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

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

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
EMPTYS10 (195-205)TII'2 (205-208)S1 (13-19)TVIII1 (38-41)TII1 (20-23)AH1 (25-36)S3 (52-59)TI1 (48-51)S2 (41-43)TIV5 (272-275)3H1 (60-65)AH2 (66-71)TII'1 (164-167)S4 (74-82)S5 (84-86)S8 (154-164)S7 (117-118)S9 (167-174)3H2 (210-212)AH4 (180-191)AH6 (233-237)AH7 (258-266)3H4 (246-248)S11 (253-256)TII2 (175-178)TIV2 (86-89)TIV1 (81-84)AH3 (105-114)TI2 (243-246)TI3 (248-251)S6 (95-98)TIV4 (191-194)AH5 (216-229)Updating...
connected with : NaN
molecule tags Lyase
source organism Escherichia coli
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
molecule keywords tRNA pseudouridine synthase B
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
3HJYA 3LDFA 1R3EA 2HVYA 3D79A 1WXXA 1ZS7A 4DMGA 2AUSA 3MQKA 2B78A 3DH3A 2RFKA 1KSKA 1PRZA 1R3FA 1IT7A 1V9KA 3HAXA 4LABA 2AB4A 1WXWA 1J2BA 1IT8A 2CX1A 2I82A 2APOA 3U28A 1XPIA 3LWPA 1QYUA 1KSVA 4LGTA 3HJWA 1T5YA 1ZE2A 3VSEA 3LWOA 2J5TA 3LWVA 2Q07A 2J5VA 2CWWA 1K8WA 2CX0A 1ZL3A 1KSLA 1ZE1A 2P38A 2EY4A 1Q7HA 2ISTA 1SQWA 1SGVA 2AS0A 3UAIA 1IQ8A 4Q1TA 1V9FA 3LWRA 3LWQA 3C0KA
chains in the Genus database with same CATH superfamily
2HVYA 1WXXA 1ZS7A 3M6VA 2AUSA 2B78A 2RFKA 1XNEA 2FRXA 1SI7A 2CX1A 2I82A 3LWPA 1KSVA 3HJWA 4CI2B 2Q07A 1K8WA 1Q7HA 3UAIA 4DMGA 2KKUA 1R3FA 1IT7A 1V9KA 3LJCA 2Z0TA 3M65A 3U28A 1SZWA 3LWOA 2J5TA 4CI1B 2ANEA 1ZE1A 3IUWA 1SGVA 2AS0A 3M6UA 1R3EA 3D79A 3DH3A 1KSKA 2E5OA 3HAXA 2AB4A 1WXWA 1J2BA 1IT8A 1ZBOA 3M6XA 4LGTA 1SB7A 3VSEA 1WK2A 2J5VA 1S04A 1TE7A 2ISTA 4CI3B 1IQ8A 4Q1TA 3LWRA 3C0KA 4LABA 3HJYA 3LDFA 1UOYA 3MQKA 3ZV0C 1PRZA 4TZ4C 2DP9A 1Z2ZA 2APOA 1XPIA 1QYUA 1T5YA 1ZE2A 3M4XA 3LWVA 2CWWA 2CX0A 1ZL3A 1KSLA 2EY4A 2P38A 3M6WA 1SQWA 1V9FA 3LWQA
chains in the Genus database with same CATH topology
3HJYA 3LDFA 1R3EA 2HVYA 3D79A 1WXXA 1ZS7A 4DMGA 2AUSA 3MQKA 2B78A 3DH3A 2RFKA 1KSKA 1PRZA 1R3FA 1IT7A 1V9KA 3HAXA 4LABA 2AB4A 1WXWA 1J2BA 1IT8A 1SI7A 2CX1A 1Z2ZA 2I82A 2APOA 3U28A 1XPIA 3LWPA 1QYUA 1KSVA 4LGTA 3HJWA 1SZWA 1T5YA 1ZE2A 3VSEA 1SB7A 3LWOA 2J5TA 3LWVA 2Q07A 2J5VA 2CWWA 1K8WA 2CX0A 1ZL3A 1KSLA 1ZE1A 2P38A 2EY4A 1Q7HA 2ISTA 1SQWA 1SGVA 2AS0A 3UAIA 1IQ8A 4Q1TA 1V9FA 3LWRA 3LWQA 3C0KA
chains in the Genus database with same CATH homology


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