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  
d1e6ta-  (   1 )    asnftqfvlvdngg-tgdvtVapsnf--angvaewiSs-nsrsqAykvtc
d1qbea-  (   1 )    a-kletvtlgnigkdgqtlvLnprgvnptngvaslSqagavpalEkrvtv
d2quda1  (   0 )    m--sktivlsv---geatrtLteiqsta--drqifEekvgplvGrlrlta
                          bbb         bbbbbbb       bbbb          bbbb

                             60        70        80        90        100 
d1e6ta-  (  47 )    svrqssa-qnrkytikvevPkvatqtvggvelpvaawrsylnmeltIpif
d1qbea-  (  51 )    svsq----pnykvqvkiqnPtact------cdpsvtrqayadvtfsftqy
d2quda1  (  43 )    slrqngaktayrvnlkldqadvvds-----glpkvrytqvwshdvtivan
                    bbb       bbbbbbbbbbbb            bbbbbbbbbbbbb   

                             110       120       130   
d1e6ta-  (  96 )    atnsdcelivkamqgllkdgnpipsaiaansgiy 
d1qbea-  ( 100 )    stdeerafvrtelaallasp-llidaidqlnpay 
d2quda1  (  94 )    steasrkslydltkslvats-qvedlvvnlvplgr
                      aaaaaaaaaaaaaaa    aaaaaa

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d1e6ta- # 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 d1e6ta- # 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	MS2 virus coat protein	RNA bacteriophage capsid protein	Bacteriophage MS2 [TaxId: 12022]	view
d1qbea- # 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 d1qbea- # 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	Qbeta coat protein	RNA bacteriophage capsid protein	Bacteriophage Qbeta [TaxId: 39803]	view
d2quda1 # 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 d2quda1 # 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	RNA bacteriophage capsid protein	Pseudomonas phage [TaxId: 12023]	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										120										130
A	S	N	F	T	Q	F	V	L	V	D	N	G	G	-	T	G	D	V	T	V	A	P	S	N	F	-	-	A	N	G	V	A	E	W	I	S	S	-	N	S	R	S	Q	A	Y	K	V	T	C	S	V	R	Q	S	S	A	-	Q	N	R	K	Y	T	I	K	V	E	V	P	K	V	A	T	Q	T	V	G	G	V	E	L	P	V	A	A	W	R	S	Y	L	N	M	E	L	T	I	P	I	F	A	T	N	S	D	C	E	L	I	V	K	A	M	Q	G	L	L	K	D	G	N	P	I	P	S	A	I	A	A	N	S	G	I	Y	-
A	-	K	L	E	T	V	T	L	G	N	I	G	K	D	G	Q	T	L	V	L	N	P	R	G	V	N	P	T	N	G	V	A	S	L	S	Q	A	G	A	V	P	A	L	E	K	R	V	T	V	S	V	S	Q	-	-	-	-	P	N	Y	K	V	Q	V	K	I	Q	N	P	T	A	C	T	-	-	-	-	-	-	C	D	P	S	V	T	R	Q	A	Y	A	D	V	T	F	S	F	T	Q	Y	S	T	D	E	E	R	A	F	V	R	T	E	L	A	A	L	L	A	S	P	-	L	L	I	D	A	I	D	Q	L	N	P	A	Y	-
M	-	-	S	K	T	I	V	L	S	V	-	-	-	G	E	A	T	R	T	L	T	E	I	Q	S	T	A	-	-	D	R	Q	I	F	E	E	K	V	G	P	L	V	G	R	L	R	L	T	A	S	L	R	Q	N	G	A	K	T	A	Y	R	V	N	L	K	L	D	Q	A	D	V	V	D	S	-	-	-	-	-	G	L	P	K	V	R	Y	T	Q	V	W	S	H	D	V	T	I	V	A	N	S	T	E	A	S	R	K	S	L	Y	D	L	T	K	S	L	V	A	T	S	-	Q	V	E	D	L	V	V	N	L	V	P	L	G	R

Member	Chain	UniProtKB	GO term
d1qbea_	A	P03615	GO:0003723
d1qbea_	A	P03615	GO:0005198
d1qbea_	A	P03615	GO:0006417
d1qbea_	A	P03615	GO:0017148
d1qbea_	A	P03615	GO:0019028
d1qbea_	A	P03615	GO:0030371
d1qbea_	A	P03615	GO:0039617

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

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

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