2HIK | Genus

Total Genus 55

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	55
sequence length	244
structure length	244
Chain Sequence	MKAKVIDAVSFSYILRTVGDFLSEANFIVTKEGIRVSGIDPSRVVFLDIFLPSSYFEGFEVSQEKEIIGFKLEDVNDILKRVLKDDTLILSSNESKLTLTFDGEFTRSFELPLIQVESTQPPSVNLEFPFKAQLLTITFADIIDELSDLGEVLNIHSKENKLYFEVIGDLSTAKVELSTDNGTLLEASGADVSSSYGMEYVANTTKMRRASDSMELYFGSQIPLKLRFKLPQEGYGDFYIAPRA

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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Time for openFile(/file/5cfd236b00b4f1fd3642bf59/pdb.gz): 517 ms

reading 244 atoms

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1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.

Default Van der Waals type for model set to Jmol

244 atoms created

ModelSet: autobonding; use autobond=false to not generate bonds automatically

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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

publication title	A Flexible Interface between DNA Ligase and PCNA Supports Conformational Switching and Efficient Ligation of DNA. pubmed doi rcsb
molecule keywords	PCNA1 (SSO0397)
molecule tags	Replication
source organism	Sulfolobus solfataricus
total genus	55
structure length	244
sequence length	244
chains with identical sequence	M, Y
ec nomenclature
pdb deposition date	2006-06-29

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
B	PF00705	PCNA_N	Proliferating cell nuclear antigen, N-terminal domain
B	PF02747	PCNA_C	Proliferating cell nuclear antigen, C-terminal domain

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	2hikB00

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

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

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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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2HIKB

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations