PASS2.8 - Home

solvent inaccessible: UPPER CASE X
solvent accesible: lower case x
alpha helix: red x

beta strand: blue x
3 - 10 helix: maroon x
hydrogen bond to main chain amide: bold x

hydrogen bond to mainchain carbonyl: underline x
disulphide bond: cedilla
positive phi: italic x

                             10        20        30        40        50  
d1rsoa-  (   7 )        rkqdtqralhlleeyrsklSqtedrqlrssiervisifqsnlfqal
d1rsob-  (  81 )    gllaAeravsqvldsleeihaltd-----ssekdldflhsvfqdqhlhtl
d1vf6a-  (  12 )           vlqvldrlkmklqek----gdtsqneklsmfyetlksplfnqi
d1vf6c1  ( 123 )           dvedlfsslkhiqhtl---vdsqsqedIslllqlVqnrdfqna
d1y74a1  (  17 )      lglerdvsravellerlqrs----gel-ppqklqalqrvlqsrfcsai
d1y74b-  (  83 )        avqrAkevleeiscypen----------ndAkelkriltqphfmal
                            aaaaaaaaaaaa           aaaaaaaaaaaa aaaaaa

                             60        
d1rsoa-  (  53 )    idiqefyevtll-----dn
d1rsob-  ( 126 )    ldlyDkint---ks     
d1vf6a-  (  51 )    ltlqqsikqlkgqlnhile
d1vf6c1  ( 163 )    fkihnavt           
d1y74a1  (  60 )    revyeqlydtldit     
d1y74b-  ( 119 )    lqthdvvahevysd     
                    aaaaaaa

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d1rsoa- # Domain Specific Files ATM file: Atomic coordinates by ASTRAL ATM2ALI file: Amino acid sequences by ATM2ALI SST file: Secondary structure by SSTRUC PSA file: solvent accessibility by PSA HBD file: Hydrogen bonds by HBOND PSE file: PyMol session file for conserved interactions PDBSUM1: Topological diagram d1rsoa- # Links to other databases and tools RCSB-PDB: Research Collaboratory for Structural Bioinformatics SCOP: Structural Classification of Proteins EBI: European Bioinformatics Institute HOMSTRAD: Homologous Structure Alignment Database DDBASE: Dial-Derived Domain Database CATH: Class Architecture Topology and Homologous sfily PALI: Phylogeny and ALIgnment of homologous protein structures MODBASE: A Database of Annotated Comparative Protein Structure Models 3Dee: A Database of Protein Domain Definition PQS: Protein Quaternary Structure Query Form at the EBI LPC/CSU: Ligand-Protein Contacts & Contacts of Structural LPFC: A Library of Protein Family Cores MMDB: Molecular Modelling DataBase,NCBI CE: Databases and Tools for 3-D Protein Structure Comparison and Alignment PDBSUM: Summaries and structural analyses of PDB data files Pfam: Protein families database of alignments and HMMs	Presynaptic protein sap97	L27 domain	Norway rat (Rattus norvegicus) [TaxId: 10116]	view
d1rsob- # Domain Specific Files ATM file: Atomic coordinates by ASTRAL ATM2ALI file: Amino acid sequences by ATM2ALI SST file: Secondary structure by SSTRUC PSA file: solvent accessibility by PSA HBD file: Hydrogen bonds by HBOND PSE file: PyMol session file for conserved interactions PDBSUM1: Topological diagram d1rsob- # Links to other databases and tools RCSB-PDB: Research Collaboratory for Structural Bioinformatics SCOP: Structural Classification of Proteins EBI: European Bioinformatics Institute HOMSTRAD: Homologous Structure Alignment Database DDBASE: Dial-Derived Domain Database CATH: Class Architecture Topology and Homologous sfily PALI: Phylogeny and ALIgnment of homologous protein structures MODBASE: A Database of Annotated Comparative Protein Structure Models 3Dee: A Database of Protein Domain Definition PQS: Protein Quaternary Structure Query Form at the EBI LPC/CSU: Ligand-Protein Contacts & Contacts of Structural LPFC: A Library of Protein Family Cores MMDB: Molecular Modelling DataBase,NCBI CE: Databases and Tools for 3-D Protein Structure Comparison and Alignment PDBSUM: Summaries and structural analyses of PDB data files Pfam: Protein families database of alignments and HMMs	Peripheral plasma membrane protein cask	L27 domain	Norway rat (Rattus norvegicus) [TaxId: 10116]	view
d1vf6a- # Domain Specific Files ATM file: Atomic coordinates by ASTRAL ATM2ALI file: Amino acid sequences by ATM2ALI SST file: Secondary structure by SSTRUC PSA file: solvent accessibility by PSA HBD file: Hydrogen bonds by HBOND PSE file: PyMol session file for conserved interactions PDBSUM1: Topological diagram d1vf6a- # Links to other databases and tools RCSB-PDB: Research Collaboratory for Structural Bioinformatics SCOP: Structural Classification of Proteins EBI: European Bioinformatics Institute HOMSTRAD: Homologous Structure Alignment Database DDBASE: Dial-Derived Domain Database CATH: Class Architecture Topology and Homologous sfily PALI: Phylogeny and ALIgnment of homologous protein structures MODBASE: A Database of Annotated Comparative Protein Structure Models 3Dee: A Database of Protein Domain Definition PQS: Protein Quaternary Structure Query Form at the EBI LPC/CSU: Ligand-Protein Contacts & Contacts of Structural LPFC: A Library of Protein Family Cores MMDB: Molecular Modelling DataBase,NCBI CE: Databases and Tools for 3-D Protein Structure Comparison and Alignment PDBSUM: Summaries and structural analyses of PDB data files Pfam: Protein families database of alignments and HMMs	Associated tight junction protein Pals-1	L27 domain	Human (Homo sapiens) [TaxId: 9606]	view
d1vf6c1 # Domain Specific Files ATM file: Atomic coordinates by ASTRAL ATM2ALI file: Amino acid sequences by ATM2ALI SST file: Secondary structure by SSTRUC PSA file: solvent accessibility by PSA HBD file: Hydrogen bonds by HBOND PSE file: PyMol session file for conserved interactions PDBSUM1: Topological diagram d1vf6c1 # Links to other databases and tools RCSB-PDB: Research Collaboratory for Structural Bioinformatics SCOP: Structural Classification of Proteins EBI: European Bioinformatics Institute HOMSTRAD: Homologous Structure Alignment Database DDBASE: Dial-Derived Domain Database CATH: Class Architecture Topology and Homologous sfily PALI: Phylogeny and ALIgnment of homologous protein structures MODBASE: A Database of Annotated Comparative Protein Structure Models 3Dee: A Database of Protein Domain Definition PQS: Protein Quaternary Structure Query Form at the EBI LPC/CSU: Ligand-Protein Contacts & Contacts of Structural LPFC: A Library of Protein Family Cores MMDB: Molecular Modelling DataBase,NCBI CE: Databases and Tools for 3-D Protein Structure Comparison and Alignment PDBSUM: Summaries and structural analyses of PDB data files Pfam: Protein families database of alignments and HMMs	Maguk p55 subfamily member 5, Patj	L27 domain	Mouse (Mus musculus) [TaxId: 10090]	view
d1y74a1 # Domain Specific Files ATM file: Atomic coordinates by ASTRAL ATM2ALI file: Amino acid sequences by ATM2ALI SST file: Secondary structure by SSTRUC PSA file: solvent accessibility by PSA HBD file: Hydrogen bonds by HBOND PSE file: PyMol session file for conserved interactions PDBSUM1: Topological diagram d1y74a1 # Links to other databases and tools RCSB-PDB: Research Collaboratory for Structural Bioinformatics SCOP: Structural Classification of Proteins EBI: European Bioinformatics Institute HOMSTRAD: Homologous Structure Alignment Database DDBASE: Dial-Derived Domain Database CATH: Class Architecture Topology and Homologous sfily PALI: Phylogeny and ALIgnment of homologous protein structures MODBASE: A Database of Annotated Comparative Protein Structure Models 3Dee: A Database of Protein Domain Definition PQS: Protein Quaternary Structure Query Form at the EBI LPC/CSU: Ligand-Protein Contacts & Contacts of Structural LPFC: A Library of Protein Family Cores MMDB: Molecular Modelling DataBase,NCBI CE: Databases and Tools for 3-D Protein Structure Comparison and Alignment PDBSUM: Summaries and structural analyses of PDB data files Pfam: Protein families database of alignments and HMMs	Lin-7	L27 domain	Mouse (Mus musculus) [TaxId: 10090]	view
d1y74b- # Domain Specific Files ATM file: Atomic coordinates by ASTRAL ATM2ALI file: Amino acid sequences by ATM2ALI SST file: Secondary structure by SSTRUC PSA file: solvent accessibility by PSA HBD file: Hydrogen bonds by HBOND PSE file: PyMol session file for conserved interactions PDBSUM1: Topological diagram d1y74b- # Links to other databases and tools RCSB-PDB: Research Collaboratory for Structural Bioinformatics SCOP: Structural Classification of Proteins EBI: European Bioinformatics Institute HOMSTRAD: Homologous Structure Alignment Database DDBASE: Dial-Derived Domain Database CATH: Class Architecture Topology and Homologous sfily PALI: Phylogeny and ALIgnment of homologous protein structures MODBASE: A Database of Annotated Comparative Protein Structure Models 3Dee: A Database of Protein Domain Definition PQS: Protein Quaternary Structure Query Form at the EBI LPC/CSU: Ligand-Protein Contacts & Contacts of Structural LPFC: A Library of Protein Family Cores MMDB: Molecular Modelling DataBase,NCBI CE: Databases and Tools for 3-D Protein Structure Comparison and Alignment PDBSUM: Summaries and structural analyses of PDB data files Pfam: Protein families database of alignments and HMMs	automated matches	L27 domain	Mouse (Mus musculus) [TaxId: 10090]	view

No outliers

Feature	Download
Superfamily
Distance Matrix
Conserved Interactions
Cusp Results
Alistat - Alignment Statistics
SMotif - Conserved Structural Motifs
MeanRMS
PCSSE Details
Absolutely Conserved Residues
Highly Conserved Residues

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-	-	-	-	R	K	Q	D	T	Q	R	A	L	H	L	L	E	E	Y	R	S	K	L	S	Q	T	E	D	R	Q	L	R	S	S	I	E	R	V	I	S	I	F	Q	S	N	L	F	Q	A	L	I	D	I	Q	E	F	Y	E	V	T	L	L	-	-	-	-	-	D	N
G	L	L	A	A	E	R	A	V	S	Q	V	L	D	S	L	E	E	I	H	A	L	T	D	-	-	-	-	-	S	S	E	K	D	L	D	F	L	H	S	V	F	Q	D	Q	H	L	H	T	L	L	D	L	Y	D	K	I	N	T	-	-	-	K	S	-	-	-	-	-
-	-	-	-	-	-	-	V	L	Q	V	L	D	R	L	K	M	K	L	Q	E	K	-	-	-	-	G	D	T	S	Q	N	E	K	L	S	M	F	Y	E	T	L	K	S	P	L	F	N	Q	I	L	T	L	Q	Q	S	I	K	Q	L	K	G	Q	L	N	H	I	L	E
-	-	-	-	-	-	-	D	V	E	D	L	F	S	S	L	K	H	I	Q	H	T	L	-	-	-	V	D	S	Q	S	Q	E	D	I	S	L	L	L	Q	L	V	Q	N	R	D	F	Q	N	A	F	K	I	H	N	A	V	T	-	-	-	-	-	-	-	-	-	-	-
-	-	L	G	L	E	R	D	V	S	R	A	V	E	L	L	E	R	L	Q	R	S	-	-	-	-	G	E	L	-	P	P	Q	K	L	Q	A	L	Q	R	V	L	Q	S	R	F	C	S	A	I	R	E	V	Y	E	Q	L	Y	D	T	L	D	I	T	-	-	-	-	-
-	-	-	-	A	V	Q	R	A	K	E	V	L	E	E	I	S	C	Y	P	E	N	-	-	-	-	-	-	-	-	-	-	N	D	A	K	E	L	K	R	I	L	T	Q	P	H	F	M	A	L	L	Q	T	H	D	V	V	A	H	E	V	Y	S	D	-	-	-	-	-

Member	Chain	UniProtKB	GO term

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-	-	-	-	R	K	Q	D	T	Q	R	A	L	H	L	L	E	E	Y	R	S	K	L	S	Q	T	E	D	R	Q	L	R	S	S	I	E	R	V	I	S	I	F	Q	S	N	L	F	Q	A	L	I	D	I	Q	E	F	Y	E	V	T	L	L	-	-	-	-	-	D	N
G	L	L	A	A	E	R	A	V	S	Q	V	L	D	S	L	E	E	I	H	A	L	T	D	-	-	-	-	-	S	S	E	K	D	L	D	F	L	H	S	V	F	Q	D	Q	H	L	H	T	L	L	D	L	Y	D	K	I	N	T	-	-	-	K	S	-	-	-	-	-
-	-	-	-	-	-	-	V	L	Q	V	L	D	R	L	K	M	K	L	Q	E	K	-	-	-	-	G	D	T	S	Q	N	E	K	L	S	M	F	Y	E	T	L	K	S	P	L	F	N	Q	I	L	T	L	Q	Q	S	I	K	Q	L	K	G	Q	L	N	H	I	L	E
-	-	-	-	-	-	-	D	V	E	D	L	F	S	S	L	K	H	I	Q	H	T	L	-	-	-	V	D	S	Q	S	Q	E	D	I	S	L	L	L	Q	L	V	Q	N	R	D	F	Q	N	A	F	K	I	H	N	A	V	T	-	-	-	-	-	-	-	-	-	-	-
-	-	L	G	L	E	R	D	V	S	R	A	V	E	L	L	E	R	L	Q	R	S	-	-	-	-	G	E	L	-	P	P	Q	K	L	Q	A	L	Q	R	V	L	Q	S	R	F	C	S	A	I	R	E	V	Y	E	Q	L	Y	D	T	L	D	I	T	-	-	-	-	-
-	-	-	-	A	V	Q	R	A	K	E	V	L	E	E	I	S	C	Y	P	E	N	-	-	-	-	-	-	-	-	-	-	N	D	A	K	E	L	K	R	I	L	T	Q	P	H	F	M	A	L	L	Q	T	H	D	V	V	A	H	E	V	Y	S	D	-	-	-	-	-

									10										20										30										40										50										60
-	-	-	-	R	K	Q	D	T	Q	R	A	L	H	L	L	E	E	Y	R	S	K	L	S	Q	T	E	D	R	Q	L	R	S	S	I	E	R	V	I	S	I	F	Q	S	N	L	F	Q	A	L	I	D	I	Q	E	F	Y	E	V	T	L	L	-	-	-	-	-	D	N
G	L	L	A	A	E	R	A	V	S	Q	V	L	D	S	L	E	E	I	H	A	L	T	D	-	-	-	-	-	S	S	E	K	D	L	D	F	L	H	S	V	F	Q	D	Q	H	L	H	T	L	L	D	L	Y	D	K	I	N	T	-	-	-	K	S	-	-	-	-	-
-	-	-	-	-	-	-	V	L	Q	V	L	D	R	L	K	M	K	L	Q	E	K	-	-	-	-	G	D	T	S	Q	N	E	K	L	S	M	F	Y	E	T	L	K	S	P	L	F	N	Q	I	L	T	L	Q	Q	S	I	K	Q	L	K	G	Q	L	N	H	I	L	E
-	-	-	-	-	-	-	D	V	E	D	L	F	S	S	L	K	H	I	Q	H	T	L	-	-	-	V	D	S	Q	S	Q	E	D	I	S	L	L	L	Q	L	V	Q	N	R	D	F	Q	N	A	F	K	I	H	N	A	V	T	-	-	-	-	-	-	-	-	-	-	-
-	-	L	G	L	E	R	D	V	S	R	A	V	E	L	L	E	R	L	Q	R	S	-	-	-	-	G	E	L	-	P	P	Q	K	L	Q	A	L	Q	R	V	L	Q	S	R	F	C	S	A	I	R	E	V	Y	E	Q	L	Y	D	T	L	D	I	T	-	-	-	-	-
-	-	-	-	A	V	Q	R	A	K	E	V	L	E	E	I	S	C	Y	P	E	N	-	-	-	-	-	-	-	-	-	-	N	D	A	K	E	L	K	R	I	L	T	Q	P	H	F	M	A	L	L	Q	T	H	D	V	V	A	H	E	V	Y	S	D	-	-	-	-	-

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-	-	-	-	R	K	Q	D	T	Q	R	A	L	H	L	L	E	E	Y	R	S	K	L	S	Q	T	E	D	R	Q	L	R	S	S	I	E	R	V	I	S	I	F	Q	S	N	L	F	Q	A	L	I	D	I	Q	E	F	Y	E	V	T	L	L	-	-	-	-	-	D	N
G	L	L	A	A	E	R	A	V	S	Q	V	L	D	S	L	E	E	I	H	A	L	T	D	-	-	-	-	-	S	S	E	K	D	L	D	F	L	H	S	V	F	Q	D	Q	H	L	H	T	L	L	D	L	Y	D	K	I	N	T	-	-	-	K	S	-	-	-	-	-
-	-	-	-	-	-	-	V	L	Q	V	L	D	R	L	K	M	K	L	Q	E	K	-	-	-	-	G	D	T	S	Q	N	E	K	L	S	M	F	Y	E	T	L	K	S	P	L	F	N	Q	I	L	T	L	Q	Q	S	I	K	Q	L	K	G	Q	L	N	H	I	L	E
-	-	-	-	-	-	-	D	V	E	D	L	F	S	S	L	K	H	I	Q	H	T	L	-	-	-	V	D	S	Q	S	Q	E	D	I	S	L	L	L	Q	L	V	Q	N	R	D	F	Q	N	A	F	K	I	H	N	A	V	T	-	-	-	-	-	-	-	-	-	-	-
-	-	L	G	L	E	R	D	V	S	R	A	V	E	L	L	E	R	L	Q	R	S	-	-	-	-	G	E	L	-	P	P	Q	K	L	Q	A	L	Q	R	V	L	Q	S	R	F	C	S	A	I	R	E	V	Y	E	Q	L	Y	D	T	L	D	I	T	-	-	-	-	-
-	-	-	-	A	V	Q	R	A	K	E	V	L	E	E	I	S	C	Y	P	E	N	-	-	-	-	-	-	-	-	-	-	N	D	A	K	E	L	K	R	I	L	T	Q	P	H	F	M	A	L	L	Q	T	H	D	V	V	A	H	E	V	Y	S	D	-	-	-	-	-