Psyllid ID: psy17618

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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----
Protein Sequence
MRSVYVSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSNGGRPNASCPSFHRMVTSASCLTIRIRKVKKDKNRSISVTDR
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccEEEEEEEEEEEEEEcccccEEEEEEEEEEEEEEEEcccccEEEEEccccccccccccccccccccccccEEEEEcccccEEEEEEEEcccccccccccEEEcEEEEEcccEEEEEEEEEEccccccEEEEEEEc
Secondary Structure Prediction (SSPRO)
ccccccccccccHHcccccccccccEEcccEEHHHHHHHHEEEEcccccEEEEEEEEEEEEEEEEccccccEccccccEEEccccEccEEEEcccccccEEEEccccccEEEEEEEEccccccccccEEEEEEEEEEcccccEEEEEEEEEEccccccEccccc
Coil and Loop (DISEMBL)
MRSVYVSsilpsgqlssvpwrrtgvkytnneayFDVIEEVDAIIDKTGSTIFSEIQGYIDCCiklsgmpdltlsfmnprlfddvsfhpcvrfkRWEAERIlsfippdgnfrlmsyhtrvsgsnggrpnascpsfhrmvtsaSCLTIRIRKVkkdknrsisvtdr
Flexible Loop (DISEMBL)
mrsvyvssilpsgqlssvpwrrtgVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILsfippdgnfrLMSYHTRVSGSNGGRPNASCPSFHRMVTSascltirirkvkkdknrsisvtdr
Low Complexity Region (SEG)
MRSVYVSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSNGGRPNASCPSFHRMVTSASCLTIRIRKVKKDKNRSISVTDR
Disordered region (IsUnstruct)
********IL***QLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTR***************FHRMVTSASCLTIRIR***************
Disordered Region (DISOPRED)
*******************WRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSNGGRPNASCPSFHRMVTSASCLTIRIRKVKK***RS*SV*D*
Disordered Region (DISEMBL)
********ILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRV********NASCPSFHRMVTSASCLTIRIRKV*************
Disordered Region (DISPRO)
*****************VPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSNGGRPNASCPSFHRMVTSASCLTIRIRKVKKDKNRS******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MRSVYVSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSNGGRPNASCPSFHRMVTSASCLTIRIRKVKKDKNRSISVTDR
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	164	2.2.26 [Sep-21-2011]
P53677	418	AP-3 complex subunit mu-2	yes	N/A	0.725	0.284	0.818	3e-55
P53678	418	AP-3 complex subunit mu-2	yes	N/A	0.725	0.284	0.801	7e-55
Q8R2R9	418	AP-3 complex subunit mu-2	yes	N/A	0.725	0.284	0.793	1e-54
Q5ZMP7	418	AP-3 complex subunit mu-1	no	N/A	0.707	0.277	0.805	1e-54
Q5R478	418	AP-3 complex subunit mu-1	no	N/A	0.707	0.277	0.796	2e-54
Q9Y2T2	418	AP-3 complex subunit mu-1	no	N/A	0.707	0.277	0.796	2e-54
P53676	418	AP-3 complex subunit mu-1	no	N/A	0.707	0.277	0.796	2e-54
Q9JKC8	418	AP-3 complex subunit mu-1	no	N/A	0.707	0.277	0.796	2e-54
Q24K11	418	AP-3 complex subunit mu-1	no	N/A	0.707	0.277	0.796	2e-54
P47795	418	AP-1 complex subunit mu O	N/A	N/A	0.682	0.267	0.812	8e-54

>sp|P53677|AP3M2_HUMAN AP-3 complex subunit mu-2 OS=Homo sapiens GN=AP3M2 PE=1 SV=1

 Score =  214 bits (544), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 99/121 (81%), Positives = 107/121 (88%), Gaps = 2/121 (1%)

Query: 3   SVYVSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCC 62
           S  V   LP+GQLS VPWRRTGVKYTNNEAYFDVIEE+DAIIDK+GSTI +EIQG ID C
Sbjct: 150 STNVGDQLPTGQLSVVPWRRTGVKYTNNEAYFDVIEEIDAIIDKSGSTITAEIQGVIDAC 209

Query: 63  IKLSGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGS 122
           +KL+GMPDLTLSFMNPRL DDVSFHPCVRFKRWE+ERILSFIPPDGNFRL+SYH  VS  
Sbjct: 210 VKLTGMPDLTLSFMNPRLLDDVSFHPCVRFKRWESERILSFIPPDGNFRLLSYH--VSAQ 267

Query: 123 N 123
           N
Sbjct: 268 N 268

Part of the AP-3 complex, an adaptor-related complex which is not clathrin-associated. The complex is associated with the Golgi region as well as more peripheral structures. It facilitates the budding of vesicles from the Golgi membrane and may be directly involved in trafficking to lysosomes.
Homo sapiens (taxid: 9606)

>sp|P53678|AP3M2_RAT AP-3 complex subunit mu-2 OS=Rattus norvegicus GN=Ap3m2 PE=2 SV=1

 Score =  212 bits (540), Expect = 7e-55,   Method: Compositional matrix adjust.
 Identities = 97/121 (80%), Positives = 107/121 (88%), Gaps = 2/121 (1%)

Query: 3   SVYVSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCC 62
           S  V   LP+GQLS VPWRRTGVKYTNNEAYFDV+EE+DAIIDK+GST+ +EIQG ID C
Sbjct: 150 STNVGDQLPTGQLSVVPWRRTGVKYTNNEAYFDVVEEIDAIIDKSGSTVTAEIQGVIDAC 209

Query: 63  IKLSGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGS 122
           +KL+GMPDLTLSFMNPRL DDVSFHPCVRFKRWE+ERILSFIPPDGNFRL+SYH  VS  
Sbjct: 210 VKLTGMPDLTLSFMNPRLLDDVSFHPCVRFKRWESERILSFIPPDGNFRLLSYH--VSAQ 267

Query: 123 N 123
           N
Sbjct: 268 N 268

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. Ap47 is a subunit of the plasma membrane adaptor.

Rattus norvegicus (taxid: 10116)

>sp|Q8R2R9|AP3M2_MOUSE AP-3 complex subunit mu-2 OS=Mus musculus GN=Ap3m2 PE=2 SV=1

 Score =  211 bits (538), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 96/121 (79%), Positives = 107/121 (88%), Gaps = 2/121 (1%)

Query: 3   SVYVSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCC 62
           S  V   LP+GQLS VPWRRTGVKYTNNEAYFDV+EE+DAIIDK+GST+ +EIQG ID C
Sbjct: 150 STNVGDQLPTGQLSVVPWRRTGVKYTNNEAYFDVVEEIDAIIDKSGSTVTAEIQGVIDAC 209

Query: 63  IKLSGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGS 122
           +KL+GMPDLTLSFMNPRL DDVSFHPCVRFKRWE+ERILSFIPPDGNFRL++YH  VS  
Sbjct: 210 VKLTGMPDLTLSFMNPRLLDDVSFHPCVRFKRWESERILSFIPPDGNFRLLAYH--VSAQ 267

Query: 123 N 123
           N
Sbjct: 268 N 268

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. Ap47 is a subunit of the plasma membrane adaptor.

Mus musculus (taxid: 10090)

>sp|Q5ZMP7|AP3M1_CHICK AP-3 complex subunit mu-1 OS=Gallus gallus GN=AP3M1 PE=2 SV=1

 Score =  211 bits (538), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 95/118 (80%), Positives = 107/118 (90%), Gaps = 2/118 (1%)

Query: 6   VSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKL 65
           V   LP+GQLS++PWRR GVKYTNNEAYFDVIEE+DAIIDK+GST+F+EIQG ID CIKL
Sbjct: 153 VGDTLPTGQLSNIPWRRAGVKYTNNEAYFDVIEEIDAIIDKSGSTVFAEIQGVIDSCIKL 212

Query: 66  SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSN 123
           SGMPDL+LSFMNPRL DDVSFHPC+RFKRWE+ER+LSFIPPDGNFRL+SY  RVS  N
Sbjct: 213 SGMPDLSLSFMNPRLLDDVSFHPCIRFKRWESERVLSFIPPDGNFRLISY--RVSSQN 268

Part of the AP-3 complex, an adaptor-related complex which is not clathrin-associated. The complex is associated with the Golgi region as well as more peripheral structures. It facilitates the budding of vesicles from the Golgi membrane and may be directly involved in trafficking to lysosomes.

Gallus gallus (taxid: 9031)

>sp|Q5R478|AP3M1_PONAB AP-3 complex subunit mu-1 OS=Pongo abelii GN=AP3M1 PE=2 SV=1

 Score =  211 bits (537), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 94/118 (79%), Positives = 107/118 (90%), Gaps = 2/118 (1%)

Query: 6   VSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKL 65
           V   LP+GQLS++PWRR GVKYTNNEAYFDV+EE+DAIIDK+GST+F+EIQG ID CIKL
Sbjct: 153 VGDTLPTGQLSNIPWRRAGVKYTNNEAYFDVVEEIDAIIDKSGSTVFAEIQGVIDACIKL 212

Query: 66  SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSN 123
           SGMPDL+LSFMNPRL DDVSFHPC+RFKRWE+ER+LSFIPPDGNFRL+SY  RVS  N
Sbjct: 213 SGMPDLSLSFMNPRLLDDVSFHPCIRFKRWESERVLSFIPPDGNFRLISY--RVSSQN 268

Part of the AP-3 complex, an adaptor-related complex which is not clathrin-associated. The complex is associated with the Golgi region as well as more peripheral structures. It facilitates the budding of vesicles from the Golgi membrane and may be directly involved in trafficking to lysosomes.

Pongo abelii (taxid: 9601)

>sp|Q9Y2T2|AP3M1_HUMAN AP-3 complex subunit mu-1 OS=Homo sapiens GN=AP3M1 PE=1 SV=1

 Score =  211 bits (537), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 94/118 (79%), Positives = 107/118 (90%), Gaps = 2/118 (1%)

Query: 6   VSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKL 65
           V   LP+GQLS++PWRR GVKYTNNEAYFDV+EE+DAIIDK+GST+F+EIQG ID CIKL
Sbjct: 153 VGDTLPTGQLSNIPWRRAGVKYTNNEAYFDVVEEIDAIIDKSGSTVFAEIQGVIDACIKL 212

Query: 66  SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSN 123
           SGMPDL+LSFMNPRL DDVSFHPC+RFKRWE+ER+LSFIPPDGNFRL+SY  RVS  N
Sbjct: 213 SGMPDLSLSFMNPRLLDDVSFHPCIRFKRWESERVLSFIPPDGNFRLISY--RVSSQN 268

Part of the AP-3 complex, an adaptor-related complex which is not clathrin-associated. The complex is associated with the Golgi region as well as more peripheral structures. It facilitates the budding of vesicles from the Golgi membrane and may be directly involved in trafficking to lysosomes.

Homo sapiens (taxid: 9606)

>sp|P53676|AP3M1_RAT AP-3 complex subunit mu-1 OS=Rattus norvegicus GN=Ap3m1 PE=2 SV=1

 Score =  211 bits (537), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 94/118 (79%), Positives = 107/118 (90%), Gaps = 2/118 (1%)

Query: 6   VSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKL 65
           V   LP+GQLS++PWRR GVKYTNNEAYFDV+EE+DAIIDK+GST+F+EIQG ID CIKL
Sbjct: 153 VGDTLPTGQLSNIPWRRAGVKYTNNEAYFDVVEEIDAIIDKSGSTVFAEIQGVIDACIKL 212

Query: 66  SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSN 123
           SGMPDL+LSFMNPRL DDVSFHPC+RFKRWE+ER+LSFIPPDGNFRL+SY  RVS  N
Sbjct: 213 SGMPDLSLSFMNPRLLDDVSFHPCIRFKRWESERVLSFIPPDGNFRLISY--RVSSQN 268

Part of the AP-3 complex, an adaptor-related complex which is not clathrin-associated. The complex is associated with the Golgi region as well as more peripheral structures. It facilitates the budding of vesicles from the Golgi membrane and may be directly involved in trafficking to lysosomes.

Rattus norvegicus (taxid: 10116)

>sp|Q9JKC8|AP3M1_MOUSE AP-3 complex subunit mu-1 OS=Mus musculus GN=Ap3m1 PE=1 SV=1

 Score =  211 bits (537), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 94/118 (79%), Positives = 107/118 (90%), Gaps = 2/118 (1%)

Query: 6   VSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKL 65
           V   LP+GQLS++PWRR GVKYTNNEAYFDV+EE+DAIIDK+GST+F+EIQG ID CIKL
Sbjct: 153 VGDTLPTGQLSNIPWRRAGVKYTNNEAYFDVVEEIDAIIDKSGSTVFAEIQGVIDACIKL 212

Query: 66  SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSN 123
           SGMPDL+LSFMNPRL DDVSFHPC+RFKRWE+ER+LSFIPPDGNFRL+SY  RVS  N
Sbjct: 213 SGMPDLSLSFMNPRLLDDVSFHPCIRFKRWESERVLSFIPPDGNFRLISY--RVSSQN 268

Part of the AP-3 complex, an adaptor-related complex which is not clathrin-associated. The complex is associated with the Golgi region as well as more peripheral structures. It facilitates the budding of vesicles from the Golgi membrane and may be directly involved in trafficking to lysosomes.

Mus musculus (taxid: 10090)

>sp|Q24K11|AP3M1_BOVIN AP-3 complex subunit mu-1 OS=Bos taurus GN=AP3M1 PE=2 SV=1

 Score =  211 bits (537), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 94/118 (79%), Positives = 107/118 (90%), Gaps = 2/118 (1%)

Query: 6   VSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKL 65
           V   LP+GQLS++PWRR GVKYTNNEAYFDV+EE+DAIIDK+GST+F+EIQG ID CIKL
Sbjct: 153 VGDTLPTGQLSNIPWRRAGVKYTNNEAYFDVVEEIDAIIDKSGSTVFAEIQGVIDACIKL 212

Query: 66  SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSN 123
           SGMPDL+LSFMNPRL DDVSFHPC+RFKRWE+ER+LSFIPPDGNFRL+SY  RVS  N
Sbjct: 213 SGMPDLSLSFMNPRLLDDVSFHPCIRFKRWESERVLSFIPPDGNFRLISY--RVSSQN 268

Part of the AP-3 complex, an adaptor-related complex which is not clathrin-associated. The complex is associated with the Golgi region as well as more peripheral structures. It facilitates the budding of vesicles from the Golgi membrane and may be directly involved in trafficking to lysosomes.

Bos taurus (taxid: 9913)

>sp|P47795|AP1M_DIPOM AP-1 complex subunit mu OS=Diplobatis ommata PE=2 SV=1

 Score =  209 bits (531), Expect = 8e-54,   Method: Compositional matrix adjust.
 Identities = 91/112 (81%), Positives = 102/112 (91%)

Query: 6   VSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKL 65
           V   LP+GQLS++PWRR GVKYTNNEAYFDV EE+DAIIDK+GST+F+EIQG ID CIKL
Sbjct: 153 VGDQLPTGQLSNIPWRRVGVKYTNNEAYFDVTEEIDAIIDKSGSTVFAEIQGVIDACIKL 212

Query: 66  SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHT 117
           +GMPDLTLSF+NPRL DDVSFHPCVRFKRWE+ER+LSFIPP GNFRLMSYH 
Sbjct: 213 TGMPDLTLSFLNPRLLDDVSFHPCVRFKRWESERVLSFIPPVGNFRLMSYHV 264

Component of the adapter 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. AP47 is a subunit of the plasma membrane adapter.

Discopyge ommata (taxid: 7785)

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	164
322799306	417	hypothetical protein SINV_03403 [Solenop	0.676	0.266	0.918	3e-58
307211277	417	AP-3 complex subunit mu-1 [Harpegnathos	0.676	0.266	0.918	3e-58
91091862	415	PREDICTED: similar to GA15778-PA [Tribol	0.676	0.267	0.909	3e-58
332021080	417	AP-3 complex subunit mu-1 [Acromyrmex ec	0.676	0.266	0.918	3e-58
383862337	417	PREDICTED: AP-3 complex subunit mu-1 [Me	0.676	0.266	0.918	3e-58
195132478	415	GI21579 [Drosophila mojavensis] gi|19390	0.676	0.267	0.918	4e-58
307186274	417	AP-3 complex subunit mu-1 [Camponotus fl	0.676	0.266	0.909	5e-58
170047645	301	AP-2 complex subunit mu [Culex quinquefa	0.676	0.368	0.909	6e-58
125981825	415	GA15778 [Drosophila pseudoobscura pseudo	0.676	0.267	0.909	6e-58
194762480	415	GF20328 [Drosophila ananassae] gi|190629	0.676	0.267	0.909	6e-58

>gi|322799306|gb|EFZ20694.1| hypothetical protein SINV_03403 [Solenopsis invicta]

 Score =  229 bits (584), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 102/111 (91%), Positives = 111/111 (100%)

Query: 6   VSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKL 65
           VS+ILPSGQLS+VPWRRTGVKYTNNEAYFDV+EEVDAIID+TG+T+F+EIQGYIDCCIKL
Sbjct: 153 VSAILPSGQLSNVPWRRTGVKYTNNEAYFDVVEEVDAIIDRTGATVFAEIQGYIDCCIKL 212

Query: 66  SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYH 116
           SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWE+ERILSFIPPDGNFRL+SYH
Sbjct: 213 SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWESERILSFIPPDGNFRLLSYH 263

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307211277|gb|EFN87463.1| AP-3 complex subunit mu-1 [Harpegnathos saltator]

 Score =  229 bits (584), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 102/111 (91%), Positives = 111/111 (100%)

Query: 6   VSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKL 65
           VS+ILPSGQLS+VPWRRTGVKYTNNEAYFDV+EEVDAIID+TG+T+F+EIQGYIDCCIKL
Sbjct: 153 VSAILPSGQLSNVPWRRTGVKYTNNEAYFDVVEEVDAIIDRTGATVFAEIQGYIDCCIKL 212

Query: 66  SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYH 116
           SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWE+ERILSFIPPDGNFRL+SYH
Sbjct: 213 SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWESERILSFIPPDGNFRLLSYH 263

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91091862|ref|XP_968876.1| PREDICTED: similar to GA15778-PA [Tribolium castaneum] gi|270000812|gb|EEZ97259.1| hypothetical protein TcasGA2_TC011059 [Tribolium castaneum]

 Score =  229 bits (584), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 101/111 (90%), Positives = 110/111 (99%)

Query: 6   VSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKL 65
           VS +LP+GQLS++PWRRTGVKYTNNEAYFDVIEEVDAIIDK+GST+F+EIQGYIDCCIKL
Sbjct: 151 VSEVLPTGQLSNIPWRRTGVKYTNNEAYFDVIEEVDAIIDKSGSTVFAEIQGYIDCCIKL 210

Query: 66  SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYH 116
           SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAER+LSFIPPDGNFRL+SYH
Sbjct: 211 SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERVLSFIPPDGNFRLISYH 261

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332021080|gb|EGI61467.1| AP-3 complex subunit mu-1 [Acromyrmex echinatior]

 Score =  229 bits (584), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 102/111 (91%), Positives = 111/111 (100%)

Query: 6   VSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKL 65
           VS+ILPSGQLS+VPWRRTGVKYTNNEAYFDV+EEVDAIID+TG+T+F+EIQGYIDCCIKL
Sbjct: 153 VSAILPSGQLSNVPWRRTGVKYTNNEAYFDVVEEVDAIIDRTGATVFAEIQGYIDCCIKL 212

Query: 66  SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYH 116
           SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWE+ERILSFIPPDGNFRL+SYH
Sbjct: 213 SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWESERILSFIPPDGNFRLLSYH 263

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383862337|ref|XP_003706640.1| PREDICTED: AP-3 complex subunit mu-1 [Megachile rotundata]

 Score =  229 bits (584), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 102/111 (91%), Positives = 111/111 (100%)

Query: 6   VSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKL 65
           VS+ILPSGQLS+VPWRRTGVKYTNNEAYFDV+EEVDAIID+TG+T+F+EIQGYIDCCIKL
Sbjct: 153 VSAILPSGQLSNVPWRRTGVKYTNNEAYFDVVEEVDAIIDRTGATVFAEIQGYIDCCIKL 212

Query: 66  SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYH 116
           SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWE+ERILSFIPPDGNFRL+SYH
Sbjct: 213 SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWESERILSFIPPDGNFRLLSYH 263

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195132478|ref|XP_002010670.1| GI21579 [Drosophila mojavensis] gi|193907458|gb|EDW06325.1| GI21579 [Drosophila mojavensis]

 Score =  229 bits (583), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 102/111 (91%), Positives = 111/111 (100%)

Query: 6   VSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKL 65
           VS+ILPSGQLS++PWRR+GV+YTNNEAYFDVIEEVDAIIDK+GST+FSEIQG+IDCCIKL
Sbjct: 151 VSTILPSGQLSAIPWRRSGVRYTNNEAYFDVIEEVDAIIDKSGSTVFSEIQGHIDCCIKL 210

Query: 66  SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYH 116
           SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAER+LSFIPPDGNFRLMSYH
Sbjct: 211 SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERLLSFIPPDGNFRLMSYH 261

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307186274|gb|EFN71937.1| AP-3 complex subunit mu-1 [Camponotus floridanus]

 Score =  228 bits (582), Expect = 5e-58,   Method: Compositional matrix adjust.
 Identities = 101/111 (90%), Positives = 111/111 (100%)

Query: 6   VSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKL 65
           VS+ILPSGQLS+VPWRRTGVKYTNNEAYFDV+EEVDAIID+TG+T+F+EIQGY+DCCIKL
Sbjct: 153 VSAILPSGQLSNVPWRRTGVKYTNNEAYFDVVEEVDAIIDRTGATVFAEIQGYVDCCIKL 212

Query: 66  SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYH 116
           SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWE+ERILSFIPPDGNFRL+SYH
Sbjct: 213 SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWESERILSFIPPDGNFRLLSYH 263

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170047645|ref|XP_001851324.1| AP-2 complex subunit mu [Culex quinquefasciatus] gi|167870005|gb|EDS33388.1| AP-2 complex subunit mu [Culex quinquefasciatus]

 Score =  228 bits (582), Expect = 6e-58,   Method: Compositional matrix adjust.
 Identities = 101/111 (90%), Positives = 107/111 (96%)

Query: 6   VSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKL 65
           VS  LP+GQLS++PWRRTGVKYTNNEAYFDV+EEVDAIIDK G TIF+EIQGYIDCCIKL
Sbjct: 38  VSGTLPTGQLSAIPWRRTGVKYTNNEAYFDVVEEVDAIIDKNGQTIFAEIQGYIDCCIKL 97

Query: 66  SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYH 116
           SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWE+ERILSFIPPDGNFRLMSYH
Sbjct: 98  SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWESERILSFIPPDGNFRLMSYH 148

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|125981825|ref|XP_001354916.1| GA15778 [Drosophila pseudoobscura pseudoobscura] gi|54643228|gb|EAL31972.1| GA15778 [Drosophila pseudoobscura pseudoobscura]

 Score =  228 bits (581), Expect = 6e-58,   Method: Compositional matrix adjust.
 Identities = 101/111 (90%), Positives = 111/111 (100%)

Query: 6   VSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKL 65
           VS+ILPSGQLS++PWRR+GV+YTNNEAYFDVIEEVDAIIDK+GST+F+EIQG+IDCCIKL
Sbjct: 151 VSTILPSGQLSAIPWRRSGVRYTNNEAYFDVIEEVDAIIDKSGSTVFAEIQGHIDCCIKL 210

Query: 66  SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYH 116
           SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAER+LSFIPPDGNFRLMSYH
Sbjct: 211 SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERLLSFIPPDGNFRLMSYH 261

Source: Drosophila pseudoobscura pseudoobscura

Species: Drosophila pseudoobscura

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194762480|ref|XP_001963362.1| GF20328 [Drosophila ananassae] gi|190629021|gb|EDV44438.1| GF20328 [Drosophila ananassae]

 Score =  228 bits (581), Expect = 6e-58,   Method: Compositional matrix adjust.
 Identities = 101/111 (90%), Positives = 111/111 (100%)

Query: 6   VSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKL 65
           VS+ILPSGQLS++PWRR+GV+YTNNEAYFDVIEEVDAIIDK+GST+F+EIQG+IDCCIKL
Sbjct: 151 VSTILPSGQLSAIPWRRSGVRYTNNEAYFDVIEEVDAIIDKSGSTVFAEIQGHIDCCIKL 210

Query: 66  SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYH 116
           SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAER+LSFIPPDGNFRLMSYH
Sbjct: 211 SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERLLSFIPPDGNFRLMSYH 261

Source: Drosophila ananassae

Species: Drosophila ananassae

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

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	164
FB|FBgn0000330	415	cm "carmine" [Drosophila melan	0.676	0.267	0.891	6.3e-53
ZFIN|ZDB-GENE-021022-2	418	ap3m2 "adaptor-related protein	0.725	0.284	0.818	1.1e-50
UNIPROTKB|E1C4U4	418	AP3M2 "Uncharacterized protein	0.725	0.284	0.818	1.7e-50
UNIPROTKB|E1B763	418	AP3M2 "Uncharacterized protein	0.725	0.284	0.818	1.7e-50
UNIPROTKB|E5RJ52	287	AP3M2 "AP-3 complex subunit mu	0.725	0.414	0.818	1.7e-50
UNIPROTKB|P53677	418	AP3M2 "AP-3 complex subunit mu	0.725	0.284	0.818	1.7e-50
RGD|70969	418	Ap3m2 "adaptor-related protein	0.725	0.284	0.801	2.8e-50
UNIPROTKB|F1NZC2	418	AP3M1 "AP-3 complex subunit mu	0.707	0.277	0.805	3.6e-50
UNIPROTKB|Q5ZMP7	418	AP3M1 "AP-3 complex subunit mu	0.707	0.277	0.805	3.6e-50
UNIPROTKB|F2Z4I2	418	AP3M1 "AP-3 complex subunit mu	0.707	0.277	0.796	3.6e-50

FB|FBgn0000330 cm "carmine" [Drosophila melanogaster (taxid:7227)]

 Score = 548 (198.0 bits), Expect = 6.3e-53, P = 6.3e-53
 Identities = 99/111 (89%), Positives = 109/111 (98%)

Query:     6 VSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKL 65
             VS+ LPSGQLS+V WRR+GV+YTNNEAYFDVIEEVDAIIDK+GST+F+EIQG+IDCCIKL
Sbjct:   151 VSTTLPSGQLSAVRWRRSGVRYTNNEAYFDVIEEVDAIIDKSGSTVFAEIQGHIDCCIKL 210

Query:    66 SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYH 116
             SGMPDLTLSFMNPRLFDDVSFHPCVR+KRWEAER+LSFIPPDGNFRLMSYH
Sbjct:   211 SGMPDLTLSFMNPRLFDDVSFHPCVRYKRWEAERLLSFIPPDGNFRLMSYH 261

GO:0006727 "ommochrome biosynthetic process" evidence=IMP

GO:0030131 "clathrin adaptor complex" evidence=ISS;NAS

GO:0016183 "synaptic vesicle coating" evidence=TAS

GO:0030135 "coated vesicle" evidence=TAS

GO:0007269 "neurotransmitter secretion" evidence=NAS

GO:0006901 "vesicle coating" evidence=TAS

GO:0008021 "synaptic vesicle" evidence=TAS

GO:0007040 "lysosome organization" evidence=ISS

GO:0030123 "AP-3 adaptor complex" evidence=ISS

GO:0046907 "intracellular transport" evidence=TAS

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0008340 "determination of adult lifespan" evidence=IMP

GO:0007220 "Notch receptor processing" evidence=IMP

GO:0006897 "endocytosis" evidence=IMP

GO:0022008 "neurogenesis" evidence=IMP

ZFIN|ZDB-GENE-021022-2 ap3m2 "adaptor-related protein complex 3, mu 2 subunit" [Danio rerio (taxid:7955)]

 Score = 527 (190.6 bits), Expect = 1.1e-50, P = 1.1e-50
 Identities = 99/121 (81%), Positives = 107/121 (88%)

Query:     3 SVYVSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCC 62
             S  V   LP+GQLS VPWRRTGVKYTNNEAYFDV+EE+DAIIDK+GSTI +EIQG ID C
Sbjct:   150 STNVGGQLPTGQLSVVPWRRTGVKYTNNEAYFDVVEEIDAIIDKSGSTITAEIQGVIDAC 209

Query:    63 IKLSGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGS 122
             +KL+GMPDLTLSFMNPRL DDVSFHPCVRFKRWEAERILSFIPPDGNFRL+SYH  VS  
Sbjct:   210 VKLTGMPDLTLSFMNPRLLDDVSFHPCVRFKRWEAERILSFIPPDGNFRLLSYH--VSSQ 267

Query:   123 N 123
             N
Sbjct:   268 N 268

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

GO:0030131 "clathrin adaptor complex" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0006810 "transport" evidence=IEA

UNIPROTKB|E1C4U4 AP3M2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 525 (189.9 bits), Expect = 1.7e-50, P = 1.7e-50
 Identities = 99/121 (81%), Positives = 107/121 (88%)

Query:     3 SVYVSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCC 62
             S  V   LP+GQLS VPWRRTGVKYTNNEAYFDVIEE+DAIIDK+GSTI +EIQG ID C
Sbjct:   150 STNVGDQLPTGQLSVVPWRRTGVKYTNNEAYFDVIEEIDAIIDKSGSTITAEIQGVIDAC 209

Query:    63 IKLSGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGS 122
             +KL+GMPDLTLSFMNPRL DDVSFHPCVRFKRWE+ERILSFIPPDGNFRL+SYH  VS  
Sbjct:   210 VKLTGMPDLTLSFMNPRLLDDVSFHPCVRFKRWESERILSFIPPDGNFRLLSYH--VSAQ 267

Query:   123 N 123
             N
Sbjct:   268 N 268

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0030131 "clathrin adaptor complex" evidence=IEA

GO:0008089 "anterograde axon cargo transport" evidence=IEA

GO:0048490 "anterograde synaptic vesicle transport" evidence=IEA

UNIPROTKB|E1B763 AP3M2 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 525 (189.9 bits), Expect = 1.7e-50, P = 1.7e-50
 Identities = 99/121 (81%), Positives = 107/121 (88%)

Query:     3 SVYVSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCC 62
             S  V   LP+GQLS VPWRRTGVKYTNNEAYFDVIEE+DAIIDK+GSTI +EIQG ID C
Sbjct:   150 STNVGDQLPTGQLSVVPWRRTGVKYTNNEAYFDVIEEIDAIIDKSGSTITAEIQGVIDAC 209

Query:    63 IKLSGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGS 122
             +KL+GMPDLTLSFMNPRL DDVSFHPCVRFKRWE+ERILSFIPPDGNFRL+SYH  VS  
Sbjct:   210 VKLTGMPDLTLSFMNPRLLDDVSFHPCVRFKRWESERILSFIPPDGNFRLLSYH--VSAQ 267

Query:   123 N 123
             N
Sbjct:   268 N 268

GO:0048490 "anterograde synaptic vesicle transport" evidence=IEA

GO:0008089 "anterograde axon cargo transport" evidence=IEA

GO:0030131 "clathrin adaptor complex" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

UNIPROTKB|E5RJ52 AP3M2 "AP-3 complex subunit mu-2" [Homo sapiens (taxid:9606)]

 Score = 525 (189.9 bits), Expect = 1.7e-50, P = 1.7e-50
 Identities = 99/121 (81%), Positives = 107/121 (88%)

Query:     3 SVYVSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCC 62
             S  V   LP+GQLS VPWRRTGVKYTNNEAYFDVIEE+DAIIDK+GSTI +EIQG ID C
Sbjct:    35 STNVGDQLPTGQLSVVPWRRTGVKYTNNEAYFDVIEEIDAIIDKSGSTITAEIQGVIDAC 94

Query:    63 IKLSGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGS 122
             +KL+GMPDLTLSFMNPRL DDVSFHPCVRFKRWE+ERILSFIPPDGNFRL+SYH  VS  
Sbjct:    95 VKLTGMPDLTLSFMNPRLLDDVSFHPCVRFKRWESERILSFIPPDGNFRLLSYH--VSAQ 152

Query:   123 N 123
             N
Sbjct:   153 N 153

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0030131 "clathrin adaptor complex" evidence=IEA

GO:0008089 "anterograde axon cargo transport" evidence=IEA

GO:0048490 "anterograde synaptic vesicle transport" evidence=IEA

UNIPROTKB|P53677 AP3M2 "AP-3 complex subunit mu-2" [Homo sapiens (taxid:9606)]

 Score = 525 (189.9 bits), Expect = 1.7e-50, P = 1.7e-50
 Identities = 99/121 (81%), Positives = 107/121 (88%)

Query:     3 SVYVSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCC 62
             S  V   LP+GQLS VPWRRTGVKYTNNEAYFDVIEE+DAIIDK+GSTI +EIQG ID C
Sbjct:   150 STNVGDQLPTGQLSVVPWRRTGVKYTNNEAYFDVIEEIDAIIDKSGSTITAEIQGVIDAC 209

Query:    63 IKLSGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGS 122
             +KL+GMPDLTLSFMNPRL DDVSFHPCVRFKRWE+ERILSFIPPDGNFRL+SYH  VS  
Sbjct:   210 VKLTGMPDLTLSFMNPRLLDDVSFHPCVRFKRWESERILSFIPPDGNFRLLSYH--VSAQ 267

Query:   123 N 123
             N
Sbjct:   268 N 268

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0030131 "clathrin adaptor complex" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0008089 "anterograde axon cargo transport" evidence=ISS

GO:0048490 "anterograde synaptic vesicle transport" evidence=ISS

GO:0030119 "AP-type membrane coat adaptor complex" evidence=TAS

RGD|70969 Ap3m2 "adaptor-related protein complex 3, mu 2 subunit" [Rattus norvegicus (taxid:10116)]

 Score = 523 (189.2 bits), Expect = 2.8e-50, P = 2.8e-50
 Identities = 97/121 (80%), Positives = 107/121 (88%)

Query:     3 SVYVSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCC 62
             S  V   LP+GQLS VPWRRTGVKYTNNEAYFDV+EE+DAIIDK+GST+ +EIQG ID C
Sbjct:   150 STNVGDQLPTGQLSVVPWRRTGVKYTNNEAYFDVVEEIDAIIDKSGSTVTAEIQGVIDAC 209

Query:    63 IKLSGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGS 122
             +KL+GMPDLTLSFMNPRL DDVSFHPCVRFKRWE+ERILSFIPPDGNFRL+SYH  VS  
Sbjct:   210 VKLTGMPDLTLSFMNPRLLDDVSFHPCVRFKRWESERILSFIPPDGNFRLLSYH--VSAQ 267

Query:   123 N 123
             N
Sbjct:   268 N 268

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0007269 "neurotransmitter secretion" evidence=NAS

GO:0008089 "anterograde axon cargo transport" evidence=ISO;ISS

GO:0030131 "clathrin adaptor complex" evidence=IEA

GO:0030659 "cytoplasmic vesicle membrane" evidence=IEA

GO:0046907 "intracellular transport" evidence=NAS

GO:0048490 "anterograde synaptic vesicle transport" evidence=ISO;ISS

UNIPROTKB|F1NZC2 AP3M1 "AP-3 complex subunit mu-1" [Gallus gallus (taxid:9031)]

 Score = 522 (188.8 bits), Expect = 3.6e-50, P = 3.6e-50
 Identities = 95/118 (80%), Positives = 107/118 (90%)

Query:     6 VSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKL 65
             V   LP+GQLS++PWRR GVKYTNNEAYFDVIEE+DAIIDK+GST+F+EIQG ID CIKL
Sbjct:   153 VGDTLPTGQLSNIPWRRAGVKYTNNEAYFDVIEEIDAIIDKSGSTVFAEIQGVIDSCIKL 212

Query:    66 SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSN 123
             SGMPDL+LSFMNPRL DDVSFHPC+RFKRWE+ER+LSFIPPDGNFRL+SY  RVS  N
Sbjct:   213 SGMPDLSLSFMNPRLLDDVSFHPCIRFKRWESERVLSFIPPDGNFRLISY--RVSSQN 268

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0030131 "clathrin adaptor complex" evidence=IEA

GO:0008089 "anterograde axon cargo transport" evidence=IEA

GO:0048490 "anterograde synaptic vesicle transport" evidence=IEA

UNIPROTKB|Q5ZMP7 AP3M1 "AP-3 complex subunit mu-1" [Gallus gallus (taxid:9031)]

 Score = 522 (188.8 bits), Expect = 3.6e-50, P = 3.6e-50
 Identities = 95/118 (80%), Positives = 107/118 (90%)

Query:     6 VSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKL 65
             V   LP+GQLS++PWRR GVKYTNNEAYFDVIEE+DAIIDK+GST+F+EIQG ID CIKL
Sbjct:   153 VGDTLPTGQLSNIPWRRAGVKYTNNEAYFDVIEEIDAIIDKSGSTVFAEIQGVIDSCIKL 212

Query:    66 SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSN 123
             SGMPDL+LSFMNPRL DDVSFHPC+RFKRWE+ER+LSFIPPDGNFRL+SY  RVS  N
Sbjct:   213 SGMPDLSLSFMNPRLLDDVSFHPCIRFKRWESERVLSFIPPDGNFRLISY--RVSSQN 268

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0030131 "clathrin adaptor complex" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0008089 "anterograde axon cargo transport" evidence=ISS

GO:0048490 "anterograde synaptic vesicle transport" evidence=ISS

UNIPROTKB|F2Z4I2 AP3M1 "AP-3 complex subunit mu-1" [Bos taurus (taxid:9913)]

 Score = 522 (188.8 bits), Expect = 3.6e-50, P = 3.6e-50
 Identities = 94/118 (79%), Positives = 107/118 (90%)

Query:     6 VSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKL 65
             V   LP+GQLS++PWRR GVKYTNNEAYFDV+EE+DAIIDK+GST+F+EIQG ID CIKL
Sbjct:   153 VGDTLPTGQLSNIPWRRAGVKYTNNEAYFDVVEEIDAIIDKSGSTVFAEIQGVIDACIKL 212

Query:    66 SGMPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSN 123
             SGMPDL+LSFMNPRL DDVSFHPC+RFKRWE+ER+LSFIPPDGNFRL+SY  RVS  N
Sbjct:   213 SGMPDLSLSFMNPRLLDDVSFHPCIRFKRWESERVLSFIPPDGNFRLISY--RVSSQN 268

GO:0048490 "anterograde synaptic vesicle transport" evidence=IEA

GO:0008089 "anterograde axon cargo transport" evidence=IEA

GO:0030131 "clathrin adaptor complex" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8R2R9	AP3M2_MOUSE	No assigned EC number	0.7933	0.7256	0.2846	yes	N/A
P53677	AP3M2_HUMAN	No assigned EC number	0.8181	0.7256	0.2846	yes	N/A
P53678	AP3M2_RAT	No assigned EC number	0.8016	0.7256	0.2846	yes	N/A
Q9GPF1	AP3M_DICDI	No assigned EC number	0.6101	0.7073	0.2755	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	164
cd09261	254	cd09261, AP-3_Mu3B_Cterm, C-terminal domain of med	1e-68
cd09252	248	cd09252, AP-3_Mu3_Cterm, C-terminal domain of medi	4e-67
cd09260	254	cd09260, AP-3_Mu3A_Cterm, C-terminal domain of med	9e-65
pfam00928	228	pfam00928, Adap_comp_sub, Adaptor complexes medium	6e-48
cd07954	239	cd07954, AP_MHD_Cterm, C-terminal domain of adapto	3e-36
cd09250	268	cd09250, AP-1_Mu1_Cterm, C-terminal domain of medi	4e-34
cd09258	270	cd09258, AP-1_Mu1A_Cterm, C-terminal domain of med	3e-28
cd09251	263	cd09251, AP-2_Mu2_Cterm, C-terminal domain of medi	5e-28
cd09259	264	cd09259, AP-1_Mu1B_Cterm, C-terminal domain of med	1e-27
cd09253	271	cd09253, AP-4_Mu4_Cterm, C-terminal domain of medi	1e-16
cd09255	308	cd09255, AP-like_stonins_MHD, Mu homology domain (	2e-09
cd09256	271	cd09256, AP_MuD_MHD, Mu-homology domain (MHD) of a	6e-07
cd09262	309	cd09262, AP_stonin-1_MHD, Mu homology domain (MHD)	2e-05

>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 =  208 bits (530), Expect = 1e-68
 Identities = 91/106 (85%), Positives = 98/106 (92%), Gaps = 2/106 (1%)

Query: 18  VPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMN 77
           VPWRRTGVKYTNNEAYFDVIEE+DAIIDK+GSTI +EIQG ID C+KL+GMPDLTLSFMN
Sbjct: 1   VPWRRTGVKYTNNEAYFDVIEEIDAIIDKSGSTITAEIQGVIDACVKLTGMPDLTLSFMN 60

Query: 78  PRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSN 123
           PRL DDVSFHPCVRFKRWE+ERILSFIPPDGNFRL+SYH  VS  N
Sbjct: 61  PRLLDDVSFHPCVRFKRWESERILSFIPPDGNFRLLSYH--VSAQN 104

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

 Score =  203 bits (520), Expect = 4e-67
 Identities = 68/106 (64%), Positives = 80/106 (75%)

Query: 18  VPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMN 77
           VPWRR GVKYTNNE Y DV+EE+DAI+DK+G  +  E+ G IDC  +LSGMPDLTLS  N
Sbjct: 1   VPWRRAGVKYTNNEIYVDVVEEIDAIVDKSGKPVSGEVSGSIDCNSRLSGMPDLTLSLNN 60

Query: 78  PRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSN 123
           P L DD SFHPCVR  RWE++R+LSFIPPDG F LMSY   ++   
Sbjct: 61  PGLLDDPSFHPCVRLSRWESDRVLSFIPPDGKFTLMSYRVDLNSLV 106

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

 Score =  198 bits (504), Expect = 9e-65
 Identities = 87/106 (82%), Positives = 98/106 (92%), Gaps = 2/106 (1%)

Query: 18  VPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMN 77
           +PWRR GVKYTNNEAYFDV+EE+DAIIDK+GST+F+EIQG ID CIKLSGMPDL+LSFMN
Sbjct: 1   IPWRRAGVKYTNNEAYFDVVEEIDAIIDKSGSTVFAEIQGVIDACIKLSGMPDLSLSFMN 60

Query: 78  PRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSN 123
           PRL DDVSFHPC+RFKRWE+ER+LSFIPPDGNFRL+SY  RVS  N
Sbjct: 61  PRLLDDVSFHPCIRFKRWESERVLSFIPPDGNFRLISY--RVSSQN 104

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|216199 pfam00928, Adap_comp_sub, Adaptor complexes medium subunit family

 Score =  154 bits (391), Expect = 6e-48
 Identities = 61/112 (54%), Positives = 72/112 (64%), Gaps = 12/112 (10%)

Query: 18  VPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMN 77
           VPWR +G+KY  NE + DVIE V  I+DK G  + SEIQG IDC   LSGMP+LTL   +
Sbjct: 1   VPWRPSGIKYKKNEVFLDVIERVSVIVDKDGGILNSEIQGTIDCKCYLSGMPELTLGLND 60

Query: 78  PRLF------------DDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHT 117
           P               DDVSFHPCVR  R+E+ER++SFIPPDG F LMSY  
Sbjct: 61  PLNIGKIASSGNGIELDDVSFHPCVRLSRFESERVISFIPPDGEFTLMSYRI 112

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

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

 Score =  124 bits (314), Expect = 3e-36
 Identities = 51/90 (56%), Positives = 62/90 (68%), Gaps = 3/90 (3%)

Query: 31  EAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNP---RLFDDVSFH 87
           E + DVIE+V+ +I K GS + SE+ G I     LSGMP++ L   NP      DDVSFH
Sbjct: 1   EVFLDVIEKVNLLISKDGSLLNSEVVGEIALKSFLSGMPEIRLGLNNPDVGIKLDDVSFH 60

Query: 88  PCVRFKRWEAERILSFIPPDGNFRLMSYHT 117
           PCVR KR+E+ERI+SFIPPDG F LMSY T
Sbjct: 61  PCVRLKRFESERIISFIPPDGEFELMSYRT 90

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

 Score =  120 bits (302), Expect = 4e-34
 Identities = 50/115 (43%), Positives = 65/115 (56%), Gaps = 16/115 (13%)

Query: 16  SSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSF 75
           ++V WR  G+KY  NE + DVIE V+ ++D  G  + SEI G I     LSGMP+L L  
Sbjct: 2   NAVSWRPEGIKYKKNEVFLDVIESVNLLVDLNGQVLRSEIVGTIKMRSYLSGMPELKLGL 61

Query: 76  MNPRL---------------FDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSY 115
            N ++                +DV FH CVR  R+E +R +SFIPPDG F LMSY
Sbjct: 62  -NDKVLFEATGRSSKGKAVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSY 115

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 =  104 bits (262), Expect = 3e-28
 Identities = 50/113 (44%), Positives = 66/113 (58%), Gaps = 13/113 (11%)

Query: 16  SSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSF 75
           ++V WR  G+KY  NE + DVIE V+ ++   G+ + SEI G I   + LSGMP+L L  
Sbjct: 3   NAVSWRSEGIKYRKNEVFLDVIESVNLLVSANGNVLRSEIVGSIKMRVYLSGMPELRLGL 62

Query: 76  MNPRLFD-------------DVSFHPCVRFKRWEAERILSFIPPDGNFRLMSY 115
            +  LF+             DV FH CVR  R+E +R +SFIPPDG F LMSY
Sbjct: 63  NDKVLFENTGRGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSY 115

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|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 =  104 bits (261), Expect = 5e-28
 Identities = 38/112 (33%), Positives = 56/112 (50%), Gaps = 21/112 (18%)

Query: 27  YTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNPRL------ 80
           Y  NE + DV+E V+ ++  TG+ + +++ G I     LSGMP+     +N +L      
Sbjct: 1   YRKNEVFLDVVESVNLLMSSTGTVLRADVDGVIVMKAFLSGMPECKFG-LNDKLVLEKEG 59

Query: 81  --------------FDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTR 118
                          DD  FH CVR  ++++ER +SFIPPDG F LM Y   
Sbjct: 60  KAKSGDKAAKGSVELDDCKFHQCVRLSKFDSERTISFIPPDGEFELMRYRIT 111

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|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 =  103 bits (258), Expect = 1e-27
 Identities = 50/113 (44%), Positives = 66/113 (58%), Gaps = 13/113 (11%)

Query: 16  SSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSF 75
           ++V WR  G+KY  NE + DVIE V+ +++  GS + SEI G I   + LSGMP+L L  
Sbjct: 2   NAVSWRSEGIKYKKNEVFIDVIESVNLLVNANGSVLRSEIVGAIKLKVFLSGMPELRLGL 61

Query: 76  MNPRLF-------------DDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSY 115
            +  LF             +DV FH CVR  R+E +R +SFIPPDG   LMSY
Sbjct: 62  NDRVLFELTGREKNKTVELEDVKFHQCVRLSRFENDRTISFIPPDGESELMSY 114

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

 Score = 74.2 bits (183), Expect = 1e-16
 Identities = 36/105 (34%), Positives = 51/105 (48%), Gaps = 18/105 (17%)

Query: 29  NNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIK--LSGMPDLTLSFMNPRLF----- 81
            NE + DV+E +  +    G  + SEI G I   +K  LSG P+L L+     +      
Sbjct: 10  KNEIFVDVLERLSVVFSANGQVLNSEIDGSIQ--MKSYLSGNPELRLALNEDLVIGKREN 67

Query: 82  ---------DDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHT 117
                    DD +FH CV  + +E++R LS  PPDG F LM+Y  
Sbjct: 68  RAYSSAVVLDDCNFHECVDLEEFESDRTLSLTPPDGEFTLMNYRI 112

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

 Score = 54.6 bits (132), Expect = 2e-09
 Identities = 29/120 (24%), Positives = 48/120 (40%), Gaps = 22/120 (18%)

Query: 21  RRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNPRL 80
           R  G+ Y  +E   DV++E    + K G  +   ++  I C   ++GMP+  L   + + 
Sbjct: 2   RDRGLTYREDEITVDVVDEFRGKVTKEGEILKQAVRVRIFCLAFVTGMPECELGLNDIQR 61

Query: 81  ---------------------FDDVSFHPCVRFKRWEAERILSFIPPDGN-FRLMSYHTR 118
                                 ++V FH CV    +E  R++ F P D   F LM +  R
Sbjct: 62  KGREVVRRQDIIPVSTEEWIKLENVEFHSCVNKDEFEQSRVIKFHPLDACRFELMRFRVR 121

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|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 = 47.4 bits (113), Expect = 6e-07
 Identities = 28/92 (30%), Positives = 40/92 (43%), Gaps = 9/92 (9%)

Query: 33  YFDVIEEVDAII-DKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNP---RLFDDVSFHP 88
            F + E V A   DK        + G + C  +L G+PD+T+S   P       ++  HP
Sbjct: 15  DFKITETVKAAQYDKDDIPDVWSVFGSVTCKAELEGLPDVTVSLSLPANGSPLQNIIVHP 74

Query: 89  CVR-----FKRWEAERILSFIPPDGNFRLMSY 115
           CV+        +     L F PP GNF+L  Y
Sbjct: 75  CVQSVDTGMLAFSGPYKLRFSPPLGNFQLCHY 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

>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 = 43.3 bits (102), Expect = 2e-05
 Identities = 28/116 (24%), Positives = 47/116 (40%), Gaps = 19/116 (16%)

Query: 27  YTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSG-------MPDLTLSFMNPR 79
           Y   E   ++++     +DK G  + S +   I C   ++        + DL L   +  
Sbjct: 8   YEEQELSLEIVDHFWGRVDKEGKVMESSVITQIHCLCFVNAPAECFLTLNDLELQKRDED 67

Query: 80  LFD-----------DVSFHPCVRFKRWEAERILSFIPPDG-NFRLMSYHTRVSGSN 123
            F+           D  FH CV  + +   R++ F PPD   F LM + TR +G +
Sbjct: 68  YFEKEAGKLWIEILDYHFHKCVNAQEFHQSRLIKFCPPDACRFELMRFKTRYNGGD 123

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	164
KOG0938|consensus	446		100.0
KOG2740|consensus	418		100.0
PF00928	262	Adap_comp_sub: Adaptor complexes medium subunit fa	100.0
KOG0937|consensus	424		100.0
KOG2677|consensus	922		99.86
PF10291	257	muHD: Muniscin C-terminal mu homology domain; Inte	97.35
KOG2635|consensus	512		97.27

>KOG0938|consensus

Probab=100.00  E-value=1.1e-43  Score=304.29  Aligned_cols=136  Identities=33%  Similarity=0.688  Sum_probs=129.8

Q ss_pred             CCCCccccCCcccccceEEEEEEeeEEEEEcCCCCEEEEEEEEEEEEEEEeCCCCeeEEEecCC----------------
Q psy17618         15 LSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNP----------------   78 (164)
Q Consensus        15 ~~~~~WR~~~~~y~knEI~vdV~E~v~~~~~~~G~i~~~~I~G~I~~~s~LsG~P~v~l~Ln~~----------------   78 (164)
                      +..++||+.|++|+|||+|+||.|+++.+++.+|+++++.|+|.|.|+|+|||||+|+++|||.                
T Consensus       163 ~G~i~WRr~Gi~ykknevfldvvErvNlLmS~~GnVLrs~VsG~V~mk~~LSGmPeckfGlNDkl~~e~kq~esks~~~n  242 (446)
T KOG0938|consen  163 TGKIGWRREGIKYKKNEVFLDVVERVNLLMSSDGNVLRSDVSGTVDMKTHLSGMPECKFGLNDKLGMESKQSESKSDFGN  242 (446)
T ss_pred             ccccccccccceeccceeEeEehheeeeEEcCCCCEEEeecccEEEEEEeccCCcccccccCcccceeeccccccccccc
Confidence            4579999999999999999999999999999999999999999999999999999999999964                


Q ss_pred             -----------cccccccccceeecccccccceEEEeCCCCcEEEEEEEecCCCCCCCCCceEecEEEEecCCeEEEEEE
Q psy17618         79 -----------RLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSNGGRPNASCPSFHRMVTSASCLTIR  147 (164)
Q Consensus        79 -----------~~l~d~~fH~CV~~~~~~~~r~i~F~PPdG~F~Lm~Yr~~~~~~~~~lP~~v~~~~~~~~~~~v~l~v~  147 (164)
                                 +.|+||.||+||++++|++++.|+|+||||+|+||+||++   ++..+||+|.|.+++.|.++++|++.
T Consensus       243 ~~~~sks~~g~v~leDc~FHqCV~L~kFn~eh~IsFvPPDGe~ELMkYr~~---enInlPFrV~PiV~el~r~kie~ri~  319 (446)
T KOG0938|consen  243 KNFPSKSGKGSVLLEDCTFHQCVRLDKFNSEHIISFVPPDGEFELMKYRVT---ENINLPFRVTPIVTELGRTKIEYRIT  319 (446)
T ss_pred             cCCCcccCCceEEeeccchheeeccccccccceEEEeCCCCceEeEeeeec---cCcccceEeeeheecccceeEEEEEE
Confidence                       3699999999999999999999999999999999999999   56789999999999999999999999


Q ss_pred             EEeecc
Q psy17618        148 IRKVKK  153 (164)
Q Consensus       148 Lk~~~~  153 (164)
                      ||+++.
T Consensus       320 iks~f~  325 (446)
T KOG0938|consen  320 IKSLFP  325 (446)
T ss_pred             EeccCC
Confidence            999874

>KOG2740|consensus

Probab=100.00  E-value=4.6e-39  Score=277.18  Aligned_cols=143  Identities=57%  Similarity=0.983  Sum_probs=132.6

Q ss_pred             ccCCCCCCCCCCCCCccccCCcccccceEEEEEEeeEEEEEcCCCCEEEEEEEEEEEEEEEeCCCCeeEEEecCCccccc
Q psy17618          4 VYVSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNPRLFDD   83 (164)
Q Consensus         4 ~~~~~~~~~~~~~~~~WR~~~~~y~knEI~vdV~E~v~~~~~~~G~i~~~~I~G~I~~~s~LsG~P~v~l~Ln~~~~l~d   83 (164)
                      -|++..+|++..+.+|||+.+.||.+||.||||+|+++++++++|+.+.++|.|.|.|+|+|+|||++.|+|+++..|+|
T Consensus       152 ~n~~~~lPtg~~s~VPWR~~~~Ky~nNE~yvdvlEeidai~~k~gslv~~eI~g~vd~~~qLsgmPdltlsl~np~~L~d  231 (418)
T KOG2740|consen  152 SNVSDTLPTGALSNVPWRTAGVKYTNNEAYVDVLEEIDAIVDKKGSLVFGEIQGIVDVCSQLSGMPDLTLSLNNPRLLGD  231 (418)
T ss_pred             ccccccCCCcccccccccccCcccccchhhhhhhheeheEecCCCCEEEEEEEEEEEEEEeecCCCceEEEccCccccCC
Confidence            46889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccceeecccccccceEEEeCCCCcEEEEEEEecCCCCCCCCCceEecEEEEecCCeEEEEEE
Q psy17618         84 VSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSNGGRPNASCPSFHRMVTSASCLTIR  147 (164)
Q Consensus        84 ~~fH~CV~~~~~~~~r~i~F~PPdG~F~Lm~Yr~~~~~~~~~lP~~v~~~~~~~~~~~v~l~v~  147 (164)
                      ++||+||+..+|++++.|+|+||||+|+||+|+++.. +...+|..+.+++.-.+....++++.
T Consensus       232 vsfHpcVr~krwe~~~~lsFIPPDGkFrLlsy~v~~~-~~v~~pvyv~~~i~l~~~~~~ri~~t  294 (418)
T KOG2740|consen  232 VSFHPCVRYKRWESHSVLSFIPPDGKFRLLSYRVDAQ-NQVAIPVYVKNSISLDSNHQGRISLT  294 (418)
T ss_pred             cccccceeecccccccceEEcCCCCcEEEEEEEEehh-hccccceEEeeeeccCCCceEEEEEe
Confidence            9999999999999999999999999999999999987 45689999999999776432444433

>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=6.7e-38  Score=258.58  Aligned_cols=134  Identities=38%  Similarity=0.760  Sum_probs=115.7

Q ss_pred             CccccCCcccccceEEEEEEeeEEEEEcCCCCEEEEEEEEEEEEEEEeCCCCeeEEEecCC-------ccccccccccee
Q psy17618         18 VPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNP-------RLFDDVSFHPCV   90 (164)
Q Consensus        18 ~~WR~~~~~y~knEI~vdV~E~v~~~~~~~G~i~~~~I~G~I~~~s~LsG~P~v~l~Ln~~-------~~l~d~~fH~CV   90 (164)
                      ||||+.+++|++|||||||.|+|+++++++|.++.++|.|+|.|+|+|+|+|+|+|+|+++       ..|+|++||+||
T Consensus         1 ~~wR~~~~~~~~nei~vdv~E~i~~~~~~~G~~~~~~v~G~v~~~~~l~g~p~i~l~l~~~~~~~~~~~~l~~~~fH~cV   80 (262)
T PF00928_consen    1 VPWRPSGIKYKKNEIFVDVVEKISAVLDRDGNILSSEVKGSVQCKSFLSGMPEIKLTLNNPLVVSKNGIKLDDVSFHPCV   80 (262)
T ss_dssp             -TTS-STB--SSEEEEEEEEEEEEEEEETTSEEEEEEEEEEEEEEEE-SST-EEEEEESSSCCCTSSSBEESEEEEETTE
T ss_pred             CCcccCCcccccceEEEEEEEEEEEEEccCCcEEEEEEEEEEEEEEeCCCCCeEEEEecCccccccCceeeeceeecccc
Confidence            6999999999999999999999999999999999999999999999999999999999998       789999999999


Q ss_pred             ecccccccceEEEeCCCCcEEEEEEEecCCCCCCCCCceEecEEEEecCCeEEEEEEEEeeccc
Q psy17618         91 RFKRWEAERILSFIPPDGNFRLMSYHTRVSGSNGGRPNASCPSFHRMVTSASCLTIRIRKVKKD  154 (164)
Q Consensus        91 ~~~~~~~~r~i~F~PPdG~F~Lm~Yr~~~~~~~~~lP~~v~~~~~~~~~~~v~l~v~Lk~~~~~  154 (164)
                      +++.|++++.|+|+||||+|+||+||++..   ..+||.++|.+...+.+++++.+++++....
T Consensus        81 ~~~~~~~~~~i~f~PPdg~f~Ll~Yr~~~~---~~~P~~i~~~~~~~~~~~~~v~i~~~~~~~~  141 (262)
T PF00928_consen   81 DLSKFESDRVISFIPPDGEFTLLRYRVSSN---SPLPFKITCWVSEKSSGRFEVTIELESNFPN  141 (262)
T ss_dssp             ECCCCCSHTEEEE---SEEEEEEEEEEESS---S--SEEEEEEEEEETTTEEEEEEEEEE-S-T
T ss_pred             CccccccccceecCCCCceEEEEEEEccCC---CCCCcEEEEEeccCCCceEEEEEEecccCCC
Confidence            999999999999999999999999999865   5789999999999777899999999977544

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 ....

>KOG0937|consensus

Probab=100.00  E-value=4.5e-36  Score=263.68  Aligned_cols=139  Identities=35%  Similarity=0.636  Sum_probs=124.3

Q ss_pred             CCCCCCCCCCccccCCcccccceEEEEEEeeEEEEEcCCCCEEEEEEEEEEEEEEEeCCCCeeEEEecCC----------
Q psy17618          9 ILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNP----------   78 (164)
Q Consensus         9 ~~~~~~~~~~~WR~~~~~y~knEI~vdV~E~v~~~~~~~G~i~~~~I~G~I~~~s~LsG~P~v~l~Ln~~----------   78 (164)
                      +.|.+.++.+.||+.+++|+|||+|+||+|+|+++++++|.++.++|.|+|+|+|+|+|||+++|+||+.          
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            3477889999999999999999999999999999999999999999999999999999999999999964          


Q ss_pred             ----cccccccccceeecccccccceEEEeCCCCcEEEEEEEecCCCCCCCCCceEecEEEE-ecCCeEEEEEEEEee
Q psy17618         79 ----RLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSNGGRPNASCPSFHR-MVTSASCLTIRIRKV  151 (164)
Q Consensus        79 ----~~l~d~~fH~CV~~~~~~~~r~i~F~PPdG~F~Lm~Yr~~~~~~~~~lP~~v~~~~~~-~~~~~v~l~v~Lk~~  151 (164)
                          +.|+|++||+||++++|+.+|.|+|+||||+|+||+||.+..    ..|+...+++.+ ++..++++.+.+++-
T Consensus       226 ~s~~v~ledi~fh~~v~l~~fd~dr~i~FiPPdGeF~Lm~Y~ls~~----vkPli~~~~~~~~~~~~ri~i~~K~~~~  299 (424)
T KOG0937|consen  226 KSKGVELEDIKFHECVRLSRFDNDRTISFIPPDGEFELMRYRLSTH----VKPLIWFYQLIEEHSRSRIEVMVKLREQ  299 (424)
T ss_pred             cCcceEeeecccceeechhhccCCceEEecCCCCceEEEEEEecCC----CCCeEEeeeeeeeccceeEEEEEechhh
Confidence                368999999999999999999999999999999999999854    348888888875 555667777666543

>KOG2677|consensus

Probab=99.86  E-value=1.5e-22  Score=184.77  Aligned_cols=128  Identities=21%  Similarity=0.304  Sum_probs=115.6

Q ss_pred             CCccccCCcccccceEEEEEEeeEEEEEcCCCCEEEEEEEEEEEEEEEeCCCCeeEEEecCC------------------
Q psy17618         17 SVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNP------------------   78 (164)
Q Consensus        17 ~~~WR~~~~~y~knEI~vdV~E~v~~~~~~~G~i~~~~I~G~I~~~s~LsG~P~v~l~Ln~~------------------   78 (164)
                      .+.-|.....|..+||.|||.++.+++++++|+++...+..+|.|.|||+|.|+|.|+||+.                  
T Consensus       574 lpv~s~~k~nY~e~EI~v~~~Defsg~V~Keg~~~~~~v~tri~cL~FlsG~~ec~lgLND~~~kg~Eiv~rkDimp~~t  653 (922)
T KOG2677|consen  574 LPVLSMDKSNYLEEEITVDVRDEFSGIVSKEGQILQHHVLTRIHCLSFLSGLAECRLGLNDILVKGNEIVLRKDIMPTTT  653 (922)
T ss_pred             CccccccccccccceeEEEEEeccceeecccchhhhhhhhhhhhhhhhccCCceeEeecchhhhcccceeEecccccccc
Confidence            34455666689999999999999999999999999999999999999999999999999963                  


Q ss_pred             ---cccccccccceeecccccccceEEEeCCCC-cEEEEEEEecCCCCCCCCCceEecEEEEecCCeEEEEEE
Q psy17618         79 ---RLFDDVSFHPCVRFKRWEAERILSFIPPDG-NFRLMSYHTRVSGSNGGRPNASCPSFHRMVTSASCLTIR  147 (164)
Q Consensus        79 ---~~l~d~~fH~CV~~~~~~~~r~i~F~PPdG-~F~Lm~Yr~~~~~~~~~lP~~v~~~~~~~~~~~v~l~v~  147 (164)
                         +.|++|.||.||+.+.|+++|+|-|.|||| .|+||+||+..+..  .+||.++..+...| ..||+..-
T Consensus       654 ~kwI~~~~~~FH~cVn~~eF~~srVI~F~PlDaCrFElMRFrt~~~~~--~lpftlks~~~V~G-a~VEvq~~  723 (922)
T KOG2677|consen  654 TKWIKLHECRFHGCVNEDEFHNSRVILFNPLDACRFELMRFRTVFAEK--TLPFTLKSATSVNG-AEVEVQSW  723 (922)
T ss_pred             ccceeeeeeeeecccchhhccccceEEecCcccceeeeeeeeeecCCC--cCceeeeeeeeecc-ceeehHHH
Confidence               479999999999999999999999999999 99999999998854  68999999999887 67776543

>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=97.35  E-value=0.012  Score=49.52  Aligned_cols=121  Identities=14%  Similarity=0.164  Sum_probs=76.1

Q ss_pred             EEEEEEeeEEEEEcCCCCEEEEEEEEEEEEEEEeCC-------CCeeEEEecCCcccccccccceeecccccccceEEEe
Q psy17618         32 AYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSG-------MPDLTLSFMNPRLFDDVSFHPCVRFKRWEAERILSFI  104 (164)
Q Consensus        32 I~vdV~E~v~~~~~~~G~i~~~~I~G~I~~~s~LsG-------~P~v~l~Ln~~~~l~d~~fH~CV~~~~~~~~r~i~F~  104 (164)
                      +-..|.|.|||.+. +|.+....|.|.|.+. |..|       .+.+.+.|++...|+.+.-.+..=...-..+....|.
T Consensus         3 l~asi~E~VnA~Fk-~g~~~~v~v~GEv~ls-~~~~~~~~~~~~~~l~~rl~n~~~le~i~pN~~~v~~~~~~~~~f~~n   80 (257)
T PF10291_consen    3 LNASITETVNAYFK-GGQLSKVKVTGEVALS-YPAGISSSLTSPPPLSFRLNNFSRLEKIAPNPQFVSSSSQSDGEFWLN   80 (257)
T ss_dssp             EEEEEEEEEEEEEE-TTEEEEEEEEEEEEEE-EE--SSS-----SEEEEEEETGGGEEEEEE-TTTE--EEEETTEEEE-
T ss_pred             eeEEEEEEEEEEEE-CCcEEEEEEEEEEEEe-cCCChhhcccCCCcEEEEEcCcchhceeecCHhHeecCCCCCCcEEEe
Confidence            34679999999885 4778889999999874 4444       3567899998888877655543221111123447777


Q ss_pred             CC--CCcE--EEEEEEecCCCCC-CCCCceEecEEEEecCCeEEEEEEEEeecccc
Q psy17618        105 PP--DGNF--RLMSYHTRVSGSN-GGRPNASCPSFHRMVTSASCLTIRIRKVKKDK  155 (164)
Q Consensus       105 PP--dG~F--~Lm~Yr~~~~~~~-~~lP~~v~~~~~~~~~~~v~l~v~Lk~~~~~~  155 (164)
                      ++  ....  ..++|++...+.+ ...|+.+.+.++-.+ .+..+.|+.+.+-..+
T Consensus        81 ~~~l~~~~~~~alKYqv~~~~~~~~~~Pl~l~~~Wk~e~-~~tsl~l~Y~~Np~~~  135 (257)
T PF10291_consen   81 MSALTSHLPKQALKYQVHSDPSNLSSVPLILKPVWKCEP-SQTSLILDYKLNPDAF  135 (257)
T ss_dssp             TTTTBT-E-EEEEEEEEES--------SEEEEEEEEE-S-SEEEEEEEEEE-TTT-
T ss_pred             hHHhhhhhhhceEEEEEeccccccCCCCeEEEeEEEeCC-ceEEEEEEEEeChhhc
Confidence            66  3344  6899999986432 468999999999774 6788888888766433

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.

>KOG2635|consensus

Probab=97.27  E-value=0.0051  Score=55.68  Aligned_cols=117  Identities=15%  Similarity=0.165  Sum_probs=89.6

Q ss_pred             cceEEEEEEeeEEEEEcCCCCEEEEEEEEEEEEEEEeCCCCeeEEEecCCc-ccccccccceeecccccccceEEEeCCC
Q psy17618         29 NNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNPR-LFDDVSFHPCVRFKRWEAERILSFIPPD  107 (164)
Q Consensus        29 knEI~vdV~E~v~~~~~~~G~i~~~~I~G~I~~~s~LsG~P~v~l~Ln~~~-~l~d~~fH~CV~~~~~~~~r~i~F~PPd  107 (164)
                      ++-+++.+-|+|++.++++|.+-..++.|.+.++--=.---.+.|.|++.. .=-+.++||=+|.+.|.++..|...+|+
T Consensus       274 ~e~v~i~ieEkln~~~~RDGgi~s~E~qG~lsLrI~d~e~~~i~lkl~n~~~~g~q~ktHPNlDK~~f~s~s~iglk~~~  353 (512)
T KOG2635|consen  274 EESVHIVIEEKLNVRLSRDGGIKSGEVQGTLSLRIKDEEYGDIELKLANGRDKGTQLKTHPNLDKKVFLSSSLIGLKRPE  353 (512)
T ss_pred             cceEEEEEeeeEeEEEcccCCccceeeeeeEEEEEccccccceEEEEcCCCCcceeeeeCCCcchhhhccccccccccCC
Confidence            455999999999999999999999999999887755444566777777642 2336899999999999988889988887


Q ss_pred             CcE------EEEEEEecCCCCCCCCCceEecEEEEecCC---eEEEEE
Q psy17618        108 GNF------RLMSYHTRVSGSNGGRPNASCPSFHRMVTS---ASCLTI  146 (164)
Q Consensus       108 G~F------~Lm~Yr~~~~~~~~~lP~~v~~~~~~~~~~---~v~l~v  146 (164)
                      -.|      -|++||.... +....|+.+.|-=.+.|.+   -+||++
T Consensus       354 K~FPvn~~VGvLkWR~~~~-des~iPlTincWPSes~~g~dV~iEYe~  400 (512)
T KOG2635|consen  354 KPFPVNSDVGVLKWRMVDE-DESEIPLTINCWPSESGNGYDVNIEYEA  400 (512)
T ss_pred             CCCCcCCcceEEEEeeccc-ccccCceEEEeccccCCCCeEEEEEEee
Confidence            766      5899997764 3446899998554443322   255555

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	164
4ikn_A	261	Crystal Structure Of Adaptor Protein Complex 3 (ap-		3e-51
1w63_M	423	Ap1 Clathrin Adaptor Core Length = 423		4e-23
4en2_M	266	Hiv-1 Nef In Complex With Mhc-I Cytoplasmic Domain		3e-22
4emz_A	266	Hiv-1 Nef In Complex With Mhc-I Cytoplasmic Domain		2e-20
2pr9_A	299	Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second D		2e-18
1i31_A	314	Mu2 Adaptin Subunit (Ap50) Of Ap2 Clathrin Adaptor,		3e-17
1bw8_A	321	Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second D		3e-17
2bp5_M	435	Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second D		3e-17
1bxx_A	285	Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second D		4e-17
2xa7_M	446	Ap2 Clathrin Adaptor Core In Active Complex With Ca		3e-16
1h6e_A	288	Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second D		1e-14
3ml6_A	385	A Complex Between Dishevlled2 And Clathrin Adaptor		2e-12
3l81_A	301	Crystal Structure Of Adaptor Protein Complex 4 (Ap-		3e-06

>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 =  197 bits (500), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 87/106 (82%), Positives = 98/106 (92%), Gaps = 2/106 (1%)
Query: 18  VPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMN 77
           +PWRR GVKYTNNEAYFDV+EE+DAIIDK+GST+F+EIQG ID CIKLSGMPDL+LSFMN
Sbjct: 8   IPWRRAGVKYTNNEAYFDVVEEIDAIIDKSGSTVFAEIQGVIDACIKLSGMPDLSLSFMN 67
Query: 78  PRLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSN 123
           PRL DDVSFHPC+RFKRWE+ER+LSFIPPDGNFRL+SY  RVS  N
Sbjct: 68  PRLLDDVSFHPCIRFKRWESERVLSFIPPDGNFRLISY--RVSSQN 111

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

Iteration: 1
 Score =  103 bits (257), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 52/118 (44%), Positives = 68/118 (57%), Gaps = 13/118 (11%)
Query: 11  PSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPD 70
           P+   ++V WR  G+KY  NE + DVIE V+ ++   G+ + SEI G I   + LSGMP+
Sbjct: 150 PATVTNAVSWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPE 209
Query: 71  LTLSFMNPRLFD-------------DVSFHPCVRFKRWEAERILSFIPPDGNFRLMSY 115
           L L   +  LFD             DV FH CVR  R+E +R +SFIPPDG F LMSY
Sbjct: 210 LRLGLNDKVLFDNTGRGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSY 267

>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 =  100 bits (249), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 50/109 (45%), Positives = 63/109 (57%), Gaps = 13/109 (11%)
Query: 20  WRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNPR 79
           WR  G+KY  NE + DVIE V+ ++   G+ + SEI G I   + LSGMP+L L   +  
Sbjct: 2   WRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDKV 61
Query: 80  LFD-------------DVSFHPCVRFKRWEAERILSFIPPDGNFRLMSY 115
           LFD             DV FH CVR  R+E +R +SFIPPDG F LMSY
Sbjct: 62  LFDNTGRGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSY 110

>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 = 95.1 bits (235), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 48/109 (44%), Positives = 61/109 (55%), Gaps = 13/109 (11%)
Query: 20  WRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNPR 79
           WR  G+KY  NE + DVIE V+ ++   G+ + SEI G I   + LSG P+L L   +  
Sbjct: 2   WRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKXRVFLSGXPELRLGLNDKV 61
Query: 80  LFD-------------DVSFHPCVRFKRWEAERILSFIPPDGNFRLMSY 115
           LFD             DV FH CVR  R+E +R +SFIPPDG F L SY
Sbjct: 62  LFDNTGRGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELXSY 110

>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 = 87.8 bits (216), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 44/132 (33%), Positives = 66/132 (50%), Gaps = 23/132 (17%)
Query: 8   SILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSG 67
            ++P G    + WRR G+KY  NE + DV+E V+ ++   G  + + + G +     LSG
Sbjct: 13  GLVPRGSHMQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSG 72
Query: 68  MPDLTLSFMNPRL----------------------FDDVSFHPCVRFKRWEAERILSFIP 105
           MP+     MN ++                       DD +FH CVR  ++++ER +SFIP
Sbjct: 73  MPECKFG-MNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIP 131
Query: 106 PDGNFRLMSYHT 117
           PDG F LM Y T
Sbjct: 132 PDGEFELMRYRT 143

>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 = 84.3 bits (207), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 42/123 (34%), Positives = 62/123 (50%), Gaps = 23/123 (18%)
Query: 17  SVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFM 76
            + WRR G+KY  NE + DV+E V+ ++   G  + + + G +     LSGMP+     M
Sbjct: 37  QIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFG-M 95
Query: 77  NPRL----------------------FDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMS 114
           N ++                       DD +FH CVR  ++++ER +SFIPPDG F LM 
Sbjct: 96  NDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMR 155
Query: 115 YHT 117
           Y T
Sbjct: 156 YRT 158

>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 = 84.3 bits (207), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 42/123 (34%), Positives = 62/123 (50%), Gaps = 23/123 (18%)
Query: 17  SVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFM 76
            + WRR G+KY  NE + DV+E V+ ++   G  + + + G +     LSGMP+     M
Sbjct: 44  QIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFG-M 102
Query: 77  NPRL----------------------FDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMS 114
           N ++                       DD +FH CVR  ++++ER +SFIPPDG F LM 
Sbjct: 103 NDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMR 162
Query: 115 YHT 117
           Y T
Sbjct: 163 YRT 165

>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 = 84.0 bits (206), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 44/133 (33%), Positives = 65/133 (48%), Gaps = 23/133 (17%)
Query: 7   SSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLS 66
            S + S     + WRR G+KY  NE + DV+E V+ ++   G  + + + G +     LS
Sbjct: 148 QSQITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLS 207
Query: 67  GMPDLTLSFMNPRL----------------------FDDVSFHPCVRFKRWEAERILSFI 104
           GMP+     MN ++                       DD +FH CVR  ++++ER +SFI
Sbjct: 208 GMPECKFG-MNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFI 266
Query: 105 PPDGNFRLMSYHT 117
           PPDG F LM Y T
Sbjct: 267 PPDGEFELMRYRT 279

>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 = 83.6 bits (205), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 42/123 (34%), Positives = 62/123 (50%), Gaps = 23/123 (18%)
Query: 17  SVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFM 76
            + WRR G+KY  NE + DV+E V+ ++   G  + + + G +     LSGMP+     M
Sbjct: 8   QIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFG-M 66
Query: 77  NPRL----------------------FDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMS 114
           N ++                       DD +FH CVR  ++++ER +SFIPPDG F LM 
Sbjct: 67  NDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMR 126
Query: 115 YHT 117
           Y T
Sbjct: 127 YRT 129

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

Iteration: 1
 Score = 80.9 bits (198), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 46/143 (32%), Positives = 65/143 (45%), Gaps = 32/143 (22%)
Query: 7   SSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLS 66
            S + S     + WRR G+KY  NE + DV+E V+ ++   G  + + + G +     LS
Sbjct: 148 QSQITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLS 207
Query: 67  GMP--------------------DLTLSFMNPRLF------------DDVSFHPCVRFKR 94
           GMP                    D T   M  +L             DD +FH CVR  +
Sbjct: 208 GMPECKFGMNDKIVIEKQGKGTADETSKSMEQKLISEEDLGKQSIAIDDCTFHQCVRLSK 267
Query: 95  WEAERILSFIPPDGNFRLMSYHT 117
           +++ER +SFIPPDG F LM Y T
Sbjct: 268 FDSERSISFIPPDGEFELMRYRT 290

>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 = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 39/116 (33%), Positives = 58/116 (50%), Gaps = 23/116 (19%)
Query: 24  GVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNPRL--- 80
           G+KY  NE + DV+E V+ ++   G  + + + G +     LSGMP+     MN ++   
Sbjct: 18  GIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFG-MNDKIVIE 76
Query: 81  -------------------FDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHT 117
                               DD +FH CVR  ++++ER +SFIPPDG F LM Y T
Sbjct: 77  KQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRT 132

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

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 36/112 (32%), Positives = 55/112 (49%), Gaps = 23/112 (20%)
Query: 28  TNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNPRL------- 80
           + NE + DV+E V+ ++   G  + + + G +     LSGMP+     MN ++       
Sbjct: 119 SRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFG-MNDKIVIEKQGK 177
Query: 81  ---------------FDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHT 117
                           DD +FH CVR  ++++ER +SFIPPDG F LM Y T
Sbjct: 178 GTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRT 229

>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 = 47.4 bits (111), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 28/105 (26%), Positives = 44/105 (41%), Gaps = 14/105 (13%)
Query: 26  KYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMN-------- 77
           +   NE + DV+E +  +I   GS +  ++QG I     L    ++ +            
Sbjct: 29  QSQKNEVFLDVVERLSVLIASNGSLLKVDVQGEIRLKSFLPSGSEMRIGLTEEFSVGKSE 88
Query: 78  -----PRL-FDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYH 116
                P +  D+VSFH  V    +E+ RIL   PP G   +M Y 
Sbjct: 89  LRGYGPGIRVDEVSFHSSVNLDEFESHRILRLQPPQGELTVMRYQ 133

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	164
3l81_A	301	AP-4 complex subunit MU-1; immunoglobulin-like bet	6e-35
1i31_A	314	Clathrin coat assembly protein AP50; beta-sandwich	5e-33
4en2_M	266	AP-1 complex subunit MU-1; human immunodeficiency	7e-32
3ml6_A	385	Chimeric complex between protein dishevlled2 HOMO	4e-26
2vgl_M	435	AP-2 complex subunit MU-1; cytoplasmic vesicle, al	1e-24
1w63_M	423	Adaptor-related protein complex 1, MU 1 subunit; e	6e-23

>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 =  122 bits (307), Expect = 6e-35
 Identities = 35/172 (20%), Positives = 59/172 (34%), Gaps = 19/172 (11%)

Query: 7   SSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLS 66
           S + PS   S         +   NE + DV+E +  +I   GS +  ++QG I     L 
Sbjct: 10  SKVAPSSAASRPVLSSRSDQSQKNEVFLDVVERLSVLIASNGSLLKVDVQGEIRLKSFLP 69

Query: 67  GMPDLTLSFMNPRL--------------FDDVSFHPCVRFKRWEAERILSFIPPDGNFRL 112
              ++ +                      D+VSFH  V    +E+ RIL   PP G   +
Sbjct: 70  SGSEMRIGLTEEFSVGKSELRGYGPGIRVDEVSFHSSVNLDEFESHRILRLQPPQGELTV 129

Query: 113 MSYHTRVSGSNGGRPNASCPSFHRMVTSASCLTIRIR-KVKKDKNRSISVTD 163
           M Y      S+          F  +        +++  K++ D        +
Sbjct: 130 MRYQL----SDDLPSPLPFRLFPSVQWDRGSGRLQVYLKLRCDLLSKSQALN 177

>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 =  118 bits (295), Expect = 5e-33
 Identities = 41/135 (30%), Positives = 63/135 (46%), Gaps = 21/135 (15%)

Query: 3   SVYVSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCC 62
           +    S + S     + WRR G+KY  NE + DV+E V+ ++   G  + + + G +   
Sbjct: 23  TKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMK 82

Query: 63  IKLSGMPDLTLSFMNPRL---------------------FDDVSFHPCVRFKRWEAERIL 101
             LSGMP+      +  +                      DD +FH CVR  ++++ER +
Sbjct: 83  SYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSI 142

Query: 102 SFIPPDGNFRLMSYH 116
           SFIPPDG F LM Y 
Sbjct: 143 SFIPPDGEFELMRYR 157

>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 =  114 bits (285), Expect = 7e-32
 Identities = 49/117 (41%), Positives = 63/117 (53%), Gaps = 13/117 (11%)

Query: 20  WRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNPR 79
           WR  G+KY  NE + DVIE V+ ++   G+ + SEI G I   + LSGMP+L L   +  
Sbjct: 2   WRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDKV 61

Query: 80  LF-------------DDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSN 123
           LF             +DV FH CVR  R+E +R +SFIPPDG F LMSY        
Sbjct: 62  LFDNTGRGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKP 118

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

 Score =  101 bits (251), Expect = 4e-26
 Identities = 35/124 (28%), Positives = 54/124 (43%), Gaps = 21/124 (16%)

Query: 16  SSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSF 75
                   G   + NE + DV+E V+ ++   G  + + + G +     LSGMP+     
Sbjct: 107 PYHELEFGGSGGSRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGM 166

Query: 76  MNPRLF---------------------DDVSFHPCVRFKRWEAERILSFIPPDGNFRLMS 114
            +  +                      DD +FH CVR  ++++ER +SFIPPDG F LM 
Sbjct: 167 NDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMR 226

Query: 115 YHTR 118
           Y T 
Sbjct: 227 YRTT 230

>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 = 97.8 bits (242), Expect = 1e-24
 Identities = 40/122 (32%), Positives = 60/122 (49%), Gaps = 21/122 (17%)

Query: 17  SVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFM 76
            + WRR G+KY  NE + DV+E V+ ++   G  + + + G +     LSGMP+      
Sbjct: 158 QIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMN 217

Query: 77  NPRL---------------------FDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSY 115
           +  +                      DD +FH CVR  ++++ER +SFIPPDG F LM Y
Sbjct: 218 DKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRY 277

Query: 116 HT 117
            T
Sbjct: 278 RT 279

>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 = 92.7 bits (229), Expect = 6e-23
 Identities = 54/175 (30%), Positives = 81/175 (46%), Gaps = 16/175 (9%)

Query: 1   MRSVYVSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYID 60
            +    +   P+   ++V WR  G+KY  NE + DVIE V+ ++   G+ + SEI G I 
Sbjct: 140 HKLETGAPRPPATVTNAVSWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIK 199

Query: 61  CCIKLSGMPDLTLSFMNPRLF-------------DDVSFHPCVRFKRWEAERILSFIPPD 107
             + LSGMP+L L   +  LF             +DV FH CVR  R+E +R +SFIPPD
Sbjct: 200 MRVFLSGMPELRLGLNDKVLFDNTGRGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPD 259

Query: 108 GNFRLMSYHTRVSGSNGGRPNASCPSFHRMVTSASCLTIRIRKVKKDKNRSISVT 162
           G F LMSY                    +   S     ++ +   K ++ + +V 
Sbjct: 260 GEFELMSYRLNTHVKP---LIWIESVIEKHSHSRIEYMVKAKSQFKRRSTANNVE 311

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	164
1i31_A	314	Clathrin coat assembly protein AP50; beta-sandwich	100.0
3ml6_A	385	Chimeric complex between protein dishevlled2 HOMO	100.0
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
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
3g9h_A	328	Suppressor of yeast profilin deletion; SYP1, MU, a	96.34

>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=7.6e-44  Score=303.28  Aligned_cols=142  Identities=32%  Similarity=0.593  Sum_probs=120.2

Q ss_pred             CCCCCCCCCCCCccccCCcccccceEEEEEEeeEEEEEcCCCCEEEEEEEEEEEEEEEeCCCCeeEEEecCC--------
Q psy17618          7 SSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNP--------   78 (164)
Q Consensus         7 ~~~~~~~~~~~~~WR~~~~~y~knEI~vdV~E~v~~~~~~~G~i~~~~I~G~I~~~s~LsG~P~v~l~Ln~~--------   78 (164)
                      ++.+|.+.++++|||+.|++|++|||||||+|+|+++++++|.++.++|.|.|.|+|+|+|||+|+|+||+.        
T Consensus        27 ~~~~~~~~~~~v~WR~~gi~y~~NEi~vdV~E~v~~~i~~~G~v~~~eV~G~I~~~~~LsG~P~l~l~Ln~~~~~~~~~~  106 (314)
T 1i31_A           27 QSQITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGK  106 (314)
T ss_dssp             -----------CTTSCSCCCCSSCEEEEEEEEEEEEEECSSCCEEEEEEEEEEEEEEECSSSCEEEEEESCCC-------
T ss_pred             ccCCCccccCCCCCCccCCccccceEEEEEEEEEEEEECCCCCEEEEEEEEEEEEEEEcCCCCeEEEEECCchhcccccc
Confidence            356777888999999999999999999999999999999999999999999999999999999999999875        


Q ss_pred             -------------cccccccccceeecccccccceEEEeCCCCcEEEEEEEecCCCCCCCCCceEecEEEEecCCeEEEE
Q psy17618         79 -------------RLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSNGGRPNASCPSFHRMVTSASCLT  145 (164)
Q Consensus        79 -------------~~l~d~~fH~CV~~~~~~~~r~i~F~PPdG~F~Lm~Yr~~~~~~~~~lP~~v~~~~~~~~~~~v~l~  145 (164)
                                   ..|+||+||+||++++|+++|.|+|+||||+|+||+||++.   +..+||.+.+.+++.|.++++|+
T Consensus       107 ~~~~~~~~~~~~~~~l~d~~FHpcV~l~~f~~~r~IsFiPPDG~F~Lm~Yr~~~---~~~lP~~v~~~~~~~g~~~iE~~  183 (314)
T 1i31_A          107 GTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTK---DIILPFRVIPLVREVGRTKLEVK  183 (314)
T ss_dssp             ----------CCCCCCSEEEECTTSBCC----CCCEEECCCSEEEEEEEEEECS---SCCCCEEEEEEEEEETTTEEEEE
T ss_pred             ccccccccccCCceEcccccccccccHHHcCCcceEEEECCCCCeEEEEEEecC---CcCCCEEEEEEEEecCCcEEEEE
Confidence                         36899999999999999999999999999999999999985   35789999999998877899999


Q ss_pred             EEEEee
Q psy17618        146 IRIRKV  151 (164)
Q Consensus       146 v~Lk~~  151 (164)
                      +++++.
T Consensus       184 l~~~~~  189 (314)
T 1i31_A          184 VVIKSN  189 (314)
T ss_dssp             EEEEEC
T ss_pred             EEEccC
Confidence            999864

>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=6.8e-41  Score=292.63  Aligned_cols=141  Identities=28%  Similarity=0.477  Sum_probs=125.3

Q ss_pred             CCCCCCCCCC-cc---ccCCcccccceEEEEEEeeEEEEEcCCCCEEEEEEEEEEEEEEEeCCCCeeEEEecCC------
Q psy17618          9 ILPSGQLSSV-PW---RRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNP------   78 (164)
Q Consensus         9 ~~~~~~~~~~-~W---R~~~~~y~knEI~vdV~E~v~~~~~~~G~i~~~~I~G~I~~~s~LsG~P~v~l~Ln~~------   78 (164)
                      ..|...++++ ||   |+.|++|++|||||||+|+|+++++++|.++.++|.|+|.|+|+|+|||+|+|+||+.      
T Consensus        96 ~~~~~~s~~~~~~~~~~~~gi~y~knEi~vdV~E~v~~~~~~~G~v~~~eV~G~I~~k~~LsG~P~~~l~LNd~~~~~~~  175 (385)
T 3ml6_A           96 GGPRPYSPQPPPYHELEFGGSGGSRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQ  175 (385)
T ss_dssp             C------CCCCCCEEBCSSSBCCCCCEEEEEEEEEEEEEECTTSCEEEEEEEEEEEEEEECSSCCEEEEEECC-------
T ss_pred             cccCccCCCCCCchhccccCCccccceEEEEEEEEEEEEECCCCCEEEEEEEEEEEEEEeCCCCCeEEEEEcCccccccc
Confidence            4455556665 99   8999999999999999999999999999999999999999999999999999999874      


Q ss_pred             ---------------cccccccccceeecccccccceEEEeCCCCcEEEEEEEecCCCCCCCCCceEecEEEEecCCeEE
Q psy17618         79 ---------------RLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSNGGRPNASCPSFHRMVTSASC  143 (164)
Q Consensus        79 ---------------~~l~d~~fH~CV~~~~~~~~r~i~F~PPdG~F~Lm~Yr~~~~~~~~~lP~~v~~~~~~~~~~~v~  143 (164)
                                     ..|+||+||+||++++|+++|+|+|+||||+|+||+||++..   ..+||.+.|.+++.|.++++
T Consensus       176 ~~~~~~~~~~~~~~~i~l~d~~FH~CV~l~~f~~~r~IsFiPPDg~F~Lm~Yr~~~~---~~~Pf~i~~~v~~~~~~~ve  252 (385)
T 3ml6_A          176 GKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKD---IILPFRVIPLVREVGRTKLE  252 (385)
T ss_dssp             ---------------CCCCEEEECTTBCCCCSSSCSEEEECCCSEEEEEEEEEECSS---CCCSEEEEEEEEEETTTEEE
T ss_pred             cccccccccccccCceEccccccccccChhHccccceEEEeCCCCceEEEEEEcCCC---CCCCEEEEEEEEeCCCeEEE
Confidence                           458999999999999999999999999999999999999853   56899999999998888999


Q ss_pred             EEEEEEeec
Q psy17618        144 LTIRIRKVK  152 (164)
Q Consensus       144 l~v~Lk~~~  152 (164)
                      +++++|+..
T Consensus       253 i~v~lk~~f  261 (385)
T 3ml6_A          253 VKVVIKSNF  261 (385)
T ss_dssp             EEEEEEECS
T ss_pred             EEEEEeecC
Confidence            999998754

>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=1.9e-40  Score=292.16  Aligned_cols=140  Identities=31%  Similarity=0.592  Sum_probs=118.8

Q ss_pred             CCCCCCCCCCccccCCcccccceEEEEEEeeEEEEEcCCCCEEEEEEEEEEEEEEEeCCCCeeEEEecCC----------
Q psy17618          9 ILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNP----------   78 (164)
Q Consensus         9 ~~~~~~~~~~~WR~~~~~y~knEI~vdV~E~v~~~~~~~G~i~~~~I~G~I~~~s~LsG~P~v~l~Ln~~----------   78 (164)
                      .+|.+.++++|||+.|++|++|||||||+|+|+++++++|.++.++|.|.|.|+|+|+|||+|+|+||+.          
T Consensus       150 ~~~~~~~~~i~wr~~gi~~~~nei~vdV~E~v~~~~~~~G~v~~~eV~G~I~~~~~LsG~P~~~l~ln~~~~~~~~~~~~  229 (435)
T 2vgl_M          150 QITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGT  229 (435)
T ss_dssp             ---------CCSSCSCCCCSSCEEEEEEEEEEEEEECTTCCEEEEEEEEEEEEEEECSSCCEEEEEECSSSCC-------
T ss_pred             ccccccccccccccccCCcCcceEEEEEEEEEEEEEcCCCCEEEEEEEEEEEEEEEeCCCCeEEEEeCchhhcccccccc
Confidence            4566677899999999999999999999999999999999999999999999999999999999999874          


Q ss_pred             -----------cccccccccceeecccccccceEEEeCCCCcEEEEEEEecCCCCCCCCCceEecEEEEecCCeEEEEEE
Q psy17618         79 -----------RLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSNGGRPNASCPSFHRMVTSASCLTIR  147 (164)
Q Consensus        79 -----------~~l~d~~fH~CV~~~~~~~~r~i~F~PPdG~F~Lm~Yr~~~~~~~~~lP~~v~~~~~~~~~~~v~l~v~  147 (164)
                                 ..|+||+||+||++++|+++|.|+|+||||+|+||+||++..   ..+||.+.|.+++.|.++++|+++
T Consensus       230 ~~~~~~~~~~~~~l~d~~fH~cV~~~~f~~~r~isF~PPdg~F~Lm~Yr~~~~---~~~P~~i~~~~~~~~~~~ve~~l~  306 (435)
T 2vgl_M          230 ADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKD---IILPFRVIPLVREVGRTKLEVKVV  306 (435)
T ss_dssp             ----------CCCCCEEEECTTEEEC-----CCEEECCCSEEEEEEEEEECSS---CCCSEEEEEEEECCTTTEEEEEEE
T ss_pred             cccccccccCceEccccccceeecHhHhccCceEEEECCCCcEEEEEEEecCC---cCCCeEEEEEEEecCCCEEEEEEE
Confidence                       468999999999999999999999999999999999999853   578999999999887789999999


Q ss_pred             EEee
Q psy17618        148 IRKV  151 (164)
Q Consensus       148 Lk~~  151 (164)
                      +++.
T Consensus       307 ~~~~  310 (435)
T 2vgl_M          307 IKSN  310 (435)
T ss_dssp             EEEC
T ss_pred             EeCC
Confidence            8864

>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=5.9e-40  Score=288.12  Aligned_cols=140  Identities=36%  Similarity=0.618  Sum_probs=124.2

Q ss_pred             CCCCCCCCCCccccCCcccccceEEEEEEeeEEEEEcCCCCEEEEEEEEEEEEEEEeCCCCeeEEEecCCc---------
Q psy17618          9 ILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNPR---------   79 (164)
Q Consensus         9 ~~~~~~~~~~~WR~~~~~y~knEI~vdV~E~v~~~~~~~G~i~~~~I~G~I~~~s~LsG~P~v~l~Ln~~~---------   79 (164)
                      .+|.+.++.+|||+.|++|++|||||||+|+|+++++++|.++.++|.|.|.|+|+|+|||+|+|+||+..         
T Consensus       148 ~~~~~~~~~i~wr~~g~~~~~nei~vdV~E~v~~~~~~~G~v~~~eV~G~I~~~~~LsG~P~~~l~Ln~~~~~~~~~~~~  227 (423)
T 1w63_M          148 RPPATVTNAVSWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRGK  227 (423)
T ss_dssp             ---------CCSSCSSCCCSSCEEEEEEEEEEEEEEETTTEEEEEEEEEEEEEEEECSSCCEEEEEECSCC---------
T ss_pred             CCcccccCCCCccccCCccccceEEEEEEEEEEEEECCCCCEEEEEEEEEEEEEEEeCCCCeEEEEECCccccccccccc
Confidence            34556678899999999999999999999999999999999999999999999999999999999999875         


Q ss_pred             ----ccccccccceeecccccccceEEEeCCCCcEEEEEEEecCCCCCCCCCceEecEEEEecCCeEEEEEEEEee
Q psy17618         80 ----LFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSNGGRPNASCPSFHRMVTSASCLTIRIRKV  151 (164)
Q Consensus        80 ----~l~d~~fH~CV~~~~~~~~r~i~F~PPdG~F~Lm~Yr~~~~~~~~~lP~~v~~~~~~~~~~~v~l~v~Lk~~  151 (164)
                          .|+||+||+||+++.|+++|.|+|+||||+|+||+||++..   ..+||.+.+.+++.+.++++|++++++.
T Consensus       228 ~~~v~l~d~~fHpcV~~~~f~~~r~isf~PPdg~F~Lm~Yr~~~~---~~~P~~i~~~~~~~~~~~ve~~l~~~~~  300 (423)
T 1w63_M          228 SKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTH---VKPLIWIESVIEKHSHSRIEYMVKAKSQ  300 (423)
T ss_dssp             ----CEEEEEECTTEEESSSSSCCEEEECCCSEEEEEEEEEEECC---CCCTTCCEEEEEEETTTEEEEEEEEECC
T ss_pred             cCceEcccccccccccHHHhCCCCeEEEECCCCcEEEEEEEecCC---cCCCEEEEEEEEecCCCEEEEEEEEccc
Confidence                68999999999999999999999999999999999999864   4689999999998777899999998863

>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=3.4e-40  Score=275.59  Aligned_cols=131  Identities=37%  Similarity=0.638  Sum_probs=122.5

Q ss_pred             ccccCCcccccceEEEEEEeeEEEEEcCCCCEEEEEEEEEEEEEEEeCCCCeeEEEecCC-------------ccccccc
Q psy17618         19 PWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNP-------------RLFDDVS   85 (164)
Q Consensus        19 ~WR~~~~~y~knEI~vdV~E~v~~~~~~~G~i~~~~I~G~I~~~s~LsG~P~v~l~Ln~~-------------~~l~d~~   85 (164)
                      +||+.|++|++|||||||+|+|+++++++|.++.++|.|+|.|+|+|+|||+|+|+||+.             ..|+|++
T Consensus         1 ~WR~~~i~y~~nei~vdV~E~v~~~~~~~G~v~~~~v~G~i~~~~~lsG~p~~~l~ln~~~~~~~~~~~~~~~~~l~d~~   80 (266)
T 4en2_M            1 SWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRGKSKSVELEDVK   80 (266)
T ss_dssp             CCCCTTCCCSSEEEEEEEEEEEEEEECTTSCEEEEEEEEEEEEEEECCSCCEEEEEECBHHHHHHTTCTTSCCBCCEEEE
T ss_pred             CCcCCCCccccCeEEEEEEEEEEEEECCCCCEEEEEEEEEEEEEEECCCCCEEEEEEcCccccccccccccCccCccccc
Confidence            799999999999999999999999999999999999999999999999999999999864             3589999


Q ss_pred             ccceeecccccccceEEEeCCCCcEEEEEEEecCCCCCCCCCceEecEEEEecCCeEEEEEEEEeec
Q psy17618         86 FHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSNGGRPNASCPSFHRMVTSASCLTIRIRKVK  152 (164)
Q Consensus        86 fH~CV~~~~~~~~r~i~F~PPdG~F~Lm~Yr~~~~~~~~~lP~~v~~~~~~~~~~~v~l~v~Lk~~~  152 (164)
                      ||+||+++.|++++.|+|+||||+|+||+||++..   ..+||.+.+.+++.+.+++++++.+++..
T Consensus        81 fH~cV~~~~f~~~r~i~f~PPdg~F~Lm~yr~~~~---~~~Pi~i~~~~~~~~~~~vei~v~~k~~~  144 (266)
T 4en2_M           81 FHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTH---VKPLIWIESVIEKHSHSRIEYMVKAKSQF  144 (266)
T ss_dssp             ECTTBCHHHHHHHCCCEECCCSEEEEEEEEEECCC---CCCSEEEEEEEEEEETTEEEEEEEEEECB
T ss_pred             cccccCHhHccccceEEEeCCCCceEEEEEEecCC---CCCCEEEEEEEecCCCEEEEEEEEEecCC
Confidence            99999999999999999999999999999999854   46899999999988778999999988654

>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=1.6e-39  Score=275.98  Aligned_cols=141  Identities=24%  Similarity=0.352  Sum_probs=112.3

Q ss_pred             CCCCCCCCC-ccccCCcccccceEEEEEEeeEEEEEcCCCCEEEEEEEEEEEEEEEeCCCCeeEEEecCC----------
Q psy17618         10 LPSGQLSSV-PWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNP----------   78 (164)
Q Consensus        10 ~~~~~~~~~-~WR~~~~~y~knEI~vdV~E~v~~~~~~~G~i~~~~I~G~I~~~s~LsG~P~v~l~Ln~~----------   78 (164)
                      .+.+.++.+ |||+.  +|++|||||||+|+|+++++++|.++.++|.|+|.|+|+|+|||+|+|+||+.          
T Consensus        14 ~~~a~~~pv~~wr~~--~~~knEi~vdV~E~v~~~~~~~G~v~~~eV~G~I~~~~~LsG~P~~~l~Lnd~~~~~~~~~~~   91 (301)
T 3l81_A           14 PSSAASRPVLSSRSD--QSQKNEVFLDVVERLSVLIASNGSLLKVDVQGEIRLKSFLPSGSEMRIGLTEEFSVGKSELRG   91 (301)
T ss_dssp             ---------------------CEEEEEEEEEEEEEECTTSCEEEEEEEEEEEEEECCCTTCEEEEEECSSCEESCCTTTC
T ss_pred             CchhhcCcccccccc--cCCcceEEEEEEEEEEEEECCCCCEEEEEEEEEEEEEEeCCCCCeEEEEEccccccccccccc
Confidence            344556665 99996  89999999999999999999999999999999999999999999999999853          


Q ss_pred             ----cccccccccceeecccccccceEEEeCCCCcEEEEEEEecCCCCCCCCCceEecEEEEecC-CeEEEEEEEEeecc
Q psy17618         79 ----RLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSNGGRPNASCPSFHRMVT-SASCLTIRIRKVKK  153 (164)
Q Consensus        79 ----~~l~d~~fH~CV~~~~~~~~r~i~F~PPdG~F~Lm~Yr~~~~~~~~~lP~~v~~~~~~~~~-~~v~l~v~Lk~~~~  153 (164)
                          ..|+||+||+||++++|+++|.|+|+||||+|+||+||++... ...+||.+.|.+++.+. ++++|+++|++...
T Consensus        92 ~~~~~~l~d~~fH~cV~~~~f~~~r~IsFiPPDg~F~Lm~Yr~~~~~-~~~~P~~v~~~v~~~~~~~~ie~~l~l~~~f~  170 (301)
T 3l81_A           92 YGPGIRVDEVSFHSSVNLDEFESHRILRLQPPQGELTVMRYQLSDDL-PSPLPFRLFPSVQWDRGSGRLQVYLKLRCDLL  170 (301)
T ss_dssp             CCSSSEESEEEEETTCBCTTHHHHCEEEECCCSEEEEEEEEEECSCC-SSCCSEEEEEEEEECTTTSEEEEEEEEEECSC
T ss_pred             ccCceEccccccccccChhHccccceEEecCCCCeeEEEEEEecCCC-ccCCCEEEEEEEEECCCcEEEEEEEEEecCCC
Confidence                4589999999999999999999999999999999999998652 23689999999998764 79999999876543

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

Probab=96.34  E-value=0.34  Score=41.32  Aligned_cols=115  Identities=16%  Similarity=0.160  Sum_probs=80.9

Q ss_pred             cceEEEEEEeeEEEEEcCCCCEEEEEEEEEEEEEEEeCC-------CCeeEEEecCCcccccc----cccceeecccccc
Q psy17618         29 NNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSG-------MPDLTLSFMNPRLFDDV----SFHPCVRFKRWEA   97 (164)
Q Consensus        29 knEI~vdV~E~v~~~~~~~G~i~~~~I~G~I~~~s~LsG-------~P~v~l~Ln~~~~l~d~----~fH~CV~~~~~~~   97 (164)
                      ...+-..+.|.|++.+.. |.+.++.|.|.|.+ +|..|       .+.+.+.|++...|+.+    .|-.++..     
T Consensus        67 ~pGLnASI~E~VNA~Fkg-g~~tk~~v~GEiaL-sy~~~~~s~~p~p~~l~fRL~N~~~Lekv~pN~~fv~~~~~-----  139 (328)
T 3g9h_A           67 QFGLNASIAEVLNASFKD-GMLQNSQLIGEIAL-NYLPNSVMNSPLPIGINLRINNGAKFEKVILNQAFIERVAP-----  139 (328)
T ss_dssp             CCEEEEEEEEEEEEEEET-TEEEEEEEEEEEEE-EEECCSSSCCCCCSEEEEEEETGGGEEEEEECTTTEEEEET-----
T ss_pred             CCceeEEEEEEEEEEEEC-CcEEEEEEEEEEEE-ecCCCccccCCCCccEEEEecCcchhheeeCCHHHhccCCC-----
Confidence            457888999999999865 67899999999765 56665       24588999887666543    33333332     


Q ss_pred             cceEEEeCC--CC-cEEEEEEEecCCCCCCCCCceEecEEEEecCCeEEEEEEEEeecccccc
Q psy17618         98 ERILSFIPP--DG-NFRLMSYHTRVSGSNGGRPNASCPSFHRMVTSASCLTIRIRKVKKDKNR  157 (164)
Q Consensus        98 ~r~i~F~PP--dG-~F~Lm~Yr~~~~~~~~~lP~~v~~~~~~~~~~~v~l~v~Lk~~~~~~~~  157 (164)
                       ....|-++  .. .-.+++|+++.    ...|+.+.+.++-.+ .+..+.|+.|.+-. ++.
T Consensus       140 -~eF~vn~~~L~sktv~~lKYqVs~----~~~PL~l~p~WK~E~-~qtsliI~Yk~NP~-~~~  195 (328)
T 3g9h_A          140 -EEFKVNPSFIDSRTLGAIKYSIKE----PIAPIVIHPVWRFES-HQASVVLTVKMSPS-LPD  195 (328)
T ss_dssp             -TEEEECTTTTBTCEEEEEEEEEES----CCCSEEEEEEEEECS-SEEEEEEEEEECTT-SCT
T ss_pred             -CCEEEchHHhcccceeeEEEEECC----CCCCeEEEeeeecCC-CeeEEEEEEEECCC-CcC
Confidence             22333333  12 46789999974    367999999999774 67888888887643 444

---

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	164
d2pr9a1	277	b.2.7.1 (A:159-435) Second domain of Mu2 adaptin s	1e-40

>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 =  135 bits (342), Expect = 1e-40
 Identities = 40/121 (33%), Positives = 60/121 (49%), Gaps = 21/121 (17%)

Query: 18  VPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMN 77
           + WRR G+KY  NE + DV+E V+ ++   G  + + + G +     LSGMP+      +
Sbjct: 1   IGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMND 60

Query: 78  PRLF---------------------DDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYH 116
             +                      DD +FH CVR  ++++ER +SFIPPDG F LM Y 
Sbjct: 61  KIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYR 120

Query: 117 T 117
           T
Sbjct: 121 T 121

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	164
d2pr9a1	277	Second domain of Mu2 adaptin subunit (ap50) of ap2	100.0

>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=2.5e-41  Score=279.40  Aligned_cols=132  Identities=33%  Similarity=0.620  Sum_probs=119.2

Q ss_pred             CccccCCcccccceEEEEEEeeEEEEEcCCCCEEEEEEEEEEEEEEEeCCCCeeEEEecCC-------------------
Q psy17618         18 VPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNP-------------------   78 (164)
Q Consensus        18 ~~WR~~~~~y~knEI~vdV~E~v~~~~~~~G~i~~~~I~G~I~~~s~LsG~P~v~l~Ln~~-------------------   78 (164)
                      +|||+.|++|++|||||||+|+++++++++|.++.++|.|+|.|+|+|+|+|+|+|+||++                   
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            6999999999999999999999999999999999999999999999999999999999864                   


Q ss_pred             --cccccccccceeecccccccceEEEeCCCCcEEEEEEEecCCCCCCCCCceEecEEEEecCCeEEEEEEEEeec
Q psy17618         79 --RLFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSNGGRPNASCPSFHRMVTSASCLTIRIRKVK  152 (164)
Q Consensus        79 --~~l~d~~fH~CV~~~~~~~~r~i~F~PPdG~F~Lm~Yr~~~~~~~~~lP~~v~~~~~~~~~~~v~l~v~Lk~~~  152 (164)
                        ..|+||+||+||+++.|+++++|+|+||||+|+||+|++...   ..+||.+++.++..+.+++++.++|++..
T Consensus        81 ~~~~l~d~~fH~cV~~~~f~~~~~i~F~PPdG~F~Lm~Y~~~~~---~~~P~~i~~~~~~~~~~~~~~~i~l~~~~  153 (277)
T d2pr9a1          81 QSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKD---IILPFRVIPLVREVGRTKLEVKVVIKSNF  153 (277)
T ss_dssp             CCBCCSEEEECTTSBCC-----CCEEECCCSEEEEEEEEEECSS---CCCCEEEEEEEEEETTTEEEEEEEEEECS
T ss_pred             CceEccceeeeeccccccccccceEeecCCCCcEEEEEEEcCCC---cCCCcEEEEEEEeccCcEEEEEEEEEecc
Confidence              369999999999999999999999999999999999999854   46899999999988888999999998754