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  
d1j1va-  ( 374 )                                 vt---idnIqktVAeyykikv
d1l8qa1  ( 290 )                     gfeglerkerkerd---kLqIvefVAnyyavkv
d2jrta1  (   1 )    mylkrvdgprqvtlpd-------------gtvlsradlpp-ldtr-----
d6enia-  (   2 )    aq-------------qspysaamaeqrhqew---lrfvdllknayqndlh
                                                      a  aaaaaaaa    a

                             60        70        80        90        100 
d1j1va-  ( 392 )    adLlskrrsrsVarPrq-A-aLAkelTn--hslpeIGdaFggrdhttvlh
d1l8qa1  ( 321 )    edIlsdkrnkrTseArkIA-yLCrkvcs--aslieIarafkrkdhttvih
d2jrta1  (  32 )    ------rWv----asrkaavvkAvih--glitereAldrY-slseeeFal
d6enia-  (  36 )    lpllnlmllpderealgtrvriveellrgemsqrelknel-gAg-iatit
                    aaa         aaaaaa   aaaaa      aaaaaaa      aaaaa

                             110       120       130 
d1j1va-  ( 440 )    acrkieqlreeshdikedfsnLirtLss   
d1l8qa1  ( 369 )    airsVeeekk--rkfkhlvgfLekqAfdkIc
d2jrta1  (  69 )    WrsavAahgekal--kvtmiqkyrql     
d6enia-  (  84 )    rgsnylk---aap--velrqwleevll    
                    aaaaaaa        aaaaaaaaaaa

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d1j1va- # 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 d1j1va- # 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	Chromosomal replication initiation factor DnaA C-terminal domain IV	Chromosomal replication initiation factor DnaA C-terminal domain IV	Escherichia coli [TaxId: 562]	view
d1l8qa1 # 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 d1l8qa1 # 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	Chromosomal replication initiation factor DnaA C-terminal domain IV	Chromosomal replication initiation factor DnaA C-terminal domain IV	Aquifex aeolicus [TaxId: 63363]	view
d2jrta1 # 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 d2jrta1 # 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	Rhodobacter sphaeroides [TaxId: 1063]	view
d6enia- # 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 d6enia- # 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	Trp repressor, TrpR	Escherichia coli [TaxId: 83334]	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
-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	V	T	-	-	-	I	D	N	I	Q	K	T	V	A	E	Y	Y	K	I	K	V	A	D	L	L	S	K	R	R	S	R	S	V	A	R	P	R	Q	-	A	-	A	L	A	K	E	L	T	N	-	-	H	S	L	P	E	I	G	D	A	F	G	G	R	D	H	T	T	V	L	H	A	C	R	K	I	E	Q	L	R	E	E	S	H	D	I	K	E	D	F	S	N	L	I	R	T	L	S	S	-	-	-
-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	G	F	E	G	L	E	R	K	E	R	K	E	R	D	-	-	-	K	L	Q	I	V	E	F	V	A	N	Y	Y	A	V	K	V	E	D	I	L	S	D	K	R	N	K	R	T	S	E	A	R	K	I	A	-	Y	L	C	R	K	V	C	S	-	-	A	S	L	I	E	I	A	R	A	F	K	R	K	D	H	T	T	V	I	H	A	I	R	S	V	E	E	E	K	K	-	-	R	K	F	K	H	L	V	G	F	L	E	K	Q	A	F	D	K	I	C
M	Y	L	K	R	V	D	G	P	R	Q	V	T	L	P	D	-	-	-	-	-	-	-	-	-	-	-	-	-	G	T	V	L	S	R	A	D	L	P	P	-	L	D	T	R	-	-	-	-	-	-	-	-	-	-	-	R	W	V	-	-	-	-	A	S	R	K	A	A	V	V	K	A	V	I	H	-	-	G	L	I	T	E	R	E	A	L	D	R	Y	-	S	L	S	E	E	E	F	A	L	W	R	S	A	V	A	A	H	G	E	K	A	L	-	-	K	V	T	M	I	Q	K	Y	R	Q	L	-	-	-	-	-
A	Q	-	-	-	-	-	-	-	-	-	-	-	-	-	Q	S	P	Y	S	A	A	M	A	E	Q	R	H	Q	E	W	-	-	-	L	R	F	V	D	L	L	K	N	A	Y	Q	N	D	L	H	L	P	L	L	N	L	M	L	L	P	D	E	R	E	A	L	G	T	R	V	R	I	V	E	E	L	L	R	G	E	M	S	Q	R	E	L	K	N	E	L	-	G	A	G	-	I	A	T	I	T	R	G	S	N	Y	L	K	-	-	-	A	A	P	-	-	V	E	L	R	Q	W	L	E	E	V	L	L	-	-	-	-

Member	Chain	UniProtKB	GO term
d1j1va_	A	P03004	GO:0003677
d1j1va_	A	P03004	GO:0003688
d1j1va_	A	P03004	GO:0005524
d1j1va_	A	P03004	GO:0006270
d1j1va_	A	P03004	GO:0006275
d1j1va_	A	P03004	GO:0043565
d1l8qa1	A	O66659	GO:0003677
d1l8qa1	A	O66659	GO:0003688
d1l8qa1	A	O66659	GO:0005524
d1l8qa1	A	O66659	GO:0006270
d1l8qa1	A	O66659	GO:0006275
d1l8qa1	A	O66659	GO:0016887
d1l8qa1	A	O66659	GO:0043565

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

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

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