3DH3A

Crystal structure of rluf in complex with a 22 nucleotide rna substrate
Total Genus 60
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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
60
sequence length
240
structure length
240
Chain Sequence
DSSVRLNKYISESGICSRREADRYIEQGNVFLNGKRATIGDQVKPGDVVKVNGQLIEPREAEDLVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDLVNKILRAGNDHEKEYLVTVDKPITEEFIRGMSAGVPILGTVTKKCKVKKEAPFVFRITLVQGLNRQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIENSSSEV
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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 Ribosomal large subunit pseudouridine synthase F
publication title Crystal structure of an RluF-RNA complex: a base-pair rearrangement is the key to selectivity of RluF for U2604 of the ribosome.
pubmed doi rcsb
source organism Escherichia coli
molecule tags Isomerase/rna
total genus 60
structure length 240
sequence length 240
chains with identical sequence B, C, D
ec nomenclature ec 5.4.99.21: 23S rRNA pseudouridine(2604) synthase.
pdb deposition date 2008-06-16

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00849 PseudoU_synth_2 RNA pseudouridylate synthase
A PF01479 S4 S4 domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.10.290.10 Alpha Beta Roll Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region; Chain A RNA-binding S4 domain 3dh3A01
3.30.2350.10 Alpha Beta 2-Layer Sandwich Pseudouridine synthase Pseudouridine synthase 3dh3A02
1PRZA 3HAXA 4LF9D 1XNRD 3UAIA 3KBGA 1J5ED 4OX9D 3LWVA 5IWAD 1H3EA 2F4VD 4DUZD 4LFBD 2UUAD 4DR5D 1H3FA 4DR4D 4LFAD 2K6PA 4DR6D 4X62D 4DV1D 2ZM6D 2AB4A 1IBMD 2VQED 4JYAD 2UXCD 4LABA 4LF7D 4DV2D 1C05A 4DV7D 4LF8D 1P9KA 2APOA 4LFCD 4AQYD 4DR2D 2KTLA 3MQKA 4X64D 4B3MD 4JI4D 1ZL3A 4K0KD 2UUBD 4LGTA 1HNWD 3U28A 4B3RD 1K8WA 4JI3D 2E5LD 2JANA 1N36D 1IBLD 4JI7D 4DUYD 1R3FA 1V9FA 1HR0D 3HJWA 4JI2D 1FKAD 1HNXD 1C06A 3OTOD 3LWQA 5LMND 4DV4D 4YY3D 2UXDD 2UXBD 4DV5D 4B3TD 1N34D 4NXMD 4JI0D 3HP7A 1XMQD 1R3EA 1ZE1A 1HNZD 1N32D 4DR1D 1QYUA 4LF5D 4JI8D 2VQFD 4DV6D 1DM9A 1KSKA 1XNQD 1IBKD 5LMUD 1SGVA 4LF6D 4X65D 4DR3D 4GKJD 1ZE2A 1VIOA 4JV5D 4KHPD 3T1HD 4DR7D 4YHHD 3LWOA 2UU9D 2EY4A 3DH3A 4X66D 2AUSA 4JI6D 4JI1D 4DV3D 4JI5D 5BR8D 4OUDA 1I94D 4B3SD 4GKKD 2I82A 4DV0D 1N33D 4NXND 2RFKA 1XPIA 3HJYA 3T1YD 2HVYA 1V9KA 2UUCD 1JH3A 3LWPA 2HHHD 1KSLA 3LWRA 4LF4D 1XMOD 1KSVA 2ISTA 1FJGD
chains in the Genus database with same CATH superfamily
1PRZA 3HAXA 4LF9D 1XNRD 3UAIA 3KBGA 1SB7A 1J5ED 4OX9D 3LWVA 5IWAD 1H3EA 2F4VD 4DUZD 4LFBD 1Y8XB 2UUAD 4DR5D 1H3FA 4DR4D 4LFAD 2K6PA 4DR6D 3J7AF 4X62D 4DV1D 2ZM6D 2AB4A 5LL6S 1IBMD 2VQED 3ONHA 4JYAD 2UXCD 4LABA 4LF7D 4DV2D 1C05A 4DV7D 4LF8D 1P9KA 1Z2ZA 2APOA 4LFCD 4AQYD 4DR2D 5FLXE 2KTLA 3MQKA 4X64D 4B3MD 4JI4D 3KYCB 1ZL3A 4K0KD 2UUBD 5IT9E 4LGTA 3KYDB 1HNWD 3U28A 4B3RD 1K8WA 4JI3D 2E5LD 2JANA 5FQ2B 2NVUB 4NNJA 1N36D 1IBLD 4DUYD 4JI7D 1R3FA 1V9FA 1HR0D 3HJWA 4JI2D 1FKAD 1HNXD 1C06A 2LQ7A 3OTOD 3LWQA 2I1SA 5LMND 4DV4D 3FN1A 4YY3D 2UXDD 2UXBD 4DV5D 4B3TD 1N34D 3ONGA 4NXMD 3HP7A 4JI0D 1XMQD 1R3EA 1ZE1A 1HNZD 3J81E 5KNLA 1N32D 4DR1D 1QYUA 4LF5D 4JI8D 2VQFD 4DV6D 1SI7A 1DM9A 1KSKA 1XNQD 1IBKD 5LMUD 1SGVA 4LF6D 4X65D 4DR3D 4GKJD 1ZE2A 1VIOA 5A2QE 4JV5D 4KHPD 3T1HD 4DR7D 4YHHD 3LWOA 2UU9D 2EY4A 3DH3A 1Y8QB 4X66D 2AUSA 4JI6D 4JI1D 4DV3D 4JI5D 5BR8D 4II3A 4OUDA 1I94D 4B3SD 4GKKD 2I82A 4DV0D 1N33D 4NXND 2RFKA 1XPIA 2ZTBA 3HJYA 3T1YD 4W5VB 2HVYA 1V9KA 2UUCD 1JH3A 3J80E 3LWPA 3JAME 1Y8RB 2HHHD 4II2A 1KSLA 1SZWA 3LWRA 3CMMA 4LF4D 1XMOD 1KSVA 2ISTA 1FJGD
chains in the Genus database with same CATH topology
1PRZA 3HAXA 4LF9D 1XNRD 3UAIA 3KBGA 1SB7A 1J5ED 4OX9D 3LWVA 5IWAD 1H3EA 2F4VD 4DUZD 4LFBD 2UUAD 4DR5D 1H3FA 4DR4D 4LFAD 2K6PA 4DR6D 4X62D 4DV1D 2ZM6D 2AB4A 1IBMD 2VQED 4JYAD 2UXCD 4LABA 4LF7D 4DV2D 1C05A 4DV7D 4LF8D 1P9KA 1Z2ZA 2APOA 4LFCD 4AQYD 4DR2D 2KTLA 3MQKA 4X64D 4B3MD 4JI4D 1ZL3A 4K0KD 2UUBD 4LGTA 1HNWD 3U28A 4B3RD 1K8WA 4JI3D 2E5LD 2JANA 1N36D 1IBLD 4JI7D 4DUYD 1R3FA 1V9FA 1HR0D 3HJWA 4JI2D 1FKAD 1HNXD 1C06A 3OTOD 3LWQA 5LMND 4DV4D 4YY3D 2UXDD 2UXBD 4DV5D 4B3TD 1N34D 4NXMD 4JI0D 3HP7A 1XMQD 1R3EA 1ZE1A 1HNZD 1N32D 4DR1D 1QYUA 4LF5D 4JI8D 2VQFD 4DV6D 1SI7A 1DM9A 1KSKA 1XNQD 1IBKD 5LMUD 1SGVA 4LF6D 4X65D 4DR3D 4GKJD 1ZE2A 1VIOA 4JV5D 4KHPD 3T1HD 4DR7D 4YHHD 3LWOA 2UU9D 2EY4A 3DH3A 4X66D 2AUSA 4JI6D 4JI1D 4DV3D 4JI5D 5BR8D 4OUDA 1I94D 4B3SD 4GKKD 2I82A 4DV0D 1N33D 4NXND 2RFKA 1XPIA 3HJYA 3T1YD 2HVYA 1V9KA 2UUCD 1JH3A 3LWPA 2HHHD 1KSLA 1SZWA 3LWRA 4LF4D 1XMOD 1KSVA 2ISTA 1FJGD
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1PRZ A;  3HAX A;  4LF9 D;  1XNR D;  3UAI A;  3KBG A;  1J5E D;  4OX9 D;  3LWV A;  5IWA D;  1H3E A;  2F4V D;  4DUZ D;  4LFB D;  2UUA D;  4DR5 D;  1H3F A;  4DR4 D;  4LFA D;  2K6P A;  4DR6 D;  4X62 D;  4DV1 D;  2ZM6 D;  2AB4 A;  1IBM D;  2VQE D;  4JYA D;  2UXC D;  4LAB A;  4LF7 D;  4DV2 D;  1C05 A;  4DV7 D;  4LF8 D;  1P9K A;  2APO A;  4LFC D;  4AQY D;  4DR2 D;  2KTL A;  3MQK A;  4X64 D;  4B3M D;  4JI4 D;  1ZL3 A;  4K0K D;  2UUB D;  4LGT A;  1HNW D;  3U28 A;  4B3R D;  1K8W A;  4JI3 D;  2E5L D;  2JAN A;  1N36 D;  1IBL D;  4JI7 D;  4DUY D;  1R3F A;  1V9F A;  1HR0 D;  3HJW A;  4JI2 D;  1FKA D;  1HNX D;  1C06 A;  3OTO D;  3LWQ A;  5LMN D;  4DV4 D;  4YY3 D;  2UXD D;  2UXB D;  4DV5 D;  4B3T D;  1N34 D;  4NXM D;  4JI0 D;  3HP7 A;  1XMQ D;  1R3E A;  1ZE1 A;  1HNZ D;  1N32 D;  4DR1 D;  1QYU A;  4LF5 D;  4JI8 D;  2VQF D;  4DV6 D;  1DM9 A;  1KSK A;  1XNQ D;  1IBK D;  5LMU D;  1SGV A;  4LF6 D;  4X65 D;  4DR3 D;  4GKJ D;  1ZE2 A;  1VIO A;  4JV5 D;  4KHP D;  3T1H D;  4DR7 D;  4YHH D;  3LWO A;  2UU9 D;  2EY4 A;  3DH3 A;  4X66 D;  2AUS A;  4JI6 D;  4JI1 D;  4DV3 D;  4JI5 D;  5BR8 D;  4OUD A;  1I94 D;  4B3S D;  4GKK D;  2I82 A;  4DV0 D;  1N33 D;  4NXN D;  2RFK A;  1XPI A;  3HJY A;  3T1Y D;  2HVY A;  1V9K A;  2UUC D;  1JH3 A;  3LWP A;  2HHH D;  1KSL A;  3LWR A;  4LF4 D;  1XMO D;  1KSV A;  2IST A;  1FJG D; 
#chains in the Genus database with same CATH topology
 1PRZ A;  3HAX A;  4LF9 D;  1XNR D;  3UAI A;  3KBG A;  1SB7 A;  1J5E D;  4OX9 D;  3LWV A;  5IWA D;  1H3E A;  2F4V D;  4DUZ D;  4LFB D;  1Y8X B;  2UUA D;  4DR5 D;  1H3F A;  4DR4 D;  4LFA D;  2K6P A;  4DR6 D;  3J7A F;  4X62 D;  4DV1 D;  2ZM6 D;  2AB4 A;  5LL6 S;  1IBM D;  2VQE D;  3ONH A;  4JYA D;  2UXC D;  4LAB A;  4LF7 D;  4DV2 D;  1C05 A;  4DV7 D;  4LF8 D;  1P9K A;  1Z2Z A;  2APO A;  4LFC D;  4AQY D;  4DR2 D;  5FLX E;  2KTL A;  3MQK A;  4X64 D;  4B3M D;  4JI4 D;  3KYC B;  1ZL3 A;  4K0K D;  2UUB D;  5IT9 E;  4LGT A;  3KYD B;  1HNW D;  3U28 A;  4B3R D;  1K8W A;  4JI3 D;  2E5L D;  2JAN A;  5FQ2 B;  2NVU B;  4NNJ A;  1N36 D;  1IBL D;  4DUY D;  4JI7 D;  1R3F A;  1V9F A;  1HR0 D;  3HJW A;  4JI2 D;  1FKA D;  1HNX D;  1C06 A;  2LQ7 A;  3OTO D;  3LWQ A;  2I1S A;  5LMN D;  4DV4 D;  3FN1 A;  4YY3 D;  2UXD D;  2UXB D;  4DV5 D;  4B3T D;  1N34 D;  3ONG A;  4NXM D;  3HP7 A;  4JI0 D;  1XMQ D;  1R3E A;  1ZE1 A;  1HNZ D;  3J81 E;  5KNL A;  1N32 D;  4DR1 D;  1QYU A;  4LF5 D;  4JI8 D;  2VQF D;  4DV6 D;  1SI7 A;  1DM9 A;  1KSK A;  1XNQ D;  1IBK D;  5LMU D;  1SGV A;  4LF6 D;  4X65 D;  4DR3 D;  4GKJ D;  1ZE2 A;  1VIO A;  5A2Q E;  4JV5 D;  4KHP D;  3T1H D;  4DR7 D;  4YHH D;  3LWO A;  2UU9 D;  2EY4 A;  3DH3 A;  1Y8Q B;  4X66 D;  2AUS A;  4JI6 D;  4JI1 D;  4DV3 D;  4JI5 D;  5BR8 D;  4II3 A;  4OUD A;  1I94 D;  4B3S D;  4GKK D;  2I82 A;  4DV0 D;  1N33 D;  4NXN D;  2RFK A;  1XPI A;  2ZTB A;  3HJY A;  3T1Y D;  4W5V B;  2HVY A;  1V9K A;  2UUC D;  1JH3 A;  3J80 E;  3LWP A;  3JAM E;  1Y8R B;  2HHH D;  4II2 A;  1KSL A;  1SZW A;  3LWR A;  3CMM A;  4LF4 D;  1XMO D;  1KSV A;  2IST A;  1FJG D; 
#chains in the Genus database with same CATH homology
 1PRZ A;  3HAX A;  4LF9 D;  1XNR D;  3UAI A;  3KBG A;  1SB7 A;  1J5E D;  4OX9 D;  3LWV A;  5IWA D;  1H3E A;  2F4V D;  4DUZ D;  4LFB D;  2UUA D;  4DR5 D;  1H3F A;  4DR4 D;  4LFA D;  2K6P A;  4DR6 D;  4X62 D;  4DV1 D;  2ZM6 D;  2AB4 A;  1IBM D;  2VQE D;  4JYA D;  2UXC D;  4LAB A;  4LF7 D;  4DV2 D;  1C05 A;  4DV7 D;  4LF8 D;  1P9K A;  1Z2Z A;  2APO A;  4LFC D;  4AQY D;  4DR2 D;  2KTL A;  3MQK A;  4X64 D;  4B3M D;  4JI4 D;  1ZL3 A;  4K0K D;  2UUB D;  4LGT A;  1HNW D;  3U28 A;  4B3R D;  1K8W A;  4JI3 D;  2E5L D;  2JAN A;  1N36 D;  1IBL D;  4JI7 D;  4DUY D;  1R3F A;  1V9F A;  1HR0 D;  3HJW A;  4JI2 D;  1FKA D;  1HNX D;  1C06 A;  3OTO D;  3LWQ A;  5LMN D;  4DV4 D;  4YY3 D;  2UXD D;  2UXB D;  4DV5 D;  4B3T D;  1N34 D;  4NXM D;  4JI0 D;  3HP7 A;  1XMQ D;  1R3E A;  1ZE1 A;  1HNZ D;  1N32 D;  4DR1 D;  1QYU A;  4LF5 D;  4JI8 D;  2VQF D;  4DV6 D;  1SI7 A;  1DM9 A;  1KSK A;  1XNQ D;  1IBK D;  5LMU D;  1SGV A;  4LF6 D;  4X65 D;  4DR3 D;  4GKJ D;  1ZE2 A;  1VIO A;  4JV5 D;  4KHP D;  3T1H D;  4DR7 D;  4YHH D;  3LWO A;  2UU9 D;  2EY4 A;  3DH3 A;  4X66 D;  2AUS A;  4JI6 D;  4JI1 D;  4DV3 D;  4JI5 D;  5BR8 D;  4OUD A;  1I94 D;  4B3S D;  4GKK D;  2I82 A;  4DV0 D;  1N33 D;  4NXN D;  2RFK A;  1XPI A;  3HJY A;  3T1Y D;  2HVY A;  1V9K A;  2UUC D;  1JH3 A;  3LWP A;  2HHH D;  1KSL A;  1SZW A;  3LWR A;  4LF4 D;  1XMO D;  1KSV A;  2IST A;  1FJG D; 
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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