1SGVA

Structure of trna psi55 pseudouridine synthase (trub)
Total Genus 75

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
75
sequence length
290
structure length
262
Chain Sequence
ATGPGIVVIDKPAGMTSHDVVGRCRRIFATRRVGHAGTLDPMATGVLVIGIERATKILGLLTAAPKSYAATIRLGQTTSTEDAEGQVLQSVPAKHLTIEAIDAAMERLRGEILEARPIRIDRFELLAARRRDQLIDIDVEIDCSSGTYIRALARDLGDALGVGGHVTALRRTRVGRFELDQARSLDDLAERPALSLSLDEACLLMFARRDLTAAEASAAANGRSLPAVGIDGVYAACDADGRVIALLRDEGSRTRSVAVLRP

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
S1 (7-13)S10 (194-204)S9 (164-173)TII1 (14-17)AH1 (19-30)S3 (46-53)EMPTYO1 (33-35)S2 (35-37)3H1 (54-62)TI2 (63-66)TVIII1 (173-176)S4 (68-76)S6 (89-92)TII'1 (161-164)TIV1 (75-78)S5 (78-80)TI4 (84-87)TI3 (80-83)TI5 (95-98)S7 (112-114)AH3 (178-190)TII'2 (204-207)AH6 (243-251)AH5 (228-235)S11 (207-208)3H2 (209-211)S12 (226-227)S13 (237-240)TI1 (42-45)S8 (148-161)AH2 (100-110)AH4 (215-220)TVIII2 (224-227)Updating...
connected with : NaN
publication title Crystal structure of the apo forms of psi 55 tRNA pseudouridine synthase from Mycobacterium tuberculosis: a hinge at the base of the catalytic cleft.
pubmed doi rcsb
molecule tags Lyase
source organism Mycobacterium tuberculosis
molecule keywords tRNA pseudouridine synthase B
total genus 75
structure length 262
sequence length 290
chains with identical sequence B
ec nomenclature ec 5.4.99.25: tRNA pseudouridine(55) synthase.
pdb deposition date 2004-02-24

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01509 TruB_N TruB family pseudouridylate synthase (N terminal domain)
A PF09142 TruB_C tRNA Pseudouridine synthase II, 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 1sgvA02
3.30.2350.10 Alpha Beta 2-Layer Sandwich Pseudouridine synthase Pseudouridine synthase 1sgvA01
3LWOA 1KSLA 1Q7HA 2APOA 1ZS7A 4LABA 1R3FA 3HJWA 1KSVA 2RFKA 3C0KA 1XPIA 2EY4A 1PRZA 1SQWA 3UAIA 1KSKA 3DH3A 1IT7A 4LGTA 3HAXA 1QYUA 2Q07A 3MQKA 1IQ8A 1WXWA 2CX1A 1V9FA 3HJYA 2ISTA 3LWQA 1R3EA 2HVYA 1ZE1A 3LWPA 1K8WA 2I82A 2AB4A 2J5VA 1ZL3A 4DMGA 3LWVA 3U28A 2AUSA 2J5TA 1SGVA 1ZE2A 1V9KA 2AS0A 1WXXA 3LWRA 1T5YA 2CX0A 4Q1TA 3LDFA 2CWWA 2B78A 1J2BA 1IT8A 3D79A 3VSEA 2P38A
chains in the Genus database with same CATH superfamily
3LWOA 1ZS7A 1R3FA 1KSVA 3C0KA 1XPIA 3HAXA 2Z0TA 1IQ8A 2ANEA 2ISTA 3LWQA 1ZE1A 3M6UA 3U28A 2AUSA 2AS0A 1UOYA 1Q7HA 2APOA 2FRXA 3HJWA 2EY4A 1KSKA 1WK2A 1IT7A 3DH3A 1V9FA 2CX1A 3M6XA 2HVYA 4TZ4C 1K8WA 3IUWA 2J5VA 1ZL3A 3LWVA 3LJCA 1SGVA 1SB7A 4Q1TA 2CWWA 2E5OA 3D79A 1KSLA 4LABA 2RFKA 1PRZA 4CI3B 3UAIA 4LGTA 1XNEA 2Q07A 3MQKA 1WXWA 4CI1B 3M65A 1SZWA 4DMGA 2J5TA 1ZE2A 1ZBOA 1Z2ZA 1J2BA 3LDFA 1IT8A 3VSEA 3M6WA 2P38A 2KKUA 2DP9A 3M4XA 1SQWA 1QYUA 3M6VA 3HJYA 1S04A 1SI7A 1R3EA 3LWPA 2AB4A 3ZV0C 1TE7A 1V9KA 1WXXA 3LWRA 1T5YA 2CX0A 2B78A 2I82A 4CI2B
chains in the Genus database with same CATH topology
3LWOA 1KSLA 1Q7HA 2APOA 1ZS7A 4LABA 1R3FA 3HJWA 1KSVA 2RFKA 3C0KA 1XPIA 2EY4A 1PRZA 1SQWA 3UAIA 1KSKA 3DH3A 1IT7A 4LGTA 3HAXA 1QYUA 2Q07A 3MQKA 1IQ8A 1WXWA 2CX1A 1SI7A 1V9FA 3HJYA 2ISTA 3LWQA 1R3EA 1SZWA 1ZE1A 2HVYA 3LWPA 1K8WA 2I82A 2AB4A 2J5VA 1ZL3A 4DMGA 3LWVA 3U28A 2AUSA 2J5TA 1SGVA 1ZE2A 1V9KA 2AS0A 1WXXA 1SB7A 1Z2ZA 3LWRA 1T5YA 2CX0A 4Q1TA 3LDFA 2CWWA 2B78A 1J2BA 1IT8A 3D79A 3VSEA 2P38A
chains in the Genus database with same CATH homology


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