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  
d1wmia1  (   1 )    mtyrVkihkqVvkaLqslp---kahyrrFleFrdiLeye-pvp-rekFdV
d4ltta1  (   1 )     mLklnlkksFqkdfdklllngF-ddsvLneViltlrkk--epLdpqfqd
d4ml2a-  (   3 )     qrdieysgqYskDvklaqkrhk-dmnkLkyLmtlLinnt-lpLpavykd
d6l8gb-  (   2 )    arlnitfspqAfedykyFqqndkkmvkkIneLLksIdrngalegi--gkp
d6n90a-  (   1 )      mklvwtlsSwddyefwqrtda-mv-kIndLirnAkrt-pfagl--g-p
                       bbbb aaaaaaaaaaaa      aaaaaaaaaaa             

                             60        70        80        90        
d1wmia1  (  46 )    iklegtgd-ldlYrArLg-dyrViYsVnwk--dkvIkIlklkprgr--a
d4ltta1  (  47 )    halk--gkwkpfreChIkpdVLLVYlvkd----deLiLlrLGshseLf 
d4ml2a-  (  50 )    hplq--gswkgyrDAhVepdWILIYkltd----klLrFerTgthaaLfg
d6l8gb-  (  50 )    eklk--snltgyysRrInhehrLvYtvdd----nhIkIasCkyhy    
d6n90a-  (  46 )    epl---gdmagywSRrItaehrFVYrvsgsgseqrLeViqCrfhy    
                    bb          bbbb     bbbbbbb      bbbbbbb

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d1wmia1 # 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 d1wmia1 # 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	Hypothetical protein PHS013	RelE-like	Pyrococcus horikoshii [TaxId: 53953]	view
d4ltta1 # 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 d4ltta1 # 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	RelE-like	Helicobacter pylori [TaxId: 85962]	view
d4ml2a- # 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 d4ml2a- # 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
d6l8gb- # 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 d6l8gb- # 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	Staphylococcus aureus [TaxId: 93061]	view
d6n90a- # 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 d6n90a- # 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	YoeB/Txe-like	Agrobacterium tumefaciens [TaxId: 358]	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

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

Member	Chain	UniProtKB	GO term

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

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

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