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  
d1e0ga-  (   1 )    dsityrvrkgdslssiAkrhgvnikdvmrwnsdta--nlqpgdkltlfvk
d4a1ia1  (   1 )    ml-tyqVkqgDtlnsIaadfristaaLlqanp-sLqagltagqsIvIpg-
d4uz3a2  (  63 )    rerthvVapgdtLfsLarrygTtveALmrlng-lsspeIkvgqvLrLPee
d5buma-  (   2 )     çsyytVksgdiÇynIAqtygidvatLqsynpgLqçdnLqigqqLçVad 
d5k2la-  (   1 )    mgçtytIqpgdtFwaIAqrrgttvdvIqslNpgvnparLqvgqvInVpç 
                       bbb      aaaaaaa    aaaaaaa             bbb    

                       
d1e0ga-                
d4a1ia1  (  48 )    --l
d4uz3a2  ( 112 )    gea
d5buma-                
d5k2la-

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d1e0ga- # 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 d1e0ga- # 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	Membrane-bound lytic murein transclycosylase D, MltD	LysM domain	Escherichia coli [TaxId: 562]	view
d4a1ia1 # 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 d4a1ia1 # 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	Bacillus subtilis [TaxId: 1423]	view
d4uz3a2 # 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 d4uz3a2 # 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	Thermus thermophilus [TaxId: 300852]	view
d5buma- # 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 d5buma- # 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	Equisetum arvense [TaxId: 3258]	view
d5k2la- # 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 d5k2la- # 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	Volvox carteri [TaxId: 3068]	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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D	S	I	T	Y	R	V	R	K	G	D	S	L	S	S	I	A	K	R	H	G	V	N	I	K	D	V	M	R	W	N	S	D	T	A	-	-	N	L	Q	P	G	D	K	L	T	L	F	V	K	-	-	-
M	L	-	T	Y	Q	V	K	Q	G	D	T	L	N	S	I	A	A	D	F	R	I	S	T	A	A	L	L	Q	A	N	P	-	S	L	Q	A	G	L	T	A	G	Q	S	I	V	I	P	G	-	-	-	L
R	E	R	T	H	V	V	A	P	G	D	T	L	F	S	L	A	R	R	Y	G	T	T	V	E	A	L	M	R	L	N	G	-	L	S	S	P	E	I	K	V	G	Q	V	L	R	L	P	E	E	G	E	A
-	C	S	Y	Y	T	V	K	S	G	D	I	C	Y	N	I	A	Q	T	Y	G	I	D	V	A	T	L	Q	S	Y	N	P	G	L	Q	C	D	N	L	Q	I	G	Q	Q	L	C	V	A	D	-	-	-	-
M	G	C	T	Y	T	I	Q	P	G	D	T	F	W	A	I	A	Q	R	R	G	T	T	V	D	V	I	Q	S	L	N	P	G	V	N	P	A	R	L	Q	V	G	Q	V	I	N	V	P	C	-	-	-	-

Member	Chain	UniProtKB	GO term

									10										20										30										40										50
D	S	I	T	Y	R	V	R	K	G	D	S	L	S	S	I	A	K	R	H	G	V	N	I	K	D	V	M	R	W	N	S	D	T	A	-	-	N	L	Q	P	G	D	K	L	T	L	F	V	K	-	-	-
M	L	-	T	Y	Q	V	K	Q	G	D	T	L	N	S	I	A	A	D	F	R	I	S	T	A	A	L	L	Q	A	N	P	-	S	L	Q	A	G	L	T	A	G	Q	S	I	V	I	P	G	-	-	-	L
R	E	R	T	H	V	V	A	P	G	D	T	L	F	S	L	A	R	R	Y	G	T	T	V	E	A	L	M	R	L	N	G	-	L	S	S	P	E	I	K	V	G	Q	V	L	R	L	P	E	E	G	E	A
-	C	S	Y	Y	T	V	K	S	G	D	I	C	Y	N	I	A	Q	T	Y	G	I	D	V	A	T	L	Q	S	Y	N	P	G	L	Q	C	D	N	L	Q	I	G	Q	Q	L	C	V	A	D	-	-	-	-
M	G	C	T	Y	T	I	Q	P	G	D	T	F	W	A	I	A	Q	R	R	G	T	T	V	D	V	I	Q	S	L	N	P	G	V	N	P	A	R	L	Q	V	G	Q	V	I	N	V	P	C	-	-	-	-

									10										20										30										40										50
D	S	I	T	Y	R	V	R	K	G	D	S	L	S	S	I	A	K	R	H	G	V	N	I	K	D	V	M	R	W	N	S	D	T	A	-	-	N	L	Q	P	G	D	K	L	T	L	F	V	K	-	-	-
M	L	-	T	Y	Q	V	K	Q	G	D	T	L	N	S	I	A	A	D	F	R	I	S	T	A	A	L	L	Q	A	N	P	-	S	L	Q	A	G	L	T	A	G	Q	S	I	V	I	P	G	-	-	-	L
R	E	R	T	H	V	V	A	P	G	D	T	L	F	S	L	A	R	R	Y	G	T	T	V	E	A	L	M	R	L	N	G	-	L	S	S	P	E	I	K	V	G	Q	V	L	R	L	P	E	E	G	E	A
-	C	S	Y	Y	T	V	K	S	G	D	I	C	Y	N	I	A	Q	T	Y	G	I	D	V	A	T	L	Q	S	Y	N	P	G	L	Q	C	D	N	L	Q	I	G	Q	Q	L	C	V	A	D	-	-	-	-
M	G	C	T	Y	T	I	Q	P	G	D	T	F	W	A	I	A	Q	R	R	G	T	T	V	D	V	I	Q	S	L	N	P	G	V	N	P	A	R	L	Q	V	G	Q	V	I	N	V	P	C	-	-	-	-

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