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  
d1s12a-  (   1 )    mIkVtvtn------sfFevtghAp-----dktLcasVsllTqhVAnfLka
d2idla1  (   1 )    mIqAvFeraedgeLrsAeItghaesGeygldvVcasVstlAinFinsIek
d4peoa-  (   2 )     itVdItvndegkVtdViMdga-------------gAsavLfgsvnaIig
                      bbbb         bbbbb               aaaaaaaaaaaaaaa

                             60        70        80        90        100 
d1s12a-  (  40 )    --ekkAkikkes---gylkVkFe-ele----ncEvkvlaaMvrsLkeleq
d2idla1  (  51 )    fAgyePilelnedegGyLmVeIpkdLpshqremTqlfFesFflgManlse
d4peoa-  (  51 )    lTsErPdinyd--dgghFhIrSv----dtnndeAqliLqtMlvsLqtiei
                          bbbbb     bbbbb          aaaaaaaaaaaaaaaaa  

                             110   
d1s12a-  (  80 )    kfpsqIrVevidngs
d2idla1  ( 101 )    nysefVqTrvit   
d4peoa-  ( 103 )    Lnyk

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d1s12a- # 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 d1s12a- # 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 TM1457	TM1457-like	Thermotoga maritima [TaxId: 2336]	view
d2idla1 # 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 d2idla1 # 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 SP1106	TM1457-like	Pneumococcus (Streptococcus pneumoniae) [TaxId: 1313]	view
d4peoa- # 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 d4peoa- # 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 SAV1646	TM1457-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

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

Member	Chain	UniProtKB	GO term
d1s12a_	A	Q9X1G8	GO:0006508
d1s12a_	A	Q9X1G8	GO:0008234
d2idla1	A	A0A0H2UPY9	GO:0006508
d2idla1	A	A0A0H2UPY9	GO:0008234

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

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

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