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  
d1xq4a-  (   7 )    pvkpydLtVsVtpryvpeqSdpsqqqyvFaytVrItNtGs----hpAqVi
d1xvsa-  (   2 )    dvslpcIkiqvqtrYIeeqSnpeyqrfvFaylItIkNlss----qtvql-
d5hdwa1  ( 278 )    vattgdItVsVstsflpelSsvhpphyfFtYrIrIeMskdAlpekaCqLd
                          bbbbbbbbb 333       bbbbbbbbbbb         bb  

                             60        70        80        90        100 
d1xq4a-  (  53 )    srhwiitDgeervqevrglGVvgqqplLapgetfeytsgcpLptpigt-r
d1xvsa-  (  48 )    srrwlitDadgkqtvvegdGVvgeqprIkandeytyssgtaLdtpvGv-q
d5hdwa1  ( 328 )    sryWritnakgdveevqgpGVvgefpiIspgrvyeytscttFsttsGyMe
                     bbbbbb     bbbbbb        bb    bbbbbbbbbb     b b

                             110       120       
d1xq4a-  ( 103 )    gtYhCvGen--gipfevpIaeflLa-prt
d1xvsa-  (  98 )    gqYl-ideq--gesftveIepfrLavphv
d5hdwa1  ( 378 )    gyYtFhflyfkdkifnVaIprfhMaCpt 
                    bbb             bbb

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d1xq4a- # 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 d1xq4a- # 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	ApaG	ApaG-like	Bordetella pertussis [TaxId: 520]	view
d1xvsa- # 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 d1xvsa- # 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	ApaG	ApaG-like	Vibrio cholerae [TaxId: 666]	view
d5hdwa1 # 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 d5hdwa1 # 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 (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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P	V	K	P	Y	D	L	T	V	S	V	T	P	R	Y	V	P	E	Q	S	D	P	S	Q	Q	Q	Y	V	F	A	Y	T	V	R	I	T	N	T	G	S	-	-	-	-	H	P	A	Q	V	I	S	R	H	W	I	I	T	D	G	E	E	R	V	Q	E	V	R	G	L	G	V	V	G	Q	Q	P	L	L	A	P	G	E	T	F	E	Y	T	S	G	C	P	L	P	T	P	I	G	T	-	R	G	T	Y	H	C	V	G	E	N	-	-	G	I	P	F	E	V	P	I	A	E	F	L	L	A	-	P	R	T
D	V	S	L	P	C	I	K	I	Q	V	Q	T	R	Y	I	E	E	Q	S	N	P	E	Y	Q	R	F	V	F	A	Y	L	I	T	I	K	N	L	S	S	-	-	-	-	Q	T	V	Q	L	-	S	R	R	W	L	I	T	D	A	D	G	K	Q	T	V	V	E	G	D	G	V	V	G	E	Q	P	R	I	K	A	N	D	E	Y	T	Y	S	S	G	T	A	L	D	T	P	V	G	V	-	Q	G	Q	Y	L	-	I	D	E	Q	-	-	G	E	S	F	T	V	E	I	E	P	F	R	L	A	V	P	H	V
V	A	T	T	G	D	I	T	V	S	V	S	T	S	F	L	P	E	L	S	S	V	H	P	P	H	Y	F	F	T	Y	R	I	R	I	E	M	S	K	D	A	L	P	E	K	A	C	Q	L	D	S	R	Y	W	R	I	T	N	A	K	G	D	V	E	E	V	Q	G	P	G	V	V	G	E	F	P	I	I	S	P	G	R	V	Y	E	Y	T	S	C	T	T	F	S	T	T	S	G	Y	M	E	G	Y	Y	T	F	H	F	L	Y	F	K	D	K	I	F	N	V	A	I	P	R	F	H	M	A	C	P	T	-

Member	Chain	UniProtKB	GO term
d1xvsa_	A	Q9KUS3	GO:0008150
d1xvsa_	A	Q9KUS3	GO:0070987

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

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

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