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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publication title Structures of Helicobacter Pylori Uridylate Kinase: Insight Into Release of the Product Udp
pubmed doi rcsb
molecule tags Transferase
source organism Helicobacter pylori
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
2J4JA 3S6HA 1OHBA 2BRIA 2BMUA 2AP9A 2J5TA 3QVFA 4NDQB 3QVHA 2X2WA 1YBDA 3S6KA 4NDRB 3T7BA 3K4YA 3ZZGA 2BNEA 3D2PA 3D40A 3K4OA 3L86A 4F6TA 3ZZFA 2A1FA 4NDPA 1E19A 3WWMA 2HMFA 2RD5A 3ZZHA 4NDOA 1OHAA 3K56A 3WWNA 1GS5A 2JI5A 2BTYA 4JZ7A 3QUNA 2JJXA 2R98A 4A7XA 2WE4A 3C1NA 2VA1A 3B8GA 2OGXA 3QUOA 2BNFA 3EK5A 4USJA 3AB2A 4JZ8A 3AB4A 3LKKA 2W21A 3C1MA 4OLCA 3C20A 2J4LA 4NDQA 3KZFA 4JZ9A 3LL5A 2V4YA 2BRXA 2JJ4A 3D2MA 3EK6A 2WE5A 3TVIA 2WXBA 3D41A 4Q1TA 2J0XA 3AAWA 2J4KA 4F6TB 2J0WA 2E9YA 3K52A 3S6GA 4NDPB 1Z9DA 2BNDA 2BUFA 4A7WA 3LL9A 2V5HA 3NWYA 4NDOB 4NDRA 2AKOA 3L76A 3ZZIA 1B7BA 4AB7A 2R8VA 4AXSA 2CDQA 1OH9A 3QURA 1GSJA 4I49A 2OGXB 4KZTA 3U6UA 2IJ9A 2J5VA
chains in the Genus database with same CATH superfamily
2J4JA 3S6HA 1OHBA 2BRIA 2BMUA 2AP9A 2J5TA 3QVFA 4NDQB 3QVHA 2X2WA 1YBDA 3S6KA 4NDRB 3T7BA 3K4YA 3ZZGA 2BNEA 3D2PA 3D40A 3K4OA 3L86A 4F6TA 3ZZFA 2A1FA 4NDPA 1E19A 3WWMA 2HMFA 2RD5A 3ZZHA 4NDOA 1OHAA 3K56A 3WWNA 1GS5A 2JI5A 2BTYA 4JZ7A 3QUNA 2JJXA 2R98A 4A7XA 2WE4A 3C1NA 2VA1A 3B8GA 2OGXA 3QUOA 2BNFA 3EK5A 4USJA 3AB2A 4JZ8A 3AB4A 3LKKA 2W21A 3C1MA 4OLCA 3C20A 2J4LA 4NDQA 3KZFA 4JZ9A 3LL5A 2V4YA 2BRXA 2JJ4A 3D2MA 3EK6A 2WE5A 3TVIA 2WXBA 3D41A 4Q1TA 2J0XA 3AAWA 2J4KA 4F6TB 2J0WA 2E9YA 3K52A 3S6GA 4NDPB 1Z9DA 2BNDA 2BUFA 4A7WA 3LL9A 2V5HA 3NWYA 4NDOB 4NDRA 2AKOA 3L76A 3ZZIA 1B7BA 4AB7A 2R8VA 4AXSA 2CDQA 1OH9A 3QURA 1GSJA 4I49A 2OGXB 4KZTA 3U6UA 2IJ9A 2J5VA
chains in the Genus database with same CATH topology
2J4JA 3S6HA 1OHBA 2BRIA 2BMUA 2AP9A 2J5TA 3QVFA 4NDQB 3QVHA 2X2WA 1YBDA 3S6KA 4NDRB 3T7BA 3K4YA 3ZZGA 2BNEA 3D2PA 3D40A 3K4OA 3L86A 4F6TA 3ZZFA 2A1FA 4NDPA 1E19A 3WWMA 2HMFA 2RD5A 3ZZHA 4NDOA 1OHAA 3K56A 3WWNA 1GS5A 2JI5A 2BTYA 4JZ7A 3QUNA 2JJXA 2R98A 4A7XA 2WE4A 3C1NA 2VA1A 3B8GA 2OGXA 3QUOA 2BNFA 3EK5A 4USJA 3AB2A 4JZ8A 3AB4A 3LKKA 2W21A 3C1MA 4OLCA 3C20A 2J4LA 4NDQA 3KZFA 4JZ9A 3LL5A 2V4YA 2BRXA 2JJ4A 3D2MA 3EK6A 2WE5A 3TVIA 2WXBA 3D41A 4Q1TA 2J0XA 3AAWA 2J4KA 4F6TB 2J0WA 2E9YA 3K52A 3S6GA 4NDPB 1Z9DA 2BNDA 2BUFA 4A7WA 3LL9A 2V5HA 3NWYA 4NDOB 4NDRA 2AKOA 3L76A 3ZZIA 1B7BA 4AB7A 2R8VA 4AXSA 2CDQA 1OH9A 3QURA 1GSJA 4I49A 2OGXB 4KZTA 3U6UA 2IJ9A 2J5VA
chains in the Genus database with same CATH homology

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