1R3EA

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 76
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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
76
sequence length
309
structure length
305
Chain Sequence
MKHGILVAYKPKGPTSHDVVDEVRKKLKTRKVGHGGTLDPFACGVLIIGVNQGTRILEFYKDLKKVYWVKMRLGLITETFDITGEVVEERECNVTEEEIREAIFSFVGEYDQVPPAYSAKKYKGERLYKLAREGKIINLPPKRVKIFKIWDVNIEGRDVSFRVEVSPGTYIRSLCMDIGYKLGCGATAVELVRESVGPHTIEESLNVFEAAPEEIENRIIPLEKCLEWLPRVVVHQESTKMILNGSQIHLEMLKEWDGFKKGEVVRVFNEEGRLLALAEAERNSSFLETLRKERVLTLRKVFNTR
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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 5'-R(*CP*UP*GP*UP*GP*UP*(FHU)P*CP*GP*AP*UP*CP*CP*AP*CP*AP*G)
publication title Crystal 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 Thermotoga maritima
molecule tags Lyase/rna
total genus 76
structure length 305
sequence length 309
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 PF01472 PUA PUA domain
A PF01509 TruB_N TruB family pseudouridylate synthase (N terminal domain)
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 1r3eA02
3.30.2350.10 Alpha Beta 2-Layer Sandwich Pseudouridine synthase Pseudouridine synthase 1r3eA01
3D79A 2J5TA 3UAIA 3LWOA 1WXWA 2J5VA 1IT7A 1Q7HA 1SGVA 1T5YA 1KSLA 1KSKA 1QYUA 1V9KA 2APOA 1ZE2A 3DH3A 3MQKA 2RFKA 2CX0A 1V9FA 1J2BA 2EY4A 1KSVA 1XPIA 4LGTA 4DMGA 3HJYA 3LWQA 1IT8A 3C0KA 3LWVA 2HVYA 4Q1TA 1ZS7A 1ZE1A 2CX1A 1R3EA 2AB4A 2AUSA 3HJWA 3LDFA 3HAXA 1PRZA 4LABA 2ISTA 1IQ8A 2P38A 1K8WA 3LWRA 1WXXA 2I82A 2B78A 1ZL3A 2AS0A 2Q07A 3LWPA 2CWWA 3U28A 1R3FA 3VSEA 1SQWA
chains in the Genus database with same CATH superfamily
1Z2ZA 1SGVA 2FRXA 2EY4A 1V9FA 1XPIA 3C0KA 2HVYA 3M65A 3M6VA 2AUSA 2E5OA 3HJWA 3HAXA 1PRZA 4LABA 2ISTA 3ZV0C 3LWPA 1KSVA 3VSEA 1XNEA 3M6XA 3UAIA 2J5VA 1KSKA 1QYUA 1ZE2A 2RFKA 1J2BA 4LGTA 3HJYA 1SI7A 1ZE1A 1R3EA 2AB4A 1IQ8A 2P38A 3LWRA 1K8WA 2I82A 2B78A 1UOYA 2AS0A 2Q07A 3M6WA 2J5TA 1TE7A 1Q7HA 3DH3A 2APOA 1V9KA 2CX0A 4TZ4C 4DMGA 1IT8A 3LWVA 1ZS7A 1SZWA 2DP9A 1WXXA 4CI2B 2CWWA 2Z0TA 1R3FA 3M6UA 1WK2A 3D79A 3LWOA 1WXWA 4CI3B 1KSLA 1IT7A 1T5YA 3MQKA 1SB7A 3M4XA 2ANEA 3LJCA 4CI1B 3LWQA 4Q1TA 2CX1A 3LDFA 1S04A 1ZBOA 2KKUA 1ZL3A 3U28A 3IUWA 1SQWA
chains in the Genus database with same CATH topology
3D79A 1Z2ZA 2J5TA 3UAIA 3LWOA 1WXWA 2J5VA 1IT7A 1Q7HA 1SGVA 1T5YA 1KSLA 1KSKA 1QYUA 1SB7A 1V9KA 1ZE2A 2APOA 3DH3A 2RFKA 2CX0A 1V9FA 1J2BA 2EY4A 1KSVA 1XPIA 4LGTA 4DMGA 3HJYA 1SI7A 1IT8A 3LWQA 3C0KA 3LWVA 2HVYA 4Q1TA 1ZS7A 1ZE1A 2CX1A 1R3EA 2AB4A 1SZWA 2AUSA 3HJWA 3LDFA 3HAXA 1PRZA 4LABA 2ISTA 3MQKA 1IQ8A 2P38A 1K8WA 3LWRA 1WXXA 2I82A 2B78A 1ZL3A 2AS0A 2Q07A 3LWPA 2CWWA 3U28A 1R3FA 3VSEA 1SQWA
chains in the Genus database with same CATH homology


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