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  
d1mr1c1  ( 219 )            rVyHecfgkCkGllvpelYs--spsaaCIqCldcrlmypPhk
d1oqja-  (  91 )         meiaypItCg-eskaiLlwkkFvCpGinvkCVkfn--dqliSPkh
d1ufna1  (   8 )    ndavdfsptlpvtCg-kakGtlfqeklkq-gaskkCiqne-agdwltvke
                             bbb     bbbbb              bbb     bb aaa

                             60        70        80        90        100 
d1mr1c1  ( 259 )    FVvhshkalenrtchwgfdsanWrayIllsqdytgk--eeqarlgrcldd
d1oqja-  ( 133 )    FVhlAg----------kstlkdwkrAIrlg------gimLrkmMdsgqId
d1ufna1  (  55 )    FlneGg----------ratskdwkgvirCn------getlrhleqkgllf
                    a                     aaaa bb          aaaaaa     

                             110 
d1mr1c1  ( 307 )    vkekfd      
d1oqja-  ( 167 )    Fyqhdkvcsntc
d1ufna1

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d1mr1c1 # 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 d1mr1c1 # 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	SMAD4-binding domain of oncoprotein Ski	SMAD4-binding domain of oncoprotein Ski	Human (Homo sapiens) [TaxId: 9606]	view
d1oqja- # 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 d1oqja- # 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	Glucocorticoid modulatory element binding protein-1 (Gmeb1)	SAND domain	Human (Homo sapiens) [TaxId: 9606]	view
d1ufna1 # 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 d1ufna1 # 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	Putative nuclear protein homolog 5830484a20rik	SAND 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

									10										20										30										40										50										60										70										80										90										100										110
-	-	-	-	-	-	-	-	R	V	Y	H	E	C	F	G	K	C	K	G	L	L	V	P	E	L	Y	S	-	-	S	P	S	A	A	C	I	Q	C	L	D	C	R	L	M	Y	P	P	H	K	F	V	V	H	S	H	K	A	L	E	N	R	T	C	H	W	G	F	D	S	A	N	W	R	A	Y	I	L	L	S	Q	D	Y	T	G	K	-	-	E	E	Q	A	R	L	G	R	C	L	D	D	V	K	E	K	F	D	-	-	-	-	-	-
-	-	-	-	-	M	E	I	A	Y	P	I	T	C	G	-	E	S	K	A	I	L	L	W	K	K	F	V	C	P	G	I	N	V	K	C	V	K	F	N	-	-	D	Q	L	I	S	P	K	H	F	V	H	L	A	G	-	-	-	-	-	-	-	-	-	-	K	S	T	L	K	D	W	K	R	A	I	R	L	G	-	-	-	-	-	-	G	I	M	L	R	K	M	M	D	S	G	Q	I	D	F	Y	Q	H	D	K	V	C	S	N	T	C
N	D	A	V	D	F	S	P	T	L	P	V	T	C	G	-	K	A	K	G	T	L	F	Q	E	K	L	K	Q	-	G	A	S	K	K	C	I	Q	N	E	-	A	G	D	W	L	T	V	K	E	F	L	N	E	G	G	-	-	-	-	-	-	-	-	-	-	R	A	T	S	K	D	W	K	G	V	I	R	C	N	-	-	-	-	-	-	G	E	T	L	R	H	L	E	Q	K	G	L	L	F	-	-	-	-	-	-	-	-	-	-	-	-

Member	Chain	UniProtKB	GO term
d1oqja_	A	Q9Y692	GO:0003677

									10										20										30										40										50										60										70										80										90										100										110
-	-	-	-	-	-	-	-	R	V	Y	H	E	C	F	G	K	C	K	G	L	L	V	P	E	L	Y	S	-	-	S	P	S	A	A	C	I	Q	C	L	D	C	R	L	M	Y	P	P	H	K	F	V	V	H	S	H	K	A	L	E	N	R	T	C	H	W	G	F	D	S	A	N	W	R	A	Y	I	L	L	S	Q	D	Y	T	G	K	-	-	E	E	Q	A	R	L	G	R	C	L	D	D	V	K	E	K	F	D	-	-	-	-	-	-
-	-	-	-	-	M	E	I	A	Y	P	I	T	C	G	-	E	S	K	A	I	L	L	W	K	K	F	V	C	P	G	I	N	V	K	C	V	K	F	N	-	-	D	Q	L	I	S	P	K	H	F	V	H	L	A	G	-	-	-	-	-	-	-	-	-	-	K	S	T	L	K	D	W	K	R	A	I	R	L	G	-	-	-	-	-	-	G	I	M	L	R	K	M	M	D	S	G	Q	I	D	F	Y	Q	H	D	K	V	C	S	N	T	C
N	D	A	V	D	F	S	P	T	L	P	V	T	C	G	-	K	A	K	G	T	L	F	Q	E	K	L	K	Q	-	G	A	S	K	K	C	I	Q	N	E	-	A	G	D	W	L	T	V	K	E	F	L	N	E	G	G	-	-	-	-	-	-	-	-	-	-	R	A	T	S	K	D	W	K	G	V	I	R	C	N	-	-	-	-	-	-	G	E	T	L	R	H	L	E	Q	K	G	L	L	F	-	-	-	-	-	-	-	-	-	-	-	-

									10										20										30										40										50										60										70										80										90										100										110
-	-	-	-	-	-	-	-	R	V	Y	H	E	C	F	G	K	C	K	G	L	L	V	P	E	L	Y	S	-	-	S	P	S	A	A	C	I	Q	C	L	D	C	R	L	M	Y	P	P	H	K	F	V	V	H	S	H	K	A	L	E	N	R	T	C	H	W	G	F	D	S	A	N	W	R	A	Y	I	L	L	S	Q	D	Y	T	G	K	-	-	E	E	Q	A	R	L	G	R	C	L	D	D	V	K	E	K	F	D	-	-	-	-	-	-
-	-	-	-	-	M	E	I	A	Y	P	I	T	C	G	-	E	S	K	A	I	L	L	W	K	K	F	V	C	P	G	I	N	V	K	C	V	K	F	N	-	-	D	Q	L	I	S	P	K	H	F	V	H	L	A	G	-	-	-	-	-	-	-	-	-	-	K	S	T	L	K	D	W	K	R	A	I	R	L	G	-	-	-	-	-	-	G	I	M	L	R	K	M	M	D	S	G	Q	I	D	F	Y	Q	H	D	K	V	C	S	N	T	C
N	D	A	V	D	F	S	P	T	L	P	V	T	C	G	-	K	A	K	G	T	L	F	Q	E	K	L	K	Q	-	G	A	S	K	K	C	I	Q	N	E	-	A	G	D	W	L	T	V	K	E	F	L	N	E	G	G	-	-	-	-	-	-	-	-	-	-	R	A	T	S	K	D	W	K	G	V	I	R	C	N	-	-	-	-	-	-	G	E	T	L	R	H	L	E	Q	K	G	L	L	F	-	-	-	-	-	-	-	-	-	-	-	-

									10										20										30										40										50										60										70										80										90										100										110
-	-	-	-	-	-	-	-	R	V	Y	H	E	C	F	G	K	C	K	G	L	L	V	P	E	L	Y	S	-	-	S	P	S	A	A	C	I	Q	C	L	D	C	R	L	M	Y	P	P	H	K	F	V	V	H	S	H	K	A	L	E	N	R	T	C	H	W	G	F	D	S	A	N	W	R	A	Y	I	L	L	S	Q	D	Y	T	G	K	-	-	E	E	Q	A	R	L	G	R	C	L	D	D	V	K	E	K	F	D	-	-	-	-	-	-
-	-	-	-	-	M	E	I	A	Y	P	I	T	C	G	-	E	S	K	A	I	L	L	W	K	K	F	V	C	P	G	I	N	V	K	C	V	K	F	N	-	-	D	Q	L	I	S	P	K	H	F	V	H	L	A	G	-	-	-	-	-	-	-	-	-	-	K	S	T	L	K	D	W	K	R	A	I	R	L	G	-	-	-	-	-	-	G	I	M	L	R	K	M	M	D	S	G	Q	I	D	F	Y	Q	H	D	K	V	C	S	N	T	C
N	D	A	V	D	F	S	P	T	L	P	V	T	C	G	-	K	A	K	G	T	L	F	Q	E	K	L	K	Q	-	G	A	S	K	K	C	I	Q	N	E	-	A	G	D	W	L	T	V	K	E	F	L	N	E	G	G	-	-	-	-	-	-	-	-	-	-	R	A	T	S	K	D	W	K	G	V	I	R	C	N	-	-	-	-	-	-	G	E	T	L	R	H	L	E	Q	K	G	L	L	F	-	-	-	-	-	-	-	-	-	-	-	-