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  
d2gk6a2  ( 325 )                     tqdnItVrWdlg--------lnkkriAyFtlpl
d3jb9x1  ( 461 )    rrLsiknatKnln----ffsLnnFkvtsvap------lpqfVkcqMglsr
d4pj3a1  ( 493 )    kpwqseyggvvfggwaraqpIvaFtvvevakpnigenwPtrVrAdVtInL
                                           bbb                 bbb    

                             60        70        80        90        100 
d2gk6a2  ( 357 )    m-------------qgdeICLrYkgd-----------------laplwkg
d3jb9x1  ( 510 )    p---salrdlknssp-flclIyiskdmeykllhgnaldple-------vT
d4pj3a1  ( 544 )    nvrdhikdeWeglrkhdvCfLiTVrPtkpygtkfdrrrpfieqvglvyvr
                                        bb                            

                             110       120       130       140       150 
d2gk6a2  ( 377 )    iGhVikvpdn-------------ygdeIAIeLr--ssvgAPve-------
d3jb9x1  ( 556 )    dFtiAtiCnddvgmfmqsd---sdnksInVylsp-yyhslaglgeyrpkq
d4pj3a1  ( 594 )    gCeIqgld-dkgrvieprpnlrgesRtfrVfLdpnqyqqdtntiqngaed
                     bbbbb                     bbbbb                  

                             160 
d2gk6a2  ( 405 )    vthnFqVdfvw 
d3jb9x1  ( 606 )    lkfnFalvlS  
d4pj3a1  ( 649 )    vYetFniIrrkp
                          bb

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d2gk6a2 # 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 d2gk6a2 # 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	Upf1 barrel domain	Upf1 barrel domain-like	Human (Homo sapiens) [TaxId: 9606]	view
d3jb9x1 # 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 d3jb9x1 # 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	Pre-mRNA splicing factor Cwf11 / Aquarius barrel domain	Upf1 barrel domain-like	Schizosaccharomyces pombe 972h- [TaxId: 284812]	view
d4pj3a1 # 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 d4pj3a1 # 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	Pre-mRNA splicing factor Cwf11 / Aquarius barrel domain	Upf1 barrel domain-like	Human (Homo sapiens) [TaxId: 9606]	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	R	L	S	I	K	N	A	T	K	N	L	N	-	-	-	-	F	F	S	L	N	N	F	K	V	T	S	V	A	P	-	-	-	-	-	-	L	P	Q	F	V	K	C	Q	M	G	L	S	R	P	-	-	-	S	A	L	R	D	L	K	N	S	S	P	-	F	L	C	L	I	Y	I	S	K	D	M	E	Y	K	L	L	H	G	N	A	L	D	P	L	E	-	-	-	-	-	-	-	V	T	D	F	T	I	A	T	I	C	N	D	D	V	G	M	F	M	Q	S	D	-	-	-	S	D	N	K	S	I	N	V	Y	L	S	P	-	Y	Y	H	S	L	A	G	L	G	E	Y	R	P	K	Q	L	K	F	N	F	A	L	V	L	S	-	-
K	P	W	Q	S	E	Y	G	G	V	V	F	G	G	W	A	R	A	Q	P	I	V	A	F	T	V	V	E	V	A	K	P	N	I	G	E	N	W	P	T	R	V	R	A	D	V	T	I	N	L	N	V	R	D	H	I	K	D	E	W	E	G	L	R	K	H	D	V	C	F	L	I	T	V	R	P	T	K	P	Y	G	T	K	F	D	R	R	R	P	F	I	E	Q	V	G	L	V	Y	V	R	G	C	E	I	Q	G	L	D	-	D	K	G	R	V	I	E	P	R	P	N	L	R	G	E	S	R	T	F	R	V	F	L	D	P	N	Q	Y	Q	Q	D	T	N	T	I	Q	N	G	A	E	D	V	Y	E	T	F	N	I	I	R	R	K	P

Member	Chain	UniProtKB	GO term

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

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