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  
d1dq3a2  ( 336 )    gnfglplnfnafkewAseyg-VeFktng---sqTiAiin-derisLgqWh
d1whza-  (   2 )        wpprPeeVArKLrrlg-Fverakg---ghrlYthpdgriVvVp--f
d2hjja1  (  10 )        gpftrrqAqavtttysnitleddqgshFrlvvrdtegrmvwrawnf
                            aaaaaaaaa     bb        bbbbb     bbb     

                             60        70        80   
d1dq3a2  ( 381 )    trnrVskavLvkMLrkLyeatkdeeVkrmlhlie
d1whza-  (  44 )    hsgeLpkgtFkrILrdA---gLteeeFhnl    
d2hjja1  (  56 )    -----epdAgeglnryirtsgirtd         
                            aaaaaaaa

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d1dq3a2 # 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 d1dq3a2 # 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	PI-Pfui intein middle domain	PI-Pfui intein middle domain	Pyrococcus furiosus [TaxId: 2261]	view
d1whza- # 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 d1whza- # 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 TTHA1913	YcfA-like	Thermus thermophilus [TaxId: 274]	view
d2hjja1 # 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 d2hjja1 # 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 YkfF	YkfF-like	Escherichia coli [TaxId: 562]	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	N	F	G	L	P	L	N	F	N	A	F	K	E	W	A	S	E	Y	G	-	V	E	F	K	T	N	G	-	-	-	S	Q	T	I	A	I	I	N	-	D	E	R	I	S	L	G	Q	W	H	T	R	N	R	V	S	K	A	V	L	V	K	M	L	R	K	L	Y	E	A	T	K	D	E	E	V	K	R	M	L	H	L	I	E
-	-	-	-	W	P	P	R	P	E	E	V	A	R	K	L	R	R	L	G	-	F	V	E	R	A	K	G	-	-	-	G	H	R	L	Y	T	H	P	D	G	R	I	V	V	V	P	-	-	F	H	S	G	E	L	P	K	G	T	F	K	R	I	L	R	D	A	-	-	-	G	L	T	E	E	E	F	H	N	L	-	-	-	-
-	-	-	-	G	P	F	T	R	R	Q	A	Q	A	V	T	T	T	Y	S	N	I	T	L	E	D	D	Q	G	S	H	F	R	L	V	V	R	D	T	E	G	R	M	V	W	R	A	W	N	F	-	-	-	-	-	E	P	D	A	G	E	G	L	N	R	Y	I	R	T	S	G	I	R	T	D	-	-	-	-	-	-	-	-	-

Member	Chain	UniProtKB	GO term
d1dq3a2	A	E7FHX6	GO:0004519
d1dq3a2	A	E7FHX6	GO:0016539
d1dq3a2	A	E7FHX6	GO:0016788
d1dq3a2	A	E7FHX6	GO:0004519
d1dq3a2	A	E7FHX6	GO:0016539
d1dq3a2	A	E7FHX6	GO:0016788
d1dq3a2	A	E7FHX6	GO:0004519
d1dq3a2	A	E7FHX6	GO:0016539
d1dq3a2	A	E7FHX6	GO:0016788
d1dq3a2	A	E7FHX6	GO:0004519
d1dq3a2	A	E7FHX6	GO:0016539
d1dq3a2	A	E7FHX6	GO:0016788
d1dq3a2	A	E7FHX6	GO:0004519
d1dq3a2	A	E7FHX6	GO:0016539
d1dq3a2	A	E7FHX6	GO:0016788
d1dq3a2	A	E7FHX6	GO:0004519
d1dq3a2	A	E7FHX6	GO:0016539
d1dq3a2	A	E7FHX6	GO:0016788
d1whza_	A	Q5SH17	GO:0003729
d1whza_	A	Q5SH17	GO:0016787

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

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

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