3Q4KA

Structure of a small peptide ligand bound to e.coli dna sliding clamp
Total Genus 79
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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
79
sequence length
365
structure length
356
Chain Sequence
MKFTVEREHLLKPLQQVSTLPILGNLLLQVADGTLSLTGTDLEMEMVARVALVQPHEPGATTVPARKFFDICRGLPEGAEIAVQLEGERMLVRSGRSRFSLSTLPAADFPNLDDWQSEVEFTLPQATMKRLIEATQFSMAHQDVRYYLNGMLFETEGEELRTVATDGHRLAVCSMPIGQSLPSHSVIVPRKGVIELMRMLDGGDNPLRVQIGSNNIRAHVGDFIFTSKLVDGRFPDYRRVLPPDKHLEAGCDLLKQAFARAAILSNEKFRGVRLYVSENQLKITANNPEQEEAEEILDVTYSGAEMEIGFNVSYVLDVLNALKCENVRMMLTDSVSSVQIEDAASQSAAYVVMPMR
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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 79
structure length 356
sequence length 365
chains with identical sequence B
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 3q4kA02
3.10.150.10 Alpha Beta Roll DNA Polymerase III; Chain A, domain 2 DNA Polymerase III, subunit A, domain 2 3q4kA03
3.10.150.10 Alpha Beta Roll DNA Polymerase III; Chain A, domain 2 DNA Polymerase III, subunit A, domain 2 3q4kA01
4N9AA 1UNNA 3Q4LA 4K3KA 3L10A 4K3LA 4PNVA 4N96A 1JQJA 3D1FA 3F1VA 4N97A 5AH2A 4MJQA 4N94A 4S3IA 1OK7A 2AVTA 4K74A 2AWAA 4K3RA 4N99A 4K3SA 4PNUA 4TSZA 4N98A 3T0PA 4K3OA 3QSBB 4K3MA 1MMIA 4MJRA 1VPKA 4TR7A 3Q4KA 3D1GA 4OVHA 3QSBA 3P16A 4MJPA 5AGUA 3RB9A 5AGVA 2POLA 3D1EA 4N95A 4PNWA 4RKIA 5AH4A 5FVEA 3PWEA 4TR6A 4OVGA 4OVFA 2XURA 3L0WA 3PGEB 3Q4JA 5FRQA 3BEPA 4TRTA 3L0XA 4K3PA 1JQLA 4TR8A 4K3QA
chains in the Genus database with same CATH superfamily
4N9AA 1UNNA 3PGEA 3Q4LA 3L10A 4K3KA 4K3LA 4PNVA 4N96A 1JQJA 3D1FA 3F1VA 4N97A 5AH2A 4MJQA 4N94A 4S3IA 1OK7A 2AVTA 4K74A 2AWAA 4K3RA 4N99A 4K3SA 4PNUA 4TSZA 4N98A 3T0PA 4K3OA 3QSBB 4K3MA 1MMIA 4MJRA 1VPKA 4TR7A 3Q4KA 3D1GA 4OVHA 3QSBA 3P16A 4MJPA 5AGUA 3RB9A 5AGVA 2POLA 3D1EA 4N95A 4PNWA 4RKIA 5AH4A 5FVEA 3PWEA 3L0WB 4TR6A 3L0XB 4OVGA 4OVFA 2XURA 3L0WA 3PGEB 3L10B 3Q4JA 5FRQA 3BEPA 4TRTA 3L0XA 4K3PA 1JQLA 4TR8A 4K3QA
chains in the Genus database with same CATH topology
4N9AA 1UNNA 3Q4LA 4K3KA 3L10A 4K3LA 4PNVA 4N96A 1JQJA 3D1FA 3F1VA 4N97A 5AH2A 4MJQA 4N94A 4S3IA 1OK7A 2AVTA 4K74A 2AWAA 4K3RA 4N99A 4K3SA 4PNUA 4TSZA 4N98A 3T0PA 4K3OA 3QSBB 4K3MA 1MMIA 4MJRA 1VPKA 4TR7A 3Q4KA 3D1GA 4OVHA 3QSBA 3P16A 4MJPA 5AGUA 3RB9A 5AGVA 2POLA 3D1EA 4N95A 4PNWA 4RKIA 5AH4A 5FVEA 3PWEA 4TR6A 4OVGA 4OVFA 2XURA 3L0WA 3PGEB 3Q4JA 5FRQA 3BEPA 4TRTA 3L0XA 4K3PA 1JQLA 4TR8A 4K3QA
chains in the Genus database with same CATH homology


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