLIWVEAQVERHSRSRVEIL--VKARSQFKE------  236 (250)
Q Consensus       168 d~~fH~cV~~~~~~~~r~i~F~PPdg-~F~Lm~Yr~~~~--~~P~~~v~~~~~~~~~~~~e~~--v~l~~~~~~------  236 (250)
                      +|.||.|||.+.|+++|+|.|.|||| +|+|||||+-.+  .+||.+ +..+...| .++|+.  +++.+.|..      
T Consensus       661 ~~~FH~cVn~~eF~~srVI~F~PlDaCrFElMRFrt~~~~~~lpftl-ks~~~V~G-a~VEvq~~~~mat~~qr~rd~~~  738 (922)
T KOG2677|consen  661 ECRFHGCVNEDEFHNSRVILFNPLDACRFELMRFRTVFAEKTLPFTL-KSATSVNG-AEVEVQSWLRMATGFQRNRDPLT  738 (922)
T ss_pred             eeeeecccchhhccccceEEecCcccceeeeeeeeeecCCCcCceee-eeeeeecc-ceeehHHHHHHHhhhhhccCccc
Confidence            99999999999999999999999999 899999999644  588864 66666554 345553  334444422      


Q ss_pred             -ccccceeEEeecCC
Q 025655          237 -RRCSDINGICIICT  250 (250)
Q Consensus       237 -~~~a~v~i~ip~p~  250 (250)
                       ..+.|+.|+.|+|.
T Consensus       739 ~vpCenI~IrfPVPs  753 (922)
T KOG2677|consen  739 QVPCENIMIRFPVPS  753 (922)
T ss_pred             cCcccceeEeccCcH
Confidence             23569999999984

>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

Probab=99.52  E-value=2.2e-14  Score=115.71  Aligned_cols=71  Identities=34%  Similarity=0.571  Sum_probs=64.7

Q ss_pred             CeeecCCCCHHHHHHHHHHHHHHHHHhhcccCHHHHHhhHHHHHHHHHHHhcCCeeeecChhhhhhhhccc
Q 025655            1 MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTD   71 (250)
Q Consensus         1 v~~t~~~~n~~~~~e~L~~l~~~l~~y~g~l~e~~i~~n~~~iyelLdE~id~G~p~~t~~~~Lk~~i~~~   71 (250)
                      +++++.+.|+++++++|+++.+++++|||+++|..|++||..+|++|||++|+|+|+.|+++.+.+.+.+.
T Consensus        68 ~~v~~~~eNel~~~e~l~~~v~~l~~~~~~v~e~~i~~N~~~v~~~LDEiid~G~i~etd~~~I~~~v~~~  138 (141)
T PF01217_consen   68 VVVGDENENELLLLEFLHRLVEVLDDYFGNVSEKDILENFDLVYLILDEIIDGGIILETDPNVILKRVTMQ  138 (141)
T ss_dssp             EEEESSTSBHHHHHHHHHHHHHHHHHHHSS-SHHHHHHTHHHHHHHHHHHEETTEES--THHHHHHHHHHC
T ss_pred             EEEeecccchHHHHHHHHHhhhhhhhhhccccHHHHHHCHHHHHHHHHHHHhCCEEEECCHHHHHHHHHHh
Confidence            47889999999999999999999999999999999999999999999999999999999999999888664

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.

>COG5030 APS2 Clathrin adaptor complex, small subunit [Intracellular trafficking and secretion]

Probab=98.04  E-value=5.5e-06  Score=65.79  Aligned_cols=64  Identities=27%  Similarity=0.333  Sum_probs=58.8

Q ss_pred             eeecCCCCHHHHHHHHHHHHHHHHHhhcccCHHHHHhhHHHHHHHHHHHhcCCeeeecChhhhh
Q 025655            2 TASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILS   65 (250)
Q Consensus         2 ~~t~~~~n~~~~~e~L~~l~~~l~~y~g~l~e~~i~~n~~~iyelLdE~id~G~p~~t~~~~Lk   65 (250)
                      ++.+.+.|-+.+|+++|.|.+.+..|||+++|-.+.-||-.+|-+||||+-+|-.+.++++.+-
T Consensus        69 f~Vd~~dnEl~iL~lIh~FVE~lDr~FgnVCELdlIFNF~kv~~ILdE~i~gG~i~Es~~~~vl  132 (152)
T COG5030          69 FGVDNDDNELIILELIHNFVEILDRFFGNVCELDLIFNFQKVYAILDEMILGGEIIESSKNEVL  132 (152)
T ss_pred             EEEcCCCCcchHHHHHHHHHHHHHHHhccceeeEeEeeHHHHHHHHHHHHhCCeeeecCHHHHH
Confidence            4556678999999999999999999999999999999999999999999999999999987553

>KOG0934 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.00  E-value=3.7e-06  Score=66.63  Aligned_cols=60  Identities=32%  Similarity=0.407  Sum_probs=55.1

Q ss_pred             eecCCCCHHHHHHHHHHHHHHHHHhhcccCHHHHHhhHHHHHHHHHHHhcCCeeeecChh
Q 025655            3 ASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEAN   62 (250)
Q Consensus         3 ~t~~~~n~~~~~e~L~~l~~~l~~y~g~l~e~~i~~n~~~iyelLdE~id~G~p~~t~~~   62 (250)
                      ....+.|-+.++|++|++.+++..|||+++|-.|.-||..+|.+|||.+-.|-.|.+..+
T Consensus        70 ~v~~~dNEL~~LE~IH~~vE~lDkYFg~VCELDiiFNfekay~ILde~~~~g~~~e~~k~  129 (145)
T KOG0934|consen   70 GVEDNDNELAILEFIHNYVELLDKYFGSVCELDIIFNFEKAYFILDEFLLGGEIQETSKN  129 (145)
T ss_pred             EEecCCchhhHHHHHHHHHHHHHHHhccceeeEEEEehHhHHHHHHHHhcCcchHhhhcc
Confidence            344789999999999999999999999999999999999999999999999987777655

>KOG0935 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.67  E-value=2.8e-05  Score=60.34  Aligned_cols=61  Identities=28%  Similarity=0.337  Sum_probs=55.2

Q ss_pred             cCCCCHHHHHHHHHHHHHHHHHhhcccCHHHHHhhHHHHHHHHHHHhcCCeeeecChhhhh
Q 025655            5 RQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILS   65 (250)
Q Consensus         5 ~~~~n~~~~~e~L~~l~~~l~~y~g~l~e~~i~~n~~~iyelLdE~id~G~p~~t~~~~Lk   65 (250)
                      ....|-+..++-+|.|+++|.+|||+++|-.+.-||-.+|-++|||+=+|..|.|+...+-
T Consensus        73 d~tDnelayLe~IHlFVEvLd~fF~NVCELDlvFNFyKVy~i~DEm~l~GEi~Etsk~~vl  133 (143)
T KOG0935|consen   73 DVTDNELAYLEHIHLFVEVLDEFFHNVCELDLVFNFYKVYTIVDEMFLAGEIRETSKTKVL  133 (143)
T ss_pred             ecCCchHHHHHHHHHHHHHHHHHhccccceeeeeeeeeHHHHHHHHHHhhhhhhhhHHHHH
Confidence            3456778899999999999999999999999999999999999999999999999876543

>KOG0936 consensus Clathrin adaptor complex, small subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.19  E-value=0.00098  Score=53.91  Aligned_cols=72  Identities=18%  Similarity=0.184  Sum_probs=64.3

Q ss_pred             CeeecCCCCHHHHHHHHHHHHHHHHHhhcccCHHHHHhhHHHHHHHHHHHhcCCeeeecChhhhhhhhcccc
Q 025655            1 MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDA   72 (250)
Q Consensus         1 v~~t~~~~n~~~~~e~L~~l~~~l~~y~g~l~e~~i~~n~~~iyelLdE~id~G~p~~t~~~~Lk~~i~~~~   72 (250)
                      |.+.+...+-+-++++++-|++.|...|..++|-.+.-|+..++.+|+|++-+|....|+.+.+-.-+...+
T Consensus        74 vfvvD~sEsEL~iLDLIQvfVEtLDkCF~nVcELDliF~~~k~h~iL~EiV~GGmVlETn~neIv~av~~~n  145 (182)
T KOG0936|consen   74 VFVVDSSESELGILDLIQVFVETLDKCFENVCELDLIFNWQKVHAILAEIVMGGMVLETNMNEIVAAVDEQN  145 (182)
T ss_pred             EEEEcCCcchhHHHHHHHHHHHHHHHHHHhhhhhhheeeHHHHHHHHHHHHhCCeEEeccHHHHHHHHHHhc
Confidence            356677888899999999999999999999999999999999999999999999999999987766665543

>KOG3343 consensus Vesicle coat complex COPI, zeta subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.72  E-value=0.0024  Score=52.10  Aligned_cols=70  Identities=20%  Similarity=0.299  Sum_probs=60.1

Q ss_pred             ecCCCCHHHHHHHHHHHHHHHHHhhcc-cCHHHHHhhHHHHHHHHHHHhcCCeeeecChhhhhhhhccccc
Q 025655            4 SRQNCNAASLLFFLHRVVDVFKHYFEE-LEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAY   73 (250)
Q Consensus         4 t~~~~n~~~~~e~L~~l~~~l~~y~g~-l~e~~i~~n~~~iyelLdE~id~G~p~~t~~~~Lk~~i~~~~~   73 (250)
                      -..+.|-++..+.|+.|.+.+.-.+.+ +....+.+|++.|.-.+||++|.|....||++++-.-+...+.
T Consensus        78 G~~~ENEl~L~svL~~l~dal~llLr~nveKr~llEN~D~i~L~~DEiiD~GvILEtdp~~ia~rv~~~~~  148 (175)
T KOG3343|consen   78 GSEEENELMLMSVLTCLFDALSLLLRKNVEKRELLENLDLIFLALDEIIDGGVILETDPNQIAQRVALRPT  148 (175)
T ss_pred             cCcchhHHHHHHHHHHHHHHHHHHHHhChhHHHHHhhhccceeehhhhccCceEEecCHHHHHHHhccCCC
Confidence            345678888999999998888887765 7777899999999999999999999999999998887776644

>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

Probab=96.07  E-value=0.46  Score=42.18  Aligned_cols=131  Identities=15%  Similarity=0.164  Sum_probs=67.1

Q ss_pred             EEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEEeCC------CCeEEEEeccchhhhhccCCCCCcceeccccccccccc
Q 025655          103 VFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSG------MPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVR  176 (250)
Q Consensus       103 i~vdV~E~i~~~~~~~G~i~~~~i~G~I~~~s~LsG------~P~~~l~ln~~~~~~~~~~~~~~~~~~l~d~~fH~cV~  176 (250)
                      +...|.|.|+|.+. +|.+.++.|.|+|.+.---.-      .+.+.+.|++-..              |+.+.-.+..=
T Consensus         3 l~asi~E~VnA~Fk-~g~~~~v~v~GEv~ls~~~~~~~~~~~~~~l~~rl~n~~~--------------le~i~pN~~~v   67 (257)
T PF10291_consen    3 LNASITETVNAYFK-GGQLSKVKVTGEVALSYPAGISSSLTSPPPLSFRLNNFSR--------------LEKIAPNPQFV   67 (257)
T ss_dssp             EEEEEEEEEEEEEE-TTEEEEEEEEEEEEEEEE--SSS-----SEEEEEEETGGG--------------EEEEEE-TTTE
T ss_pred             eeEEEEEEEEEEEE-CCcEEEEEEEEEEEEecCCChhhcccCCCcEEEEEcCcch--------------hceeecCHhHe
Confidence            55689999999985 578889999999988643322      3467788865432              22222211111


Q ss_pred             cccccCCceeEecCCC--Cce--EEEEEEecC-----CCcCcEEEEEEEEEC-cceEEEEEEEEee-cCCc-ccccceeE
Q 025655          177 LARFENDRTISFIPPD--GSF--DLMTYRLNT-----QVKPLIWVEAQVERH-SRSRVEILVKARS-QFKE-RRCSDING  244 (250)
Q Consensus       177 ~~~~~~~r~i~F~PPd--g~F--~Lm~Yr~~~-----~~~P~~~v~~~~~~~-~~~~~e~~v~l~~-~~~~-~~~a~v~i  244 (250)
                      ...-..+....|.++.  ...  ..|+|++..     ...|+++ .+.-+.. +...+-+..++.. .+.. ....|+++
T Consensus        68 ~~~~~~~~~f~~n~~~l~~~~~~~alKYqv~~~~~~~~~~Pl~l-~~~Wk~e~~~tsl~l~Y~~Np~~~~~~~~L~nv~~  146 (257)
T PF10291_consen   68 SSSSQSDGEFWLNMSALTSHLPKQALKYQVHSDPSNLSSVPLIL-KPVWKCEPSQTSLILDYKLNPDAFASPVPLENVVF  146 (257)
T ss_dssp             --EEEETTEEEE-TTTTBT-E-EEEEEEEEES--------SEEE-EEEEEE-SSEEEEEEEEEE-TTT--E-EEEEEEEE
T ss_pred             ecCCCCCCcEEEehHHhhhhhhhceEEEEEeccccccCCCCeEE-EeEEEeCCceEEEEEEEEeChhhccccceeeeEEE
Confidence            0000112234443332  233  569999975     3467654 4444433 3333333333444 4443 34579999


Q ss_pred             EeecC
Q 025655          245 ICIIC  249 (250)
Q Consensus       245 ~ip~p  249 (250)
                      .+|+.
T Consensus       147 ~v~l~  151 (257)
T PF10291_consen  147 SVPLD  151 (257)
T ss_dssp             EEEB-
T ss_pred             EEEcC
Confidence            99875

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.

>COG5541 RET3 Vesicle coat complex COPI, zeta subunit [Posttranslational modification, protein turnover, chaperones]

Probab=85.91  E-value=0.72  Score=37.75  Aligned_cols=70  Identities=14%  Similarity=0.160  Sum_probs=56.2

Q ss_pred             ecCCCCHHHHHHHHHHHHHHHHHhhcc-cCHHHHHhhHHHHHHHHHHHhcCCeeeecChhhhhhhhccccc
Q 025655            4 SRQNCNAASLLFFLHRVVDVFKHYFEE-LEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAY   73 (250)
Q Consensus         4 t~~~~n~~~~~e~L~~l~~~l~~y~g~-l~e~~i~~n~~~iyelLdE~id~G~p~~t~~~~Lk~~i~~~~~   73 (250)
                      ..-+.|-.+.-+.+..|...+.--+.. .++..+.+|++.+.-+.||.||.|....|+++.+.+-++.++.
T Consensus        85 ~~meeNE~~l~q~f~~ir~Al~li~k~~~dkr~v~enYDqivl~vdEtid~Gvilet~s~~ia~rv~K~p~  155 (187)
T COG5541          85 SPMEENEPFLGQVFDEIRAALILIVKTPTDKRNVWENYDQIVLLVDETIDEGVILETKSDEIADRVPKPPN  155 (187)
T ss_pred             cccccccHHHHHHHHHHHHHHHHHHcCCcchhhHHhhhceEEEeeehhcccceEeecChHHHHHhCCCCCC
Confidence            345667777777888888777766665 4555699999999999999999999999999988888776544

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	250
1w63_M	423	Ap1 Clathrin Adaptor Core Length = 423		4e-93
4en2_M	266	Hiv-1 Nef In Complex With Mhc-I Cytoplasmic Domain		1e-61
2bp5_M	435	Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second D		2e-59
4emz_A	266	Hiv-1 Nef In Complex With Mhc-I Cytoplasmic Domain		6e-59
2xa7_M	446	Ap2 Clathrin Adaptor Core In Active Complex With Ca		4e-58
1i31_A	314	Mu2 Adaptin Subunit (Ap50) Of Ap2 Clathrin Adaptor,		8e-40
1bw8_A	321	Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second D		8e-40
2pr9_A	299	Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second D		1e-38
1bxx_A	285	Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second D		1e-38
1h6e_A	288	Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second D		1e-36
3ml6_A	385	A Complex Between Dishevlled2 And Clathrin Adaptor		1e-33
4ikn_A	261	Crystal Structure Of Adaptor Protein Complex 3 (ap-		8e-21
3l81_A	301	Crystal Structure Of Adaptor Protein Complex 4 (Ap-		1e-17

>pdb|1W63|M Chain M, Ap1 Clathrin Adaptor Core Length = 423

Iteration: 1
 Score =  337 bits (864), Expect = 4e-93,   Method: Compositional matrix adjust.
 Identities = 149/242 (61%), Positives = 201/242 (83%), Gaps = 2/242 (0%)
Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
           +  S++N   + +  FL++VV VF  YF+ELEEES+RDNFV++YELLDE+MDFGYPQ T+
Sbjct: 68  VATSKKNACVSLVFSFLYKVVQVFSEYFKELEEESIRDNFVIIYELLDELMDFGYPQTTD 127
Query: 61  ANILSEFIKTDAYRMEV-TQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNG 119
           + IL EFI  + +++E    RPP  VTNAVSWRSEGI+Y+KNEVFLDV+E VN+LV++NG
Sbjct: 128 SKILQEFITQEGHKLETGAPRPPATVTNAVSWRSEGIKYRKNEVFLDVIEAVNLLVSANG 187
Query: 120 QIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLAR 179
            ++RS++VG++KMR +LSGMPE +LGLND++L +  GR  K K+++L+D+KFHQCVRL+R
Sbjct: 188 NVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRG-KSKSVELEDVKFHQCVRLSR 246
Query: 180 FENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRC 239
           FENDRTISFIPPDG F+LM+YRLNT VKPLIW+E+ +E+HS SR+E +VKA+SQFK R  
Sbjct: 247 FENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIEKHSHSRIEYMVKAKSQFKRRST 306
Query: 240 SD 241
           ++
Sbjct: 307 AN 308

>pdb|4EN2|M Chain M, Hiv-1 Nef In Complex With Mhc-I Cytoplasmic Domain And Mu1 Adaptin Subunit Of Ap1 Adaptor (Second Domain) Length = 266

Iteration: 1
 Score =  233 bits (593), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 100/152 (65%), Positives = 134/152 (88%), Gaps = 1/152 (0%)
Query: 90  SWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDR 149
           SWRSEGI+Y+KNEVFLDV+E VN+LV++NG ++RS++VG++KMR +LSGMPE +LGLND+
Sbjct: 1   SWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDK 60
Query: 150 ILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPL 209
           +L +  GR  K K+++L+D+KFHQCVRL+RFENDRTISFIPPDG F+LM+YRLNT VKPL
Sbjct: 61  VLFDNTGRG-KSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPL 119
Query: 210 IWVEAQVERHSRSRVEILVKARSQFKERRCSD 241
           IW+E+ +E+HS SR+E +VKA+SQFK R  ++
Sbjct: 120 IWIESVIEKHSHSRIEYMVKAKSQFKRRSTAN 151

>pdb|2BP5|M Chain M, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain), Complexed With Non-Canonical Internalization Peptide Vedyeqglsg Length = 435

Iteration: 1
 Score =  225 bits (573), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 109/244 (44%), Positives = 163/244 (66%), Gaps = 12/244 (4%)
Query: 4   SRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANI 63
           ++QN NAA +  FL+++ DV   YF ++ EE++++NFV++YELLDE++DFGYPQ +E   
Sbjct: 69  TKQNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILDFGYPQNSETGA 128
Query: 64  LSEFI-----KTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSN 118
           L  FI     K+     E   +    VT  + WR EGI+Y++NE+FLDV+E VN+L++  
Sbjct: 129 LKTFITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLMSPQ 188
Query: 119 GQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRST------KGK-AIDLDDIKF 171
           GQ++ + V G + M++YLSGMPECK G+ND+I++E QG+ T       GK +I +DD  F
Sbjct: 189 GQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTF 248
Query: 172 HQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKAR 231
           HQCVRL++F+++R+ISFIPPDG F+LM YR    +     V   V    R+++E+ V  +
Sbjct: 249 HQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKLEVKVVIK 308
Query: 232 SQFK 235
           S FK
Sbjct: 309 SNFK 312

>pdb|4EMZ|A Chain A, Hiv-1 Nef In Complex With Mhc-I Cytoplasmic Domain And Mu1 Adaptin Subunit Of Ap1 Adaptor (Second Domain) Length = 266

Iteration: 1
 Score =  223 bits (569), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 97/152 (63%), Positives = 130/152 (85%), Gaps = 1/152 (0%)
Query: 90  SWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDR 149
           SWRSEGI+Y+KNEVFLDV+E VN+LV++NG ++RS++VG++K R +LSG PE +LGLND+
Sbjct: 1   SWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKXRVFLSGXPELRLGLNDK 60
Query: 150 ILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPL 209
           +L +  GR  K K+++L+D+KFHQCVRL+RFENDRTISFIPPDG F+L +YRLNT VKPL
Sbjct: 61  VLFDNTGRG-KSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELXSYRLNTHVKPL 119
Query: 210 IWVEAQVERHSRSRVEILVKARSQFKERRCSD 241
           IW+E+ +E+HS SR+E  VKA+SQFK R  ++
Sbjct: 120 IWIESVIEKHSHSRIEYXVKAKSQFKRRSTAN 151

>pdb|2XA7|M Chain M, Ap2 Clathrin Adaptor Core In Active Complex With Cargo Peptides Length = 446

Iteration: 1
 Score =  221 bits (562), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 109/257 (42%), Positives = 163/257 (63%), Gaps = 23/257 (8%)
Query: 2   TASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEA 61
             ++QN NAA +  FL+++ DV   YF ++ EE++++NFV++YELLDE++DFGYPQ +E 
Sbjct: 67  AVTKQNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILDFGYPQNSET 126
Query: 62  NILSEFI-----KTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVN 116
             L  FI     K+     E   +    VT  + WR EGI+Y++NE+FLDV+E VN+L++
Sbjct: 127 GALKTFITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLMS 186
Query: 117 SNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTK---------------- 160
             GQ++ + V G + M++YLSGMPECK G+ND+I++E QG+ T                 
Sbjct: 187 PQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSMEQKLISEED 246
Query: 161 -GK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVER 218
            GK +I +DD  FHQCVRL++F+++R+ISFIPPDG F+LM YR    +     V   V  
Sbjct: 247 LGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVRE 306
Query: 219 HSRSRVEILVKARSQFK 235
             R+++E+ V  +S FK
Sbjct: 307 VGRTKLEVKVVIKSNFK 323

>pdb|1I31|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Clathrin Adaptor, Complexed With Egfr Internalization Peptide Fyralm At 2.5 A Resolution Length = 314

Iteration: 1
 Score =  160 bits (404), Expect = 8e-40,   Method: Compositional matrix adjust.
 Identities = 82/191 (42%), Positives = 120/191 (62%), Gaps = 12/191 (6%)
Query: 57  QYTEANILSEFI-----KTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHV 111
           Q +E   L  FI     K+     E   +    VT  + WR EGI+Y++NE+FLDV+E V
Sbjct: 1   QNSETGALKTFITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESV 60
Query: 112 NILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRST------KGK-AI 164
           N+L++  GQ++ + V G + M++YLSGMPECK G+ND+I++E QG+ T       GK +I
Sbjct: 61  NLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSI 120
Query: 165 DLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRV 224
            +DD  FHQCVRL++F+++R+ISFIPPDG F+LM YR    +     V   V    R+++
Sbjct: 121 AIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKL 180
Query: 225 EILVKARSQFK 235
           E+ V  +S FK
Sbjct: 181 EVKVVIKSNFK 191

>pdb|1BW8|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain), Complexed With Egfr Internalization Peptide Fyralm Length = 321

Iteration: 1
 Score =  160 bits (404), Expect = 8e-40,   Method: Compositional matrix adjust.
 Identities = 82/191 (42%), Positives = 120/191 (62%), Gaps = 12/191 (6%)
Query: 57  QYTEANILSEFI-----KTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHV 111
           Q +E   L  FI     K+     E   +    VT  + WR EGI+Y++NE+FLDV+E V
Sbjct: 8   QNSETGALKTFITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESV 67
Query: 112 NILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRST------KGK-AI 164
           N+L++  GQ++ + V G + M++YLSGMPECK G+ND+I++E QG+ T       GK +I
Sbjct: 68  NLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSI 127
Query: 165 DLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRV 224
            +DD  FHQCVRL++F+++R+ISFIPPDG F+LM YR    +     V   V    R+++
Sbjct: 128 AIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKL 187
Query: 225 EILVKARSQFK 235
           E+ V  +S FK
Sbjct: 188 EVKVVIKSNFK 198

>pdb|2PR9|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain), Complexed With Gabaa Receptor-Gamma2 Subunit-Derived Internalization Peptide Deeygyecl Length = 299

Iteration: 1
 Score =  156 bits (395), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 74/161 (45%), Positives = 109/161 (67%), Gaps = 7/161 (4%)
Query: 82  PMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPE 141
           P      + WR EGI+Y++NE+FLDV+E VN+L++  GQ++ + V G + M++YLSGMPE
Sbjct: 16  PRGSHMQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPE 75
Query: 142 CKLGLNDRILLEAQGRST------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGS 194
           CK G+ND+I++E QG+ T       GK +I +DD  FHQCVRL++F+++R+ISFIPPDG 
Sbjct: 76  CKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGE 135
Query: 195 FDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFK 235
           F+LM YR    +     V   V    R+++E+ V  +S FK
Sbjct: 136 FELMRYRTTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFK 176

>pdb|1BXX|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain), Complexed With Tgn38 Internalization Peptide Dyqrln Length = 285

Iteration: 1
 Score =  156 bits (394), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 73/154 (47%), Positives = 108/154 (70%), Gaps = 7/154 (4%)
Query: 89  VSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLND 148
           + WR EGI+Y++NE+FLDV+E VN+L++  GQ++ + V G + M++YLSGMPECK G+ND
Sbjct: 9   IGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMND 68
Query: 149 RILLEAQGRST------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYR 201
           +I++E QG+ T       GK +I +DD  FHQCVRL++F+++R+ISFIPPDG F+LM YR
Sbjct: 69  KIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYR 128
Query: 202 LNTQVKPLIWVEAQVERHSRSRVEILVKARSQFK 235
               +     V   V    R+++E+ V  +S FK
Sbjct: 129 TTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFK 162

>pdb|1H6E|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain), Complexed With Ctla-4 Internalization Peptide Ttgvyvkmppt Length = 288

Iteration: 1
 Score =  149 bits (377), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 71/149 (47%), Positives = 105/149 (70%), Gaps = 7/149 (4%)
Query: 94  EGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLE 153
           EGI+Y++NE+FLDV+E VN+L++  GQ++ + V G + M++YLSGMPECK G+ND+I++E
Sbjct: 17  EGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIE 76
Query: 154 AQGRST------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQV 206
            QG+ T       GK +I +DD  FHQCVRL++F+++R+ISFIPPDG F+LM YR    +
Sbjct: 77  KQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDI 136
Query: 207 KPLIWVEAQVERHSRSRVEILVKARSQFK 235
                V   V    R+++E+ V  +S FK
Sbjct: 137 ILPFRVIPLVREVGRTKLEVKVVIKSNFK 165

>pdb|3ML6|A Chain A, A Complex Between Dishevlled2 And Clathrin Adaptor Ap-2 Length = 385

Iteration: 1
 Score =  139 bits (351), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 68/148 (45%), Positives = 100/148 (67%), Gaps = 7/148 (4%)
Query: 95  GIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEA 154
           G    +NE+FLDV+E VN+L++  GQ++ + V G + M++YLSGMPECK G+ND+I++E 
Sbjct: 115 GSGGSRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEK 174
Query: 155 QGRST------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVK 207
           QG+ T       GK +I +DD  FHQCVRL++F+++R+ISFIPPDG F+LM YR    + 
Sbjct: 175 QGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDII 234
Query: 208 PLIWVEAQVERHSRSRVEILVKARSQFK 235
               V   V    R+++E+ V  +S FK
Sbjct: 235 LPFRVIPLVREVGRTKLEVKVVIKSNFK 262

>pdb|4IKN|A Chain A, Crystal Structure Of Adaptor Protein Complex 3 (ap-3) Mu3a Subunit C- Terminal Domain, In Complex With A Sorting Peptide From Tgn38 Length = 261

Iteration: 1
 Score = 97.1 bits (240), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 52/165 (31%), Positives = 90/165 (54%), Gaps = 25/165 (15%)
Query: 89  VSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLG-LN 147
           + WR  G++Y  NE + DVVE ++ +++ +G  + +++ G +     LSGMP+  L  +N
Sbjct: 8   IPWRRAGVKYTNNEAYFDVVEEIDAIIDKSGSTVFAEIQGVIDACIKLSGMPDLSLSFMN 67
Query: 148 DRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQ-- 205
            R+L               DD+ FH C+R  R+E++R +SFIPPDG+F L++YR+++Q  
Sbjct: 68  PRLL---------------DDVSFHPCIRFKRWESERVLSFIPPDGNFRLISYRVSSQNL 112
Query: 206 VKPLIWVEAQV---ERHSRSRVEILVKARSQFKERRCSDINGICI 247
           V   ++V+  +   E  S  R +I +      K+     I GI +
Sbjct: 113 VAIPVYVKHNISFKENSSCGRFDITIGP----KQNMGKTIEGITV 153

>pdb|3L81|A Chain A, Crystal Structure Of Adaptor Protein Complex 4 (Ap-4) Mu4 Su Terminal Domain, In Complex With A Sorting Peptide From The Precursor Protein (App) Length = 301

Iteration: 1
 Score = 86.7 bits (213), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 53/170 (31%), Positives = 91/170 (53%), Gaps = 13/170 (7%)
Query: 66  EFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSD 125
           EF ++         RP       +S RS+  Q +KNEVFLDVVE +++L+ SNG +++ D
Sbjct: 6   EFQQSKVAPSSAASRP------VLSSRSD--QSQKNEVFLDVVERLSVLIASNGSLLKVD 57
Query: 126 VVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRT 185
           V G ++++++L    E ++GL +   +        G  I +D++ FH  V L  FE+ R 
Sbjct: 58  VQGEIRLKSFLPSGSEMRIGLTEEFSVGKSELRGYGPGIRVDEVSFHSSVNLDEFESHRI 117
Query: 186 ISFIPPDGSFDLMTYRLNTQV-KPL---IWVEAQVERHSRSRVEILVKAR 231
           +   PP G   +M Y+L+  +  PL   ++   Q +R S  R+++ +K R
Sbjct: 118 LRLQPPQGELTVMRYQLSDDLPSPLPFRLFPSVQWDRGS-GRLQVYLKLR 166

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	250
2vgl_M	435	AP-2 complex subunit MU-1; cytoplasmic vesicle, al	1e-64
1w63_M	423	Adaptor-related protein complex 1, MU 1 subunit; e	6e-61
1i31_A	314	Clathrin coat assembly protein AP50; beta-sandwich	7e-57
3ml6_A	385	Chimeric complex between protein dishevlled2 HOMO	8e-51
3l81_A	301	AP-4 complex subunit MU-1; immunoglobulin-like bet	7e-50
4en2_M	266	AP-1 complex subunit MU-1; human immunodeficiency	1e-49
2vgl_S	142	AP-2 complex subunit sigma-1; cytoplasmic vesicle,	6e-17
1w63_Q	158	Adapter-related protein complex 1 sigma 1A subunit	1e-14
3tjz_C	153	Coatomer subunit zeta-1; protein trafficking, golg	8e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-05

>2vgl_M AP-2 complex subunit MU-1; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Rattus norvegicus} PDB: 2jkr_M 2jkt_M 2bp5_M* 2xa7_M Length = 435

 Score =  206 bits (525), Expect = 1e-64
 Identities = 107/253 (42%), Positives = 163/253 (64%), Gaps = 12/253 (4%)

Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
              ++QN NAA +  FL+++ DV   YF ++ EE++++NFV++YELLDE++DFGYPQ +E
Sbjct: 66  AAVTKQNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILDFGYPQNSE 125

Query: 61  ANILSEFI-----KTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILV 115
              L  FI     K+     E   +    VT  + WR EGI+Y++NE+FLDV+E VN+L+
Sbjct: 126 TGALKTFITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLM 185

Query: 116 NSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRST-------KGKAIDLDD 168
           +  GQ++ + V G + M++YLSGMPECK G+ND+I++E QG+ T         ++I +DD
Sbjct: 186 SPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDD 245

Query: 169 IKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILV 228
             FHQCVRL++F+++R+ISFIPPDG F+LM YR    +     V   V    R+++E+ V
Sbjct: 246 CTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKLEVKV 305

Query: 229 KARSQFKERRCSD 241
             +S FK    + 
Sbjct: 306 VIKSNFKPSLLAQ 318

>1w63_M Adaptor-related protein complex 1, MU 1 subunit; endocytosis, clathrin adaptor, transport, coated PITS; 4.0A {Mus musculus} SCOP: i.23.1.1 Length = 423

 Score =  196 bits (499), Expect = 6e-61
 Identities = 148/238 (62%), Positives = 198/238 (83%), Gaps = 2/238 (0%)

Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
           +  S++N   + +  FL++VV VF  YF+ELEEES+RDNFV++YELLDE+MDFGYPQ T+
Sbjct: 68  VATSKKNACVSLVFSFLYKVVQVFSEYFKELEEESIRDNFVIIYELLDELMDFGYPQTTD 127

Query: 61  ANILSEFIKTDAYRMEVTQR-PPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNG 119
           + IL EFI  + +++E     PP  VTNAVSWRSEGI+Y+KNEVFLDV+E VN+LV++NG
Sbjct: 128 SKILQEFITQEGHKLETGAPRPPATVTNAVSWRSEGIKYRKNEVFLDVIEAVNLLVSANG 187

Query: 120 QIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLAR 179
            ++RS++VG++KMR +LSGMPE +LGLND++L +  GR  K K+++L+D+KFHQCVRL+R
Sbjct: 188 NVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRG-KSKSVELEDVKFHQCVRLSR 246

Query: 180 FENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKER 237
           FENDRTISFIPPDG F+LM+YRLNT VKPLIW+E+ +E+HS SR+E +VKA+SQFK R
Sbjct: 247 FENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIEKHSHSRIEYMVKAKSQFKRR 304

>1i31_A Clathrin coat assembly protein AP50; beta-sandwich, peptide-binding site, protein-peptide complex, clathrin adaptor; 2.50A {Rattus norvegicus} SCOP: b.2.7.1 PDB: 1bw8_A 2pr9_A 3h85_A 1bxx_A 1hes_A 1h6e_A Length = 314

 Score =  183 bits (464), Expect = 7e-57
 Identities = 78/197 (39%), Positives = 119/197 (60%), Gaps = 12/197 (6%)

Query: 57  QYTEANILSEFIKTDAYRMEV-----TQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHV 111
           Q +E   L  FI     + +        +    VT  + WR EGI+Y++NE+FLDV+E V
Sbjct: 1   QNSETGALKTFITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESV 60

Query: 112 NILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRST-------KGKAI 164
           N+L++  GQ++ + V G + M++YLSGMPECK G+ND+I++E QG+ T         ++I
Sbjct: 61  NLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSI 120

Query: 165 DLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRV 224
            +DD  FHQCVRL++F+++R+ISFIPPDG F+LM YR    +     V   V    R+++
Sbjct: 121 AIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKL 180

Query: 225 EILVKARSQFKERRCSD 241
           E+ V  +S FK    + 
Sbjct: 181 EVKVVIKSNFKPSLLAQ 197

>3ml6_A Chimeric complex between protein dishevlled2 HOMO and clathrin adaptor AP-2 complex...; dishevelled, frizzled internalization; 3.50A {Mus musculus} Length = 385

 Score =  169 bits (428), Expect = 8e-51
 Identities = 72/232 (31%), Positives = 116/232 (50%), Gaps = 29/232 (12%)

Query: 39  NFVVVYELLDEMMDF--GYPQYTEANILSEFIKTDAY--------------------RME 76
           N  +  +++D +     G+P+  EA   +  +                            
Sbjct: 37  NAFLGSDVVDWLYHHVEGFPERREARKYASGLLKAGLIRHTVNKITFSEQCYYVFGDLSG 96

Query: 77  VTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYL 136
             +               G    +NE+FLDV+E VN+L++  GQ++ + V G + M++YL
Sbjct: 97  GPRPYSPQPPPYHELEFGGSGGSRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYL 156

Query: 137 SGMPECKLGLNDRILLEAQGRST-------KGKAIDLDDIKFHQCVRLARFENDRTISFI 189
           SGMPECK G+ND+I++E QG+ T         ++I +DD  FHQCVRL++F+++R+ISFI
Sbjct: 157 SGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFI 216

Query: 190 PPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCSD 241
           PPDG F+LM YR    +     V   V    R+++E+ V  +S FK    + 
Sbjct: 217 PPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQ 268

>3l81_A AP-4 complex subunit MU-1; immunoglobulin-like beta-sandwich, coated PIT, golgi apparat membrane, phosphoprotein, protein transport, transport; 1.60A {Homo sapiens} Length = 301

 Score =  164 bits (416), Expect = 7e-50
 Identities = 45/178 (25%), Positives = 85/178 (47%), Gaps = 5/178 (2%)

Query: 75  MEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRT 134
            + ++  P +  +     S   Q +KNEVFLDVVE +++L+ SNG +++ DV G +++++
Sbjct: 7   FQQSKVAPSSAASRPVLSSRSDQSQKNEVFLDVVERLSVLIASNGSLLKVDVQGEIRLKS 66

Query: 135 YLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGS 194
           +L    E ++GL +   +        G  I +D++ FH  V L  FE+ R +   PP G 
Sbjct: 67  FLPSGSEMRIGLTEEFSVGKSELRGYGPGIRVDEVSFHSSVNLDEFESHRILRLQPPQGE 126

Query: 195 FDLMTYRLNTQVK---PLIWVEAQVERHSRSRVEILVKARSQFKERRCSDINGICIIC 249
             +M Y+L+  +    P     +        R+++ +K R     +  S    + +  
Sbjct: 127 LTVMRYQLSDDLPSPLPFRLFPSVQWDRGSGRLQVYLKLRCDLLSK--SQALNVRLHL 182

>4en2_M AP-1 complex subunit MU-1; human immunodeficiency virus 1, HIV, NEF, antigen presentation, HOST defense, adaptor protein complex 1, MU1 subunit; 2.58A {Mus musculus} PDB: 4emz_A Length = 266

 Score =  162 bits (411), Expect = 1e-49
 Identities = 102/158 (64%), Positives = 136/158 (86%), Gaps = 1/158 (0%)

Query: 90  SWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDR 149
           SWRSEGI+Y+KNEVFLDV+E VN+LV++NG ++RS++VG++KMR +LSGMPE +LGLND+
Sbjct: 1   SWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDK 60

Query: 150 ILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPL 209
           +L +  GR  K K+++L+D+KFHQCVRL+RFENDRTISFIPPDG F+LM+YRLNT VKPL
Sbjct: 61  VLFDNTGRG-KSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPL 119

Query: 210 IWVEAQVERHSRSRVEILVKARSQFKERRCSDINGICI 247
           IW+E+ +E+HS SR+E +VKA+SQFK R  ++   I I
Sbjct: 120 IWIESVIEKHSHSRIEYMVKAKSQFKRRSTANNVEIHI 157

>2vgl_S AP-2 complex subunit sigma-1; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Mus musculus} SCOP: i.23.1.1 PDB: 2jkt_I 2jkr_I* 2xa7_S Length = 142

 Score = 74.2 bits (182), Expect = 6e-17
 Identities = 20/73 (27%), Positives = 32/73 (43%), Gaps = 1/73 (1%)

Query: 1   MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYT- 59
                 N N  + L  +H  V+V   YF  + E  L  NF  VY ++DEM   G  + T 
Sbjct: 68  CICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLAGEIRETS 127

Query: 60  EANILSEFIKTDA 72
           +  +L + +   +
Sbjct: 128 QTKVLKQLLMLQS 140

>1w63_Q Adapter-related protein complex 1 sigma 1A subunit; endocytosis, clathrin adaptor, transport, coated PITS; 4.0A {Mus musculus} SCOP: i.23.1.1 Length = 158

 Score = 68.6 bits (167), Expect = 1e-14
 Identities = 22/90 (24%), Positives = 36/90 (40%), Gaps = 3/90 (3%)

Query: 3   ASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE-A 61
           A     N    L  +HR V++   YF  + E  +  NF   Y +LDE +  G  Q T   
Sbjct: 70  AIEGQDNELITLELIHRYVELLDKYFGSVCELDIIFNFEKAYFILDEFLMGGDVQDTSKK 129

Query: 62  NILSEFIKTDAYRMEVTQRPPMAVTNAVSW 91
           ++L    + D   ++     P +V   +  
Sbjct: 130 SVLKAIEQAD--LLQEEDESPRSVLEEMGL 157

>3tjz_C Coatomer subunit zeta-1; protein trafficking, golgi membrane, protein transport-prote binding complex; HET: GNP; 2.90A {Bos taurus} PDB: 2hf6_A Length = 153

 Score = 52.3 bits (125), Expect = 8e-09
 Identities = 11/67 (16%), Positives = 28/67 (41%), Gaps = 1/67 (1%)

Query: 4   SRQNCNAASLLFFLHRVVDVFKHYFEE-LEEESLRDNFVVVYELLDEMMDFGYPQYTEAN 62
                N   L+  L+ + D       + +E+ +L +N   ++  +DE++D G    ++  
Sbjct: 81  GSSYENELMLMTVLNCLFDSLSQMLRKNVEKRALLENMEGLFLAVDEIVDGGVILESDPQ 140

Query: 63  ILSEFIK 69
            +   + 
Sbjct: 141 QVVHRVA 147

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 44.5 bits (104), Expect = 2e-05
 Identities = 47/343 (13%), Positives = 100/343 (29%), Gaps = 104/343 (30%)

Query: 1   MTASRQNCNAASLLFF--------LHRVVDVFKHY-------FEELEE--ESLRDN-FVV 42
           M+  +      S++          L+    VF  Y       + +L +    LR    V+
Sbjct: 95  MSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVL 154

Query: 43  VY------------------ELLDEM------MDFGYPQYTEA------NILSEFIKTDA 72
           +                   ++  +M      ++       E        +L +      
Sbjct: 155 IDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWT 214

Query: 73  YRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVN-------------ILVNSNG 119
            R + +    + + +  +     ++ K  E  L V+ +V              IL+ +  
Sbjct: 215 SRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRF 274

Query: 120 QIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDL------------- 166
           + + +D + A    T++S +    + L    +     +    +  DL             
Sbjct: 275 KQV-TDFLSAAT-TTHIS-LDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLS 331

Query: 167 -------------DDIKFHQCVRLARFENDRTISFIPPD---GSF-DLMTYRLNTQVKP- 208
                        D+ K   C +L     + +++ + P      F  L  +  +  +   
Sbjct: 332 IIAESIRDGLATWDNWKHVNCDKLTTI-IESSLNVLEPAEYRKMFDRLSVFPPSAHIPTI 390

Query: 209 ---LIWVEAQVERHSRSRVEILVK---ARSQFKERRCSDINGI 245
              LIW +  ++      V  L K      Q KE   S I  I
Sbjct: 391 LLSLIWFDV-IKSDVMVVVNKLHKYSLVEKQPKESTIS-IPSI 431

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	250
2vgl_M	435	AP-2 complex subunit MU-1; cytoplasmic vesicle, al	100.0
1w63_M	423	Adaptor-related protein complex 1, MU 1 subunit; e	100.0
1i31_A	314	Clathrin coat assembly protein AP50; beta-sandwich	100.0
4en2_M	266	AP-1 complex subunit MU-1; human immunodeficiency	100.0
3l81_A	301	AP-4 complex subunit MU-1; immunoglobulin-like bet	100.0
3ml6_A	385	Chimeric complex between protein dishevlled2 HOMO	100.0
1w63_Q	158	Adapter-related protein complex 1 sigma 1A subunit	99.74
2vgl_S	142	AP-2 complex subunit sigma-1; cytoplasmic vesicle,	99.71
3tjz_C	153	Coatomer subunit zeta-1; protein trafficking, golg	99.66
3g9h_A	328	Suppressor of yeast profilin deletion; SYP1, MU, a	96.36

>2vgl_M AP-2 complex subunit MU-1; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Rattus norvegicus} PDB: 2jkr_M 2jkt_M 2bp5_M* 2xa7_M

Probab=100.00  E-value=1.3e-63  Score=468.83  Aligned_cols=250  Identities=42%  Similarity=0.788  Sum_probs=210.1

Q ss_pred             CeeecCCCCHHHHHHHHHHHHHHHHHhhcccCHHHHHhhHHHHHHHHHHHhcCCeeeecChhhhhhhhccccccccc---
Q 025655            1 MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEV---   77 (250)
Q Consensus         1 v~~t~~~~n~~~~~e~L~~l~~~l~~y~g~l~e~~i~~n~~~iyelLdE~id~G~p~~t~~~~Lk~~i~~~~~~~~~---   77 (250)
                      ||+++.|.|+++++||||+|+++|.+|||+++|+.|++||+++|++||||+|+||||+|+++.|+.++.+++++.+.   
T Consensus        66 v~~~~~~~n~l~~le~L~~~v~vl~~yf~~v~E~~I~~Nf~~vy~lLDE~id~G~~~~t~~~~l~~~i~~~~~~~~~~~~  145 (435)
T 2vgl_M           66 AAVTKQNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILDFGYPQNSETGALKTFITQQGIKSQHQTK  145 (435)
T ss_dssp             EEEESSCCCHHHHHHHHHHHHHHHHHHHSSCCHHHHHHTHHHHHHHHHHHEETTEECCCCHHHHGGGCCCCCCCCC----
T ss_pred             EEEecCCCCHHHHHHHHHHHHHHHHHHHhccCHHHHHHhHHHHHHHHHHHhcCCEEEecCHHHHHHHhcccccccccccc
Confidence            58899999999999999999999999999999999999999999999999999999999999999999999987653   


Q ss_pred             --ccCCCCCccccccccccCcccccceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEEeCCCCeEEEEeccchhhhhc
Q 025655           78 --TQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQ  155 (250)
Q Consensus        78 --~~~~~~~~~~~~~wR~~~~~~~~nEi~vdV~E~i~~~~~~~G~i~~~~i~G~I~~~s~LsG~P~~~l~ln~~~~~~~~  155 (250)
                        ...++++++++++||+.|++|++|||||||+|+++++++++|.+++++|.|+|+|+++|+|||+|+|+||++..++.+
T Consensus       146 ~~~~~~~~~~~~~i~wr~~gi~~~~nei~vdV~E~v~~~~~~~G~v~~~eV~G~I~~~~~LsG~P~~~l~ln~~~~~~~~  225 (435)
T 2vgl_M          146 EEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQ  225 (435)
T ss_dssp             -------------CCSSCSCCCCSSCEEEEEEEEEEEEEECTTCCEEEEEEEEEEEEEEECSSCCEEEEEECSSSCC---
T ss_pred             ccccccccccccccccccccCCcCcceEEEEEEEEEEEEEcCCCCEEEEEEEEEEEEEEEeCCCCeEEEEeCchhhcccc
Confidence              123455667789999999999999999999999999999999999999999999999999999999999998665433


Q ss_pred             cCC-----C--CCcceeccccccccccccccccCCceeEecCCCCceEEEEEEecCCCcCcEEEEEEEEECcceEEEEEE
Q 025655          156 GRS-----T--KGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILV  228 (250)
Q Consensus       156 ~~~-----~--~~~~~~l~d~~fH~cV~~~~~~~~r~i~F~PPdg~F~Lm~Yr~~~~~~P~~~v~~~~~~~~~~~~e~~v  228 (250)
                      ++.     +  ...++.|+||+|||||++++|+++|+|+|+||||+|+||+||++.+..||+.+.||++..+++++||++
T Consensus       226 ~~~~~~~~~~~~~~~~~l~d~~fH~cV~~~~f~~~r~isF~PPdg~F~Lm~Yr~~~~~~~P~~i~~~~~~~~~~~ve~~l  305 (435)
T 2vgl_M          226 GKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKLEVKV  305 (435)
T ss_dssp             --------------CCCCCEEEECTTEEEC-----CCEEECCCSEEEEEEEEEECSSCCCSEEEEEEEECCTTTEEEEEE
T ss_pred             cccccccccccccCceEccccccceeecHhHhccCceEEEECCCCcEEEEEEEecCCcCCCeEEEEEEEecCCCEEEEEE
Confidence            211     0  125678999999999999999999999999999999999999988775555679999977667999999


Q ss_pred             EEeecCCccccc-ceeEEeecCC
Q 025655          229 KARSQFKERRCS-DINGICIICT  250 (250)
Q Consensus       229 ~l~~~~~~~~~a-~v~i~ip~p~  250 (250)
                      +++++|+++..+ ++.|+||+|.
T Consensus       306 ~~~~~~~~~~~~~~V~I~IP~P~  328 (435)
T 2vgl_M          306 VIKSNFKPSLLAQKIEVRIPTPL  328 (435)
T ss_dssp             EEEECSCTTSEEEEEEEEEECCS
T ss_pred             EEeCCCCCCceeeEEEEEEECCC
Confidence            999999887644 9999999984

>1w63_M Adaptor-related protein complex 1, MU 1 subunit; endocytosis, clathrin adaptor, transport, coated PITS; 4.0A {Mus musculus} SCOP: i.23.1.1

Probab=100.00  E-value=7.7e-64  Score=468.76  Aligned_cols=249  Identities=60%  Similarity=1.064  Sum_probs=212.5

Q ss_pred             CeeecCCCCHHHHHHHHHHHHHHHHHhhcccCHHHHHhhHHHHHHHHHHHhcCCeeeecChhhhhhhhccccccccccc-
Q 025655            1 MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEVTQ-   79 (250)
Q Consensus         1 v~~t~~~~n~~~~~e~L~~l~~~l~~y~g~l~e~~i~~n~~~iyelLdE~id~G~p~~t~~~~Lk~~i~~~~~~~~~~~-   79 (250)
                      ||+++.|.|+++++||||+|+++|.+|||.++|+.|++||+++|++||||+|+||||+|++++|+++|.++++....++ 
T Consensus        68 v~~~~~~~n~l~~le~L~~~v~~l~~yf~~v~E~~I~~Nf~~vy~lLDE~id~G~~~~t~~~~l~~~i~~~~~~~~~~~~  147 (423)
T 1w63_M           68 VATSKKNACVSLVFSFLYKVVQVFSEYFKELEEESIRDNFVIIYELLDELMDFGYPQTTDSKILQEFITQEGHKLETGAP  147 (423)
T ss_dssp             EEEESSCCCTHHHHHHHHHHHHHHHHHSSCCSHHHHHHHHHHHHHHHHHHCSSSSCCCCCSTTTTTTCCSCCCCCCCC--
T ss_pred             EEEecCCCCHHHHHHHHHHHHHHHHHHHhhcCHHHHHHhHHHHHHHHHHHhcCCEEeecCHHHHHHhhcCCCcccccccc
Confidence            5889999999999999999999999999999999999999999999999999999999999999999999998743222 


Q ss_pred             CCCCCccccccccccCcccccceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEEeCCCCeEEEEeccchhhhhccCCC
Q 025655           80 RPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRST  159 (250)
Q Consensus        80 ~~~~~~~~~~~wR~~~~~~~~nEi~vdV~E~i~~~~~~~G~i~~~~i~G~I~~~s~LsG~P~~~l~ln~~~~~~~~~~~~  159 (250)
                      .++++.+++++||+.|++|++|||||||+|+++++++++|.+++++|.|+|+|+++|+|||+|+|+||++..++..++ +
T Consensus       148 ~~~~~~~~~i~wr~~g~~~~~nei~vdV~E~v~~~~~~~G~v~~~eV~G~I~~~~~LsG~P~~~l~Ln~~~~~~~~~~-~  226 (423)
T 1w63_M          148 RPPATVTNAVSWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGR-G  226 (423)
T ss_dssp             ---------CCSSCSSCCCSSCEEEEEEEEEEEEEEETTTEEEEEEEEEEEEEEEECSSCCEEEEEECSCC---------
T ss_pred             CCcccccCCCCccccCCccccceEEEEEEEEEEEEECCCCCEEEEEEEEEEEEEEEeCCCCeEEEEECCccccccccc-c
Confidence            345566778999999999999999999999999999999999999999999999999999999999999876554332 2


Q ss_pred             CCcceeccccccccccccccccCCceeEecCCCCceEEEEEEecCCCcCcEEEEEEEEECcceEEEEEEEEeecCCcccc
Q 025655          160 KGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRC  239 (250)
Q Consensus       160 ~~~~~~l~d~~fH~cV~~~~~~~~r~i~F~PPdg~F~Lm~Yr~~~~~~P~~~v~~~~~~~~~~~~e~~v~l~~~~~~~~~  239 (250)
                      ...++.++||+|||||++++|+++|+|+|+||||+|+||+||++.+..||+.++||++..+++++||+++++++|+++..
T Consensus       227 ~~~~v~l~d~~fHpcV~~~~f~~~r~isf~PPdg~F~Lm~Yr~~~~~~~P~~i~~~~~~~~~~~ve~~l~~~~~~~~~~~  306 (423)
T 1w63_M          227 KSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIEKHSHSRIEYMVKAKSQFKRRST  306 (423)
T ss_dssp             -----CEEEEEECTTEEESSSSSCCEEEECCCSEEEEEEEEEEECCCCCTTCCEEEEEEETTTEEEEEEEEECCSCTTSE
T ss_pred             ccCceEcccccccccccHHHhCCCCeEEEECCCCcEEEEEEEecCCcCCCEEEEEEEEecCCCEEEEEEEEcccCCCcce
Confidence            34567899999999999999999999999999999999999998777556678999997667799999999999988764


Q ss_pred             -cceeEEeecCC
Q 025655          240 -SDINGICIICT  250 (250)
Q Consensus       240 -a~v~i~ip~p~  250 (250)
                       .++.|+||+|.
T Consensus       307 ~~~V~I~IP~P~  318 (423)
T 1w63_M          307 ANNVEIHIPVPN  318 (423)
T ss_dssp             EESCEEEEECCT
T ss_pred             eeEEEEEEeCCC
Confidence             49999999994

>1i31_A Clathrin coat assembly protein AP50; beta-sandwich, peptide-binding site, protein-peptide complex, clathrin adaptor; 2.50A {Rattus norvegicus} SCOP: b.2.7.1 PDB: 1bw8_A 2pr9_A 3h85_A 1bxx_A 1hes_A 1h6e_A

Probab=100.00  E-value=1.7e-49  Score=358.48  Aligned_cols=194  Identities=40%  Similarity=0.742  Sum_probs=137.5

Q ss_pred             eecChhhhhhhhccccccccc-----ccCCCCCccccccccccCcccccceEEEEEEEeEEEEEccCCcEEEEEEEEEEE
Q 025655           57 QYTEANILSEFIKTDAYRMEV-----TQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALK  131 (250)
Q Consensus        57 ~~t~~~~Lk~~i~~~~~~~~~-----~~~~~~~~~~~~~wR~~~~~~~~nEi~vdV~E~i~~~~~~~G~i~~~~i~G~I~  131 (250)
                      |+||++.||+||..+++..+.     ...++++.+++++||+.|++|++|||||||+|+++++++++|.+++++|.|+|+
T Consensus         1 q~te~~~Lk~~i~~~~~~~~~~~~~~~~~~~~~~~~~v~WR~~gi~y~~NEi~vdV~E~v~~~i~~~G~v~~~eV~G~I~   80 (314)
T 1i31_A            1 QNSETGALKTFITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVV   80 (314)
T ss_dssp             -------------------------------------CTTSCSCCCCSSCEEEEEEEEEEEEEECSSCCEEEEEEEEEEE
T ss_pred             CcCChHHHHHhhcCCCeeccccccccccCCCccccCCCCCCccCCccccceEEEEEEEEEEEEECCCCCEEEEEEEEEEE
Confidence            789999999999999876431     235567778899999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCCCeEEEEeccchhhhhccCC-------CCCcceeccccccccccccccccCCceeEecCCCCceEEEEEEecC
Q 025655          132 MRTYLSGMPECKLGLNDRILLEAQGRS-------TKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNT  204 (250)
Q Consensus       132 ~~s~LsG~P~~~l~ln~~~~~~~~~~~-------~~~~~~~l~d~~fH~cV~~~~~~~~r~i~F~PPdg~F~Lm~Yr~~~  204 (250)
                      |+++|+|||+|+|+||++..++.+++.       ....++.|+||+|||||++++|+++|+|+|+||||+|+||+||++.
T Consensus        81 ~~~~LsG~P~l~l~Ln~~~~~~~~~~~~~~~~~~~~~~~~~l~d~~FHpcV~l~~f~~~r~IsFiPPDG~F~Lm~Yr~~~  160 (314)
T 1i31_A           81 MKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTK  160 (314)
T ss_dssp             EEEECSSSCEEEEEESCCC-----------------CCCCCCSEEEECTTSBCC----CCCEEECCCSEEEEEEEEEECS
T ss_pred             EEEEcCCCCeEEEEECCchhccccccccccccccccCCceEcccccccccccHHHcCCcceEEEECCCCCeEEEEEEecC
Confidence            999999999999999998766543221       0135678999999999999999999999999999999999999988


Q ss_pred             CCcCcEEEEEEEEECcceEEEEEEEEeecCCccccc-ceeEEeecCC
Q 025655          205 QVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCS-DINGICIICT  250 (250)
Q Consensus       205 ~~~P~~~v~~~~~~~~~~~~e~~v~l~~~~~~~~~a-~v~i~ip~p~  250 (250)
                      +..||+.+.|+++..+++++||+++++++|+++..+ ++.|+||+|.
T Consensus       161 ~~~lP~~v~~~~~~~g~~~iE~~l~~~~~~~~~~~~~nV~I~IP~P~  207 (314)
T 1i31_A          161 DIILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPL  207 (314)
T ss_dssp             SCCCCEEEEEEEEEETTTEEEEEEEEEECSCTTCEEEEEEEEEECCT
T ss_pred             CcCCCEEEEEEEEecCCcEEEEEEEEccCCCCcceeeEEEEEEECCC
Confidence            775555679999987667999999999999887655 9999999984

>4en2_M AP-1 complex subunit MU-1; human immunodeficiency virus 1, HIV, NEF, antigen presentation, HOST defense, adaptor protein complex 1, MU1 subunit; 2.58A {Mus musculus} PDB: 4emz_A

Probab=100.00  E-value=2.3e-44  Score=317.94  Aligned_cols=160  Identities=63%  Similarity=1.129  Sum_probs=146.3

Q ss_pred             cccccCcccccceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEEeCCCCeEEEEeccchhhhhccCCCCCcceecccc
Q 025655           90 SWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDI  169 (250)
Q Consensus        90 ~wR~~~~~~~~nEi~vdV~E~i~~~~~~~G~i~~~~i~G~I~~~s~LsG~P~~~l~ln~~~~~~~~~~~~~~~~~~l~d~  169 (250)
                      +||+.|++|++|||||||+|+++++++++|.++.++|.|+|.|+++|+|||+|+|+||++..++..++. ...++.++||
T Consensus         1 ~WR~~~i~y~~nei~vdV~E~v~~~~~~~G~v~~~~v~G~i~~~~~lsG~p~~~l~ln~~~~~~~~~~~-~~~~~~l~d~   79 (266)
T 4en2_M            1 SWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRG-KSKSVELEDV   79 (266)
T ss_dssp             CCCCTTCCCSSEEEEEEEEEEEEEEECTTSCEEEEEEEEEEEEEEECCSCCEEEEEECBHHHHHHTTCT-TSCCBCCEEE
T ss_pred             CCcCCCCccccCeEEEEEEEEEEEEECCCCCEEEEEEEEEEEEEEECCCCCEEEEEEcCcccccccccc-ccCccCcccc
Confidence            699999999999999999999999999999999999999999999999999999999999876655432 2457789999


Q ss_pred             ccccccccccccCCceeEecCCCCceEEEEEEecCCCcCcEEEEEEEEECcceEEEEEEEEeecCCccccc-ceeEEeec
Q 025655          170 KFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCS-DINGICII  248 (250)
Q Consensus       170 ~fH~cV~~~~~~~~r~i~F~PPdg~F~Lm~Yr~~~~~~P~~~v~~~~~~~~~~~~e~~v~l~~~~~~~~~a-~v~i~ip~  248 (250)
                      +|||||+++.|+++|+|+|+||||+|+||+||++.+..||+.++|+++..+.++++|+++++++|+++..+ ++.|+||+
T Consensus        80 ~fH~cV~~~~f~~~r~i~f~PPdg~F~Lm~yr~~~~~~~Pi~i~~~~~~~~~~~vei~v~~k~~~~~~~~~~nV~I~IP~  159 (266)
T 4en2_M           80 KFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIEKHSHSRIEYMVKAKSQFKRRSTANNVEIHIPV  159 (266)
T ss_dssp             EECTTBCHHHHHHHCCCEECCCSEEEEEEEEEECCCCCCSEEEEEEEEEEETTEEEEEEEEEECBCTTCEEEEEEEEEEC
T ss_pred             ccccccCHhHccccceEEEeCCCCceEEEEEEecCCCCCCEEEEEEEecCCCEEEEEEEEEecCCCCCcEEEEEEEEECC
Confidence            99999999999999999999999999999999988777777889999987777999999999999887655 99999999


Q ss_pred             CC
Q 025655          249 CT  250 (250)
Q Consensus       249 p~  250 (250)
                      |.
T Consensus       160 P~  161 (266)
T 4en2_M          160 PN  161 (266)
T ss_dssp             CT
T ss_pred             CC
Confidence            94

>3l81_A AP-4 complex subunit MU-1; immunoglobulin-like beta-sandwich, coated PIT, golgi apparat membrane, phosphoprotein, protein transport, transport; 1.60A {Homo sapiens}

Probab=100.00  E-value=9.6e-44  Score=318.93  Aligned_cols=168  Identities=29%  Similarity=0.557  Sum_probs=134.3

Q ss_pred             CCCCCccccc-cccccCcccccceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEEeCCCCeEEEEeccchhhhhccCC
Q 025655           80 RPPMAVTNAV-SWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRS  158 (250)
Q Consensus        80 ~~~~~~~~~~-~wR~~~~~~~~nEi~vdV~E~i~~~~~~~G~i~~~~i~G~I~~~s~LsG~P~~~l~ln~~~~~~~~~~~  158 (250)
                      .+++++++++ +||+.  +|++|||||||+|+|+++++++|.+++++|.|+|.|+++|+|||+|+|+||++..+++++..
T Consensus        13 ~~~~a~~~pv~~wr~~--~~~knEi~vdV~E~v~~~~~~~G~v~~~eV~G~I~~~~~LsG~P~~~l~Lnd~~~~~~~~~~   90 (301)
T 3l81_A           13 APSSAASRPVLSSRSD--QSQKNEVFLDVVERLSVLIASNGSLLKVDVQGEIRLKSFLPSGSEMRIGLTEEFSVGKSELR   90 (301)
T ss_dssp             ----------------------CEEEEEEEEEEEEEECTTSCEEEEEEEEEEEEEECCCTTCEEEEEECSSCEESCCTTT
T ss_pred             cCchhhcCcccccccc--cCCcceEEEEEEEEEEEEECCCCCEEEEEEEEEEEEEEeCCCCCeEEEEEcccccccccccc
Confidence            3455666665 99975  89999999999999999999999999999999999999999999999999999876655433


Q ss_pred             CCCcceeccccccccccccccccCCceeEecCCCCceEEEEEEecCCC---cCcEEEEEEEEECcc-eEEEEEEEEeecC
Q 025655          159 TKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQV---KPLIWVEAQVERHSR-SRVEILVKARSQF  234 (250)
Q Consensus       159 ~~~~~~~l~d~~fH~cV~~~~~~~~r~i~F~PPdg~F~Lm~Yr~~~~~---~P~~~v~~~~~~~~~-~~~e~~v~l~~~~  234 (250)
                      +...++.|+||+|||||+++.|+++|+|+|+||||+|+||+||++.+.   +|+ .+.||++..++ .++||+++++++|
T Consensus        91 ~~~~~~~l~d~~fH~cV~~~~f~~~r~IsFiPPDg~F~Lm~Yr~~~~~~~~~P~-~v~~~v~~~~~~~~ie~~l~l~~~f  169 (301)
T 3l81_A           91 GYGPGIRVDEVSFHSSVNLDEFESHRILRLQPPQGELTVMRYQLSDDLPSPLPF-RLFPSVQWDRGSGRLQVYLKLRCDL  169 (301)
T ss_dssp             CCCSSSEESEEEEETTCBCTTHHHHCEEEECCCSEEEEEEEEEECSCCSSCCSE-EEEEEEEECTTTSEEEEEEEEEECS
T ss_pred             cccCceEccccccccccChhHccccceEEecCCCCeeEEEEEEecCCCccCCCE-EEEEEEEECCCcEEEEEEEEEecCC
Confidence            345678899999999999999999999999999999999999998653   555 57899998764 7999999999999


Q ss_pred             Cccccc-ceeEEeecCC
Q 025655          235 KERRCS-DINGICIICT  250 (250)
Q Consensus       235 ~~~~~a-~v~i~ip~p~  250 (250)
                      +++..+ ++.|+||+|.
T Consensus       170 ~~~~~~~nV~I~IPvP~  186 (301)
T 3l81_A          170 LSKSQALNVRLHLPLPR  186 (301)
T ss_dssp             CTTCEEEEEEEEEECCT
T ss_pred             CCCcEEEEEEEEEcCCC
Confidence            988766 9999999994

>3ml6_A Chimeric complex between protein dishevlled2 HOMO and clathrin adaptor AP-2 complex...; dishevelled, frizzled internalization; 3.50A {Mus musculus}

Probab=100.00  E-value=3.3e-43  Score=324.89  Aligned_cols=165  Identities=40%  Similarity=0.719  Sum_probs=139.4

Q ss_pred             cccc-cc---cccCcccccceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEEeCCCCeEEEEeccchhhhhccCC---
Q 025655           86 TNAV-SW---RSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRS---  158 (250)
Q Consensus        86 ~~~~-~w---R~~~~~~~~nEi~vdV~E~i~~~~~~~G~i~~~~i~G~I~~~s~LsG~P~~~l~ln~~~~~~~~~~~---  158 (250)
                      ++++ ||   |..|++|+||||||||+|+++++++++|.+++++|.|+|.|+|+|+|||+|+|+||++..++..++.   
T Consensus       102 s~~~~~~~~~~~~gi~y~knEi~vdV~E~v~~~~~~~G~v~~~eV~G~I~~k~~LsG~P~~~l~LNd~~~~~~~~~~~~~  181 (385)
T 3ml6_A          102 SPQPPPYHELEFGGSGGSRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTAD  181 (385)
T ss_dssp             -CCCCCCEEBCSSSBCCCCCEEEEEEEEEEEEEECTTSCEEEEEEEEEEEEEEECSSCCEEEEEECC-------------
T ss_pred             CCCCCCchhccccCCccccceEEEEEEEEEEEEECCCCCEEEEEEEEEEEEEEeCCCCCeEEEEEcCccccccccccccc
Confidence            3444 99   7889999999999999999999999999999999999999999999999999999998766544321   


Q ss_pred             ----CCCcceeccccccccccccccccCCceeEecCCCCceEEEEEEecCCCcCcEEEEEEEEECcceEEEEEEEEeecC
Q 025655          159 ----TKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQF  234 (250)
Q Consensus       159 ----~~~~~~~l~d~~fH~cV~~~~~~~~r~i~F~PPdg~F~Lm~Yr~~~~~~P~~~v~~~~~~~~~~~~e~~v~l~~~~  234 (250)
                          +...++.|+||+|||||+++.|+++|+|+|+||||+|+||+||++.+..||+.+.|+++..++++++|+++++++|
T Consensus       182 ~~~~~~~~~i~l~d~~FH~CV~l~~f~~~r~IsFiPPDg~F~Lm~Yr~~~~~~~Pf~i~~~v~~~~~~~vei~v~lk~~f  261 (385)
T 3ml6_A          182 ETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKLEVKVVIKSNF  261 (385)
T ss_dssp             ---------CCCCEEEECTTBCCCCSSSCSEEEECCCSEEEEEEEEEECSSCCCSEEEEEEEEEETTTEEEEEEEEEECS
T ss_pred             cccccccCceEccccccccccChhHccccceEEEeCCCCceEEEEEEcCCCCCCCEEEEEEEEeCCCeEEEEEEEEeecC
Confidence                1235688999999999999999999999999999999999999987765555678999988778999999999999


Q ss_pred             Cccccc-ceeEEeecCC
Q 025655          235 KERRCS-DINGICIICT  250 (250)
Q Consensus       235 ~~~~~a-~v~i~ip~p~  250 (250)
                      +++..+ ++.|+||+|.
T Consensus       262 ~~~~~~~nV~I~IP~P~  278 (385)
T 3ml6_A          262 KPSLLAQKIEVRIPTPL  278 (385)
T ss_dssp             CTTCCEEEEEEEEECCT
T ss_pred             CCcceEEEEEEEecCCC
Confidence            988766 8999999994

>1w63_Q Adapter-related protein complex 1 sigma 1A subunit; endocytosis, clathrin adaptor, transport, coated PITS; 4.0A {Mus musculus} SCOP: i.23.1.1

Probab=99.74  E-value=1.3e-18  Score=142.07  Aligned_cols=74  Identities=26%  Similarity=0.263  Sum_probs=71.2

Q ss_pred             CeeecCCCCHHHHHHHHHHHHHHHHHhhcccCHHHHHhhHHHHHHHHHHHhcCCeeeecChhhhhhhhcccccc
Q 025655            1 MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYR   74 (250)
Q Consensus         1 v~~t~~~~n~~~~~e~L~~l~~~l~~y~g~l~e~~i~~n~~~iyelLdE~id~G~p~~t~~~~Lk~~i~~~~~~   74 (250)
                      |+++++|.|+++++++||++++++++|||+++|+.|++||..+|++||||+|+||||.|+++.|+++|.+++..
T Consensus        68 v~~~~~~~Nel~~le~L~~~vevl~~yf~~v~E~~I~~Nf~~vy~lLDE~id~G~~~eT~~~~l~~~I~~~~~l  141 (158)
T 1w63_Q           68 CCAIEGQDNELITLELIHRYVELLDKYFGSVCELDIIFNFEKAYFILDEFLMGGDVQDTSKKSVLKAIEQADLL  141 (158)
T ss_dssp             EEEECSSSCHHHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHTTEETTEESCCCHHHHHHHHHHHHHH
T ss_pred             EEEecCCCCHHHHHHHHHHHHHHHHHHHccCCHHHHHHhHHHHHHHHHHHHhCCEEEecCHHHHHHHHhcchhh
Confidence            58899999999999999999999999999999999999999999999999999999999999999999988654

>2vgl_S AP-2 complex subunit sigma-1; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Mus musculus} SCOP: i.23.1.1 PDB: 2jkt_I 2jkr_I* 2xa7_S

Probab=99.71  E-value=9.4e-18  Score=134.53  Aligned_cols=72  Identities=28%  Similarity=0.385  Sum_probs=67.5

Q ss_pred             CeeecCCCCHHHHHHHHHHHHHHHHHhhcccCHHHHHhhHHHHHHHHHHHhcCCeeeec-Chhhhhhhhcccc
Q 025655            1 MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYT-EANILSEFIKTDA   72 (250)
Q Consensus         1 v~~t~~~~n~~~~~e~L~~l~~~l~~y~g~l~e~~i~~n~~~iyelLdE~id~G~p~~t-~~~~Lk~~i~~~~   72 (250)
                      ++++++|.|+++++++||++++++++|||+++|+.|++||..+|++||||+|+||||.| +.+.||.++.++.
T Consensus        68 v~~~~~~~N~l~~le~L~~~ve~l~~yf~~v~E~~I~~Nf~~vy~lLDE~id~G~~~et~~~~il~~~~~~~~  140 (142)
T 2vgl_S           68 CICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLAGEIRETSQTKVLKQLLMLQS  140 (142)
T ss_dssp             EEEECTTSCHHHHHHHHHHHHHHHHHHTTSCCHHHHHHTHHHHHHHHHHHEETTEECCCCHHHHHHHHHHHHH
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHHHhCCEEEEcCHHHHHHHHHhhhc
Confidence            57899999999999999999999999999999999999999999999999999999998 5778999987653

>3tjz_C Coatomer subunit zeta-1; protein trafficking, golgi membrane, protein transport-prote binding complex; HET: GNP; 2.90A {Bos taurus} PDB: 2hf6_A

Probab=99.66  E-value=1.2e-16  Score=129.66  Aligned_cols=72  Identities=15%  Similarity=0.222  Sum_probs=66.2

Q ss_pred             CeeecCCCCHHHHHHHHHHHHHHHHHhh-cccCHHHHHhhHHHHHHHHHHHhcCCeeeecChhhhhhhhcccc
Q 025655            1 MTASRQNCNAASLLFFLHRVVDVFKHYF-EELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDA   72 (250)
Q Consensus         1 v~~t~~~~n~~~~~e~L~~l~~~l~~y~-g~l~e~~i~~n~~~iyelLdE~id~G~p~~t~~~~Lk~~i~~~~   72 (250)
                      +++++.|.|++.++++||++++++.+|| |+++|+.|+.||..+|++||||+|+|+||.|+++.+.+.+.+.+
T Consensus        78 v~~~~~~eNel~ile~L~~~ve~l~~yf~~~v~E~~I~~Nf~~vy~lLDE~id~G~~~eT~~~~I~~~v~~~~  150 (153)
T 3tjz_C           78 YVIGSSYENELMLMTVLNCLFDSLSQMLRKNVEKRALLENMEGLFLAVDEIVDGGVILESDPQQVVHRVALRG  150 (153)
T ss_dssp             EEEEETTSCHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHTHHHHHHHHHHHEETTEECCCCHHHHHHTC----
T ss_pred             EEEEcCCCChHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHcCCEeeeCCHHHHHHHHhccc
Confidence            5789999999999999999999999999 89999999999999999999999999999999999999887653

>3g9h_A Suppressor of yeast profilin deletion; SYP1, MU, adaptor, endocytosis, phosphoprotein; HET: 1PG; 2.80A {Saccharomyces cerevisiae}

Probab=96.36  E-value=0.2  Score=44.69  Aligned_cols=132  Identities=16%  Similarity=0.267  Sum_probs=76.6

Q ss_pred             ccceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEEeCC-------CCeEEEEeccchhhhhccCCCCCcceecccccc
Q 025655           99 KKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSG-------MPECKLGLNDRILLEAQGRSTKGKAIDLDDIKF  171 (250)
Q Consensus        99 ~~nEi~vdV~E~i~~~~~~~G~i~~~~i~G~I~~~s~LsG-------~P~~~l~ln~~~~~~~~~~~~~~~~~~l~d~~f  171 (250)
                      ..-++...+.|.|++.+.. |.+.++.|.|+|.+. |..|       .+.+.++|++-..+..-          +=+-+|
T Consensus        66 ~~pGLnASI~E~VNA~Fkg-g~~tk~~v~GEiaLs-y~~~~~s~~p~p~~l~fRL~N~~~Lekv----------~pN~~f  133 (328)
T 3g9h_A           66 SQFGLNASIAEVLNASFKD-GMLQNSQLIGEIALN-YLPNSVMNSPLPIGINLRINNGAKFEKV----------ILNQAF  133 (328)
T ss_dssp             -CCEEEEEEEEEEEEEEET-TEEEEEEEEEEEEEE-EECCSSSCCCCCSEEEEEEETGGGEEEE----------EECTTT
T ss_pred             CCCceeEEEEEEEEEEEEC-CcEEEEEEEEEEEEe-cCCCccccCCCCccEEEEecCcchhhee----------eCCHHH
Confidence            3568889999999999864 779999999998775 4444       24578888653221110          111122


Q ss_pred             ccccccccccCCceeEecCC---CCceEEEEEEecCCCcCcEEEEEEEEEC-cceEEEEEEEEeecCCcc----ccccee
Q 025655          172 HQCVRLARFENDRTISFIPP---DGSFDLMTYRLNTQVKPLIWVEAQVERH-SRSRVEILVKARSQFKER----RCSDIN  243 (250)
Q Consensus       172 H~cV~~~~~~~~r~i~F~PP---dg~F~Lm~Yr~~~~~~P~~~v~~~~~~~-~~~~~e~~v~l~~~~~~~----~~a~v~  243 (250)
                      -.++.-+.|.      |-++   ...-.+++|+++....|+++ .+.-+.. ....+-+..++.+.++..    ...|++
T Consensus       134 v~~~~~~eF~------vn~~~L~sktv~~lKYqVs~~~~PL~l-~p~WK~E~~qtsliI~Yk~NP~~~~~~~~~~L~Nv~  206 (328)
T 3g9h_A          134 IERVAPEEFK------VNPSFIDSRTLGAIKYSIKEPIAPIVI-HPVWRFESHQASVVLTVKMSPSLPDEISQIVIEDLV  206 (328)
T ss_dssp             EEEEETTEEE------ECTTTTBTCEEEEEEEEEESCCCSEEE-EEEEEECSSEEEEEEEEEECTTSCTTCCEEEEEEEE
T ss_pred             hccCCCCCEE------EchHHhcccceeeEEEEECCCCCCeEE-EeeeecCCCeeEEEEEEEECCCCcCcCCCceeeeEE
Confidence            2222211221      1111   12367899999875577765 4444433 233444444456666641    456999


Q ss_pred             EEeecC
Q 025655          244 GICIIC  249 (250)
Q Consensus       244 i~ip~p  249 (250)
                      +.+|+.
T Consensus       207 ~~V~ld  212 (328)
T 3g9h_A          207 VFVNID  212 (328)
T ss_dssp             EEEEBC
T ss_pred             EEEEeC
Confidence            999875

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	250
d2pr9a1	277	b.2.7.1 (A:159-435) Second domain of Mu2 adaptin s	3e-54
d2vglm2	141	d.110.4.2 (M:1-141) Mu2 adaptin (clathrin coat ass	6e-18
d2vgls_	142	d.110.4.2 (S:) Sigma2 adaptin (clathrin coat assem	3e-12

>d2pr9a1 b.2.7.1 (A:159-435) Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 277

class: All beta proteins
fold: Common fold of diphtheria toxin/transcription factors/cytochrome f
superfamily: Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor
family: Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor
domain: Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score =  174 bits (441), Expect = 3e-54
 Identities = 70/156 (44%), Positives = 107/156 (68%), Gaps = 7/156 (4%)

Query: 89  VSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLND 148
           + WR EGI+Y++NE+FLDV+E VN+L++  GQ++ + V G + M++YLSGMPECK G+ND
Sbjct: 1   IGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMND 60

Query: 149 RILLEAQGRS-------TKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYR 201
           +I++E QG+        +  ++I +DD  FHQCVRL++F+++R+ISFIPPDG F+LM YR
Sbjct: 61  KIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYR 120

Query: 202 LNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKER 237
               +     V   V    R+++E+ V  +S FK  
Sbjct: 121 TTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFKPS 156

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	250
d2pr9a1	277	Second domain of Mu2 adaptin subunit (ap50) of ap2	100.0
d2vglm2	141	Mu2 adaptin (clathrin coat assembly protein AP50)	99.81
d2vgls_	142	Sigma2 adaptin (clathrin coat assembly protein AP1	99.61

>d2pr9a1 b.2.7.1 (A:159-435) Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All beta proteins
fold: Common fold of diphtheria toxin/transcription factors/cytochrome f
superfamily: Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor
family: Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor
domain: Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=100.00  E-value=2.9e-43  Score=310.17  Aligned_cols=162  Identities=44%  Similarity=0.832  Sum_probs=135.3

Q ss_pred             ccccccCcccccceEEEEEEEeEEEEEccCCcEEEEEEEEEEEEEEEeCCCCeEEEEeccchhhhhccC-------CCCC
Q 025655           89 VSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGR-------STKG  161 (250)
Q Consensus        89 ~~wR~~~~~~~~nEi~vdV~E~i~~~~~~~G~i~~~~i~G~I~~~s~LsG~P~~~l~ln~~~~~~~~~~-------~~~~  161 (250)
                      +|||+.|++|++|||||||+|+++++++++|.++.++|.|+|+|+|+|+|+|+|+|+||++..++.+..       .+..
T Consensus         1 i~WR~~~i~y~~NEi~vDV~E~i~~~~~~~G~~~~~~V~G~I~~~s~LsG~P~~~l~Ln~~~~~~~~~~~~~~~~~~~~~   80 (277)
T d2pr9a1           1 IGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGK   80 (277)
T ss_dssp             CTTSCSCCCCSSCEEEEEEEEEEEEEECTTSCEEEEEEEEEEEEEEECSSSCEEEEEESBC------------------C
T ss_pred             CCccCCCCcccCCEEEEEEEEEEEEEECCCCCEEEEEEEEEEEEEEecCCCCeEEEEecchhhccccccccccccccccc
Confidence            589999999999999999999999999999999999999999999999999999999999876654321       1345


Q ss_pred             cceeccccccccccccccccCCceeEecCCCCceEEEEEEecCCCcCcEEEEEEEEECcceEEEEEEEEeecCCccccc-
Q 025655          162 KAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERRCS-  240 (250)
Q Consensus       162 ~~~~l~d~~fH~cV~~~~~~~~r~i~F~PPdg~F~Lm~Yr~~~~~~P~~~v~~~~~~~~~~~~e~~v~l~~~~~~~~~a-  240 (250)
                      .++.|+||+||+||+++.|+++|+|+|+||||+|+||+||++.+..+|+.+.++++..++++++++++++++++.+..+ 
T Consensus        81 ~~~~l~d~~fH~cV~~~~f~~~~~i~F~PPdG~F~Lm~Y~~~~~~~~P~~i~~~~~~~~~~~~~~~i~l~~~~~~~~~~~  160 (277)
T d2pr9a1          81 QSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQ  160 (277)
T ss_dssp             CCBCCSEEEECTTSBCC-----CCEEECCCSEEEEEEEEEECSSCCCCEEEEEEEEEETTTEEEEEEEEEECSCTTCEEE
T ss_pred             CceEccceeeeeccccccccccceEeecCCCCcEEEEEEEcCCCcCCCcEEEEEEEeccCcEEEEEEEEEeccCCCeeee
Confidence            7889999999999999999999999999999999999999987764444568999887777999999999999887655 


Q ss_pred             ceeEEeecCC
Q 025655          241 DINGICIICT  250 (250)
Q Consensus       241 ~v~i~ip~p~  250 (250)
                      ++.|.||+|.
T Consensus       161 ~v~I~iP~P~  170 (277)
T d2pr9a1         161 KIEVRIPTPL  170 (277)
T ss_dssp             EEEEEEECCT
T ss_pred             EEEEEeeCCC
Confidence            9999999983