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  
d1r71a-  ( 139 )    eadqvienLqrneltpreiAdfIgrElak-gkkkgdIAkeIgkspafItq
d6sdka2  ( 116 )    e-----------dlspleeAqaYdsllkhldltqeqlAkrlgksrphian
d7bm8a2  ( 140 )               adlnvleeAlsykvlmekfertqenIAqtigksrshVan
                                   aaaaaaaaaaaaa     aaaaaaaa   aaaaaa

                             60        70        80        90        100 
d1r71a-  ( 188 )    hvtLldLpekIadafntgrVrdvtVVneLvtafkkrpeeVeawLdd-dtq
d6sdka2  ( 155 )    hlrlltlpeniqqliaegtls--ghGrtllgl--knknkleplvqkviae
d7bm8a2  ( 179 )    TmrLlalpdvqlga-------------------------gaaAaaadpaa
                    aa                                                

                             110     
d1r71a-  ( 237 )    eItrgtVkllreflde 
d6sdka2  ( 202 )    qlnvrqleqliqqlnqn
d7bm8a2

Domains
Outliers

Domain ID	Name	Family	Source	STRING-DB
d1r71a- # 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 d1r71a- # 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	Transcriptional repressor protein KorB DNA-binding domain	KorB DNA-binding domain-like	Escherichia coli [TaxId: 562]	view
d6sdka2 # 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 d6sdka2 # 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	Bacillus subtilis [TaxId: 224308]	view
d7bm8a2 # 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 d7bm8a2 # 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	Caulobacter vibrioides [TaxId: 565050]	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
E	A	D	Q	V	I	E	N	L	Q	R	N	E	L	T	P	R	E	I	A	D	F	I	G	R	E	L	A	K	-	G	K	K	K	G	D	I	A	K	E	I	G	K	S	P	A	F	I	T	Q	H	V	T	L	L	D	L	P	E	K	I	A	D	A	F	N	T	G	R	V	R	D	V	T	V	V	N	E	L	V	T	A	F	K	K	R	P	E	E	V	E	A	W	L	D	D	-	D	T	Q	E	I	T	R	G	T	V	K	L	L	R	E	F	L	D	E	-
E	-	-	-	-	-	-	-	-	-	-	-	D	L	S	P	L	E	E	A	Q	A	Y	D	S	L	L	K	H	L	D	L	T	Q	E	Q	L	A	K	R	L	G	K	S	R	P	H	I	A	N	H	L	R	L	L	T	L	P	E	N	I	Q	Q	L	I	A	E	G	T	L	S	-	-	G	H	G	R	T	L	L	G	L	-	-	K	N	K	N	K	L	E	P	L	V	Q	K	V	I	A	E	Q	L	N	V	R	Q	L	E	Q	L	I	Q	Q	L	N	Q	N
-	-	-	-	-	-	-	-	-	-	-	A	D	L	N	V	L	E	E	A	L	S	Y	K	V	L	M	E	K	F	E	R	T	Q	E	N	I	A	Q	T	I	G	K	S	R	S	H	V	A	N	T	M	R	L	L	A	L	P	D	V	Q	L	G	A	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	G	A	A	A	A	A	A	D	P	A	A	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

Member	Chain	UniProtKB	GO term
d1r71a_	A	P07674	GO:0003677

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

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

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