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  
d1p65a-  (  11 )                                               dvrhhft
d2ge8a1  (   4 )           mahrryckrtippgykvdqvfgpRtk-gkegnfGDdkMneeGi
d2i9fa1  (  50 )                                            epgdlrhdLn
d5epwa-  ( 228 )          psqlkprwkrvpt-eenviqCfgprdf---nhnmGdsdlvqngv
d6zcoa-  ( 247 )    tkksaaeaskkprqkrtAtkaynvtqAfgrRGpeqtqgnfGdqeLirqGt
                                                                      

                             60        70        80        90        100 
d1p65a-  (  18 )    p-sErqlclssi--qtafnqg-agtctlsdsg-risytvefslp------
d2ge8a1  (  46 )    kDgrvtamlnlvpsshaclfgSrvtpklqpdglhlkfefttvvprddpqf
d2i9fa1  (  60 )    q-qeratlssnv--qrff-ig-hgsltadag--gltytVswvpt------
d5epwa-  ( 270 )    dAkgfpqLaelipnqaalffdSevstdevgdnvqitytykmlvak-----
d6zcoa-  ( 297 )    dYkhwpqiaqfapsasaffgmsrigmevtpsgtwltytgaiklddkdpnf
                        aaaaa     aaaaaa    bbbb      bbbb            

                             110       120 
d1p65a-  (  57 )    thhtvrlirvt         
d2ge8a1  (  96 )    dnyvkIcdqCvdgvgtrpkd
d2i9fa1  (  98 )    kqIqrkva            
d5epwa-  ( 315 )    dnnlpkfieqisaftk    
d6zcoa-  ( 347 )    kdQvillnkHidayktfp  
                    aaaaaaaaaa

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d1p65a- # 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 d1p65a- # 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	Arterivirus nucleocapsid protein	Arterivirus nucleocapsid protein	PRRSV (Porcine reproductive and respiratory syndrome virus) [TaxId: 28344]	view
d2ge8a1 # 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 d2ge8a1 # 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	Coronavirus nucleocapsid protein	Coronavirus nucleocapsid protein	Avian infectious bronchitis virus [TaxId: 11120]	view
d2i9fa1 # 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 d2i9fa1 # 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	Arterivirus nucleocapsid protein	Arterivirus nucleocapsid protein	Equine arteritis virus [TaxId: 11047]	view
d5epwa- # 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 d5epwa- # 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	automated matches	Human coronavirus nl63 [TaxId: 277944]	view
d6zcoa- # 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 d6zcoa- # 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	Coronavirus nucleocapsid protein	Severe acute respiratory syndrome coronavirus 2 [TaxId: 2697049]	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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T	K	K	S	A	A	E	A	S	K	K	P	R	Q	K	R	T	A	T	K	A	Y	N	V	T	Q	A	F	G	R	R	G	P	E	Q	T	Q	G	N	F	G	D	Q	E	L	I	R	Q	G	T	D	Y	K	H	W	P	Q	I	A	Q	F	A	P	S	A	S	A	F	F	G	M	S	R	I	G	M	E	V	T	P	S	G	T	W	L	T	Y	T	G	A	I	K	L	D	D	K	D	P	N	F	K	D	Q	V	I	L	L	N	K	H	I	D	A	Y	K	T	F	P	-	-

Member	Chain	UniProtKB	GO term
d1p65a_	A	Q9YJI1	GO:0019013
d2ge8a1	A	P32923	GO:0003723
d2ge8a1	A	P32923	GO:0019013
d2i9fa1	A	P19810	GO:0019013

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