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  
d1j8mf1  (   3 )              lldnLrdtvrkFltgsssydkavedFIkeLqksLisadvn
d1ls1a1  (   1 )          mfqqlsarlqeAigrlrgrgriteedlkatlreirrAlmdadvn
d1okkd1  (  21 )       aipwggnleeVleeLemallaadvglsaTeeILqeVra------sgr
d1wgwa1  (   8 )            adlgrkitsAlrslsnatiineevlnaMlkevctAlleadvn
d6n9ba1  ( 196 )    farlkrsllktkenlgsgFislFrgkkidddlfeeleeqllia----dvg
                              aaaaaaaaaaaaa      aaaaaaaaaaaaa        

                             60        70        80        90      
d1j8mf1  (  43 )    vklVfslTnkIkerlknekpptyierrewFIkIVydElsnlfgg   
d1ls1a1  (  45 )    levArdFvervreeAlgkqvlesltPAevilatvyeAlkealgg   
d1okkd1  (  62 )    kdlkeAVkeklvgmlep                              
d1wgwa1  (  50 )    iklvkqlrenvksaidleemasGlnkrkmiqhAvfkelvkvkvy   
d6n9ba1  ( 242 )    vettrkiitnltegAsrkqlr----dAealygllkeemgeilakvde
                    aaaaaaaaaaaaaa               aaaaaaaaaaa

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d1j8mf1 # 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 d1j8mf1 # 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	Signal sequence recognition protein Ffh	Domain of the SRP/SRP receptor G-proteins	Acidianus ambivalens [TaxId: 2283]	view
d1ls1a1 # 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 d1ls1a1 # 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	Signal sequence recognition protein Ffh	Domain of the SRP/SRP receptor G-proteins	Thermus aquaticus [TaxId: 271]	view
d1okkd1 # 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 d1okkd1 # 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	Signal recognition particle receptor, FtsY	Domain of the SRP/SRP receptor G-proteins	Thermus aquaticus [TaxId: 271]	view
d1wgwa1 # 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 d1wgwa1 # 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	Signal recognition particle 54 kDa protein, SRP54	Domain of the SRP/SRP receptor G-proteins	Mouse (Mus musculus) [TaxId: 10090]	view
d6n9ba1 # 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 d6n9ba1 # 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	Escherichia coli [TaxId: 83333]	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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F	A	R	L	K	R	S	L	L	K	T	K	E	N	L	G	S	G	F	I	S	L	F	R	G	K	K	I	D	D	D	L	F	E	E	L	E	E	Q	L	L	I	A	-	-	-	-	D	V	G	V	E	T	T	R	K	I	I	T	N	L	T	E	G	A	S	R	K	Q	L	R	-	-	-	-	D	A	E	A	L	Y	G	L	L	K	E	E	M	G	E	I	L	A	K	V	D	E

Member	Chain	UniProtKB	GO term
d1j8mf1	F	P70722	GO:0003924
d1j8mf1	F	P70722	GO:0005525
d1j8mf1	F	P70722	GO:0006614
d1j8mf1	F	P70722	GO:0016887
d1j8mf1	F	P70722	GO:0048500
d1ls1a1	A	O07347	GO:0003924
d1ls1a1	A	O07347	GO:0005525
d1ls1a1	A	O07347	GO:0006614
d1ls1a1	A	O07347	GO:0016887
d1ls1a1	A	O07347	GO:0048500
d1okkd1	D	O07347	GO:0003924
d1okkd1	D	O07347	GO:0005525
d1okkd1	D	O07347	GO:0006614
d1okkd1	D	O07347	GO:0016887
d1okkd1	D	O07347	GO:0005047
d1okkd1	D	O07347	GO:0005515
d1okkd1	D	O07347	GO:0005737
d1okkd1	D	O07347	GO:0005886
d1okkd1	D	O07347	GO:0006605
d1okkd1	D	O07347	GO:0006612
d1okkd1	D	O07347	GO:0016020
d1okkd1	D	O07347	GO:0016787
d1okkd1	D	P83749	GO:0003924
d1okkd1	D	P83749	GO:0005525
d1okkd1	D	P83749	GO:0006614
d1okkd1	D	P83749	GO:0016887
d1okkd1	D	P83749	GO:0005047
d1okkd1	D	P83749	GO:0005515
d1okkd1	D	P83749	GO:0005737
d1okkd1	D	P83749	GO:0005886
d1okkd1	D	P83749	GO:0006605
d1okkd1	D	P83749	GO:0006612
d1okkd1	D	P83749	GO:0016020
d1okkd1	D	P83749	GO:0016787

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

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

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