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      
d1j8ea-  (   1 )    gshsçs-stqfkÇn--sgrçIpehwtçdgdndÇgdySDethançtnq
d1v9u5-  ( 113 )        çrihei-sÇgahstqÇipvswrçdgendÇdsgedee--nçgn 
d1xfea2  (   2 )    nvtlçegpnkfkÇh--sgeçitldkvçnmarDÇrdwsDepikeçg  
d2fcwb1  (  86 )      ktçs-qaefrÇh--dgkÇisrqfvçdsdrdÇldgsDea--sçp-v
d2gtlm2  (  60 )      hhçd--heseÇrgdvpeçihdllfçdgekdÇrdGsDedpeTçs  
                             bbb       bbb333

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d1j8ea- # 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 d1j8ea- # 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	Ligand-binding domain of low-density lipoprotein receptor	LDL receptor-like module	Human (Homo sapiens) [TaxId: 9606]	view
d1v9u5- # 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 d1v9u5- # 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	Very low-density lipoprotein receptor	LDL receptor-like module	Human (Homo sapiens) [TaxId: 9606]	view
d1xfea2 # 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 d1xfea2 # 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	Ligand-binding domain of low-density lipoprotein receptor	LDL receptor-like module	Human (Homo sapiens) [TaxId: 9606]	view
d2fcwb1 # 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 d2fcwb1 # 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	Ligand-binding domain of low-density lipoprotein receptor	LDL receptor-like module	Human (Homo sapiens) [TaxId: 9606]	view
d2gtlm2 # 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 d2gtlm2 # 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	Hemoglobin linker chain l1	LDL receptor-like module	Common earthworm (Lumbricus terrestris) [TaxId: 6398]	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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G	S	H	S	C	S	-	S	T	Q	F	K	C	N	-	-	S	G	R	C	I	P	E	H	W	T	C	D	G	D	N	D	C	G	D	Y	S	D	E	T	H	A	N	C	T	N	Q
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N	V	T	L	C	E	G	P	N	K	F	K	C	H	-	-	S	G	E	C	I	T	L	D	K	V	C	N	M	A	R	D	C	R	D	W	S	D	E	P	I	K	E	C	G	-	-
-	-	K	T	C	S	-	Q	A	E	F	R	C	H	-	-	D	G	K	C	I	S	R	Q	F	V	C	D	S	D	R	D	C	L	D	G	S	D	E	A	-	-	S	C	P	-	V
-	-	H	H	C	D	-	-	H	E	S	E	C	R	G	D	V	P	E	C	I	H	D	L	L	F	C	D	G	E	K	D	C	R	D	G	S	D	E	D	P	E	T	C	S	-	-

Member	Chain	UniProtKB	GO term
d1xfea2	A	P01130	GO:0005509
d2gtlm2	M	P13579	GO:0046872
d2gtlm2	M	P02218	GO:0046872
d2gtlm2	M	P11069	GO:0046872
d2gtlm2	M	O61233	GO:0046872
d2gtlm2	M	Q9GV76	GO:0046872
d2gtlm2	M	Q2I743	GO:0046872
d2gtlm2	M	Q2I742	GO:0046872
d2gtlm2	M	P13579	GO:0046872
d2gtlm2	M	P02218	GO:0046872
d2gtlm2	M	P11069	GO:0046872
d2gtlm2	M	O61233	GO:0046872
d2gtlm2	M	Q9GV76	GO:0046872
d2gtlm2	M	Q2I743	GO:0046872
d2gtlm2	M	Q2I742	GO:0046872
d2gtlm2	M	P13579	GO:0046872
d2gtlm2	M	P02218	GO:0046872
d2gtlm2	M	P11069	GO:0046872
d2gtlm2	M	O61233	GO:0046872
d2gtlm2	M	Q9GV76	GO:0046872
d2gtlm2	M	Q2I743	GO:0046872
d2gtlm2	M	Q2I742	GO:0046872
d2gtlm2	M	P13579	GO:0046872
d2gtlm2	M	P02218	GO:0046872
d2gtlm2	M	P11069	GO:0046872
d2gtlm2	M	O61233	GO:0046872
d2gtlm2	M	Q9GV76	GO:0046872
d2gtlm2	M	Q2I743	GO:0046872
d2gtlm2	M	Q2I742	GO:0046872

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

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

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