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  
d1hq1a-  (   1 )                                 gfdLndfleqlrq--------
d1qb2a-  ( 326 )                                 qftlrdmyeqfqnimkmgpfs
d4xcod-  ( 319 )                daimr-----------gkFtlnelmtqleaienmg---
d7epka3  ( 294 )    gdleslleriksleeageLdrAAedVlkgrItMrtIyrQLrAMrklgplg
                                                    aaaaaaaaaaaa      

                             60        70        80        90        100 
d1hq1a-  (  24 )    -------------------------vlvrmeaIInsMtmkEra---kpei
d1qb2a-  ( 347 )    qilgmIpgFgt-dFmskgneqeSmarlkklmtImdsMndqEldstdgakv
d4xcod-  ( 343 )    ---------sm---------klteakikkYkviissMtkeEre---nPki
d7epka3  ( 344 )    kvlqmLpGAsmLasidegALkLgeekMkrWmaIIesMtyeEld---rPei
                                           aaaaaaaaaaa    aaaaa       

                             110       120       130       140 
d1hq1a-  (  46 )    Ik--gsrkrrIAagsgmqvqdVnrLlkqFddmqrmmkkm   
d1qb2a-  ( 396 )    FskqpgriqrVArgsgvstrdVqelltqytkfaqmv      
d4xcod-  ( 391 )    ik--asrirriArgSgttendvrevlryYettknaidklrkg
d7epka3  ( 391 )    Id--krrmrrIAigsgtsvddVreLLvyyknLktmMkkl   
                        aaaaaaaaaa    aaaaaaaaaaaaaaaaa

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d1hq1a- # 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 d1hq1a- # 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	Signal sequence binding protein Ffh	Signal peptide-binding domain	Escherichia coli [TaxId: 562]	view
d1qb2a- # 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 d1qb2a- # 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	SRP54M	Signal peptide-binding domain	Human (Homo sapiens) [TaxId: 9606]	view
d4xcod- # 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 d4xcod- # 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	Methanocaldococcus jannaschii [TaxId: 2190]	view
d7epka3 # 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 d7epka3 # 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	Aeropyrum pernix [TaxId: 272557]	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										130										140
-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	G	F	D	L	N	D	F	L	E	Q	L	R	Q	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	V	L	V	R	M	E	A	I	I	N	S	M	T	M	K	E	R	A	-	-	-	K	P	E	I	I	K	-	-	G	S	R	K	R	R	I	A	A	G	S	G	M	Q	V	Q	D	V	N	R	L	L	K	Q	F	D	D	M	Q	R	M	M	K	K	M	-	-	-
-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	Q	F	T	L	R	D	M	Y	E	Q	F	Q	N	I	M	K	M	G	P	F	S	Q	I	L	G	M	I	P	G	F	G	T	-	D	F	M	S	K	G	N	E	Q	E	S	M	A	R	L	K	K	L	M	T	I	M	D	S	M	N	D	Q	E	L	D	S	T	D	G	A	K	V	F	S	K	Q	P	G	R	I	Q	R	V	A	R	G	S	G	V	S	T	R	D	V	Q	E	L	L	T	Q	Y	T	K	F	A	Q	M	V	-	-	-	-	-	-
-	-	-	-	-	-	-	-	-	-	-	-	D	A	I	M	R	-	-	-	-	-	-	-	-	-	-	-	G	K	F	T	L	N	E	L	M	T	Q	L	E	A	I	E	N	M	G	-	-	-	-	-	-	-	-	-	-	-	-	S	M	-	-	-	-	-	-	-	-	-	K	L	T	E	A	K	I	K	K	Y	K	V	I	I	S	S	M	T	K	E	E	R	E	-	-	-	N	P	K	I	I	K	-	-	A	S	R	I	R	R	I	A	R	G	S	G	T	T	E	N	D	V	R	E	V	L	R	Y	Y	E	T	T	K	N	A	I	D	K	L	R	K	G
G	D	L	E	S	L	L	E	R	I	K	S	L	E	E	A	G	E	L	D	R	A	A	E	D	V	L	K	G	R	I	T	M	R	T	I	Y	R	Q	L	R	A	M	R	K	L	G	P	L	G	K	V	L	Q	M	L	P	G	A	S	M	L	A	S	I	D	E	G	A	L	K	L	G	E	E	K	M	K	R	W	M	A	I	I	E	S	M	T	Y	E	E	L	D	-	-	-	R	P	E	I	I	D	-	-	K	R	R	M	R	R	I	A	I	G	S	G	T	S	V	D	D	V	R	E	L	L	V	Y	Y	K	N	L	K	T	M	M	K	K	L	-	-	-

Member	Chain	UniProtKB	GO term
d1hq1a_	A	P0AGD7	GO:0003924
d1hq1a_	A	P0AGD7	GO:0005525
d1hq1a_	A	P0AGD7	GO:0006614
d1hq1a_	A	P0AGD7	GO:0008312
d1hq1a_	A	P0AGD7	GO:0048500
d1qb2a_	A	P61011	GO:0003924
d1qb2a_	A	P61011	GO:0005525
d1qb2a_	A	P61011	GO:0006614
d1qb2a_	A	P61011	GO:0008312
d1qb2a_	A	P61011	GO:0048500

									10										20										30										40										50										60										70										80										90										100										110										120										130										140
-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	G	F	D	L	N	D	F	L	E	Q	L	R	Q	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	V	L	V	R	M	E	A	I	I	N	S	M	T	M	K	E	R	A	-	-	-	K	P	E	I	I	K	-	-	G	S	R	K	R	R	I	A	A	G	S	G	M	Q	V	Q	D	V	N	R	L	L	K	Q	F	D	D	M	Q	R	M	M	K	K	M	-	-	-
-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	Q	F	T	L	R	D	M	Y	E	Q	F	Q	N	I	M	K	M	G	P	F	S	Q	I	L	G	M	I	P	G	F	G	T	-	D	F	M	S	K	G	N	E	Q	E	S	M	A	R	L	K	K	L	M	T	I	M	D	S	M	N	D	Q	E	L	D	S	T	D	G	A	K	V	F	S	K	Q	P	G	R	I	Q	R	V	A	R	G	S	G	V	S	T	R	D	V	Q	E	L	L	T	Q	Y	T	K	F	A	Q	M	V	-	-	-	-	-	-
-	-	-	-	-	-	-	-	-	-	-	-	D	A	I	M	R	-	-	-	-	-	-	-	-	-	-	-	G	K	F	T	L	N	E	L	M	T	Q	L	E	A	I	E	N	M	G	-	-	-	-	-	-	-	-	-	-	-	-	S	M	-	-	-	-	-	-	-	-	-	K	L	T	E	A	K	I	K	K	Y	K	V	I	I	S	S	M	T	K	E	E	R	E	-	-	-	N	P	K	I	I	K	-	-	A	S	R	I	R	R	I	A	R	G	S	G	T	T	E	N	D	V	R	E	V	L	R	Y	Y	E	T	T	K	N	A	I	D	K	L	R	K	G
G	D	L	E	S	L	L	E	R	I	K	S	L	E	E	A	G	E	L	D	R	A	A	E	D	V	L	K	G	R	I	T	M	R	T	I	Y	R	Q	L	R	A	M	R	K	L	G	P	L	G	K	V	L	Q	M	L	P	G	A	S	M	L	A	S	I	D	E	G	A	L	K	L	G	E	E	K	M	K	R	W	M	A	I	I	E	S	M	T	Y	E	E	L	D	-	-	-	R	P	E	I	I	D	-	-	K	R	R	M	R	R	I	A	I	G	S	G	T	S	V	D	D	V	R	E	L	L	V	Y	Y	K	N	L	K	T	M	M	K	K	L	-	-	-

									10										20										30										40										50										60										70										80										90										100										110										120										130										140
-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	G	F	D	L	N	D	F	L	E	Q	L	R	Q	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	V	L	V	R	M	E	A	I	I	N	S	M	T	M	K	E	R	A	-	-	-	K	P	E	I	I	K	-	-	G	S	R	K	R	R	I	A	A	G	S	G	M	Q	V	Q	D	V	N	R	L	L	K	Q	F	D	D	M	Q	R	M	M	K	K	M	-	-	-
-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	Q	F	T	L	R	D	M	Y	E	Q	F	Q	N	I	M	K	M	G	P	F	S	Q	I	L	G	M	I	P	G	F	G	T	-	D	F	M	S	K	G	N	E	Q	E	S	M	A	R	L	K	K	L	M	T	I	M	D	S	M	N	D	Q	E	L	D	S	T	D	G	A	K	V	F	S	K	Q	P	G	R	I	Q	R	V	A	R	G	S	G	V	S	T	R	D	V	Q	E	L	L	T	Q	Y	T	K	F	A	Q	M	V	-	-	-	-	-	-
-	-	-	-	-	-	-	-	-	-	-	-	D	A	I	M	R	-	-	-	-	-	-	-	-	-	-	-	G	K	F	T	L	N	E	L	M	T	Q	L	E	A	I	E	N	M	G	-	-	-	-	-	-	-	-	-	-	-	-	S	M	-	-	-	-	-	-	-	-	-	K	L	T	E	A	K	I	K	K	Y	K	V	I	I	S	S	M	T	K	E	E	R	E	-	-	-	N	P	K	I	I	K	-	-	A	S	R	I	R	R	I	A	R	G	S	G	T	T	E	N	D	V	R	E	V	L	R	Y	Y	E	T	T	K	N	A	I	D	K	L	R	K	G
G	D	L	E	S	L	L	E	R	I	K	S	L	E	E	A	G	E	L	D	R	A	A	E	D	V	L	K	G	R	I	T	M	R	T	I	Y	R	Q	L	R	A	M	R	K	L	G	P	L	G	K	V	L	Q	M	L	P	G	A	S	M	L	A	S	I	D	E	G	A	L	K	L	G	E	E	K	M	K	R	W	M	A	I	I	E	S	M	T	Y	E	E	L	D	-	-	-	R	P	E	I	I	D	-	-	K	R	R	M	R	R	I	A	I	G	S	G	T	S	V	D	D	V	R	E	L	L	V	Y	Y	K	N	L	K	T	M	M	K	K	L	-	-	-

									10										20										30										40										50										60										70										80										90										100										110										120										130										140
-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	G	F	D	L	N	D	F	L	E	Q	L	R	Q	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	V	L	V	R	M	E	A	I	I	N	S	M	T	M	K	E	R	A	-	-	-	K	P	E	I	I	K	-	-	G	S	R	K	R	R	I	A	A	G	S	G	M	Q	V	Q	D	V	N	R	L	L	K	Q	F	D	D	M	Q	R	M	M	K	K	M	-	-	-
-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	Q	F	T	L	R	D	M	Y	E	Q	F	Q	N	I	M	K	M	G	P	F	S	Q	I	L	G	M	I	P	G	F	G	T	-	D	F	M	S	K	G	N	E	Q	E	S	M	A	R	L	K	K	L	M	T	I	M	D	S	M	N	D	Q	E	L	D	S	T	D	G	A	K	V	F	S	K	Q	P	G	R	I	Q	R	V	A	R	G	S	G	V	S	T	R	D	V	Q	E	L	L	T	Q	Y	T	K	F	A	Q	M	V	-	-	-	-	-	-
-	-	-	-	-	-	-	-	-	-	-	-	D	A	I	M	R	-	-	-	-	-	-	-	-	-	-	-	G	K	F	T	L	N	E	L	M	T	Q	L	E	A	I	E	N	M	G	-	-	-	-	-	-	-	-	-	-	-	-	S	M	-	-	-	-	-	-	-	-	-	K	L	T	E	A	K	I	K	K	Y	K	V	I	I	S	S	M	T	K	E	E	R	E	-	-	-	N	P	K	I	I	K	-	-	A	S	R	I	R	R	I	A	R	G	S	G	T	T	E	N	D	V	R	E	V	L	R	Y	Y	E	T	T	K	N	A	I	D	K	L	R	K	G
G	D	L	E	S	L	L	E	R	I	K	S	L	E	E	A	G	E	L	D	R	A	A	E	D	V	L	K	G	R	I	T	M	R	T	I	Y	R	Q	L	R	A	M	R	K	L	G	P	L	G	K	V	L	Q	M	L	P	G	A	S	M	L	A	S	I	D	E	G	A	L	K	L	G	E	E	K	M	K	R	W	M	A	I	I	E	S	M	T	Y	E	E	L	D	-	-	-	R	P	E	I	I	D	-	-	K	R	R	M	R	R	I	A	I	G	S	G	T	S	V	D	D	V	R	E	L	L	V	Y	Y	K	N	L	K	T	M	M	K	K	L	-	-	-