The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.
Total Genus |
72
|
sequence length |
366
|
structure length |
366
|
Chain Sequence |
MKFTVEREHLLKPLQQVSGPLGGRPTLPILGNLLLQVADGTLSLTGTDLEMEMVARVALVQPHEPGATTVPARKFFDICRGLPEGAEIAVQLEGERMLVRSGRSRFSLSTLPAADFPNLDDWQSEVEFTLPQATMKRLIEATQFSMAHQDVRYYLNGMLFETEGEELRTVATDGHRLAVCSMPIGQSLPSHSVIVPRKGVIELMRMLDGGDNPLRVQIGSNNIRAHVGDFIFTSKLVDGRFPDYRRVLPKNPDKHLEAGCDLLKQAFARAAAASNEKFRGVRLYVSENQLKITANNPEQEEAEEILDVTYSGAEMEIGFNVSYVLDVLNALKCENVRMMLTDSVSSVQIEDAASQSAAYVVMPMRL
|
The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.
After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.
| publication title |
Mechanism of processivity clamp opening by the delta subunit wrench of the clamp loader complex of E. coli DNA polymerase III.
pubmed doi rcsb |
| molecule tags |
Transferase
|
| source organism |
Escherichia coli
|
| molecule keywords |
DNA polymerase III, beta chain
|
| total genus |
72
|
| structure length |
366
|
| sequence length |
366
|
| chains with identical sequence |
B
|
| ec nomenclature | |
| pdb deposition date | 2001-08-07 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF00712 | DNA_pol3_beta | DNA polymerase III beta subunit, N-terminal domain |
| A | PF02767 | DNA_pol3_beta_2 | DNA polymerase III beta subunit, central domain |
| A | PF02768 | DNA_pol3_beta_3 | DNA polymerase III beta subunit, C-terminal domain |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Alpha Beta | Roll | DNA Polymerase III; Chain A, domain 2 | DNA Polymerase III, subunit A, domain 2 | ||
| Alpha Beta | Roll | DNA Polymerase III; Chain A, domain 2 | DNA Polymerase III, subunit A, domain 2 | ||
| Alpha Beta | Roll | DNA Polymerase III; Chain A, domain 2 | DNA Polymerase III, subunit A, domain 2 |
#chains in the Genus database with same CATH superfamily 4PNU A; 3F1V A; 3L0X A; 1MMI A; 1VPK A; 2AVT A; 3Q4K A; 5FVE A; 4N94 A; 1UNN A; 3T0P A; 1JQL A; 3Q4J A; 4OVG A; 5AGU A; 4MJQ A; 5AH4 A; 4TSZ A; 3PGE B; 4N98 A; 4K3O A; 4N96 A; 4MJP A; 4PNV A; 4TRT A; 4K3P A; 4TR8 A; 4K3K A; 4TR6 A; 5AH2 A; 3RB9 A; 3D1G A; 3BEP A; 3L0W A; 4N99 A; 3Q4L A; 4K74 A; 4K3M A; 2POL A; 3PWE A; 3P16 A; 4TR7 A; 2XUR A; 1OK7 A; 4MJR A; 3D1E A; 5AGV A; 4K3L A; 1JQJ A; 4N97 A; 4S3I A; 3D1F A; 2AWA A; 4N9A A; 4RKI A; 4K3Q A; 3L10 A; 4K3S A; 5FRQ A; 4PNW A; 3QSB A; 4OVF A; 4OVH A; 4K3R A; 4N95 A; 3QSB B; #chains in the Genus database with same CATH topology 4PNU A; 3F1V A; 3L0X A; 1MMI A; 1VPK A; 2AVT A; 3Q4K A; 5FVE A; 3L0X B; 4N94 A; 1UNN A; 3T0P A; 1JQL A; 3PGE A; 3Q4J A; 4OVG A; 5AGU A; 4MJQ A; 5AH4 A; 4TSZ A; 3PGE B; 4N98 A; 4K3O A; 4N96 A; 4MJP A; 4PNV A; 4TRT A; 4K3P A; 4TR8 A; 4K3K A; 4TR6 A; 5AH2 A; 3RB9 A; 3D1G A; 3BEP A; 3L0W A; 4N99 A; 3Q4L A; 4K74 A; 4K3M A; 2POL A; 3PWE A; 3L0W B; 3P16 A; 4TR7 A; 2XUR A; 1OK7 A; 4MJR A; 3D1E A; 5AGV A; 4K3L A; 1JQJ A; 4N97 A; 4S3I A; 3D1F A; 2AWA A; 4N9A A; 4RKI A; 4K3Q A; 3L10 A; 4K3S A; 5FRQ A; 4PNW A; 3QSB A; 4OVF A; 4OVH A; 4K3R A; 3L10 B; 4N95 A; 3QSB B; #chains in the Genus database with same CATH homology 4PNU A; 3F1V A; 3L0X A; 1MMI A; 1VPK A; 2AVT A; 3Q4K A; 5FVE A; 4N94 A; 1UNN A; 3T0P A; 1JQL A; 3Q4J A; 4OVG A; 5AGU A; 4MJQ A; 5AH4 A; 4TSZ A; 3PGE B; 4N98 A; 4K3O A; 4N96 A; 4MJP A; 4PNV A; 4TRT A; 4K3P A; 4TR8 A; 4K3K A; 4TR6 A; 5AH2 A; 3RB9 A; 3D1G A; 3BEP A; 3L0W A; 4N99 A; 3Q4L A; 4K74 A; 4K3M A; 2POL A; 3PWE A; 3P16 A; 4TR7 A; 2XUR A; 1OK7 A; 4MJR A; 3D1E A; 5AGV A; 4K3L A; 1JQJ A; 4N97 A; 4S3I A; 3D1F A; 2AWA A; 4N9A A; 4RKI A; 4K3Q A; 3L10 A; 4K3S A; 5FRQ A; 4PNW A; 3QSB A; 4OVF A; 4OVH A; 4K3R A; 4N95 A; 3QSB B;
#similar chains in the Genus database (?% sequence similarity) ...loading similar chains, please wait... #similar chains, but unknotted ...loading similar chains, please wait... #similar chains in the pdb database (?% sequence similarity) ...loading similar chains, please wait...
