4LABA

Crystal structure of the catalytic domain of rlub
Total Genus 48
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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
48
sequence length
187
structure length
187
Chain Sequence
QICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTDGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLRELVELPPETS
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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 keywords Ribosomal large subunit pseudouridine synthase B
publication title The mechanism of pseudouridine synthases from a covalent complex with RNA, and alternate specificity for U2605 versus U2604 between close homologs.
pubmed doi rcsb
source organism Escherichia coli
molecule tags Rna binding protein
total genus 48
structure length 187
sequence length 187
ec nomenclature ec 5.4.99.22: 23S rRNA pseudouridine(2605) synthase.
pdb deposition date 2013-06-19

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00849 PseudoU_synth_2 RNA pseudouridylate synthase
A PF01479 S4 S4 domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.30.2350.10 Alpha Beta 2-Layer Sandwich Pseudouridine synthase Pseudouridine synthase 4labA00
1V9FA 1SGVA 1QYUA 2APOA 2RFKA 1KSLA 2AUSA 4LGTA 3LWRA 1PRZA 3HJYA 2ISTA 3LWQA 1R3FA 1KSKA 2AB4A 3HAXA 3DH3A 2HVYA 1R3EA 1V9KA 1XPIA 2EY4A 3LWVA 1ZE1A 4LABA 1ZL3A 3U28A 3UAIA 3LWOA 1ZE2A 1K8WA 3MQKA 3HJWA 1KSVA 2I82A 3LWPA
chains in the Genus database with same CATH superfamily
1V9FA 1SGVA 1QYUA 1SZWA 2APOA 2RFKA 1KSLA 2AUSA 4LGTA 3LWRA 1PRZA 3HJYA 2ISTA 1SI7A 3LWQA 1R3FA 1KSKA 2AB4A 3HAXA 3DH3A 2HVYA 1R3EA 1V9KA 1XPIA 2EY4A 3LWVA 1ZE1A 4LABA 1ZL3A 3U28A 3UAIA 3LWOA 1ZE2A 1K8WA 3MQKA 3HJWA 1Z2ZA 1KSVA 2I82A 1SB7A 3LWPA
chains in the Genus database with same CATH topology
1V9FA 1SGVA 1QYUA 1SZWA 2APOA 2RFKA 1KSLA 2AUSA 4LGTA 3LWRA 1PRZA 3HJYA 2ISTA 1SI7A 3LWQA 1R3FA 1KSKA 2AB4A 3HAXA 3DH3A 2HVYA 1R3EA 1V9KA 1XPIA 2EY4A 3LWVA 1ZE1A 4LABA 1ZL3A 3U28A 3UAIA 3LWOA 1ZE2A 1K8WA 3MQKA 3HJWA 1Z2ZA 1KSVA 2I82A 1SB7A 3LWPA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1V9F A;  1SGV A;  1QYU A;  2APO A;  2RFK A;  1KSL A;  2AUS A;  4LGT A;  3LWR A;  1PRZ A;  3HJY A;  2IST A;  3LWQ A;  1R3F A;  1KSK A;  2AB4 A;  3HAX A;  3DH3 A;  2HVY A;  1R3E A;  1V9K A;  1XPI A;  2EY4 A;  3LWV A;  1ZE1 A;  4LAB A;  1ZL3 A;  3U28 A;  3UAI A;  3LWO A;  1ZE2 A;  1K8W A;  3MQK A;  3HJW A;  1KSV A;  2I82 A;  3LWP A; 
#chains in the Genus database with same CATH topology
 1V9F A;  1SGV A;  1QYU A;  1SZW A;  2APO A;  2RFK A;  1KSL A;  2AUS A;  4LGT A;  3LWR A;  1PRZ A;  3HJY A;  2IST A;  1SI7 A;  3LWQ A;  1R3F A;  1KSK A;  2AB4 A;  3HAX A;  3DH3 A;  2HVY A;  1R3E A;  1V9K A;  1XPI A;  2EY4 A;  3LWV A;  1ZE1 A;  4LAB A;  1ZL3 A;  3U28 A;  3UAI A;  3LWO A;  1ZE2 A;  1K8W A;  3MQK A;  3HJW A;  1Z2Z A;  1KSV A;  2I82 A;  1SB7 A;  3LWP A; 
#chains in the Genus database with same CATH homology
 1V9F A;  1SGV A;  1QYU A;  1SZW A;  2APO A;  2RFK A;  1KSL A;  2AUS A;  4LGT A;  3LWR A;  1PRZ A;  3HJY A;  2IST A;  1SI7 A;  3LWQ A;  1R3F A;  1KSK A;  2AB4 A;  3HAX A;  3DH3 A;  2HVY A;  1R3E A;  1V9K A;  1XPI A;  2EY4 A;  3LWV A;  1ZE1 A;  4LAB A;  1ZL3 A;  3U28 A;  3UAI A;  3LWO A;  1ZE2 A;  1K8W A;  3MQK A;  3HJW A;  1Z2Z A;  1KSV A;  2I82 A;  1SB7 A;  3LWP 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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