4LGT | Genus

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

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After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Genus data interpretation

Chord Diagram

molecule tags	Isomerase/rna
source organism	Escherichia coli
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
molecule keywords	Ribosomal large subunit pseudouridine synthase B
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	Class	Architecture	Topology	Homology	Domain
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

3UAIA 4LFBD 2AB4A 4OX9D 1C06A 3LWOA 3MQKA 4DV2D 1ZE1A 1KSLA 4DV0D 3LWPA 4LFAD 4JI3D 3HAXA 4LF7D 4LABA 1QYUA 4KHPD 1HNXD 1ZE2A 4LF5D 1FKAD 4DR5D 4JV5D 1IBLD 1XNQD 1P9KA 3OTOD 4DR6D 3LWRA 4GKJD 3U28A 1R3EA 4X65D 2APOA 1N33D 3LWVA 1KSVA 2VQED 2I82A 2UXCD 4DV5D 1V9FA 4JI2D 1H3FA 4LF4D 4X66D 4LFCD 4DR7D 4NXMD 1C05A 2AUSA 2F4VD 3KBGA 1XPIA 4LF9D 1XMQD 1JH3A 1N34D 4JI7D 2UXBD 2RFKA 4DUYD 4B3TD 2EY4A 1HR0D 5LMND 4X62D 3T1YD 3T1HD 4OUDA 4DV7D 2UUAD 4B3RD 4DV1D 5IWAD 1J5ED 4K0KD 1SGVA 1K8WA 1N36D 4DV4D 2E5LD 4JI0D 1IBKD 1HNZD 2HVYA 1DM9A 1IBMD 4YHHD 2UU9D 5LMUD 1VIOA 4JI5D 2UUCD 4DR3D 4JYAD 4B3MD 4DR4D 2VQFD 4DR1D 4JI8D 1XMOD 4YY3D 1R3FA 3DH3A 3HJYA 2ISTA 3HJWA 4DR2D 4JI4D 4GKKD 1PRZA 4AQYD 4DV6D 2UUBD 3LWQA 1I94D 2KTLA 4LF6D 1N32D 4B3SD 1V9KA 1HNWD 4JI6D 2K6PA 1ZL3A 4NXND 4LGTA 4DUZD 4DV3D 2HHHD 1XNRD 5BR8D 4X64D 1H3EA 4JI1D 3HP7A 2JANA 1KSKA 2ZM6D 4LF8D 1FJGD 2UXDD
chains in the Genus database with same CATH superfamily

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

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

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

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations