2VA1A

Crystal structure of ump kinase from ureaplasma parvum
Total Genus 81
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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
81
sequence length
234
structure length
226
Chain Sequence
RKQRIVIKISGACLKQNDSSIIDFIKINDLAEQIEKISKKYIVSIVLGGGNIWRGSIAKELDMDRNLADNMGMMATIINGLALENALNHLNVNTIVLSAIKCDKLVHESSANNIKKAIEKEQVMIFVAGTGFPYFTTDSCAAIRAAETESSIILMGKNGVDGVYDSDFYEHITFNMALTQNLKVMDATALALCQENNINLLVFNIDKPNAIVDVLEKKNKYTIVSK
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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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publication title Structural and Functional Investigations of Ureaplasma Parvum Ump Kinase - a Potential Antibacterial Drug Target
pubmed doi rcsb
source organism Ureaplasma parvum
molecule tags Transferase
molecule keywords URIDYLATE KINASE
total genus 81
structure length 226
sequence length 234
chains with identical sequence B, C, D, E, F
ec nomenclature ec 2.7.4.22: UMP kinase.
pdb deposition date 2007-08-28

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 2va1A00
4USJA 2AKOA 1E19A 2AP9A 3QVFA 3EK6A 2J0WA 1GSJA 2JJXA 3QURA 4A7WA 4F6TB 3KZFA 4F6TA 3EK5A 3LL9A 2BMUA 2BUFA 3L76A 3K4YA 1Z9DA 3ZZFA 3D41A 2J0XA 2R8VA 4NDPB 4KZTA 3WWMA 3B8GA 2J4KA 3C1MA 3C1NA 4NDRB 2J4JA 4NDQB 3K52A 4AXSA 2BNFA 4AB7A 4NDQA 2E9YA 4NDRA 4I49A 1OHAA 3D2PA 2WXBA 4NDPA 2VA1A 4A7XA 1B7BA 2J5TA 2V4YA 3AAWA 2OGXA 2WE4A 3ZZIA 2BRXA 2RD5A 1YBDA 2HMFA 3U6UA 3AB4A 4JZ9A 2BRIA 1OHBA 3LL5A 2OGXB 2BNEA 3K56A 4NDOB 4Q1TA 2JJ4A 2JI5A 4OLCA 4JZ8A 2IJ9A 3TVIA 2BNDA 3K4OA 3LKKA 3ZZGA 3C20A 3AB2A 2A1FA 4NDOA 3NWYA 3T7BA 3L86A 2WE5A 2BTYA 2J5VA 2J4LA 4JZ7A 3S6KA 1GS5A 3S6HA 3QUNA 2CDQA 3QUOA 3S6GA 1OH9A 3D2MA 3ZZHA 2W21A 3WWNA 2X2WA 3D40A 3QVHA 2R98A 2V5HA
chains in the Genus database with same CATH superfamily
4USJA 2AKOA 1E19A 2AP9A 3QVFA 3EK6A 2J0WA 1GSJA 2JJXA 3QURA 4A7WA 4F6TB 3KZFA 4F6TA 3EK5A 3LL9A 2BMUA 2BUFA 3L76A 3K4YA 1Z9DA 3ZZFA 3D41A 2J0XA 2R8VA 4NDPB 4KZTA 3WWMA 3B8GA 2J4KA 3C1MA 3C1NA 4NDRB 2J4JA 4NDQB 3K52A 4AXSA 2BNFA 4AB7A 4NDQA 2E9YA 4NDRA 4I49A 1OHAA 3D2PA 2WXBA 4NDPA 2VA1A 4A7XA 1B7BA 2J5TA 2V4YA 3AAWA 2OGXA 2WE4A 3ZZIA 2BRXA 2RD5A 1YBDA 2HMFA 3U6UA 3AB4A 4JZ9A 2BRIA 1OHBA 3LL5A 2OGXB 2BNEA 3K56A 4NDOB 4Q1TA 2JJ4A 2JI5A 4OLCA 4JZ8A 2IJ9A 3TVIA 2BNDA 3K4OA 3LKKA 3ZZGA 3C20A 3AB2A 2A1FA 4NDOA 3NWYA 3T7BA 3L86A 2WE5A 2BTYA 2J5VA 2J4LA 4JZ7A 3S6KA 1GS5A 3S6HA 3QUNA 2CDQA 3QUOA 3S6GA 1OH9A 3D2MA 3ZZHA 2W21A 3WWNA 2X2WA 3D40A 3QVHA 2R98A 2V5HA
chains in the Genus database with same CATH topology
4USJA 2AKOA 1E19A 2AP9A 3QVFA 3EK6A 2J0WA 1GSJA 2JJXA 3QURA 4A7WA 4F6TB 3KZFA 4F6TA 3EK5A 3LL9A 2BMUA 2BUFA 3L76A 3K4YA 1Z9DA 3ZZFA 3D41A 2J0XA 2R8VA 4NDPB 4KZTA 3WWMA 3B8GA 2J4KA 3C1MA 3C1NA 4NDRB 2J4JA 4NDQB 3K52A 4AXSA 2BNFA 4AB7A 4NDQA 2E9YA 4NDRA 4I49A 1OHAA 3D2PA 2WXBA 4NDPA 2VA1A 4A7XA 1B7BA 2J5TA 2V4YA 3AAWA 2OGXA 2WE4A 3ZZIA 2BRXA 2RD5A 1YBDA 2HMFA 3U6UA 3AB4A 4JZ9A 2BRIA 1OHBA 3LL5A 2OGXB 2BNEA 3K56A 4NDOB 4Q1TA 2JJ4A 2JI5A 4OLCA 4JZ8A 2IJ9A 3TVIA 2BNDA 3K4OA 3LKKA 3ZZGA 3C20A 3AB2A 2A1FA 4NDOA 3NWYA 3T7BA 3L86A 2WE5A 2BTYA 2J5VA 2J4LA 4JZ7A 3S6KA 1GS5A 3S6HA 3QUNA 2CDQA 3QUOA 3S6GA 1OH9A 3D2MA 3ZZHA 2W21A 3WWNA 2X2WA 3D40A 3QVHA 2R98A 2V5HA
chains in the Genus database with same CATH homology


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