4MJPA

E. coli sliding clamp in complex with (r)-vedaprofen
Total Genus 89

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
89
sequence length
364
structure length
361
Chain Sequence
MKFTVEREHLLKPLQQVSGPLGTLPILGNLLLQVADGTLSLTGTDLEMEMVARVALVQPHEPGATTVPARKFFDICRGLPEGAEIAVQLEGERMLVRSGRSRFSLSTLPAADFPNLDDWQSEVEFTLPQATMKRLIEATQFSMAHQDVRYYLNGMLFETEGEELRTVATDGHRLAVCSMPIGQSLPSHSVIVPRKGVIELMRMLDGGDNPLRVQIGSNNIRAHVGDFIFTSKLVDGRFPDYRRVLPKNPDKHLEAGCDLLKQAFARAAILSNEKFRGVRLYVSENQLKITANNPEQEEAEEILDVTYSGAEMEIGFNVSYVLDVLNALKCENVRMMLTDSVSSVQIEDAASQSAAYVVMPM
5010015020025030035035030025020015010050
020406080Genus Matrix

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
EMPTYS7 (87-93)S1 (2-6)TII1 (83-86)AH1 (7-19)S6 (66-71)3H1 (28-31)S3 (41-47)S2 (32-38)TIV1 (37-40)S5 (63-64)S4 (51-58)S17 (230-235)TIV2 (48-51)TII'3 (227-230)S16 (222-227)S9 (104-109)AH2 (72-81)TII'1 (93-96)S8 (96-101)TIV3 (101-104)3H2 (113-115)S10 (126-131)S13 (176-183)AH3 (132-141)TI5 (351-354)AH6 (321-331)TVIII2 (355-358)3H3 (143-145)TVIII1 (150-153)TIV4 (147-150)3H4 (153-156)S14 (191-195)S12 (166-172)S11 (158-163)S26 (357-361)TIV5 (173-176)S15 (213-218)TIV6 (249-252)S18 (254-259)S21 (301-307)AH5 (260-272)S20 (289-295)TI2 (276-279)S19 (280-286)TII2 (286-289)S22 (309-310)S23 (315-320)TI4 (342-345)S25 (347-351)AH4 (197-206)TII'2 (163-166)TI1 (219-222)3H5 (244-246)S24 (335-340)TIV7 (275-278)TI3 (296-299)Updating...
connected with : NaN
molecule tags Transferase/transferase inhibitor
source organism Escherichia coli
publication title DNA replication is the target for the antibacterial effects of nonsteroidal anti-inflammatory drugs.
pubmed doi rcsb
molecule keywords DNA polymerase III subunit beta
total genus 89
structure length 361
sequence length 364
chains with identical sequence B
ec nomenclature ec 2.7.7.7: DNA-directed DNA polymerase.
pdb deposition date 2013-09-04

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 4mjpA02
3.10.150.10 Alpha Beta Roll DNA Polymerase III; Chain A, domain 2 DNA Polymerase III, subunit A, domain 2 4mjpA03
3.10.150.10 Alpha Beta Roll DNA Polymerase III; Chain A, domain 2 DNA Polymerase III, subunit A, domain 2 4mjpA01
3L0XA 4MJRA 4K3QA 4RKIA 3BEPA 2AVTA 4OVGA 1JQJA 2XURA 3Q4JA 4K3KA 5AH4A 1VPKA 4N94A 4S3IA 3D1EA 5FVEA 4N96A 4TR6A 2AWAA 4MJQA 1UNNA 3Q4KA 3T0PA 4N97A 5AGUA 3PWEA 4N95A 3QSBB 3P16A 4N99A 4OVFA 3RB9A 4OVHA 4TR7A 4K3RA 3D1GA 4N9AA 4K3PA 3QSBA 4K3LA 4N98A 4PNUA 5AGVA 1MMIA 4TSZA 3Q4LA 3L10A 3F1VA 1OK7A 3PGEB 4PNWA 2POLA 3L0WA 5FRQA 1JQLA 4K3OA 3D1FA 4TR8A 5AH2A 4MJPA 4PNVA 4K74A 4K3SA 4TRTA 4K3MA
chains in the Genus database with same CATH superfamily
3L0XA 4MJRA 4K3QA 4RKIA 3BEPA 2AVTA 4OVGA 1JQJA 2XURA 3Q4JA 4K3KA 5AH4A 1VPKA 4N94A 4S3IA 3D1EA 5FVEA 4N96A 4TR6A 2AWAA 4MJQA 1UNNA 3Q4KA 3T0PA 4N97A 5AGUA 3PWEA 4N95A 3QSBB 3P16A 4N99A 4OVFA 3RB9A 4OVHA 4TR7A 4K3RA 3D1GA 3L10B 4K3PA 4N9AA 3QSBA 4K3LA 4N98A 4PNUA 5AGVA 1MMIA 4TSZA 3Q4LA 3L0WB 3L10A 3F1VA 1OK7A 3PGEB 4PNWA 2POLA 3L0WA 3L0XB 1JQLA 4K74A 4K3OA 3D1FA 4TR8A 5AH2A 5FRQA 4MJPA 4PNVA 3PGEA 4K3SA 4TRTA 4K3MA
chains in the Genus database with same CATH topology
3L0XA 4MJRA 4K3QA 4RKIA 3BEPA 2AVTA 4OVGA 1JQJA 2XURA 3Q4JA 4K3KA 5AH4A 1VPKA 4N94A 4S3IA 3D1EA 5FVEA 4N96A 4TR6A 2AWAA 4MJQA 1UNNA 3Q4KA 3T0PA 4N97A 5AGUA 3PWEA 4N95A 3QSBB 3P16A 4N99A 4OVFA 3RB9A 4OVHA 4TR7A 4K3RA 3D1GA 4N9AA 4K3PA 3QSBA 4K3LA 4N98A 4PNUA 5AGVA 1MMIA 4TSZA 3Q4LA 3L10A 3F1VA 1OK7A 3PGEB 4PNWA 2POLA 3L0WA 5FRQA 1JQLA 4K3OA 3D1FA 4TR8A 5AH2A 4MJPA 4PNVA 4K74A 4K3SA 4TRTA 4K3MA
chains in the Genus database with same CATH homology


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