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  
d1gzsb-  (  76 )    gsltnkvVkdfMlqtLndid--IrgsAskdpayasqTreaILSavYsknk
d2joka-  (  78 )    tgdAkqairhfvdeAvkqvAhartpeirqdaefGrqvyeatlCAifseAk
                          aaaaaaaaaaaaa     aaaaa  aaaaaaaaaaaaaaaaaaa

                             60        70        80        90        100 
d1gzsb-  ( 124 )    dqccnlLi-skginiapFlqeIGeaAknAgLpGttkndvftPsgaganpf
d2joka-  ( 128 )    drFcmdpatragnvrpaFiealgdAAratglpGadkqgvftpsgaGtnPl
                    aaaaa          aaaaaaaaaaaaa     bbb  bbb         

                             110       120       130       140       150 
d1gzsb-  ( 173 )    itpLissAnskyp-rmFinqhqqasFkiyAekiImteVaplFnecamptp
d2joka-  ( 178 )    YteirlrAdtlMgaelaar-peyrelqPyARqqAidlvAnalpaersntl
                    aaaaaaaaaaa   333            aaaaaaaaa           a

                             160       170       180   
d1gzsb-  ( 222 )    qqFqliLeniankyiqnTp                
d2joka-  ( 227 )    veFrqtvqtlEatyrraAqdasrdekgatnaadga
                    aaaaaaaaaaaaaaa

Domains
Outliers

Domain ID	Name	Family	Source	Domain	STRING-DB
d1gzsb- # 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 d1gzsb- # 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	GEF domain of SopE toxin	SopE-like GEF domain	Salmonella typhimurium [TaxId: 90371]		view
d2joka- # 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 d2joka- # 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	Effector protein BopE	SopE-like GEF domain	Burkholderia pseudomallei [TaxId: 28450]		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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T	G	D	A	K	Q	A	I	R	H	F	V	D	E	A	V	K	Q	V	A	H	A	R	T	P	E	I	R	Q	D	A	E	F	G	R	Q	V	Y	E	A	T	L	C	A	I	F	S	E	A	K	D	R	F	C	M	D	P	A	T	R	A	G	N	V	R	P	A	F	I	E	A	L	G	D	A	A	R	A	T	G	L	P	G	A	D	K	Q	G	V	F	T	P	S	G	A	G	T	N	P	L	Y	T	E	I	R	L	R	A	D	T	L	M	G	A	E	L	A	A	R	-	P	E	Y	R	E	L	Q	P	Y	A	R	Q	Q	A	I	D	L	V	A	N	A	L	P	A	E	R	S	N	T	L	V	E	F	R	Q	T	V	Q	T	L	E	A	T	Y	R	R	A	A	Q	D	A	S	R	D	E	K	G	A	T	N	A	A	D	G	A

Member	Chain	UniProtKB	GO term
d1gzsb_	B	P60953	GO:0030036
d1gzsb_	B	P60953	GO:0005085
d1gzsb_	B	P60953	GO:0005576
d1gzsb_	B	P60953	GO:0090630
d1gzsb_	B	O52623	GO:0030036
d1gzsb_	B	O52623	GO:0005085
d1gzsb_	B	O52623	GO:0005576
d1gzsb_	B	O52623	GO:0090630

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

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

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