3BG2 | Genus

Total Genus 149

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	149
sequence length	440
structure length	397
Chain Sequence	MNWEHLLSLKRQGDTAKRLRIEQDDTRLGFEVDYDRIIFSAPFRSLQDKTQVIPTDFVHTRLTHSLEVSVVGRSLGRMVGKKLLEKYPHLEQVYGYKFNDFGAIVAAAALAHDIGNPPFGHSGEKAIGEFFKNGYGKRYKDSLTAKEYQDLIKFEGNANGFKVLSQSKPGAQGGLRLSYATLGAFMKYPKESLKYGFFQSERALFEDVAQELGLLKRDVSWSRHPLAYLVEAADDICYTIIDFEDGINLGLIPEYNALQETSDRVSYLRALAIGTLINESVDTFMKYEEEILAGTFDQSLIDKSNYQAQITDIINLSIERIYNSREVIEKEIAGYEILSTLLEARCRALDNNDTHYNQLIQQLLAKSLYENLIQICAEVSTMTDGKALRNYKKIKGL

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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The Resolver thinks Pdb

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Time for openFile(/file/5cfe6474bc68d412cb90385d/pdb.gz): 1046 ms

reading 397 atoms

ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false

1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.

Default Van der Waals type for model set to Jmol

397 atoms created

ModelSet: autobonding; use autobond=false to not generate bonds automatically

Time for creating model: 29 ms

Adding embedded #jmolscript: select ({0:396});backbone only;select *;

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	Hydrolase
source organism	Leeuwenhoekiella blandensis
publication title	Crystal structure of the deoxyguanosinetriphosphate triphosphohydrolase from Flavobacterium sp. MED217. rcsb
molecule keywords	DGTP triphosphohydrolase
total genus	149
structure length	397
sequence length	440
chains with identical sequence	B
ec nomenclature
pdb deposition date	2007-11-25

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF01966	HD	HD domain

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
1.10.3210.10	Mainly Alpha	Orthogonal Bundle	Hypothetical protein af1432	Hypothetical protein af1432	3bg2A01
1.10.3410.10	Mainly Alpha	Orthogonal Bundle	putative deoxyguanosinetriphosphate triphosphohydrolase fold	putative deoxyguanosinetriphosphate triphosphohydrolase like domain	3bg2A03
1.10.3550.10	Mainly Alpha	Orthogonal Bundle	eoxyguanosinetriphosphate triphosphohydrolase fold	eoxyguanosinetriphosphate triphosphohydrolase domain-like	3bg2A02

1VQRA 4BZBA 4L7EA 4QG2A 2FLOA 5TKAA 4BZCA 3IRHA 4ZWEA 4RXOA 2Q14A 4DMBA 3LJXA 5TK7A 4TO5A 4N71A 4TNRA 5AO0A 3TMCA 3NQWA 3P3QA 5AO4A 4QG4A 2DQBA 5TK9A 4TNPA 4TNQA 3MZOA 4MDZA 4TO3A 4TO4A 3TMDA 3TM8A 3KH1A 4ME4A 4TNZA 5TK8A 4MZ7A 4MLMA 4TO0A 4TO1A 4Q7HA 5TK6A 4MLNA 4ZWGA 3RF0A 4TNYA 3MEMA 4R8ZA 4MCWA 4QFXA 3HC1A 4TO2A 4QFYA 4L1JB 1XX7A 3TMBA 4RXSA 5AO1A 4N6WA 3HI0A 2GZ4A 5AO2A 2PARA 4LRLA 1YNBA 4X9EA 2PGSA 4QG1A 4QG0A 4RXPA 4TO6A 1U6ZA 3M1TA 4QFZA 2O6IA 2PQ7A 4L7WA 2PAQA 3U1NA 2HEKA 5AO3A 2CQZA 2OGIA 3CCGA 1YOYA 3NR1A 4RXRA 2O08A 4TNXA 4XDSA 3BG2A 4RXQA 3I7AA 2PAUA 4L1JA 1VJ7A
chains in the Genus database with same CATH superfamily

1VQRA 4BZBA 4L7EA 4QG2A 2FLOA 5TKAA 3SK9A 4BZCA 3IRHA 4ZWEA 4RXOA 4QQWA 2Q14A 4DMBA 4QQXA 3LJXA 5TK7A 4Q2CA 4TO5A 4N71A 4TNRA 5AO0A 3TMCA 2C5UA 3NQWA 3P3QA 5AO4A 4QG4A 2DQBA 5TK9A 4TNPA 4TNQA 3MZOA 4MDZA 4TO3A 4TO4A 3TMDA 3TM8A 3KH1A 4ME4A 4TNZA 5TK8A 4MZ7A 4MLMA 4TO0A 4TO1A 4Q7HA 5TK6A 4MLNA 4ZWGA 3RF0A 4TNYA 3MEMA 4R8ZA 4MCWA 4QFXA 3HC1A 4TO2A 4QFYA 4L1JB 1XX7A 3TMBA 4RXSA 5AO1A 4N6WA 3HI0A 2GZ4A 5AO2A 2PARA 4LRLA 3KQ5A 1YNBA 4X9EA 2PGSA 4QG1A 4QG0A 4RXPA 4TO6A 1U6ZA 3M1TA 4Q2DA 4QFZA 2O6IA 2PQ7A 4L7WA 2PAQA 3U1NA 2HEKA 5AO3A 2CQZA 3S4LA 3SKDA 2OGIA 3CCGA 1YOYA 3GW7A 3NR1A 4RXRA 2O08A 4TNXA 4XDSA 3BG2A 4RXQA 3I7AA 2PAUA 4L1JA 4QQYA 1VJ7A 4QQZA
chains in the Genus database with same CATH topology

1VQRA 4BZBA 4L7EA 4QG2A 2FLOA 5TKAA 3SK9A 4BZCA 3IRHA 4ZWEA 4RXOA 4QQWA 2Q14A 4DMBA 4QQXA 3LJXA 5TK7A 4Q2CA 4TO5A 4N71A 4TNRA 5AO0A 3TMCA 3NQWA 3P3QA 5AO4A 4QG4A 2DQBA 5TK9A 4TNPA 4TNQA 3MZOA 4MDZA 4TO3A 4TO4A 3TMDA 3TM8A 3KH1A 4ME4A 4TNZA 5TK8A 4MZ7A 4MLMA 4TO0A 4TO1A 4Q7HA 5TK6A 4MLNA 4ZWGA 3RF0A 4TNYA 3MEMA 4R8ZA 4MCWA 4QFXA 3HC1A 4TO2A 4QFYA 4L1JB 1XX7A 3TMBA 4RXSA 5AO1A 4N6WA 3HI0A 2GZ4A 5AO2A 2PARA 4LRLA 3KQ5A 1YNBA 4X9EA 2PGSA 4QG1A 4QG0A 4RXPA 4TO6A 1U6ZA 3M1TA 4Q2DA 4QFZA 2O6IA 2PQ7A 4L7WA 2PAQA 3U1NA 2HEKA 5AO3A 2CQZA 3S4LA 3SKDA 2OGIA 3CCGA 1YOYA 3GW7A 3NR1A 4RXRA 2O08A 4TNXA 4XDSA 3BG2A 4RXQA 3I7AA 2PAUA 4L1JA 4QQYA 1VJ7A 4QQZA
chains in the Genus database with same CATH homology

#chains in the Genus database with same CATH superfamily
 1VQR A;  4BZB A;  4L7E A;  4QG2 A;  2FLO A;  5TKA A;  4BZC A;  3IRH A;  4ZWE A;  4RXO A;  2Q14 A;  4DMB A;  3LJX A;  5TK7 A;  4TO5 A;  4N71 A;  4TNR A;  5AO0 A;  3TMC A;  3NQW A;  3P3Q A;  5AO4 A;  4QG4 A;  2DQB A;  5TK9 A;  4TNP A;  4TNQ A;  3MZO A;  4MDZ A;  4TO3 A;  4TO4 A;  3TMD A;  3TM8 A;  3KH1 A;  4ME4 A;  4TNZ A;  5TK8 A;  4MZ7 A;  4MLM A;  4TO0 A;  4TO1 A;  4Q7H A;  5TK6 A;  4MLN A;  4ZWG A;  3RF0 A;  4TNY A;  3MEM A;  4R8Z A;  4MCW A;  4QFX A;  3HC1 A;  4TO2 A;  4QFY A;  4L1J B;  1XX7 A;  3TMB A;  4RXS A;  5AO1 A;  4N6W A;  3HI0 A;  2GZ4 A;  5AO2 A;  2PAR A;  4LRL A;  1YNB A;  4X9E A;  2PGS A;  4QG1 A;  4QG0 A;  4RXP A;  4TO6 A;  1U6Z A;  3M1T A;  4QFZ A;  2O6I A;  2PQ7 A;  4L7W A;  2PAQ A;  3U1N A;  2HEK A;  5AO3 A;  2CQZ A;  2OGI A;  3CCG A;  1YOY A;  3NR1 A;  4RXR A;  2O08 A;  4TNX A;  4XDS A;  3BG2 A;  4RXQ A;  3I7A A;  2PAU A;  4L1J A;  1VJ7 A; 
#chains in the Genus database with same CATH topology
 1VQR A;  4BZB A;  4L7E A;  4QG2 A;  2FLO A;  5TKA A;  3SK9 A;  4BZC A;  3IRH A;  4ZWE A;  4RXO A;  4QQW A;  2Q14 A;  4DMB A;  4QQX A;  3LJX A;  5TK7 A;  4Q2C A;  4TO5 A;  4N71 A;  4TNR A;  5AO0 A;  3TMC A;  2C5U A;  3NQW A;  3P3Q A;  5AO4 A;  4QG4 A;  2DQB A;  5TK9 A;  4TNP A;  4TNQ A;  3MZO A;  4MDZ A;  4TO3 A;  4TO4 A;  3TMD A;  3TM8 A;  3KH1 A;  4ME4 A;  4TNZ A;  5TK8 A;  4MZ7 A;  4MLM A;  4TO0 A;  4TO1 A;  4Q7H A;  5TK6 A;  4MLN A;  4ZWG A;  3RF0 A;  4TNY A;  3MEM A;  4R8Z A;  4MCW A;  4QFX A;  3HC1 A;  4TO2 A;  4QFY A;  4L1J B;  1XX7 A;  3TMB A;  4RXS A;  5AO1 A;  4N6W A;  3HI0 A;  2GZ4 A;  5AO2 A;  2PAR A;  4LRL A;  3KQ5 A;  1YNB A;  4X9E A;  2PGS A;  4QG1 A;  4QG0 A;  4RXP A;  4TO6 A;  1U6Z A;  3M1T A;  4Q2D A;  4QFZ A;  2O6I A;  2PQ7 A;  4L7W A;  2PAQ A;  3U1N A;  2HEK A;  5AO3 A;  2CQZ A;  3S4L A;  3SKD A;  2OGI A;  3CCG A;  1YOY A;  3GW7 A;  3NR1 A;  4RXR A;  2O08 A;  4TNX A;  4XDS A;  3BG2 A;  4RXQ A;  3I7A A;  2PAU A;  4L1J A;  4QQY A;  1VJ7 A;  4QQZ A; 
#chains in the Genus database with same CATH homology
 1VQR A;  4BZB A;  4L7E A;  4QG2 A;  2FLO A;  5TKA A;  3SK9 A;  4BZC A;  3IRH A;  4ZWE A;  4RXO A;  4QQW A;  2Q14 A;  4DMB A;  4QQX A;  3LJX A;  5TK7 A;  4Q2C A;  4TO5 A;  4N71 A;  4TNR A;  5AO0 A;  3TMC A;  3NQW A;  3P3Q A;  5AO4 A;  4QG4 A;  2DQB A;  5TK9 A;  4TNP A;  4TNQ A;  3MZO A;  4MDZ A;  4TO3 A;  4TO4 A;  3TMD A;  3TM8 A;  3KH1 A;  4ME4 A;  4TNZ A;  5TK8 A;  4MZ7 A;  4MLM A;  4TO0 A;  4TO1 A;  4Q7H A;  5TK6 A;  4MLN A;  4ZWG A;  3RF0 A;  4TNY A;  3MEM A;  4R8Z A;  4MCW A;  4QFX A;  3HC1 A;  4TO2 A;  4QFY A;  4L1J B;  1XX7 A;  3TMB A;  4RXS A;  5AO1 A;  4N6W A;  3HI0 A;  2GZ4 A;  5AO2 A;  2PAR A;  4LRL A;  3KQ5 A;  1YNB A;  4X9E A;  2PGS A;  4QG1 A;  4QG0 A;  4RXP A;  4TO6 A;  1U6Z A;  3M1T A;  4Q2D A;  4QFZ A;  2O6I A;  2PQ7 A;  4L7W A;  2PAQ A;  3U1N A;  2HEK A;  5AO3 A;  2CQZ A;  3S4L A;  3SKD A;  2OGI A;  3CCG A;  1YOY A;  3GW7 A;  3NR1 A;  4RXR A;  2O08 A;  4TNX A;  4XDS A;  3BG2 A;  4RXQ A;  3I7A A;  2PAU A;  4L1J A;  4QQY A;  1VJ7 A;  4QQZ 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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3BG2A

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations