4LGTA

Crystal structure of the catalytic domain of rlub in complex with a 21-nucleotide rna substrate
Total Genus 58
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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
58
sequence length
251
structure length
250
Chain Sequence
MSEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRESAEQICRVLAYYKPEGELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTGLLLFTTDGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGVQLEDGPAAFKTIKFSGGEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYLRELVELPPETS
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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 B
publication title The mechanism of pseudouridine synthases from a covalent complex with RNA, and alternate specificity for U2605 versus U2604 between close homologs.
pubmed doi rcsb
source organism Escherichia coli
molecule tags Isomerase/rna
total genus 58
structure length 250
sequence length 251
chains with identical sequence D
ec nomenclature ec 5.4.99.22: 23S rRNA pseudouridine(2605) synthase.
pdb deposition date 2013-06-28

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 4lgtA01
3.30.2350.10 Alpha Beta 2-Layer Sandwich Pseudouridine synthase Pseudouridine synthase 4lgtA02
3HJWA 5BR8D 2UXBD 4B3MD 4JI2D 1DM9A 4OX9D 4LABA 3DH3A 3KBGA 1FJGD 1P9KA 4LF6D 2F4VD 1R3FA 4GKJD 2HHHD 4JI3D 4K0KD 2UXDD 1HNXD 1HNWD 4OUDA 4B3SD 1ZE1A 3LWVA 4DV3D 2VQFD 4X62D 1N34D 4NXND 4DV6D 4JI7D 4LF4D 1SGVA 1V9KA 3T1HD 1XMOD 3LWQA 4X66D 4DR1D 2UU9D 2K6PA 1IBMD 1QYUA 1I94D 4NXMD 4YY3D 4B3TD 4JI5D 1HNZD 1K8WA 1KSVA 4LF5D 2UXCD 3UAIA 2HVYA 3U28A 1XNRD 4GKKD 3LWPA 2UUCD 3HP7A 3OTOD 1XPIA 4DR2D 2JANA 4LFBD 3HAXA 1XNQD 1V9FA 4DV7D 4DR5D 1H3EA 1XMQD 1J5ED 4DV2D 2I82A 4JI6D 1ZE2A 4DR7D 1IBLD 4LFCD 4DR4D 2APOA 4LGTA 4JI0D 5LMUD 1PRZA 4YHHD 4LFAD 5LMND 1H3FA 4DV0D 1JH3A 1KSLA 2EY4A 2AB4A 1VIOA 4AQYD 1R3EA 4LF9D 4DUYD 2E5LD 1C06A 1FKAD 3LWOA 4JI4D 2RFKA 4LF7D 4DR3D 2VQED 3LWRA 4KHPD 4X65D 1N36D 1ZL3A 4X64D 4JV5D 5IWAD 1N32D 2UUAD 4B3RD 2ZM6D 1C05A 4DV4D 3T1YD 4JI8D 4DR6D 1N33D 1KSKA 4DV1D 4DUZD 2UUBD 2KTLA 3HJYA 4LF8D 4DV5D 2ISTA 1HR0D 4JI1D 3MQKA 4JYAD 1IBKD 2AUSA
chains in the Genus database with same CATH superfamily
3HJWA 2LQ7A 5BR8D 2UXBD 3KYCB 4NNJA 4B3MD 4JI2D 1DM9A 4OX9D 4LABA 5FQ2B 3DH3A 3KBGA 1FJGD 1P9KA 1IBKD 4LF6D 2F4VD 1R3FA 4GKJD 2HHHD 3J80E 4JI3D 4K0KD 1Z2ZA 2UXDD 1HNXD 1HNWD 4OUDA 4B3SD 1SI7A 1ZE1A 3LWVA 4DV3D 2VQFD 3J7AF 4X62D 1N34D 4NXND 2I1SA 4DV6D 4JI7D 4LF4D 1SGVA 1V9KA 3T1HD 1XMOD 3LWQA 4X66D 4W5VB 4DR1D 2UU9D 2K6PA 4II3A 1IBMD 1QYUA 2NVUB 1I94D 4NXMD 4YY3D 4B3TD 4JI5D 1HNZD 1K8WA 1KSVA 4LF5D 2UXCD 3UAIA 2HVYA 5FLXE 3U28A 3ONGA 5KNLA 1XNRD 4GKKD 3LWPA 3JAME 2UUCD 3HP7A 3OTOD 3CMMA 1XPIA 4DR2D 2JANA 4LFBD 3HAXA 1XNQD 1V9FA 4DV7D 4DR5D 1SB7A 1H3EA 1XMQD 1J5ED 4DV2D 2I82A 4JI6D 5IT9E 5A2QE 1ZE2A 4DR7D 1IBLD 4LFCD 1Y8XB 4DR4D 2APOA 4LGTA 4JI0D 5LMUD 1PRZA 4YHHD 4LFAD 5LMND 1H3FA 4DV0D 1JH3A 1KSLA 2EY4A 2AB4A 1VIOA 4AQYD 3ONHA 1R3EA 4LF9D 4DUYD 2E5LD 1C06A 5LL6S 1FKAD 2ZTBA 3LWOA 4II2A 4JI4D 2RFKA 4LF7D 4DR3D 2VQED 1Y8RB 3LWRA 4KHPD 3KYDB 4X65D 1N36D 1ZL3A 4X64D 4JV5D 5IWAD 1Y8QB 1N32D 2UUAD 3J81E 4B3RD 2ZM6D 1C05A 4DV4D 3T1YD 4JI8D 3FN1A 4DR6D 1N33D 1SZWA 1KSKA 4DV1D 4DUZD 2UUBD 3HJYA 4LF8D 4DV5D 2ISTA 1HR0D 4JI1D 3MQKA 4JYAD 2KTLA 2AUSA
chains in the Genus database with same CATH topology
3HJWA 5BR8D 2UXBD 4B3MD 4JI2D 1DM9A 4OX9D 4LABA 3DH3A 3KBGA 1FJGD 1P9KA 4LF6D 2F4VD 1R3FA 4GKJD 2HHHD 1Z2ZA 4JI3D 4K0KD 2UXDD 1HNXD 1HNWD 4OUDA 4B3SD 1SI7A 1ZE1A 3LWVA 4DV3D 2VQFD 4X62D 1N34D 4NXND 4DV6D 4JI7D 4LF4D 1SGVA 1V9KA 3T1HD 1XMOD 3LWQA 4X66D 4DR1D 2UU9D 2K6PA 1IBMD 1QYUA 1I94D 4NXMD 4YY3D 4B3TD 4JI5D 1HNZD 1K8WA 1KSVA 4LF5D 2UXCD 3UAIA 2HVYA 3U28A 1XNRD 4GKKD 3LWPA 2UUCD 3HP7A 3OTOD 1XPIA 4DR2D 2JANA 4LFBD 3HAXA 1XNQD 1V9FA 4DV7D 4DR5D 1SB7A 1H3EA 1XMQD 1J5ED 4DV2D 2I82A 4JI6D 1ZE2A 4DR7D 1IBLD 4LFCD 4DR4D 2APOA 4LGTA 4JI0D 5LMUD 1PRZA 4YHHD 4LFAD 5LMND 1H3FA 4DV0D 1JH3A 1KSLA 2EY4A 2AB4A 1VIOA 4AQYD 1R3EA 4LF9D 4DUYD 2E5LD 1C06A 1FKAD 3LWOA 4JI4D 2RFKA 4LF7D 4DR3D 2VQED 3LWRA 4KHPD 4X65D 1N36D 1ZL3A 4X64D 4JV5D 5IWAD 1N32D 2UUAD 4B3RD 2ZM6D 1C05A 4DV4D 3T1YD 4JI8D 4DR6D 1N33D 1SZWA 1KSKA 4DV1D 4DUZD 2UUBD 2KTLA 3HJYA 4LF8D 4DV5D 2ISTA 1HR0D 4JI1D 3MQKA 4JYAD 1IBKD 2AUSA
chains in the Genus database with same CATH homology


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