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  
d3w2wa2  ( 504 )                                         vvdvaLlyknWrk
d3w2wa4  ( 765 )         welirvfynSeLrkkLl---------eegvgkrFIyhVlreVdtw
d4uw2a4  ( 670 )    lsyewnhye-elwr-tYAprI-yagngrlkgkLeskkgLLwkLLeIrelY
d6ifka4  ( 655 )    fdrfitnVyddKLe-qIryfF-n-----hqderg--knFIykLIelLrnh
                               aa  aaaaaa               aaaaaaaaaa a  

                             60        70        80        90        100 
d3w2wa2  ( 517 )    iFdekygdLvskArevsedfVkdnmLvdsdlYysstWes-----------
d3w2wa4  ( 803 )    pk-vgidMLkfEVirHIrgr-nk---eetkelrekIygeIkdLlehvrgn
d4uw2a4  ( 717 )    vrdpndvrWAylTaylLgrh-------glsdlFpeLvgidtkaver---k
d6ifka4  ( 696 )    dr-mnmarLayyLtrLeelT-r----etdrdkFktFknlFysWYtn---k
                            aaaaaaaa                 aaaaaa aaaa      

                             110       120 
d3w2wa2  ( 557 )    --gvVvdfLnaAykignPpk  
d3w2wa4  ( 849 )    nVekVrgLFtfLkiitdaevfp
d4uw2a4  ( 757 )    epqpVywVdgVLkiVl-a-vrr
d6ifka4  ( 737 )    ndkdrkEAelALllYiye-irk
                        aaaaaaaaaaa

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d3w2wa2 # 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 d3w2wa2 # 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	CRISPR-Cas type III-B interference complex protein Cmr2, D2	Helical bundle domains from Csm1/Cmr1	Pyrococcus furiosus [TaxId: 2261]	view
d3w2wa4 # 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 d3w2wa4 # 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	CRISPR-Cas type III-B interference complex protein Cmr2, D4	Helical bundle domains from Csm1/Cmr1	Pyrococcus furiosus [TaxId: 2261]	view
d4uw2a4 # 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 d4uw2a4 # 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	CRISPR-Cas type III-A interference complex protein Csm1, Domain D	Helical bundle domains from Csm1/Cmr1	Thermococcus onnurineus NA1 [TaxId: 523850]	view
d6ifka4 # 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 d6ifka4 # 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	CRISPR-Cas type III-A interference complex protein Csm1, Domain D	Helical bundle domains from Csm1/Cmr1	Streptococcus thermophilus ND03 [TaxId: 767463]	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	S	Y	E	W	N	H	Y	E	-	E	L	W	R	-	T	Y	A	P	R	I	-	Y	A	G	N	G	R	L	K	G	K	L	E	S	K	K	G	L	L	W	K	L	L	E	I	R	E	L	Y	V	R	D	P	N	D	V	R	W	A	Y	L	T	A	Y	L	L	G	R	H	-	-	-	-	-	-	-	G	L	S	D	L	F	P	E	L	V	G	I	D	T	K	A	V	E	R	-	-	-	K	E	P	Q	P	V	Y	W	V	D	G	V	L	K	I	V	L	-	A	-	V	R	R
F	D	R	F	I	T	N	V	Y	D	D	K	L	E	-	Q	I	R	Y	F	F	-	N	-	-	-	-	-	H	Q	D	E	R	G	-	-	K	N	F	I	Y	K	L	I	E	L	L	R	N	H	D	R	-	M	N	M	A	R	L	A	Y	Y	L	T	R	L	E	E	L	T	-	R	-	-	-	-	E	T	D	R	D	K	F	K	T	F	K	N	L	F	Y	S	W	Y	T	N	-	-	-	K	N	D	K	D	R	K	E	A	E	L	A	L	L	L	Y	I	Y	E	-	I	R	K

Member	Chain	UniProtKB	GO term

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

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

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