3U5Z | Genus

Total Genus 39

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	39
sequence length	228
structure length	228
Chain Sequence	MKLSKDTTALLKNFATINSGIMLKSGQFIMTRAVNGTTYAEANISDVIDFDVAIYDLNGFLGILSLVNDDAEISQSEDGNIKIADARSTIFWPAADPSTVVAPNKPIPFPVASAVTEIKAEDLQQLLRVSRGLQIDTIAITVKEGKIVINGFNKVEDSALTRVKYSLTLGDYDGENTFNFIINMANMKMQPGNYKLLLWAKGKQGAAKFEGEHANYVVALEADSTHDF

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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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

molecule tags	Dna binding protein/dna
source organism	Enterobacteria phage t4
publication title	How a DNA polymerase clamp loader opens a sliding clamp. pubmed doi rcsb
molecule keywords	DNA polymerase accessory protein 44
total genus	39
structure length	228
sequence length	228
chains with identical sequence	G, H, P, Q, R
ec nomenclature
pdb deposition date	2011-10-11

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
F	PF02916	DNA_PPF	DNA polymerase processivity factor
F	PF09116	gp45-slide_C	gp45 sliding clamp, C terminal

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
3.70.10.10	Alpha Beta	Box	Proliferating Cell Nuclear Antigen	Proliferating Cell Nuclear Antigen	3u5zF00

2IX2C 1PLRA 3HI8A 3LX1A 3TBLA 5DA7A 2HIIC 2NTIC 3A1JC 1SXJF 5H0TA 4D2GA 2ZVWA 1U7BA 1W60A 3FDSC 1VYMA 1UL1A 3AIZA 5CFKA 3U60F 1B8HA 5HACA 2ZVMA 1B77A 5DAIA 5IWDA 2AVTA 3LX2A 3P83A 3F1WA 3VKXA 5E0TA 3V60B 4L60A 1YYPA 1RXZA 4ZTDA 1IZ5A 4CS5A 3IFVA 3G65A 2IO4A 2IJXA 2ZVKA 3G65B 1ISQA 2IO4B 3P91A 2HIIA 1PLQA 3AIZC 3V62B 3WGWA 3V61B 5B7OA 1T6LA 5AUJA 1RWZA 2IZOB 4L6PA 4HK1A 4TR6A 3I2MX 1GE8A 2HIKA 4RJFA 3P87A 3AIXA 5IXAA 1CZDA 3GGRA 2HIKB 1U76A 1VYJA 3AIXB 5IY4A 2IX2A 3U61F 3GGRB 2ZVVA 3K4XA 2IX2B 3GPMA 2ZVLA 1UD9A 3A2FB 3G65C 5E0UA 3U5ZF 3FDSD 2NTIA 3A1JA 2HIIB 3HSLX 1IZ4A 2Z0LA 2NTIB 2IZOC 3A1JB 1AXCA 2OD8A 2AWAA 4YHRA 5E0VA 3GPNA 2HIKC 1RXMA 1DMLA 5JNED 5A6DA 3GGRC
chains in the Genus database with same CATH superfamily

#chains in the Genus database with same CATH superfamily
 2IX2 C;  1PLR A;  3HI8 A;  3LX1 A;  3TBL A;  5DA7 A;  2HII C;  2NTI C;  3A1J C;  1SXJ F;  5H0T A;  4D2G A;  2ZVW A;  1U7B A;  1W60 A;  3FDS C;  1VYM A;  1UL1 A;  3AIZ A;  5CFK A;  3U60 F;  1B8H A;  5HAC A;  2ZVM A;  1B77 A;  5DAI A;  5IWD A;  2AVT A;  3LX2 A;  3P83 A;  3F1W A;  3VKX A;  5E0T A;  3V60 B;  4L60 A;  1YYP A;  1RXZ A;  4ZTD A;  1IZ5 A;  4CS5 A;  3IFV A;  3G65 A;  2IO4 A;  2IJX A;  2ZVK A;  3G65 B;  1ISQ A;  2IO4 B;  3P91 A;  2HII A;  1PLQ A;  3AIZ C;  3V62 B;  3WGW A;  3V61 B;  5B7O A;  1T6L A;  5AUJ A;  1RWZ A;  2IZO B;  4L6P A;  4HK1 A;  4TR6 A;  3I2M X;  1GE8 A;  2HIK A;  4RJF A;  3P87 A;  3AIX A;  5IXA A;  1CZD A;  3GGR A;  2HIK B;  1U76 A;  1VYJ A;  3AIX B;  5IY4 A;  2IX2 A;  3U61 F;  3GGR B;  2ZVV A;  3K4X A;  2IX2 B;  3GPM A;  2ZVL A;  1UD9 A;  3A2F B;  3G65 C;  5E0U A;  3U5Z F;  3FDS D;  2NTI A;  3A1J A;  2HII B;  3HSL X;  1IZ4 A;  2Z0L A;  2NTI B;  2IZO C;  3A1J B;  1AXC A;  2OD8 A;  2AWA A;  4YHR A;  5E0V A;  3GPN A;  2HIK C;  1RXM A;  1DML A;  5JNE D;  5A6D A;  3GGR C; 
#chains in the Genus database with same CATH topology
 2IX2 C;  1PLR A;  3HI8 A;  3LX1 A;  3TBL A;  5DA7 A;  2HII C;  2NTI C;  3A1J C;  1SXJ F;  5H0T A;  4D2G A;  2ZVW A;  1U7B A;  1W60 A;  3FDS C;  1VYM A;  1UL1 A;  3AIZ A;  5CFK A;  3U60 F;  1B8H A;  5HAC A;  2ZVM A;  1B77 A;  5DAI A;  5IWD A;  2AVT A;  3LX2 A;  3P83 A;  3F1W A;  3VKX A;  5E0T A;  3V60 B;  4L60 A;  1YYP A;  1RXZ A;  4ZTD A;  1IZ5 A;  4CS5 A;  3IFV A;  3G65 A;  2IO4 A;  2IJX A;  2ZVK A;  3G65 B;  1ISQ A;  2IO4 B;  3P91 A;  2HII A;  1PLQ A;  3AIZ C;  3V62 B;  3WGW A;  3V61 B;  5B7O A;  1T6L A;  5AUJ A;  1RWZ A;  2IZO B;  4L6P A;  4HK1 A;  4TR6 A;  3I2M X;  1GE8 A;  2HIK A;  4RJF A;  3P87 A;  3AIX A;  5IXA A;  1CZD A;  3GGR A;  2HIK B;  1U76 A;  1VYJ A;  3AIX B;  5IY4 A;  2IX2 A;  3U61 F;  3GGR B;  2ZVV A;  3K4X A;  2IX2 B;  3GPM A;  2ZVL A;  1UD9 A;  3A2F B;  3G65 C;  5E0U A;  3U5Z F;  3FDS D;  2NTI A;  3A1J A;  2HII B;  3HSL X;  1IZ4 A;  2Z0L A;  2NTI B;  2IZO C;  3A1J B;  1AXC A;  2OD8 A;  2AWA A;  4YHR A;  5E0V A;  3GPN A;  2HIK C;  1RXM A;  1DML A;  5JNE D;  5A6D A;  3GGR C; 
#chains in the Genus database with same CATH homology
 2IX2 C;  1PLR A;  3HI8 A;  3LX1 A;  3TBL A;  5DA7 A;  2HII C;  2NTI C;  3A1J C;  1SXJ F;  5H0T A;  4D2G A;  2ZVW A;  1U7B A;  1W60 A;  3FDS C;  1VYM A;  1UL1 A;  3AIZ A;  5CFK A;  3U60 F;  1B8H A;  5HAC A;  2ZVM A;  1B77 A;  5DAI A;  5IWD A;  2AVT A;  3LX2 A;  3P83 A;  3F1W A;  3VKX A;  5E0T A;  3V60 B;  4L60 A;  1YYP A;  1RXZ A;  4ZTD A;  1IZ5 A;  4CS5 A;  3IFV A;  3G65 A;  2IO4 A;  2IJX A;  2ZVK A;  3G65 B;  1ISQ A;  2IO4 B;  3P91 A;  2HII A;  1PLQ A;  3AIZ C;  3V62 B;  3WGW A;  3V61 B;  5B7O A;  1T6L A;  5AUJ A;  1RWZ A;  2IZO B;  4L6P A;  4HK1 A;  4TR6 A;  3I2M X;  1GE8 A;  2HIK A;  4RJF A;  3P87 A;  3AIX A;  5IXA A;  1CZD A;  3GGR A;  2HIK B;  1U76 A;  1VYJ A;  3AIX B;  5IY4 A;  2IX2 A;  3U61 F;  3GGR B;  2ZVV A;  3K4X A;  2IX2 B;  3GPM A;  2ZVL A;  1UD9 A;  3A2F B;  3G65 C;  5E0U A;  3U5Z F;  3FDS D;  2NTI A;  3A1J A;  2HII B;  3HSL X;  1IZ4 A;  2Z0L A;  2NTI B;  2IZO C;  3A1J B;  1AXC A;  2OD8 A;  2AWA A;  4YHR A;  5E0V A;  3GPN A;  2HIK C;  1RXM A;  1DML A;  5JNE D;  5A6D A;  3GGR C;

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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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3U5ZF

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

pfam database annotations