3BEP | Genus

Total Genus 92

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

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

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The Resolver thinks Pdb

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reading 366 atoms

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366 atoms created

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

Genus data interpretation

Chord Diagram

molecule tags	Transferase, transcription/dna
source organism	Escherichia coli
publication title	Structure of a sliding clamp on DNA pubmed doi rcsb
molecule keywords	DNA (5'-D(PDCPDCPDCPDAPDTPDCPDGPDTPDAPDT)-3')
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	Class	Architecture	Topology	Homology	Domain
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

3L0WA 3PWEA 2AWAA 4N99A 4MJRA 2XURA 4OVFA 3Q4KA 4PNWA 3RB9A 4K3OA 3Q4LA 4K3RA 4MJPA 4PNUA 5FRQA 4TR6A 1VPKA 4K3LA 5AH4A 4K3PA 3T0PA 4N98A 3PGEB 3F1VA 1OK7A 4MJQA 5AGVA 4OVHA 1JQJA 4K3QA 4OVGA 4N9AA 5FVEA 4N95A 4K3SA 4TRTA 3QSBB 4K74A 3D1FA 2AVTA 4TR7A 4PNVA 5AGUA 2POLA 3L0XA 4N94A 4S3IA 1UNNA 4TSZA 4K3KA 3QSBA 4K3MA 4N97A 4TR8A 3L10A 4N96A 1JQLA 3Q4JA 4RKIA 3P16A 5AH2A 3D1EA 3D1GA 1MMIA 3BEPA
chains in the Genus database with same CATH superfamily

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

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

#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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#similar chains in the pdb database (?% sequence similarity)
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3BEPA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations