1R3FA

Crystal structure of trna pseudouridine synthase trub and its rna complex: rna-protein recognition through a combination of rigid docking and induced fit
Total Genus 79
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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
79
sequence length
307
structure length
278
Chain Sequence
GRDINGVLLLDKPQGMSSNDALQKVKRIYNANRAGHTGALDPLATGMLPICLGEATKFSQYLLDSDKRYRVIARLGQRTDTSDADGQIVEERPVTFSAEQLAAALDTFRGDIEQIPITVYELLFIRHEGNELELEIHCSKGTYIRTIIDDLGEKLGCGAHVIYLRRLAVSKYPVERMVTLEHLRELVEQAEQQDIPAAELLDPLLMPMDSPASDYPVVNLPLTSSVYFKNGNPVRTSGAPLEGLVRVTEGENGKFIGMGEIDDEGRVAPRRLVVEYPA
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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 tags Lyase
molecule keywords tRNA pseudouridine synthase B
publication title Structure of tRNA Pseudouridine Synthase TruB and Its RNA Complex: RNA Recognition Through a Combination of Rigid Docking and Induced Fit
pubmed doi rcsb
source organism Escherichia coli
total genus 79
structure length 278
sequence length 307
ec nomenclature ec 5.4.99.25: tRNA pseudouridine(55) synthase.
pdb deposition date 2003-10-01

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01509 TruB_N TruB family pseudouridylate synthase (N terminal domain)
A PF09157 TruB-C_2 Pseudouridine synthase II TruB, C-terminal
A PF16198 TruB_C_2 tRNA pseudouridylate synthase B C-terminal domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.30.130.10 Mainly Beta Roll Archaeosine Trna-guanine Transglycosylase; Chain: A, domain 4 PUA domain 1r3fA02
3.30.2350.10 Alpha Beta 2-Layer Sandwich Pseudouridine synthase Pseudouridine synthase 1r3fA01
4LABA 3LWPA 1K8WA 1ZL3A 2I82A 1WXXA 1SGVA 2CWWA 2J5TA 1IT7A 2P38A 3VSEA 3LWVA 2Q07A 1T5YA 3MQKA 1SQWA 3LWOA 1R3FA 1ZS7A 1KSLA 2APOA 1PRZA 3U28A 3DH3A 1R3EA 2ISTA 3HAXA 1IT8A 3D79A 4Q1TA 1KSVA 1V9KA 4DMGA 1WXWA 1J2BA 2CX0A 3HJWA 1XPIA 1ZE2A 2HVYA 4LGTA 1KSKA 2AS0A 3UAIA 3C0KA 1QYUA 3LWQA 2AB4A 2EY4A 2RFKA 3LWRA 3HJYA 3LDFA 2CX1A 1IQ8A 1ZE1A 2B78A 2J5VA 2AUSA 1V9FA 1Q7HA
chains in the Genus database with same CATH superfamily
1TE7A 2Z0TA 1WXXA 3LWVA 1V9KA 1J2BA 1UOYA 3HJWA 1ZE2A 2AS0A 2KKUA 2RFKA 2CX1A 1ZE1A 4TZ4C 3M6XA 3M6WA 1SGVA 2J5TA 1IT7A 2P38A 2DP9A 3LJCA 2APOA 3HAXA 1IT8A 2CX0A 4LGTA 3M6UA 3M6VA 3ZV0C 2AB4A 1ZBOA 4CI3B 3LWRA 3LDFA 1IQ8A 2AUSA 1V9FA 1XNEA 1WK2A 1K8WA 1ZL3A 3MQKA 3LWOA 1SI7A 1PRZA 3M65A 2ISTA 4Q1TA 1KSVA 4DMGA 1SZWA 2ANEA 3LWQA 1QYUA 1SB7A 2B78A 2J5VA 3IUWA 1Q7HA 3LWPA 4LABA 2I82A 2E5OA 3M4XA 2CWWA 4CI2B 3VSEA 2Q07A 1T5YA 2FRXA 1SQWA 1R3FA 1ZS7A 1KSLA 3DH3A 3U28A 1R3EA 3D79A 1Z2ZA 1WXWA 1XPIA 2HVYA 1KSKA 1S04A 3UAIA 3C0KA 2EY4A 3HJYA 4CI1B
chains in the Genus database with same CATH topology
4LABA 3LWPA 1K8WA 1ZL3A 2I82A 1WXXA 1SGVA 2CWWA 2J5TA 1IT7A 2P38A 3VSEA 3LWVA 2Q07A 1T5YA 3MQKA 1SQWA 3LWOA 1R3FA 1ZS7A 1KSLA 1SI7A 1PRZA 2APOA 3U28A 3DH3A 1R3EA 2ISTA 3HAXA 1IT8A 3D79A 4Q1TA 1KSVA 1V9KA 4DMGA 1Z2ZA 1WXWA 1J2BA 2CX0A 3HJWA 1SZWA 1ZE2A 1XPIA 2HVYA 4LGTA 1KSKA 2AS0A 3UAIA 3C0KA 1QYUA 3LWQA 2AB4A 2EY4A 2RFKA 3LWRA 3HJYA 3LDFA 2CX1A 1SB7A 1IQ8A 1ZE1A 2B78A 2J5VA 2AUSA 1V9FA 1Q7HA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4LAB A;  3LWP A;  1K8W A;  1ZL3 A;  2I82 A;  1WXX A;  1SGV A;  2CWW A;  2J5T A;  1IT7 A;  2P38 A;  3VSE A;  3LWV A;  2Q07 A;  1T5Y A;  3MQK A;  1SQW A;  3LWO A;  1R3F A;  1ZS7 A;  1KSL A;  2APO A;  1PRZ A;  3U28 A;  3DH3 A;  1R3E A;  2IST A;  3HAX A;  1IT8 A;  3D79 A;  4Q1T A;  1KSV A;  1V9K A;  4DMG A;  1WXW A;  1J2B A;  2CX0 A;  3HJW A;  1XPI A;  1ZE2 A;  2HVY A;  4LGT A;  1KSK A;  2AS0 A;  3UAI A;  3C0K A;  1QYU A;  3LWQ A;  2AB4 A;  2EY4 A;  2RFK A;  3LWR A;  3HJY A;  3LDF A;  2CX1 A;  1IQ8 A;  1ZE1 A;  2B78 A;  2J5V A;  2AUS A;  1V9F A;  1Q7H A; 
#chains in the Genus database with same CATH topology
 1TE7 A;  2Z0T A;  1WXX A;  3LWV A;  1V9K A;  1J2B A;  1UOY A;  3HJW A;  1ZE2 A;  2AS0 A;  2KKU A;  2RFK A;  2CX1 A;  1ZE1 A;  4TZ4 C;  3M6X A;  3M6W A;  1SGV A;  2J5T A;  1IT7 A;  2P38 A;  2DP9 A;  3LJC A;  2APO A;  3HAX A;  1IT8 A;  2CX0 A;  4LGT A;  3M6U A;  3M6V A;  3ZV0 C;  2AB4 A;  1ZBO A;  4CI3 B;  3LWR A;  3LDF A;  1IQ8 A;  2AUS A;  1V9F A;  1XNE A;  1WK2 A;  1K8W A;  1ZL3 A;  3MQK A;  3LWO A;  1SI7 A;  1PRZ A;  3M65 A;  2IST A;  4Q1T A;  1KSV A;  4DMG A;  1SZW A;  2ANE A;  3LWQ A;  1QYU A;  1SB7 A;  2B78 A;  2J5V A;  3IUW A;  1Q7H A;  3LWP A;  4LAB A;  2I82 A;  2E5O A;  3M4X A;  2CWW A;  4CI2 B;  3VSE A;  2Q07 A;  1T5Y A;  2FRX A;  1SQW A;  1R3F A;  1ZS7 A;  1KSL A;  3DH3 A;  3U28 A;  1R3E A;  3D79 A;  1Z2Z A;  1WXW A;  1XPI A;  2HVY A;  1KSK A;  1S04 A;  3UAI A;  3C0K A;  2EY4 A;  3HJY A;  4CI1 B; 
#chains in the Genus database with same CATH homology
 4LAB A;  3LWP A;  1K8W A;  1ZL3 A;  2I82 A;  1WXX A;  1SGV A;  2CWW A;  2J5T A;  1IT7 A;  2P38 A;  3VSE A;  3LWV A;  2Q07 A;  1T5Y A;  3MQK A;  1SQW A;  3LWO A;  1R3F A;  1ZS7 A;  1KSL A;  1SI7 A;  1PRZ A;  2APO A;  3U28 A;  3DH3 A;  1R3E A;  2IST A;  3HAX A;  1IT8 A;  3D79 A;  4Q1T A;  1KSV A;  1V9K A;  4DMG A;  1Z2Z A;  1WXW A;  1J2B A;  2CX0 A;  3HJW A;  1SZW A;  1ZE2 A;  1XPI A;  2HVY A;  4LGT A;  1KSK A;  2AS0 A;  3UAI A;  3C0K A;  1QYU A;  3LWQ A;  2AB4 A;  2EY4 A;  2RFK A;  3LWR A;  3HJY A;  3LDF A;  2CX1 A;  1SB7 A;  1IQ8 A;  1ZE1 A;  2B78 A;  2J5V A;  2AUS A;  1V9F A;  1Q7H A; 
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similar chains in the pdb database (?% sequence similarity)

 
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