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  
d1l6pa-  (   4 )    dapgsqfvpadqAFaFdfqqnqhdLnLtWqIkdgYYLYrkqIrItpehAk
d6dnva1  (   2 )        ndllppekAFvPeLaVaddGVnVrFrIadgyYMYqakIvGkTdpad
                             aaaabbbbbbbb  bbbbbbbb   bbbb333 bbbbb   

                             60        70        80        90        100 
d1l6pa-  (  55 )    -iadvqlpqgvwhedefyg-sEIYrdrLtLpVtIn-qAsagAtLtVTYqG
d6dnva1  (  48 )    LLgqpsfskGeekedeffgrqtVYhheAqVaFpyakaVgepYkLvLtYqG
                              bbbbb   b bbbb  bbbbbbb        bbbbbbb b

                             110       120    
d1l6pa-  ( 103 )    ÇAdagfÇYppetktVpLseVva    
d6dnva1  (  98 )    CAevgvcyppvdteFdIsgngtyhpq
                    bb   bb   bbbbbb

Domains
Outliers

Domain ID	Name	Family	Source	Domain	STRING-DB
d1l6pa- # 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 d1l6pa- # 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	Thiol:disulfide interchange protein DsbD, N-terminal domain (DsbD-alpha)	Thiol:disulfide interchange protein DsbD, N-terminal domain (DsbD-alpha)	Escherichia coli [TaxId: 562]		view
d6dnva1 # 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 d6dnva1 # 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	Neisseria meningitidis [TaxId: 662598]		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
D	A	P	G	S	Q	F	V	P	A	D	Q	A	F	A	F	D	F	Q	Q	N	Q	H	D	L	N	L	T	W	Q	I	K	D	G	Y	Y	L	Y	R	K	Q	I	R	I	T	P	E	H	A	K	-	I	A	D	V	Q	L	P	Q	G	V	W	H	E	D	E	F	Y	G	-	S	E	I	Y	R	D	R	L	T	L	P	V	T	I	N	-	Q	A	S	A	G	A	T	L	T	V	T	Y	Q	G	C	A	D	A	G	F	C	Y	P	P	E	T	K	T	V	P	L	S	E	V	V	A	-	-	-	-
-	-	-	-	N	D	L	L	P	P	E	K	A	F	V	P	E	L	A	V	A	D	D	G	V	N	V	R	F	R	I	A	D	G	Y	Y	M	Y	Q	A	K	I	V	G	K	T	D	P	A	D	L	L	G	Q	P	S	F	S	K	G	E	E	K	E	D	E	F	F	G	R	Q	T	V	Y	H	H	E	A	Q	V	A	F	P	Y	A	K	A	V	G	E	P	Y	K	L	V	L	T	Y	Q	G	C	A	E	V	G	V	C	Y	P	P	V	D	T	E	F	D	I	S	G	N	G	T	Y	H	P	Q

Member	Chain	UniProtKB	GO term

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

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

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