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  
d1ns5a-  (   2 )     klQLVAvgt-kpdwvqtgFteylrrFpk-dpFelieipagkrgkna---
d1o6da1  (   2 )     rVrIAVIgkL-dgfIkegikhyekfLrrFckPeVleIkrvhrg------
d4faka1  (   1 )    mkITILAVGkLkekywkqaiaeyekrLgpyTkIdiieVpdekapenmsdk
                      bbbbbb     aaaaaaaaaaa        bbbbbb            

                             60        70        80        90        100 
d1ns5a-  (  48 )    dikrildkEgeq-laaAg-knrIVTLdipgkpWdtpqLaaelerWkldgr
d1o6da1  (  44 )    sieeivr-ETedLtnrilpgSfVMVMdkrgeevsseefAdfLkdLemkgk
d4faka1  (  51 )    eieqvkekEGqrIlakIkpqSTVITLeiqgkmlssegLAqeLnqrmtqgq
                     aaaaa   aa          bbbbb        aaaaaaaaaaaaa   

                             110       120       130       140       150 
d1ns5a-  (  97 )    -dVSLLIggpeglSpaCkaaaeqsWslsaltlphplvrvlVAesLYrAwS
d1o6da1  (  94 )    -dITILIgGpygLneeIfakAhrvFSlskmtfthgmtVliVLeqIfrAFk
d4faka1  ( 101 )    sdFvFVIGGsngLhkdVlqrSnyaLSfskmtfphqmmRvvLIeqVyrAFk
                      bbbbb               bbb        aaaaaaaaaaaaaaaaa

                             
d1ns5a-  ( 146 )    ittnhpyh 
d1o6da1  ( 143 )    iihge    
d4faka1  ( 151 )    imrgeayhk
                    aa

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d1ns5a- # 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 d1ns5a- # 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 YbeA	YbeA-like	Escherichia coli [TaxId: 562]	view
d1o6da1 # 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 d1o6da1 # 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 TM0844	YbeA-like	Thermotoga maritima [TaxId: 2336]	view
d4faka1 # 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 d4faka1 # 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	YbeA-like	Staphylococcus aureus [TaxId: 1280]	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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Member	Chain	UniProtKB	GO term
d1ns5a_	A	P0A8I8	GO:0005515
d1ns5a_	A	P0A8I8	GO:0005737
d1ns5a_	A	P0A8I8	GO:0006364
d1ns5a_	A	P0A8I8	GO:0008168
d1ns5a_	A	P0A8I8	GO:0031167
d1ns5a_	A	P0A8I8	GO:0032259
d1ns5a_	A	P0A8I8	GO:0042803
d1ns5a_	A	P0A8I8	GO:0043022
d1ns5a_	A	P0A8I8	GO:0070038
d1ns5a_	A	P0A8I8	GO:0070475
d1ns5a_	A	P0A8I8	GO:0005515
d1ns5a_	A	P0A8I8	GO:0005737
d1ns5a_	A	P0A8I8	GO:0006364
d1ns5a_	A	P0A8I8	GO:0008168
d1ns5a_	A	P0A8I8	GO:0031167
d1ns5a_	A	P0A8I8	GO:0032259
d1ns5a_	A	P0A8I8	GO:0042803
d1ns5a_	A	P0A8I8	GO:0043022
d1ns5a_	A	P0A8I8	GO:0070038
d1ns5a_	A	P0A8I8	GO:0070475

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