3BEPA

Structure of a sliding clamp on dna
Total Genus 92
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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
92
sequence length
366
structure length
366
Chain Sequence
MKFTVEREHLLKPLQQVSGPLGGRPTLPILGNLLLQVADGTLSLTGTDLEMEMVARVALVQPHEPGATTVPARKFFDICRGLPEGAEIAVQLEGERMLVRSGRSRFSLSTLPAADFPNLDDWQSEVEFTLPQATMKRLIEATQFSMAHQDVRYYLNGMLFETEGEELRTVATDGHRLAVCSMPIGQSLPSHSVIVPRKGVIELMRMLDGGDNPLRVQIGSNNIRAHVGDFIFTSKLVDGRFPDYRRVLPKNPDKHLEAGCDLLKQAFARAAILSNEKFRGVRLYVSENQLKITANNPEQEEAEEILDVTYSGAEMEIGFNVSYVLDVLNALKCENVRMMLTDSVSSVQIEDAASQSAAYVVMPMRL
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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.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Chord Diagram
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molecule tags Transferase, transcription/dna
molecule keywords DNA (5'-D(P*DCP*DCP*DCP*DAP*DTP*DCP*DGP*DTP*DAP*DT)-3')
publication title Structure of a sliding clamp on DNA
pubmed doi rcsb
source organism Escherichia coli
total genus 92
structure length 366
sequence length 366
chains with identical sequence B
ec nomenclature ec 2.7.7.7: DNA-directed DNA polymerase.
pdb deposition date 2007-11-19

pfam database annotations

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
ClassArchitectureTopologyHomologyDomain
3.10.150.10 Alpha Beta Roll DNA Polymerase III; Chain A, domain 2 DNA Polymerase III, subunit A, domain 2 3bepA02
3.10.150.10 Alpha Beta Roll DNA Polymerase III; Chain A, domain 2 DNA Polymerase III, subunit A, domain 2 3bepA03
3.10.150.10 Alpha Beta Roll DNA Polymerase III; Chain A, domain 2 DNA Polymerase III, subunit A, domain 2 3bepA01
4TRTA 5AH2A 4K3RA 3L10A 3Q4KA 3PGEB 4MJPA 3PWEA 4S3IA 5FRQA 4K3QA 4K3SA 4N9AA 4N99A 4N97A 4OVGA 3T0PA 4TSZA 3Q4LA 4K3OA 4K3LA 1VPKA 4OVHA 2AWAA 3BEPA 4K74A 4PNUA 4RKIA 4N96A 3D1FA 1MMIA 3D1EA 4OVFA 4PNVA 4N94A 3Q4JA 5AGVA 4K3PA 4TR6A 4K3MA 3L0WA 4N95A 4MJRA 2POLA 4TR8A 3QSBA 4PNWA 2XURA 5AH4A 3QSBB 1JQLA 3RB9A 3D1GA 3F1VA 4MJQA 3L0XA 3P16A 5FVEA 4TR7A 1OK7A 4K3KA 4N98A 1JQJA 5AGUA 1UNNA 2AVTA
chains in the Genus database with same CATH superfamily
4TRTA 5AH2A 3PGEA 3L10A 3Q4KA 3PGEB 4K3RA 4MJPA 3PWEA 4S3IA 5FRQA 3L10B 4K3QA 4K3SA 4N9AA 4N99A 4N97A 4OVGA 3T0PA 4TSZA 3Q4LA 4K3OA 4K3LA 1VPKA 4OVHA 2AWAA 3BEPA 4K74A 4PNUA 4RKIA 4N96A 3D1FA 1MMIA 3D1EA 4OVFA 4PNVA 4N94A 3Q4JA 5AGVA 4K3PA 4TR6A 4K3MA 3L0WA 4N95A 4MJRA 2POLA 4TR8A 3QSBA 3L0WB 4PNWA 2XURA 5AH4A 3QSBB 1JQLA 3RB9A 3D1GA 3F1VA 4MJQA 3L0XA 3P16A 5FVEA 4TR7A 1OK7A 3L0XB 4K3KA 4N98A 1JQJA 5AGUA 1UNNA 2AVTA
chains in the Genus database with same CATH topology
4TRTA 5AH2A 4K3RA 3L10A 3Q4KA 3PGEB 4MJPA 3PWEA 4S3IA 5FRQA 4K3QA 4K3SA 4N9AA 4N99A 4N97A 4OVGA 3T0PA 4TSZA 3Q4LA 4K3OA 4K3LA 1VPKA 4OVHA 2AWAA 3BEPA 4K74A 4PNUA 4RKIA 4N96A 3D1FA 1MMIA 3D1EA 4OVFA 4PNVA 4N94A 3Q4JA 5AGVA 4K3PA 4TR6A 4K3MA 3L0WA 4N95A 4MJRA 2POLA 4TR8A 3QSBA 4PNWA 2XURA 5AH4A 3QSBB 1JQLA 3RB9A 3D1GA 3F1VA 4MJQA 3L0XA 3P16A 5FVEA 4TR7A 1OK7A 4K3KA 4N98A 1JQJA 5AGUA 1UNNA 2AVTA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4TRT A;  5AH2 A;  4K3R A;  3L10 A;  3Q4K A;  3PGE B;  4MJP A;  3PWE A;  4S3I A;  5FRQ A;  4K3Q A;  4K3S A;  4N9A A;  4N99 A;  4N97 A;  4OVG A;  3T0P A;  4TSZ A;  3Q4L A;  4K3O A;  4K3L A;  1VPK A;  4OVH A;  2AWA A;  3BEP A;  4K74 A;  4PNU A;  4RKI A;  4N96 A;  3D1F A;  1MMI A;  3D1E A;  4OVF A;  4PNV A;  4N94 A;  3Q4J A;  5AGV A;  4K3P A;  4TR6 A;  4K3M A;  3L0W A;  4N95 A;  4MJR A;  2POL A;  4TR8 A;  3QSB A;  4PNW A;  2XUR A;  5AH4 A;  3QSB B;  1JQL A;  3RB9 A;  3D1G A;  3F1V A;  4MJQ A;  3L0X A;  3P16 A;  5FVE A;  4TR7 A;  1OK7 A;  4K3K A;  4N98 A;  1JQJ A;  5AGU A;  1UNN A;  2AVT A; 
#chains in the Genus database with same CATH topology
 4TRT A;  5AH2 A;  3PGE A;  3L10 A;  3Q4K A;  3PGE B;  4K3R A;  4MJP A;  3PWE A;  4S3I A;  5FRQ A;  3L10 B;  4K3Q A;  4K3S A;  4N9A A;  4N99 A;  4N97 A;  4OVG A;  3T0P A;  4TSZ A;  3Q4L A;  4K3O A;  4K3L A;  1VPK A;  4OVH A;  2AWA A;  3BEP A;  4K74 A;  4PNU A;  4RKI A;  4N96 A;  3D1F A;  1MMI A;  3D1E A;  4OVF A;  4PNV A;  4N94 A;  3Q4J A;  5AGV A;  4K3P A;  4TR6 A;  4K3M A;  3L0W A;  4N95 A;  4MJR A;  2POL A;  4TR8 A;  3QSB A;  3L0W B;  4PNW A;  2XUR A;  5AH4 A;  3QSB B;  1JQL A;  3RB9 A;  3D1G A;  3F1V A;  4MJQ A;  3L0X A;  3P16 A;  5FVE A;  4TR7 A;  1OK7 A;  3L0X B;  4K3K A;  4N98 A;  1JQJ A;  5AGU A;  1UNN A;  2AVT A; 
#chains in the Genus database with same CATH homology
 4TRT A;  5AH2 A;  4K3R A;  3L10 A;  3Q4K A;  3PGE B;  4MJP A;  3PWE A;  4S3I A;  5FRQ A;  4K3Q A;  4K3S A;  4N9A A;  4N99 A;  4N97 A;  4OVG A;  3T0P A;  4TSZ A;  3Q4L A;  4K3O A;  4K3L A;  1VPK A;  4OVH A;  2AWA A;  3BEP A;  4K74 A;  4PNU A;  4RKI A;  4N96 A;  3D1F A;  1MMI A;  3D1E A;  4OVF A;  4PNV A;  4N94 A;  3Q4J A;  5AGV A;  4K3P A;  4TR6 A;  4K3M A;  3L0W A;  4N95 A;  4MJR A;  2POL A;  4TR8 A;  3QSB A;  4PNW A;  2XUR A;  5AH4 A;  3QSB B;  1JQL A;  3RB9 A;  3D1G A;  3F1V A;  4MJQ A;  3L0X A;  3P16 A;  5FVE A;  4TR7 A;  1OK7 A;  4K3K A;  4N98 A;  1JQJ A;  5AGU A;  1UNN A;  2AVT A; 
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
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