3Q4JA

Structure of a small peptide ligand bound to e.coli dna sliding clamp
Total Genus 90
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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
90
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/transferase inhibitor
molecule keywords DNA polymerase III subunit beta
publication title Structure-based design of short peptide ligands binding onto the E. coli processivity ring.
pubmed doi rcsb
source organism Escherichia coli
total genus 90
structure length 366
sequence length 366
chains with identical sequence B, C, D, E, F
ec nomenclature ec 2.7.7.7: DNA-directed DNA polymerase.
pdb deposition date 2010-12-23

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 3q4jA02
3.10.150.10 Alpha Beta Roll DNA Polymerase III; Chain A, domain 2 DNA Polymerase III, subunit A, domain 2 3q4jA03
3.10.150.10 Alpha Beta Roll DNA Polymerase III; Chain A, domain 2 DNA Polymerase III, subunit A, domain 2 3q4jA01
3PWEA 4OVGA 3D1GA 4TR6A 5AGVA 3Q4KA 3QSBA 4TR7A 3T0PA 4K3PA 2XURA 1UNNA 3D1EA 4N95A 3PGEB 4TRTA 4S3IA 1MMIA 4MJPA 5AGUA 4K3QA 5FVEA 5FRQA 3BEPA 4K3KA 3RB9A 4K3RA 4MJRA 3L10A 4N98A 3D1FA 3P16A 1OK7A 2AWAA 4TR8A 3Q4LA 4N97A 5AH2A 4PNUA 5AH4A 3F1VA 3L0WA 3Q4JA 3QSBB 4K3LA 4N99A 4PNWA 1JQLA 4K3OA 4K74A 4N94A 1JQJA 4PNVA 4N96A 4OVFA 4MJQA 4N9AA 4TSZA 2AVTA 2POLA 3L0XA 4K3MA 4K3SA 4RKIA 1VPKA 4OVHA
chains in the Genus database with same CATH superfamily
3PWEA 4OVGA 3D1GA 3L10B 4TR6A 5AGVA 3Q4KA 3QSBA 4TR7A 3T0PA 4K3PA 2XURA 1UNNA 3D1EA 3L0WB 4N95A 3PGEB 4TRTA 4S3IA 1MMIA 4MJPA 5AGUA 4K3QA 5FVEA 5FRQA 3BEPA 4K3KA 3RB9A 4K3RA 4MJRA 3L10A 4N98A 3L0XB 3D1FA 3P16A 1OK7A 2AWAA 4TR8A 3Q4LA 4N97A 5AH2A 4PNUA 3PGEA 5AH4A 3F1VA 3L0WA 3Q4JA 3QSBB 4K3LA 4N99A 4PNWA 1JQLA 4K3OA 4K74A 4N94A 1JQJA 4PNVA 4N96A 4OVFA 4MJQA 4N9AA 4TSZA 2AVTA 2POLA 3L0XA 4K3MA 4K3SA 4RKIA 1VPKA 4OVHA
chains in the Genus database with same CATH topology
3PWEA 4OVGA 3D1GA 4TR6A 5AGVA 3Q4KA 3QSBA 4TR7A 3T0PA 4K3PA 2XURA 1UNNA 3D1EA 4N95A 3PGEB 4TRTA 4S3IA 1MMIA 4MJPA 5AGUA 4K3QA 5FVEA 5FRQA 3BEPA 4K3KA 3RB9A 4K3RA 4MJRA 3L10A 4N98A 3D1FA 3P16A 1OK7A 2AWAA 4TR8A 3Q4LA 4N97A 5AH2A 4PNUA 5AH4A 3F1VA 3L0WA 3Q4JA 3QSBB 4K3LA 4N99A 4PNWA 1JQLA 4K3OA 4K74A 4N94A 1JQJA 4PNVA 4N96A 4OVFA 4MJQA 4N9AA 4TSZA 2AVTA 2POLA 3L0XA 4K3MA 4K3SA 4RKIA 1VPKA 4OVHA
chains in the Genus database with same CATH homology


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