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  
d2bkya-  (   9 )    s-nvvlIg-k-kpvmnyVlaAltlLnqgvseIvIkArgraiskAvdTVei
d2bkyx-  (   4 )    klneivVr-ktknvedHVldVivlFnqgideViLkGtgreiskAvdVyns
d2q3va-  (  19 )    kknrIqVsntkkplffYVnlAkryq--qyndveLsalg-aiatVvtVtei
d7dl8c-  (  10 )     pnsvrvg-yg-tkflfVdiTkhlLhdg-eevyvsalggaineavsVVem
                       bbb       aaaaaaaaaaaaa    bbbbbbb   aaaaaaaaaa

                             60        70        80        90        100 
d2bkya-  (  56 )    VrnrflpdkIeikeirvgsqvvtsqdgrqsrvstieIAIrkk        
d2bkyx-  (  53 )    Lkdr-lgdgVqlvnvqtgsevrd-----rrrisyilLrLkrvy       
d2q3va-  (  68 )    Lknn---gfavekki-tsivdik-----pvqkakieItLvksekfdelaa
d7dl8c-  (  59 )    Lkdq---qMVvvittsrg------------pvdkieIvVtkadgFdakyq
                    aaa      bbbbbbb bbbbb       bbbbbbbbbbbb         

                      
d2bkya-               
d2bkyx-               
d2q3va-  ( 117 )    a 
d7dl8c-  ( 108 )    aa

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d2bkya- # 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 d2bkya- # 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	DNA-binding protein AlbA	Sulfolobus solfataricus [TaxId: 273057]	view
d2bkyx- # 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 d2bkyx- # 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	DNA-binding protein AlbA	DNA-binding protein AlbA	Sulfolobus solfataricus, Sso10b2 [TaxId: 2287]	view
d2q3va- # 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 d2q3va- # 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	Hypothetical protein At2g34160	Thale cress (Arabidopsis thaliana) [TaxId: 3702]	view
d7dl8c- # 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 d7dl8c- # 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	Trypanosome (Trypanosoma brucei) [TaxId: 5691]	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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S	-	N	V	V	L	I	G	-	K	-	K	P	V	M	N	Y	V	L	A	A	L	T	L	L	N	Q	G	V	S	E	I	V	I	K	A	R	G	R	A	I	S	K	A	V	D	T	V	E	I	V	R	N	R	F	L	P	D	K	I	E	I	K	E	I	R	V	G	S	Q	V	V	T	S	Q	D	G	R	Q	S	R	V	S	T	I	E	I	A	I	R	K	K	-	-	-	-	-	-	-	-	-	-
K	L	N	E	I	V	V	R	-	K	T	K	N	V	E	D	H	V	L	D	V	I	V	L	F	N	Q	G	I	D	E	V	I	L	K	G	T	G	R	E	I	S	K	A	V	D	V	Y	N	S	L	K	D	R	-	L	G	D	G	V	Q	L	V	N	V	Q	T	G	S	E	V	R	D	-	-	-	-	-	R	R	R	I	S	Y	I	L	L	R	L	K	R	V	Y	-	-	-	-	-	-	-	-	-
K	K	N	R	I	Q	V	S	N	T	K	K	P	L	F	F	Y	V	N	L	A	K	R	Y	Q	-	-	Q	Y	N	D	V	E	L	S	A	L	G	-	A	I	A	T	V	V	T	V	T	E	I	L	K	N	N	-	-	-	G	F	A	V	E	K	K	I	-	T	S	I	V	D	I	K	-	-	-	-	-	P	V	Q	K	A	K	I	E	I	T	L	V	K	S	E	K	F	D	E	L	A	A	A	-
-	P	N	S	V	R	V	G	-	Y	G	-	T	K	F	L	F	V	D	I	T	K	H	L	L	H	D	G	-	E	E	V	Y	V	S	A	L	G	G	A	I	N	E	A	V	S	V	V	E	M	L	K	D	Q	-	-	-	Q	M	V	V	V	I	T	T	S	R	G	-	-	-	-	-	-	-	-	-	-	-	-	P	V	D	K	I	E	I	V	V	T	K	A	D	G	F	D	A	K	Y	Q	A	A

Member	Chain	UniProtKB	GO term

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

									10										20										30										40										50										60										70										80										90										100
S	-	N	V	V	L	I	G	-	K	-	K	P	V	M	N	Y	V	L	A	A	L	T	L	L	N	Q	G	V	S	E	I	V	I	K	A	R	G	R	A	I	S	K	A	V	D	T	V	E	I	V	R	N	R	F	L	P	D	K	I	E	I	K	E	I	R	V	G	S	Q	V	V	T	S	Q	D	G	R	Q	S	R	V	S	T	I	E	I	A	I	R	K	K	-	-	-	-	-	-	-	-	-	-
K	L	N	E	I	V	V	R	-	K	T	K	N	V	E	D	H	V	L	D	V	I	V	L	F	N	Q	G	I	D	E	V	I	L	K	G	T	G	R	E	I	S	K	A	V	D	V	Y	N	S	L	K	D	R	-	L	G	D	G	V	Q	L	V	N	V	Q	T	G	S	E	V	R	D	-	-	-	-	-	R	R	R	I	S	Y	I	L	L	R	L	K	R	V	Y	-	-	-	-	-	-	-	-	-
K	K	N	R	I	Q	V	S	N	T	K	K	P	L	F	F	Y	V	N	L	A	K	R	Y	Q	-	-	Q	Y	N	D	V	E	L	S	A	L	G	-	A	I	A	T	V	V	T	V	T	E	I	L	K	N	N	-	-	-	G	F	A	V	E	K	K	I	-	T	S	I	V	D	I	K	-	-	-	-	-	P	V	Q	K	A	K	I	E	I	T	L	V	K	S	E	K	F	D	E	L	A	A	A	-
-	P	N	S	V	R	V	G	-	Y	G	-	T	K	F	L	F	V	D	I	T	K	H	L	L	H	D	G	-	E	E	V	Y	V	S	A	L	G	G	A	I	N	E	A	V	S	V	V	E	M	L	K	D	Q	-	-	-	Q	M	V	V	V	I	T	T	S	R	G	-	-	-	-	-	-	-	-	-	-	-	-	P	V	D	K	I	E	I	V	V	T	K	A	D	G	F	D	A	K	Y	Q	A	A

									10										20										30										40										50										60										70										80										90										100
S	-	N	V	V	L	I	G	-	K	-	K	P	V	M	N	Y	V	L	A	A	L	T	L	L	N	Q	G	V	S	E	I	V	I	K	A	R	G	R	A	I	S	K	A	V	D	T	V	E	I	V	R	N	R	F	L	P	D	K	I	E	I	K	E	I	R	V	G	S	Q	V	V	T	S	Q	D	G	R	Q	S	R	V	S	T	I	E	I	A	I	R	K	K	-	-	-	-	-	-	-	-	-	-
K	L	N	E	I	V	V	R	-	K	T	K	N	V	E	D	H	V	L	D	V	I	V	L	F	N	Q	G	I	D	E	V	I	L	K	G	T	G	R	E	I	S	K	A	V	D	V	Y	N	S	L	K	D	R	-	L	G	D	G	V	Q	L	V	N	V	Q	T	G	S	E	V	R	D	-	-	-	-	-	R	R	R	I	S	Y	I	L	L	R	L	K	R	V	Y	-	-	-	-	-	-	-	-	-
K	K	N	R	I	Q	V	S	N	T	K	K	P	L	F	F	Y	V	N	L	A	K	R	Y	Q	-	-	Q	Y	N	D	V	E	L	S	A	L	G	-	A	I	A	T	V	V	T	V	T	E	I	L	K	N	N	-	-	-	G	F	A	V	E	K	K	I	-	T	S	I	V	D	I	K	-	-	-	-	-	P	V	Q	K	A	K	I	E	I	T	L	V	K	S	E	K	F	D	E	L	A	A	A	-
-	P	N	S	V	R	V	G	-	Y	G	-	T	K	F	L	F	V	D	I	T	K	H	L	L	H	D	G	-	E	E	V	Y	V	S	A	L	G	G	A	I	N	E	A	V	S	V	V	E	M	L	K	D	Q	-	-	-	Q	M	V	V	V	I	T	T	S	R	G	-	-	-	-	-	-	-	-	-	-	-	-	P	V	D	K	I	E	I	V	V	T	K	A	D	G	F	D	A	K	Y	Q	A	A