4A7XA

Crystal structure of uridylate kinase from helicobacter pylori
Total Genus 77
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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
77
sequence length
234
structure length
234
Chain Sequence
NKRVLVKFSGEALAGDNQFGIDIHVLDHIAKEIKSLVENDIEVGIVIGGGNIIRGVSAAQGGIIRRTSGDYMGMLATVINAVAMQEALEHIGLDTRVQSAIEIKEICESYIYRKAIRHLEKGRVVIFGAGTGNPFFTTDTAATLRAIEIGSDLIIKATKVDGIYDKDPNKFKDAKKLDTLSYNDALIGDIEVMDDTAISLAKDNKLPIVVCNMFKKGNLLQVIKHQQGVFSMVK
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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.


  Genus data interpretation
Chord Diagram
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molecule tags Transferase
source organism Helicobacter pylori
publication title Structures of Helicobacter Pylori Uridylate Kinase: Insight Into Release of the Product Udp
pubmed doi rcsb
molecule keywords URIDYLATE KINASE
total genus 77
structure length 234
sequence length 234
chains with identical sequence B, C, D, E, F
ec nomenclature ec 2.7.4.22: UMP kinase.
pdb deposition date 2011-11-15

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00696 AA_kinase Amino acid kinase family
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.1160.10 Alpha Beta 3-Layer(aba) Sandwich Carbamate kinase Acetylglutamate kinase-like 4a7xA00
2IJ9A 4JZ8A 2W21A 2A1FA 2AKOA 3T7BA 3EK5A 2HMFA 2J4KA 4I49A 3S6GA 4F6TB 2CDQA 3D41A 3LL9A 4NDRB 3ZZFA 2R98A 3QUOA 4NDOB 3K52A 2J4JA 4A7XA 2JI5A 3C1NA 2WE5A 3C20A 3QVHA 1E19A 2BNDA 3ZZHA 2J0WA 4AXSA 1B7BA 3KZFA 2VA1A 4JZ9A 2R8VA 4NDQB 4NDRA 3AAWA 3LKKA 4NDOA 3LL5A 1OHBA 4AB7A 3L86A 2JJ4A 3NWYA 2WE4A 2BRIA 3K4YA 2OGXB 3L76A 3WWNA 3QURA 3WWMA 2WXBA 2J5VA 3ZZIA 2V5HA 2BUFA 2J0XA 4NDPB 1GSJA 3QUNA 4KZTA 2BNFA 2V4YA 2AP9A 3U6UA 4F6TA 3EK6A 2BTYA 1YBDA 2X2WA 3AB4A 3S6KA 3AB2A 2BNEA 4NDPA 3C1MA 4USJA 2J5TA 3QVFA 4JZ7A 1OH9A 1OHAA 4NDQA 1Z9DA 4Q1TA 2E9YA 3D2MA 3B8GA 3D40A 2BRXA 2JJXA 2RD5A 2BMUA 2OGXA 3K4OA 4OLCA 4A7WA 3ZZGA 3TVIA 2J4LA 3D2PA 3S6HA 3K56A 1GS5A
chains in the Genus database with same CATH superfamily
2IJ9A 4JZ8A 2W21A 2A1FA 2AKOA 3T7BA 3EK5A 2HMFA 2J4KA 4I49A 3S6GA 4F6TB 2CDQA 3D41A 3LL9A 4NDRB 3ZZFA 2R98A 3QUOA 4NDOB 3K52A 2J4JA 4A7XA 2JI5A 3C1NA 2WE5A 3C20A 3QVHA 1E19A 2BNDA 3ZZHA 2J0WA 4AXSA 1B7BA 3KZFA 2VA1A 4JZ9A 2R8VA 4NDQB 4NDRA 3AAWA 3LKKA 4NDOA 3LL5A 1OHBA 4AB7A 3L86A 2JJ4A 3NWYA 2WE4A 2BRIA 3K4YA 2OGXB 3L76A 3WWNA 3QURA 3WWMA 2WXBA 2J5VA 3ZZIA 2V5HA 2BUFA 2J0XA 4NDPB 1GSJA 3QUNA 4KZTA 2BNFA 2V4YA 2AP9A 3U6UA 4F6TA 3EK6A 2BTYA 1YBDA 2X2WA 3AB4A 3S6KA 3AB2A 2BNEA 4NDPA 3C1MA 4USJA 2J5TA 3QVFA 4JZ7A 1OH9A 1OHAA 4NDQA 1Z9DA 4Q1TA 2E9YA 3D2MA 3B8GA 3D40A 2BRXA 2JJXA 2RD5A 2BMUA 2OGXA 3K4OA 4OLCA 4A7WA 3ZZGA 3TVIA 2J4LA 3D2PA 3S6HA 3K56A 1GS5A
chains in the Genus database with same CATH topology
2IJ9A 4JZ8A 2W21A 2A1FA 2AKOA 3T7BA 3EK5A 2HMFA 2J4KA 4I49A 3S6GA 4F6TB 2CDQA 3D41A 3LL9A 4NDRB 3ZZFA 2R98A 3QUOA 4NDOB 3K52A 2J4JA 4A7XA 2JI5A 3C1NA 2WE5A 3C20A 3QVHA 1E19A 2BNDA 3ZZHA 2J0WA 4AXSA 1B7BA 3KZFA 2VA1A 4JZ9A 2R8VA 4NDQB 4NDRA 3AAWA 3LKKA 4NDOA 3LL5A 1OHBA 4AB7A 3L86A 2JJ4A 3NWYA 2WE4A 2BRIA 3K4YA 2OGXB 3L76A 3WWNA 3QURA 3WWMA 2WXBA 2J5VA 3ZZIA 2V5HA 2BUFA 2J0XA 4NDPB 1GSJA 3QUNA 4KZTA 2BNFA 2V4YA 2AP9A 3U6UA 4F6TA 3EK6A 2BTYA 1YBDA 2X2WA 3AB4A 3S6KA 3AB2A 2BNEA 4NDPA 3C1MA 4USJA 2J5TA 3QVFA 4JZ7A 1OH9A 1OHAA 4NDQA 1Z9DA 4Q1TA 2E9YA 3D2MA 3B8GA 3D40A 2BRXA 2JJXA 2RD5A 2BMUA 2OGXA 3K4OA 4OLCA 4A7WA 3ZZGA 3TVIA 2J4LA 3D2PA 3S6HA 3K56A 1GS5A
chains in the Genus database with same CATH homology

  
#chains in the Genus database with same CATH superfamily
 2IJ9 A;  4JZ8 A;  2W21 A;  2A1F A;  2AKO A;  3T7B A;  3EK5 A;  2HMF A;  2J4K A;  4I49 A;  3S6G A;  4F6T B;  2CDQ A;  3D41 A;  3LL9 A;  4NDR B;  3ZZF A;  2R98 A;  3QUO A;  4NDO B;  3K52 A;  2J4J A;  4A7X A;  2JI5 A;  3C1N A;  2WE5 A;  3C20 A;  3QVH A;  1E19 A;  2BND A;  3ZZH A;  2J0W A;  4AXS A;  1B7B A;  3KZF A;  2VA1 A;  4JZ9 A;  2R8V A;  4NDQ B;  4NDR A;  3AAW A;  3LKK A;  4NDO A;  3LL5 A;  1OHB A;  4AB7 A;  3L86 A;  2JJ4 A;  3NWY A;  2WE4 A;  2BRI A;  3K4Y A;  2OGX B;  3L76 A;  3WWN A;  3QUR A;  3WWM A;  2WXB A;  2J5V A;  3ZZI A;  2V5H A;  2BUF A;  2J0X A;  4NDP B;  1GSJ A;  3QUN A;  4KZT A;  2BNF A;  2V4Y A;  2AP9 A;  3U6U A;  4F6T A;  3EK6 A;  2BTY A;  1YBD A;  2X2W A;  3AB4 A;  3S6K A;  3AB2 A;  2BNE A;  4NDP A;  3C1M A;  4USJ A;  2J5T A;  3QVF A;  4JZ7 A;  1OH9 A;  1OHA A;  4NDQ A;  1Z9D A;  4Q1T A;  2E9Y A;  3D2M A;  3B8G A;  3D40 A;  2BRX A;  2JJX A;  2RD5 A;  2BMU A;  2OGX A;  3K4O A;  4OLC A;  4A7W A;  3ZZG A;  3TVI A;  2J4L A;  3D2P A;  3S6H A;  3K56 A;  1GS5 A; 
#chains in the Genus database with same CATH topology
 2IJ9 A;  4JZ8 A;  2W21 A;  2A1F A;  2AKO A;  3T7B A;  3EK5 A;  2HMF A;  2J4K A;  4I49 A;  3S6G A;  4F6T B;  2CDQ A;  3D41 A;  3LL9 A;  4NDR B;  3ZZF A;  2R98 A;  3QUO A;  4NDO B;  3K52 A;  2J4J A;  4A7X A;  2JI5 A;  3C1N A;  2WE5 A;  3C20 A;  3QVH A;  1E19 A;  2BND A;  3ZZH A;  2J0W A;  4AXS A;  1B7B A;  3KZF A;  2VA1 A;  4JZ9 A;  2R8V A;  4NDQ B;  4NDR A;  3AAW A;  3LKK A;  4NDO A;  3LL5 A;  1OHB A;  4AB7 A;  3L86 A;  2JJ4 A;  3NWY A;  2WE4 A;  2BRI A;  3K4Y A;  2OGX B;  3L76 A;  3WWN A;  3QUR A;  3WWM A;  2WXB A;  2J5V A;  3ZZI A;  2V5H A;  2BUF A;  2J0X A;  4NDP B;  1GSJ A;  3QUN A;  4KZT A;  2BNF A;  2V4Y A;  2AP9 A;  3U6U A;  4F6T A;  3EK6 A;  2BTY A;  1YBD A;  2X2W A;  3AB4 A;  3S6K A;  3AB2 A;  2BNE A;  4NDP A;  3C1M A;  4USJ A;  2J5T A;  3QVF A;  4JZ7 A;  1OH9 A;  1OHA A;  4NDQ A;  1Z9D A;  4Q1T A;  2E9Y A;  3D2M A;  3B8G A;  3D40 A;  2BRX A;  2JJX A;  2RD5 A;  2BMU A;  2OGX A;  3K4O A;  4OLC A;  4A7W A;  3ZZG A;  3TVI A;  2J4L A;  3D2P A;  3S6H A;  3K56 A;  1GS5 A; 
#chains in the Genus database with same CATH homology
 2IJ9 A;  4JZ8 A;  2W21 A;  2A1F A;  2AKO A;  3T7B A;  3EK5 A;  2HMF A;  2J4K A;  4I49 A;  3S6G A;  4F6T B;  2CDQ A;  3D41 A;  3LL9 A;  4NDR B;  3ZZF A;  2R98 A;  3QUO A;  4NDO B;  3K52 A;  2J4J A;  4A7X A;  2JI5 A;  3C1N A;  2WE5 A;  3C20 A;  3QVH A;  1E19 A;  2BND A;  3ZZH A;  2J0W A;  4AXS A;  1B7B A;  3KZF A;  2VA1 A;  4JZ9 A;  2R8V A;  4NDQ B;  4NDR A;  3AAW A;  3LKK A;  4NDO A;  3LL5 A;  1OHB A;  4AB7 A;  3L86 A;  2JJ4 A;  3NWY A;  2WE4 A;  2BRI A;  3K4Y A;  2OGX B;  3L76 A;  3WWN A;  3QUR A;  3WWM A;  2WXB A;  2J5V A;  3ZZI A;  2V5H A;  2BUF A;  2J0X A;  4NDP B;  1GSJ A;  3QUN A;  4KZT A;  2BNF A;  2V4Y A;  2AP9 A;  3U6U A;  4F6T A;  3EK6 A;  2BTY A;  1YBD A;  2X2W A;  3AB4 A;  3S6K A;  3AB2 A;  2BNE A;  4NDP A;  3C1M A;  4USJ A;  2J5T A;  3QVF A;  4JZ7 A;  1OH9 A;  1OHA A;  4NDQ A;  1Z9D A;  4Q1T A;  2E9Y A;  3D2M A;  3B8G A;  3D40 A;  2BRX A;  2JJX A;  2RD5 A;  2BMU A;  2OGX A;  3K4O A;  4OLC A;  4A7W A;  3ZZG A;  3TVI A;  2J4L A;  3D2P A;  3S6H A;  3K56 A;  1GS5 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)

  
#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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