1RLVA

Crystal structure of a dimeric archaeal splicing endonuclease
Total Genus 99
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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
99
sequence length
304
structure length
304
Chain Sequence
IGGDFAVVKAKKSLERRGFGVKRGDKIYLHPLEVVYLQIKGIESFGELEDVLSWAESRMEDFSTYYFVYEDLRDRGNKVKIQGEFLLTKKPYLPISERKTIRMEEIAEKARNFDELRLAVVDEESEITYFRVYEPDMMGEQKEELPEIAGVLSDEYVITKQTEIFSRYFYGSEKGDLVTLSLIESLYLLDLGKLNLLNADREELVKRAREVERNFDRRYEVYRNLKERGFVVKTGFKFGSEFRVYRKVESVDDLPHSEYLVDIADSREIRLIDLARAVRLAQNVRKRMVFAYGKNYLCFERVKV
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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 Hydrolase
molecule keywords Putative tRNA-intron endonuclease
publication title Crystal structure of a dimeric Archaeal Splicing Endonuclease
pubmed doi rcsb
source organism Archaeoglobus fulgidus
total genus 99
structure length 304
sequence length 304
chains with identical sequence B
ec nomenclature ec 4.6.1.16: tRNA-intron lyase.
pdb deposition date 2003-11-26

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01974 tRNA_int_endo tRNA intron endonuclease, catalytic C-terminal domain
A PF02778 tRNA_int_endo_N tRNA intron endonuclease, N-terminal domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.1170.20 Alpha Beta 3-Layer(aba) Sandwich MutS, DNA mismatch repair protein, domain I tRNA intron endonuclease, N-terminal domain 1rlvA02
3.40.1350.10 Alpha Beta 3-Layer(aba) Sandwich Trna Endonuclease; Chain: A, domain 1 Trna Endonuclease; Chain: A, domain 1 1rlvA03
3.40.1350.150 Alpha Beta 3-Layer(aba) Sandwich Trna Endonuclease; Chain: A, domain 1 Trna Endonuclease; Chain: A, domain 1 1rlvA01
3P1ZA 1R0VA 1OB8A 5FDKA 1Y88A 3IEYB 2WIZA 2OKFA 3AJVB 2GJWA 2VLDA 2OSTA 1F1ZA 2WCZA 4QBLA 1Y1OA 1XMXA 1IPIA 3DNXA 1ZP7A 1GEFA 3FOVA 2WIWA 1T0FA 3IF0X 1HH1A 1R11A 2ZYZA 2GW6A 3P1ZB 4TKDA 1RZNA 3IEYA 1OB9A 4FZ2A 4TKKA 2WCWA 3AJVA 4QBNA 2CV8A 2WJ0A 1RLVA 3P1YA 2EO0A 2FCOA 1A79A 4QBOA 2ZYZB 2INBA
chains in the Genus database with same CATH superfamily
3P1ZA 1R0VA 1OB8A 1Y88A 1F1ZA 2WCZA 4LQEA 4QBLA 1XMXA 1OH6A 3IF0X 2IXSA 1HH1A 2ZYZA 3IEYA 2FLCA 3THWB 2WCWA 1WBBA 2FWRA 2WTUA 3ZLJA 3P1YA 1WBDA 1A79A 1NG9A 2FZ4A 3THYB 5FDKA 2VS1A 1Y1OA 2CZRA 2O8FB 1IPIA 4DA2A 2O8BB 2FKCA 1ZP7A 2WIWA 2O8EB 4DAVA 2GW6A 3P1ZB 4TKKA 3AJVA 2DBSA 4QBNA 2WJ0A 2O8CA 3THXA 2O8DA 2FCOA 4QBOA 1OH8A 4EV1A 2ZYZB 2INBA 4G6VA 3IEYB 2WIZA 4E6ZA 2FKHB 2OSTA 1W7AA 4ZQUA 1WB9A 1E3MA 1YNMA 4DAPA 2W8MA 3DNXA 1GEFA 3FOVA 1OH7A 1R11A 4TKDA 3BT7A 4FZ2A 3K0SA 2JJQA 2EO0A 2BH2A 2FL3A 3THWA 2OKFA 3AJVB 2GJWA 2VLDA 1EWQA 2O8CB 3THXB 2O8DB 1OH5A 1FW6A 1T0FA 1NNEA 2Z0RA 3THYA 4G6UA 1RZNA 1OB9A 2CV8A 2O8FA 1UWVA 2O8BA 1RLVA 2O8EA
chains in the Genus database with same CATH topology
3P1ZA 4G6VA 1R0VA 1OB8A 5FDKA 2FL3A 1Y88A 2VS1A 3IEYB 2WIZA 2OKFA 3AJVB 2GJWA 2VLDA 4E6ZA 1F1ZA 2WCZA 2FKHB 2OSTA 4LQEA 4QBLA 4ZQUA 1Y1OA 1XMXA 2CZRA 1IPIA 1YNMA 4DA2A 2W8MA 3DNXA 4DAPA 2FKCA 1ZP7A 1GEFA 3FOVA 2WIWA 1T0FA 2IXSA 3IF0X 1HH1A 4DAVA 1R11A 2Z0RA 2ZYZA 2GW6A 3P1ZB 4TKDA 4G6UA 1RZNA 3BT7A 3IEYA 1OB9A 2FLCA 4FZ2A 4TKKA 2WCWA 3AJVA 2DBSA 4QBNA 2CV8A 2WJ0A 1UWVA 1RLVA 3P1YA 2JJQA 2EO0A 2FCOA 1A79A 4QBOA 4EV1A 2ZYZB 2INBA 2BH2A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 3P1Z A;  1R0V A;  1OB8 A;  5FDK A;  1Y88 A;  3IEY B;  2WIZ A;  2OKF A;  3AJV B;  2GJW A;  2VLD A;  2OST A;  1F1Z A;  2WCZ A;  4QBL A;  1Y1O A;  1XMX A;  1IPI A;  3DNX A;  1ZP7 A;  1GEF A;  3FOV A;  2WIW A;  1T0F A;  3IF0 X;  1HH1 A;  1R11 A;  2ZYZ A;  2GW6 A;  3P1Z B;  4TKD A;  1RZN A;  3IEY A;  1OB9 A;  4FZ2 A;  4TKK A;  2WCW A;  3AJV A;  4QBN A;  2CV8 A;  2WJ0 A;  1RLV A;  3P1Y A;  2EO0 A;  2FCO A;  1A79 A;  4QBO A;  2ZYZ B;  2INB A; 
#chains in the Genus database with same CATH topology
 3P1Z A;  1R0V A;  1OB8 A;  1Y88 A;  1F1Z A;  2WCZ A;  4LQE A;  4QBL A;  1XMX A;  1OH6 A;  3IF0 X;  2IXS A;  1HH1 A;  2ZYZ A;  3IEY A;  2FLC A;  3THW B;  2WCW A;  1WBB A;  2FWR A;  2WTU A;  3ZLJ A;  3P1Y A;  1WBD A;  1A79 A;  1NG9 A;  2FZ4 A;  3THY B;  5FDK A;  2VS1 A;  1Y1O A;  2CZR A;  2O8F B;  1IPI A;  4DA2 A;  2O8B B;  2FKC A;  1ZP7 A;  2WIW A;  2O8E B;  4DAV A;  2GW6 A;  3P1Z B;  4TKK A;  3AJV A;  2DBS A;  4QBN A;  2WJ0 A;  2O8C A;  3THX A;  2O8D A;  2FCO A;  4QBO A;  1OH8 A;  4EV1 A;  2ZYZ B;  2INB A;  4G6V A;  3IEY B;  2WIZ A;  4E6Z A;  2FKH B;  2OST A;  1W7A A;  4ZQU A;  1WB9 A;  1E3M A;  1YNM A;  4DAP A;  2W8M A;  3DNX A;  1GEF A;  3FOV A;  1OH7 A;  1R11 A;  4TKD A;  3BT7 A;  4FZ2 A;  3K0S A;  2JJQ A;  2EO0 A;  2BH2 A;  2FL3 A;  3THW A;  2OKF A;  3AJV B;  2GJW A;  2VLD A;  1EWQ A;  2O8C B;  3THX B;  2O8D B;  1OH5 A;  1FW6 A;  1T0F A;  1NNE A;  2Z0R A;  3THY A;  4G6U A;  1RZN A;  1OB9 A;  2CV8 A;  2O8F A;  1UWV A;  2O8B A;  1RLV A;  2O8E A; 
#chains in the Genus database with same CATH homology
 3P1Z A;  4G6V A;  1R0V A;  1OB8 A;  5FDK A;  2FL3 A;  1Y88 A;  2VS1 A;  3IEY B;  2WIZ A;  2OKF A;  3AJV B;  2GJW A;  2VLD A;  4E6Z A;  1F1Z A;  2WCZ A;  2FKH B;  2OST A;  4LQE A;  4QBL A;  4ZQU A;  1Y1O A;  1XMX A;  2CZR A;  1IPI A;  1YNM A;  4DA2 A;  2W8M A;  3DNX A;  4DAP A;  2FKC A;  1ZP7 A;  1GEF A;  3FOV A;  2WIW A;  1T0F A;  2IXS A;  3IF0 X;  1HH1 A;  4DAV A;  1R11 A;  2Z0R A;  2ZYZ A;  2GW6 A;  3P1Z B;  4TKD A;  4G6U A;  1RZN A;  3BT7 A;  3IEY A;  1OB9 A;  2FLC A;  4FZ2 A;  4TKK A;  2WCW A;  3AJV A;  2DBS A;  4QBN A;  2CV8 A;  2WJ0 A;  1UWV A;  1RLV A;  3P1Y A;  2JJQ A;  2EO0 A;  2FCO A;  1A79 A;  4QBO A;  4EV1 A;  2ZYZ B;  2INB A;  2BH2 A; 
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