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  
d1jida-  (   5 )    aarspadqdrFicIypayLnnkktiaeGrrIpiskAVenPtAteIqdVCs
d1kvna-  (   1 )            mkesvvwtvnlDskksraegrriprrfAvpnvklhElveAsk
d1lnga-  (   1 )               miIwpSyIdkkksrreGRkVpeelAiekPsLkdIekALk
d3dlua1  (   2 )             grfvVwpseLdsrlsr-ygriVprsiAv-sPrV-eIvrAAe
                               bbb 3333                      aaaaaaaaa

                             60        70        80        90        100 
d1jida-  (  55 )    avgLnV-fleknkmysrewnrdvqyrGrVrVqlkqedgslclvqFpsrks
d1kvna-  (  43 )    elglkF-raeekkypks----wweeggrvvvekr-----------gtktk
d1lnga-  (  40 )    klgleP-kiyrdkryprQh---weicGCVeVdyk-----------gnklq
d3dlua1  (  43 )    elkFkvirveedklnpl---rt---fGmIvLeSpy-----------gksk
                    a    b bbb                 bbbb                aaa

                             110       120      
d1jida-  ( 104 )    VMlyAAemIpklktr             
d1kvna-  (  77 )    lMielArkiaeireqkreqkkdkkkkkk
d1lnga-  (  75 )    LLkeICkiikgkn               
d3dlua1  (  84 )    SLklIAqkIreFrrrsa           
                    aaaaaaaaa

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d1jida- # 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 d1jida- # 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	SRP19	SRP19	Human (Homo sapiens) [TaxId: 9606]	view
d1kvna- # 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 d1kvna- # 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	SRP19	SRP19	Archaeoglobus fulgidus [TaxId: 2234]	view
d1lnga- # 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 d1lnga- # 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	SRP19	SRP19	Methanococcus jannaschii [TaxId: 2190]	view
d3dlua1 # 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 d3dlua1 # 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	Pyrococcus furiosus [TaxId: 2261]	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										100										110										120
A	A	R	S	P	A	D	Q	D	R	F	I	C	I	Y	P	A	Y	L	N	N	K	K	T	I	A	E	G	R	R	I	P	I	S	K	A	V	E	N	P	T	A	T	E	I	Q	D	V	C	S	A	V	G	L	N	V	-	F	L	E	K	N	K	M	Y	S	R	E	W	N	R	D	V	Q	Y	R	G	R	V	R	V	Q	L	K	Q	E	D	G	S	L	C	L	V	Q	F	P	S	R	K	S	V	M	L	Y	A	A	E	M	I	P	K	L	K	T	R	-	-	-	-	-	-	-	-	-	-	-	-	-
-	-	-	-	-	-	-	-	M	K	E	S	V	V	W	T	V	N	L	D	S	K	K	S	R	A	E	G	R	R	I	P	R	R	F	A	V	P	N	V	K	L	H	E	L	V	E	A	S	K	E	L	G	L	K	F	-	R	A	E	E	K	K	Y	P	K	S	-	-	-	-	W	W	E	E	G	G	R	V	V	V	E	K	R	-	-	-	-	-	-	-	-	-	-	-	G	T	K	T	K	L	M	I	E	L	A	R	K	I	A	E	I	R	E	Q	K	R	E	Q	K	K	D	K	K	K	K	K	K
-	-	-	-	-	-	-	-	-	-	-	M	I	I	W	P	S	Y	I	D	K	K	K	S	R	R	E	G	R	K	V	P	E	E	L	A	I	E	K	P	S	L	K	D	I	E	K	A	L	K	K	L	G	L	E	P	-	K	I	Y	R	D	K	R	Y	P	R	Q	H	-	-	-	W	E	I	C	G	C	V	E	V	D	Y	K	-	-	-	-	-	-	-	-	-	-	-	G	N	K	L	Q	L	L	K	E	I	C	K	I	I	K	G	K	N	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
-	-	-	-	-	-	-	-	-	G	R	F	V	V	W	P	S	E	L	D	S	R	L	S	R	-	Y	G	R	I	V	P	R	S	I	A	V	-	S	P	R	V	-	E	I	V	R	A	A	E	E	L	K	F	K	V	I	R	V	E	E	D	K	L	N	P	L	-	-	-	R	T	-	-	-	F	G	M	I	V	L	E	S	P	Y	-	-	-	-	-	-	-	-	-	-	-	G	K	S	K	S	L	K	L	I	A	Q	K	I	R	E	F	R	R	R	S	A	-	-	-	-	-	-	-	-	-	-	-

Member	Chain	UniProtKB	GO term
d1jida_	A	P09132	GO:0006614
d1jida_	A	P09132	GO:0008312
d1jida_	A	P09132	GO:0048500
d1jida_	A	P09132	GO:0006614
d1jida_	A	P09132	GO:0008312
d1jida_	A	P09132	GO:0048500
d1kvna_	A	O29010	GO:0003723
d1kvna_	A	O29010	GO:0005737
d1kvna_	A	O29010	GO:0006612
d1kvna_	A	O29010	GO:0006614
d1kvna_	A	O29010	GO:0006617
d1kvna_	A	O29010	GO:0008312
d1kvna_	A	O29010	GO:0048500
d1kvna_	A	O29010	GO:0003723
d1kvna_	A	O29010	GO:0005737
d1kvna_	A	O29010	GO:0006612
d1kvna_	A	O29010	GO:0006614
d1kvna_	A	O29010	GO:0006617
d1kvna_	A	O29010	GO:0008312
d1kvna_	A	O29010	GO:0048500
d1lnga_	A	Q58440	GO:0003723
d1lnga_	A	Q58440	GO:0005737
d1lnga_	A	Q58440	GO:0006612
d1lnga_	A	Q58440	GO:0006614
d1lnga_	A	Q58440	GO:0008312
d1lnga_	A	Q58440	GO:0048500
d1lnga_	A	Q58440	GO:0003723
d1lnga_	A	Q58440	GO:0005737
d1lnga_	A	Q58440	GO:0006612
d1lnga_	A	Q58440	GO:0006614
d1lnga_	A	Q58440	GO:0008312
d1lnga_	A	Q58440	GO:0048500

									10										20										30										40										50										60										70										80										90										100										110										120
A	A	R	S	P	A	D	Q	D	R	F	I	C	I	Y	P	A	Y	L	N	N	K	K	T	I	A	E	G	R	R	I	P	I	S	K	A	V	E	N	P	T	A	T	E	I	Q	D	V	C	S	A	V	G	L	N	V	-	F	L	E	K	N	K	M	Y	S	R	E	W	N	R	D	V	Q	Y	R	G	R	V	R	V	Q	L	K	Q	E	D	G	S	L	C	L	V	Q	F	P	S	R	K	S	V	M	L	Y	A	A	E	M	I	P	K	L	K	T	R	-	-	-	-	-	-	-	-	-	-	-	-	-
-	-	-	-	-	-	-	-	M	K	E	S	V	V	W	T	V	N	L	D	S	K	K	S	R	A	E	G	R	R	I	P	R	R	F	A	V	P	N	V	K	L	H	E	L	V	E	A	S	K	E	L	G	L	K	F	-	R	A	E	E	K	K	Y	P	K	S	-	-	-	-	W	W	E	E	G	G	R	V	V	V	E	K	R	-	-	-	-	-	-	-	-	-	-	-	G	T	K	T	K	L	M	I	E	L	A	R	K	I	A	E	I	R	E	Q	K	R	E	Q	K	K	D	K	K	K	K	K	K
-	-	-	-	-	-	-	-	-	-	-	M	I	I	W	P	S	Y	I	D	K	K	K	S	R	R	E	G	R	K	V	P	E	E	L	A	I	E	K	P	S	L	K	D	I	E	K	A	L	K	K	L	G	L	E	P	-	K	I	Y	R	D	K	R	Y	P	R	Q	H	-	-	-	W	E	I	C	G	C	V	E	V	D	Y	K	-	-	-	-	-	-	-	-	-	-	-	G	N	K	L	Q	L	L	K	E	I	C	K	I	I	K	G	K	N	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
-	-	-	-	-	-	-	-	-	G	R	F	V	V	W	P	S	E	L	D	S	R	L	S	R	-	Y	G	R	I	V	P	R	S	I	A	V	-	S	P	R	V	-	E	I	V	R	A	A	E	E	L	K	F	K	V	I	R	V	E	E	D	K	L	N	P	L	-	-	-	R	T	-	-	-	F	G	M	I	V	L	E	S	P	Y	-	-	-	-	-	-	-	-	-	-	-	G	K	S	K	S	L	K	L	I	A	Q	K	I	R	E	F	R	R	R	S	A	-	-	-	-	-	-	-	-	-	-	-

									10										20										30										40										50										60										70										80										90										100										110										120
A	A	R	S	P	A	D	Q	D	R	F	I	C	I	Y	P	A	Y	L	N	N	K	K	T	I	A	E	G	R	R	I	P	I	S	K	A	V	E	N	P	T	A	T	E	I	Q	D	V	C	S	A	V	G	L	N	V	-	F	L	E	K	N	K	M	Y	S	R	E	W	N	R	D	V	Q	Y	R	G	R	V	R	V	Q	L	K	Q	E	D	G	S	L	C	L	V	Q	F	P	S	R	K	S	V	M	L	Y	A	A	E	M	I	P	K	L	K	T	R	-	-	-	-	-	-	-	-	-	-	-	-	-
-	-	-	-	-	-	-	-	M	K	E	S	V	V	W	T	V	N	L	D	S	K	K	S	R	A	E	G	R	R	I	P	R	R	F	A	V	P	N	V	K	L	H	E	L	V	E	A	S	K	E	L	G	L	K	F	-	R	A	E	E	K	K	Y	P	K	S	-	-	-	-	W	W	E	E	G	G	R	V	V	V	E	K	R	-	-	-	-	-	-	-	-	-	-	-	G	T	K	T	K	L	M	I	E	L	A	R	K	I	A	E	I	R	E	Q	K	R	E	Q	K	K	D	K	K	K	K	K	K
-	-	-	-	-	-	-	-	-	-	-	M	I	I	W	P	S	Y	I	D	K	K	K	S	R	R	E	G	R	K	V	P	E	E	L	A	I	E	K	P	S	L	K	D	I	E	K	A	L	K	K	L	G	L	E	P	-	K	I	Y	R	D	K	R	Y	P	R	Q	H	-	-	-	W	E	I	C	G	C	V	E	V	D	Y	K	-	-	-	-	-	-	-	-	-	-	-	G	N	K	L	Q	L	L	K	E	I	C	K	I	I	K	G	K	N	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
-	-	-	-	-	-	-	-	-	G	R	F	V	V	W	P	S	E	L	D	S	R	L	S	R	-	Y	G	R	I	V	P	R	S	I	A	V	-	S	P	R	V	-	E	I	V	R	A	A	E	E	L	K	F	K	V	I	R	V	E	E	D	K	L	N	P	L	-	-	-	R	T	-	-	-	F	G	M	I	V	L	E	S	P	Y	-	-	-	-	-	-	-	-	-	-	-	G	K	S	K	S	L	K	L	I	A	Q	K	I	R	E	F	R	R	R	S	A	-	-	-	-	-	-	-	-	-	-	-

									10										20										30										40										50										60										70										80										90										100										110										120
A	A	R	S	P	A	D	Q	D	R	F	I	C	I	Y	P	A	Y	L	N	N	K	K	T	I	A	E	G	R	R	I	P	I	S	K	A	V	E	N	P	T	A	T	E	I	Q	D	V	C	S	A	V	G	L	N	V	-	F	L	E	K	N	K	M	Y	S	R	E	W	N	R	D	V	Q	Y	R	G	R	V	R	V	Q	L	K	Q	E	D	G	S	L	C	L	V	Q	F	P	S	R	K	S	V	M	L	Y	A	A	E	M	I	P	K	L	K	T	R	-	-	-	-	-	-	-	-	-	-	-	-	-
-	-	-	-	-	-	-	-	M	K	E	S	V	V	W	T	V	N	L	D	S	K	K	S	R	A	E	G	R	R	I	P	R	R	F	A	V	P	N	V	K	L	H	E	L	V	E	A	S	K	E	L	G	L	K	F	-	R	A	E	E	K	K	Y	P	K	S	-	-	-	-	W	W	E	E	G	G	R	V	V	V	E	K	R	-	-	-	-	-	-	-	-	-	-	-	G	T	K	T	K	L	M	I	E	L	A	R	K	I	A	E	I	R	E	Q	K	R	E	Q	K	K	D	K	K	K	K	K	K
-	-	-	-	-	-	-	-	-	-	-	M	I	I	W	P	S	Y	I	D	K	K	K	S	R	R	E	G	R	K	V	P	E	E	L	A	I	E	K	P	S	L	K	D	I	E	K	A	L	K	K	L	G	L	E	P	-	K	I	Y	R	D	K	R	Y	P	R	Q	H	-	-	-	W	E	I	C	G	C	V	E	V	D	Y	K	-	-	-	-	-	-	-	-	-	-	-	G	N	K	L	Q	L	L	K	E	I	C	K	I	I	K	G	K	N	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
-	-	-	-	-	-	-	-	-	G	R	F	V	V	W	P	S	E	L	D	S	R	L	S	R	-	Y	G	R	I	V	P	R	S	I	A	V	-	S	P	R	V	-	E	I	V	R	A	A	E	E	L	K	F	K	V	I	R	V	E	E	D	K	L	N	P	L	-	-	-	R	T	-	-	-	F	G	M	I	V	L	E	S	P	Y	-	-	-	-	-	-	-	-	-	-	-	G	K	S	K	S	L	K	L	I	A	Q	K	I	R	E	F	R	R	R	S	A	-	-	-	-	-	-	-	-	-	-	-