3U5ZF

Structure of t4 bacteriophage clamp loader bound to the t4 clamp, primer-template dna, and atp analog
Total Genus 39
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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
39
sequence length
228
structure length
228
Chain Sequence
MKLSKDTTALLKNFATINSGIMLKSGQFIMTRAVNGTTYAEANISDVIDFDVAIYDLNGFLGILSLVNDDAEISQSEDGNIKIADARSTIFWPAADPSTVVAPNKPIPFPVASAVTEIKAEDLQQLLRVSRGLQIDTIAITVKEGKIVINGFNKVEDSALTRVKYSLTLGDYDGENTFNFIINMANMKMQPGNYKLLLWAKGKQGAAKFEGEHANYVVALEADSTHDF
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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.

molecule tags Dna binding protein/dna
molecule keywords DNA polymerase accessory protein 44
publication title How a DNA polymerase clamp loader opens a sliding clamp.
pubmed doi rcsb
source organism Enterobacteria phage t4
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
ClassArchitectureTopologyHomologyDomain
3.70.10.10 Alpha Beta Box Proliferating Cell Nuclear Antigen Proliferating Cell Nuclear Antigen 3u5zF00
5IY4A 2HIIB 1VYMA 1PLRA 5DA7A 3V61B 5A6DA 4YHRA 3WGWA 4RJFA 2IO4B 4D2GA 1B8HA 1DMLA 3TBLA 2ZVWA 1AXCA 3AIXB 5E0VA 2Z0LA 3P83A 1RWZA 1RXMA 2ZVVA 1ISQA 3V60B 2HIIA 2HIIC 3IFVA 4CS5A 3LX2A 5DAIA 1SXJF 2OD8A 2IO4A 2ZVLA 2HIKA 2HIKC 1U76A 3K4XA 2HIKB 5E0TA 3HSLX 1IZ4A 4HK1A 5AUJA 2NTIA 2NTIC 2NTIB 3AIXA 3V62B 1RXZA 3A2FB 5IWDA 3GGRB 2IJXA 1VYJA 3G65A 3G65C 2IX2B 3G65B 2IZOC 5IXAA 2IZOB 3GPMA 3P87A 2ZVMA 5B7OA 1YYPA 5CFKA 3A1JA 3A1JC 3A1JB 4ZTDA 3FDSD 1IZ5A 5E0UA 1CZDA 3VKXA 1GE8A 3GGRA 3GGRC 3AIZA 1UL1A 1PLQA 3U60F 3HI8A 2IX2A 2IX2C 4L60A 1UD9A 3U5ZF 5H0TA 1T6LA 1W60A 5HACA 3U61F 3GPNA 3I2MX 3LX1A 2AWAA 4L6PA 3P91A 4TR6A 1B77A 3FDSC 2AVTA 5JNED 3F1WA 3AIZC 1U7BA 2ZVKA
chains in the Genus database with same CATH superfamily
5IY4A 2HIIB 1VYMA 1PLRA 5DA7A 3V61B 5A6DA 4YHRA 3WGWA 4RJFA 2IO4B 4D2GA 1B8HA 1DMLA 3TBLA 2ZVWA 1AXCA 3AIXB 5E0VA 2Z0LA 3P83A 1RWZA 1RXMA 2ZVVA 1ISQA 3V60B 2HIIA 2HIIC 3IFVA 4CS5A 3LX2A 5DAIA 1SXJF 2OD8A 2IO4A 2ZVLA 2HIKA 2HIKC 1U76A 3K4XA 2HIKB 5E0TA 3HSLX 1IZ4A 4HK1A 5AUJA 2NTIA 2NTIC 2NTIB 3AIXA 3V62B 1RXZA 3A2FB 5IWDA 3GGRB 2IJXA 1VYJA 3G65A 3G65C 2IX2B 3G65B 2IZOC 5IXAA 2IZOB 3GPMA 3P87A 2ZVMA 5B7OA 1YYPA 5CFKA 3A1JA 3A1JC 3A1JB 4ZTDA 3FDSD 1IZ5A 5E0UA 1CZDA 3VKXA 1GE8A 3GGRA 3GGRC 3AIZA 1UL1A 1PLQA 3U60F 3HI8A 2IX2A 2IX2C 4L60A 1UD9A 3U5ZF 5H0TA 1T6LA 1W60A 5HACA 3U61F 3GPNA 3I2MX 3LX1A 2AWAA 4L6PA 3P91A 4TR6A 1B77A 3FDSC 2AVTA 5JNED 3F1WA 3AIZC 1U7BA 2ZVKA
chains in the Genus database with same CATH topology
5IY4A 2HIIB 1VYMA 1PLRA 5DA7A 3V61B 5A6DA 4YHRA 3WGWA 4RJFA 2IO4B 4D2GA 1B8HA 1DMLA 3TBLA 2ZVWA 1AXCA 3AIXB 5E0VA 2Z0LA 3P83A 1RWZA 1RXMA 2ZVVA 1ISQA 3V60B 2HIIA 2HIIC 3IFVA 4CS5A 3LX2A 5DAIA 1SXJF 2OD8A 2IO4A 2ZVLA 2HIKA 2HIKC 1U76A 3K4XA 2HIKB 5E0TA 3HSLX 1IZ4A 4HK1A 5AUJA 2NTIA 2NTIC 2NTIB 3AIXA 3V62B 1RXZA 3A2FB 5IWDA 3GGRB 2IJXA 1VYJA 3G65A 3G65C 2IX2B 3G65B 2IZOC 5IXAA 2IZOB 3GPMA 3P87A 2ZVMA 5B7OA 1YYPA 5CFKA 3A1JA 3A1JC 3A1JB 4ZTDA 3FDSD 1IZ5A 5E0UA 1CZDA 3VKXA 1GE8A 3GGRA 3GGRC 3AIZA 1UL1A 1PLQA 3U60F 3HI8A 2IX2A 2IX2C 4L60A 1UD9A 3U5ZF 5H0TA 1T6LA 1W60A 5HACA 3U61F 3GPNA 3I2MX 3LX1A 2AWAA 4L6PA 3P91A 4TR6A 1B77A 3FDSC 2AVTA 5JNED 3F1WA 3AIZC 1U7BA 2ZVKA
chains in the Genus database with same CATH homology


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

 
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