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 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
molecule tags Lyase
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
1IT8A 1R3FA 1QYUA 1V9FA 1IQ8A 4LABA 1WXXA 2B78A 1V9KA 4LGTA 1KSKA 2RFKA 1ZL3A 3LWRA 2AB4A 1SQWA 1KSVA 3LWQA 3HJYA 3UAIA 2CX0A 1KSLA 3LDFA 2CX1A 1ZE2A 1PRZA 1R3EA 1Q7HA 1SGVA 3LWPA 3MQKA 1T5YA 1WXWA 2P38A 2AS0A 3D79A 1K8WA 3VSEA 1IT7A 2Q07A 1ZE1A 2J5VA 4DMGA 2APOA 3LWVA 2J5TA 3DH3A 3LWOA 1ZS7A 1J2BA 3U28A 2I82A 3HJWA 2HVYA 2EY4A 2ISTA 4Q1TA 3HAXA 2CWWA 1XPIA 3C0KA 2AUSA
chains in the Genus database with same CATH superfamily
3LJCA 1QYUA 1S04A 1TE7A 1WK2A 1KSKA 3M4XA 3LWRA 3M6WA 1KSLA 3LDFA 1Z2ZA 1ZE2A 3ZV0C 1WXWA 2P38A 2AS0A 1IT7A 1ZE1A 3LWOA 2Z0TA 3M6UA 2ISTA 3M65A 3M6VA 1XNEA 1IQ8A 4LABA 2B78A 2RFKA 1KSVA 3M6XA 1SGVA 3LWPA 1T5YA 3D79A 1K8WA 4DMGA 2J5VA 2APOA 3IUWA 1ZS7A 3U28A 2DP9A 2E5OA 1XPIA 1V9FA 4LGTA 4CI2B 1ZBOA 2AB4A 1SZWA 3LWQA 3HJYA 3UAIA 1PRZA 1Q7HA 2ANEA 3DH3A 2Q07A 3LWVA 2J5TA 1J2BA 1SB7A 3HJWA 2I82A 2HVYA 4Q1TA 2CWWA 3C0KA 2AUSA 1IT8A 1R3FA 1UOYA 1WXXA 1V9KA 4CI1B 1ZL3A 1SQWA 2KKUA 2CX0A 2CX1A 1R3EA 3MQKA 1SI7A 4TZ4C 3VSEA 2FRXA 2EY4A 3HAXA 4CI3B
chains in the Genus database with same CATH topology
1IT8A 1R3FA 1QYUA 1V9FA 1IQ8A 4LABA 1WXXA 2B78A 1V9KA 4LGTA 1KSKA 2RFKA 1ZL3A 3LWRA 2AB4A 1SQWA 1SZWA 1KSVA 3LWQA 3HJYA 3UAIA 2CX0A 1KSLA 3LDFA 2CX1A 1Z2ZA 1ZE2A 1PRZA 1R3EA 1Q7HA 1SGVA 3LWPA 3MQKA 1T5YA 1WXWA 2P38A 2AS0A 3D79A 1K8WA 1SI7A 3VSEA 1IT7A 2Q07A 1ZE1A 2J5VA 4DMGA 2APOA 3LWVA 2J5TA 3DH3A 3LWOA 1ZS7A 1J2BA 1SB7A 3U28A 2I82A 3HJWA 2HVYA 2EY4A 2ISTA 4Q1TA 3HAXA 2CWWA 1XPIA 3C0KA 2AUSA
chains in the Genus database with same CATH homology


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