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  
d3s8gb1  (   3 )                      dekahailayekgwlafslamlfv-fialiay
d6pw1b1  (  30 )    leiigrpqpggtgfq----psaspvatqihwldgfilviiaaitifvtll
d6wtib1  (  24 )                gcnsalldpkgqigleqrsliltafglmlivvipailm
d7cohb1  (   2 )          aypmqlgfq----dAtspimeellhfhdhtlmivflisslvlyi
                                           aaaaaaaaaaaaaaaaaaaaaaaaaaa

                             60        70        80        90        100 
d3s8gb1  (  36 )    tlath                                             
d6pw1b1  (  76 )    ilyavwrfhekrnk-vpar-fthnspleiawtivpivilvaigafslpvl
d6wtib1  (  62 )    avgfawkyrasnkdakyspnwshsnkveavvwtvpiliiiflavltwktt
d7cohb1  (  42 )    islmltt------k-lthtstmdaqevetiwtilpaiililialpslrIl
                    aaaa                    aaaaaaaaaaaaaaaaaaaaaaaaaa

                          
d3s8gb1                   
d6pw1b1  ( 124 )    fnqqei
d6wtib1  ( 112 )    haleps
d7cohb1  (  85 )    ymmdei
                    aa

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d3s8gb1 # 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 d3s8gb1 # 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	Bacterial ba3 type cytochrome c oxidase subunit II	Cytochrome c oxidase subunit II-like, transmembrane region	Thermus thermophilus [TaxId: 274]	view
d6pw1b1 # 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 d6pw1b1 # 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	Cytochrome c oxidase subunit II-like, transmembrane region	Rhodobacter sphaeroides [TaxId: 272943]	view
d6wtib1 # 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 d6wtib1 # 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	Cytochrome O ubiquinol oxidase, subunit II	Cytochrome c oxidase subunit II-like, transmembrane region	Escherichia coli [TaxId: 562]	view
d7cohb1 # 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 d7cohb1 # 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	Mitochondrial cytochrome c oxidase, subunit II	Cytochrome c oxidase subunit II-like, transmembrane region	Cow (Bos taurus) [TaxId: 9913]	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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L	E	I	I	G	R	P	Q	P	G	G	T	G	F	Q	-	-	-	-	P	S	A	S	P	V	A	T	Q	I	H	W	L	D	G	F	I	L	V	I	I	A	A	I	T	I	F	V	T	L	L	I	L	Y	A	V	W	R	F	H	E	K	R	N	K	-	V	P	A	R	-	F	T	H	N	S	P	L	E	I	A	W	T	I	V	P	I	V	I	L	V	A	I	G	A	F	S	L	P	V	L	F	N	Q	Q	E	I
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Member	Chain	UniProtKB	GO term

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