1DMLA

Crystal structure of herpes simplex ul42 bound to the c-terminus of hsv pol
Total Genus 57
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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
57
sequence length
291
structure length
267
Chain Sequence
APCQVVLQGAELNGILQAFAPLRTSLLDSLLVMGDRGILIHNTIFGEQVFLPLEHSQFSRYRWRGPTAAFLSLVDQKRSLLSVFRANQYPDLRRVELAITGQAPFRTLVQRIWTTTSDGEAVELASETLMKRELTSFVVLVPQGTPDVQLRLTRPQLTKVLNATGADSATPTTFELGVNGKFSVFTTSTCVTFAAREEGNAKTVYGENTHRTFSVVVDDCSMRAVLRRLQVGGGTLKFFLTTPVPSLCVTATGPNAVSAVFLLKPQK
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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 Dna binding protein/transferase
source organism Human herpesvirus 1
publication title The crystal structure of an unusual processivity factor, herpes simplex virus UL42, bound to the C terminus of its cognate polymerase.
pubmed doi rcsb
molecule keywords DNA POLYMERASE PROCESSIVITY FACTOR
total genus 57
structure length 267
sequence length 291
chains with identical sequence C, E, G
ec nomenclature
pdb deposition date 1999-12-14

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF02282 Herpes_UL42 DNA polymerase processivity factor (UL42)
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 1dmlA00
3P83A 3FDSC 3V61B 1PLQA 5E0TA 2HIKB 4L60A 5IWDA 2HIIB 3WGWA 3U61F 1RWZA 3LX1A 5IXAA 5H0TA 3P87A 1GE8A 5IY4A 4L6PA 2ZVVA 3A2FB 1ISQA 1PLRA 1YYPA 2AWAA 3VKXA 3AIXA 5JNED 1VYJA 3FDSD 3GPMA 3A1JA 3F1WA 3HI8A 5E0VA 4YHRA 3HSLX 1W60A 1CZDA 1B77A 2OD8A 5CFKA 3AIXB 3G65A 4RJFA 3U5ZF 1DMLA 3GGRA 5A6DA 1UD9A 3G65B 1B8HA 2ZVLA 1RXZA 1T6LA 2ZVKA 2NTIA 5B7OA 3IFVA 3K4XA 3A1JC 5AUJA 2IJXA 1VYMA 3U60F 2IX2A 5DAIA 3G65C 5E0UA 5DA7A 1UL1A 2IO4A 3A1JB 3GGRC 3I2MX 1U7BA 1IZ5A 3AIZA 3V60B 2HIKA 4TR6A 3P91A 2AVTA 2NTIC 2HIIA 2IZOC 1RXMA 3LX2A 4HK1A 3GGRB 2Z0LA 2IX2C 3V62B 3TBLA 1U76A 2NTIB 4CS5A 2IZOB 4D2GA 3AIZC 5HACA 2HIKC 2IX2B 2HIIC 1AXCA 2ZVMA 3GPNA 1IZ4A 4ZTDA 2ZVWA 1SXJF 2IO4B
chains in the Genus database with same CATH superfamily
3P83A 3FDSC 3V61B 1PLQA 5E0TA 2HIKB 4L60A 5IWDA 2HIIB 3WGWA 3U61F 1RWZA 3LX1A 5IXAA 5H0TA 3P87A 1GE8A 5IY4A 4L6PA 2ZVVA 3A2FB 1ISQA 1PLRA 1YYPA 2AWAA 3VKXA 3AIXA 5JNED 1VYJA 3FDSD 3GPMA 3A1JA 3F1WA 3HI8A 5E0VA 4YHRA 3HSLX 1W60A 1CZDA 1B77A 2OD8A 5CFKA 3AIXB 3G65A 4RJFA 3U5ZF 1DMLA 3GGRA 5A6DA 1UD9A 3G65B 1B8HA 2ZVLA 1RXZA 1T6LA 2ZVKA 2NTIA 5B7OA 3IFVA 3K4XA 3A1JC 5AUJA 2IJXA 1VYMA 3U60F 2IX2A 5DAIA 3G65C 5E0UA 5DA7A 1UL1A 2IO4A 3A1JB 3GGRC 3I2MX 1U7BA 1IZ5A 3AIZA 3V60B 2HIKA 4TR6A 3P91A 2AVTA 2NTIC 2HIIA 2IZOC 1RXMA 3LX2A 4HK1A 3GGRB 2Z0LA 2IX2C 3V62B 3TBLA 1U76A 2NTIB 4CS5A 2IZOB 4D2GA 3AIZC 5HACA 2HIKC 2IX2B 2HIIC 1AXCA 2ZVMA 3GPNA 1IZ4A 4ZTDA 2ZVWA 1SXJF 2IO4B
chains in the Genus database with same CATH topology
3P83A 3FDSC 3V61B 1PLQA 5E0TA 2HIKB 4L60A 5IWDA 2HIIB 3WGWA 3U61F 1RWZA 3LX1A 5IXAA 5H0TA 3P87A 1GE8A 5IY4A 4L6PA 2ZVVA 3A2FB 1ISQA 1PLRA 1YYPA 2AWAA 3VKXA 3AIXA 5JNED 1VYJA 3FDSD 3GPMA 3A1JA 3F1WA 3HI8A 5E0VA 4YHRA 3HSLX 1W60A 1CZDA 1B77A 2OD8A 5CFKA 3AIXB 3G65A 4RJFA 3U5ZF 1DMLA 3GGRA 5A6DA 1UD9A 3G65B 1B8HA 2ZVLA 1RXZA 1T6LA 2ZVKA 2NTIA 5B7OA 3IFVA 3K4XA 3A1JC 5AUJA 2IJXA 1VYMA 3U60F 2IX2A 5DAIA 3G65C 5E0UA 5DA7A 1UL1A 2IO4A 3A1JB 3GGRC 3I2MX 1U7BA 1IZ5A 3AIZA 3V60B 2HIKA 4TR6A 3P91A 2AVTA 2NTIC 2HIIA 2IZOC 1RXMA 3LX2A 4HK1A 3GGRB 2Z0LA 2IX2C 3V62B 3TBLA 1U76A 2NTIB 4CS5A 2IZOB 4D2GA 3AIZC 5HACA 2HIKC 2IX2B 2HIIC 1AXCA 2ZVMA 3GPNA 1IZ4A 4ZTDA 2ZVWA 1SXJF 2IO4B
chains in the Genus database with same CATH homology


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