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  
d5gmza-  (   1 )    mdidpYkefgAtvelLsfLpsdfFpsvrdLldtAaalyrdalespehcsp
d6ygia-  (   1 )    mdinaSra-lAn---vydlpddfFpkiddlvrdAkdalepywksdsi-kk
                                              aaaaaaaaaaaaaaaaa      a

                             60        70        80        90        100 
d5gmza-  (  51 )    hhtaLrqAilcwgdlmtlatwvgtnle------------dpasrdlvvsy
d6ygia-  (  46 )    hvliAthFvdliedfwqttqgmheiAeslravggsggaeihahlkayAki
                    aaaaaaaaaaaaaaaaaaaaaaaa                aaaaaaaaaa

                             110       120       130       140       150 
d5gmza-  (  89 )    vntnvGlkFrqlLwFHiSCltfgretVleyLvsfGvwirtppaarppnap
d6ygia-  ( 136 )    ne-esldrArrllWwhynCllwgeaqvtnYiSrlrtwlstpekyrgrdap
                    aa  aaaaaaaaaaaaaaaaa  aaaaaaaaaaaaaaa            

                         
d5gmza-  ( 139 )    ilstl
d6ygia-  ( 185 )    tiea

Domains
Outliers

Domain ID	Name	Family	Source	Domain	STRING-DB
d5gmza- # 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 d5gmza- # 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	Hepatitis B viral capsid (hbcag)	Hepatitis B virus [TaxId: 10407]		view
d6ygia- # 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 d6ygia- # 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	Hepatitis b virus duck/dhbv-16 [TaxId: 489543]		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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M	D	I	D	P	Y	K	E	F	G	A	T	V	E	L	L	S	F	L	P	S	D	F	F	P	S	V	R	D	L	L	D	T	A	A	A	L	Y	R	D	A	L	E	S	P	E	H	C	S	P	H	H	T	A	L	R	Q	A	I	L	C	W	G	D	L	M	T	L	A	T	W	V	G	T	N	L	E	-	-	-	-	-	-	-	-	-	-	-	-	D	P	A	S	R	D	L	V	V	S	Y	V	N	T	N	V	G	L	K	F	R	Q	L	L	W	F	H	I	S	C	L	T	F	G	R	E	T	V	L	E	Y	L	V	S	F	G	V	W	I	R	T	P	P	A	A	R	P	P	N	A	P	I	L	S	T	L
M	D	I	N	A	S	R	A	-	L	A	N	-	-	-	V	Y	D	L	P	D	D	F	F	P	K	I	D	D	L	V	R	D	A	K	D	A	L	E	P	Y	W	K	S	D	S	I	-	K	K	H	V	L	I	A	T	H	F	V	D	L	I	E	D	F	W	Q	T	T	Q	G	M	H	E	I	A	E	S	L	R	A	V	G	G	S	G	G	A	E	I	H	A	H	L	K	A	Y	A	K	I	N	E	-	E	S	L	D	R	A	R	R	L	L	W	W	H	Y	N	C	L	L	W	G	E	A	Q	V	T	N	Y	I	S	R	L	R	T	W	L	S	T	P	E	K	Y	R	G	R	D	A	P	T	I	E	A	-

Member	Chain	UniProtKB	GO term

									10										20										30										40										50										60										70										80										90										100										110										120										130										140										150
M	D	I	D	P	Y	K	E	F	G	A	T	V	E	L	L	S	F	L	P	S	D	F	F	P	S	V	R	D	L	L	D	T	A	A	A	L	Y	R	D	A	L	E	S	P	E	H	C	S	P	H	H	T	A	L	R	Q	A	I	L	C	W	G	D	L	M	T	L	A	T	W	V	G	T	N	L	E	-	-	-	-	-	-	-	-	-	-	-	-	D	P	A	S	R	D	L	V	V	S	Y	V	N	T	N	V	G	L	K	F	R	Q	L	L	W	F	H	I	S	C	L	T	F	G	R	E	T	V	L	E	Y	L	V	S	F	G	V	W	I	R	T	P	P	A	A	R	P	P	N	A	P	I	L	S	T	L
M	D	I	N	A	S	R	A	-	L	A	N	-	-	-	V	Y	D	L	P	D	D	F	F	P	K	I	D	D	L	V	R	D	A	K	D	A	L	E	P	Y	W	K	S	D	S	I	-	K	K	H	V	L	I	A	T	H	F	V	D	L	I	E	D	F	W	Q	T	T	Q	G	M	H	E	I	A	E	S	L	R	A	V	G	G	S	G	G	A	E	I	H	A	H	L	K	A	Y	A	K	I	N	E	-	E	S	L	D	R	A	R	R	L	L	W	W	H	Y	N	C	L	L	W	G	E	A	Q	V	T	N	Y	I	S	R	L	R	T	W	L	S	T	P	E	K	Y	R	G	R	D	A	P	T	I	E	A	-

									10										20										30										40										50										60										70										80										90										100										110										120										130										140										150
M	D	I	D	P	Y	K	E	F	G	A	T	V	E	L	L	S	F	L	P	S	D	F	F	P	S	V	R	D	L	L	D	T	A	A	A	L	Y	R	D	A	L	E	S	P	E	H	C	S	P	H	H	T	A	L	R	Q	A	I	L	C	W	G	D	L	M	T	L	A	T	W	V	G	T	N	L	E	-	-	-	-	-	-	-	-	-	-	-	-	D	P	A	S	R	D	L	V	V	S	Y	V	N	T	N	V	G	L	K	F	R	Q	L	L	W	F	H	I	S	C	L	T	F	G	R	E	T	V	L	E	Y	L	V	S	F	G	V	W	I	R	T	P	P	A	A	R	P	P	N	A	P	I	L	S	T	L
M	D	I	N	A	S	R	A	-	L	A	N	-	-	-	V	Y	D	L	P	D	D	F	F	P	K	I	D	D	L	V	R	D	A	K	D	A	L	E	P	Y	W	K	S	D	S	I	-	K	K	H	V	L	I	A	T	H	F	V	D	L	I	E	D	F	W	Q	T	T	Q	G	M	H	E	I	A	E	S	L	R	A	V	G	G	S	G	G	A	E	I	H	A	H	L	K	A	Y	A	K	I	N	E	-	E	S	L	D	R	A	R	R	L	L	W	W	H	Y	N	C	L	L	W	G	E	A	Q	V	T	N	Y	I	S	R	L	R	T	W	L	S	T	P	E	K	Y	R	G	R	D	A	P	T	I	E	A	-

									10										20										30										40										50										60										70										80										90										100										110										120										130										140										150
M	D	I	D	P	Y	K	E	F	G	A	T	V	E	L	L	S	F	L	P	S	D	F	F	P	S	V	R	D	L	L	D	T	A	A	A	L	Y	R	D	A	L	E	S	P	E	H	C	S	P	H	H	T	A	L	R	Q	A	I	L	C	W	G	D	L	M	T	L	A	T	W	V	G	T	N	L	E	-	-	-	-	-	-	-	-	-	-	-	-	D	P	A	S	R	D	L	V	V	S	Y	V	N	T	N	V	G	L	K	F	R	Q	L	L	W	F	H	I	S	C	L	T	F	G	R	E	T	V	L	E	Y	L	V	S	F	G	V	W	I	R	T	P	P	A	A	R	P	P	N	A	P	I	L	S	T	L
M	D	I	N	A	S	R	A	-	L	A	N	-	-	-	V	Y	D	L	P	D	D	F	F	P	K	I	D	D	L	V	R	D	A	K	D	A	L	E	P	Y	W	K	S	D	S	I	-	K	K	H	V	L	I	A	T	H	F	V	D	L	I	E	D	F	W	Q	T	T	Q	G	M	H	E	I	A	E	S	L	R	A	V	G	G	S	G	G	A	E	I	H	A	H	L	K	A	Y	A	K	I	N	E	-	E	S	L	D	R	A	R	R	L	L	W	W	H	Y	N	C	L	L	W	G	E	A	Q	V	T	N	Y	I	S	R	L	R	T	W	L	S	T	P	E	K	Y	R	G	R	D	A	P	T	I	E	A	-