5CDV | Genus

Total Genus 110

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	110
sequence length	349
structure length	349
Chain Sequence	SSKMDQLRPVLGRAGVDALWVSAPANVRWLSGFTSAEDGKVLVSPDGATLYTDARYTVQAQEESSLPQYIARPPATYEHAADTVRGLRVGFEAESLTVAELEDLRQAWPNSTLVALRGTLGGLRAVKTPEEIGAIRAAQDLADRVYTEVRPMIRAGVRELDVAVEIETRLRRAGGESAFELIVASGPNGAKPHGHASKRVIEDGDLVTIDMGARLGGYNSDMTRTVAVGTPSAEMKRVYDAVLEAEEAAIAAIRPGVRAADLDKLARDLLTRHGLGEAFAHSLGHGVGLEVHEGPGLRGTSQDVLEAGMVITIEPGAYLPGVGGVRIEDLILVTEDGYEVLSHSAKESV

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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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Viewer cachePut cache://localLOAD_/file/5d0432b9dc0b2038fcc67113/pdb.gz

Viewer cachePut https://genus.fuw.edu.pl/file/5d0432b9dc0b2038fcc67113/pdb.gz

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	Deinococcus radiodurans (strain atcc 13939 / dsm 20539 / jcm 16871 / lmg 4051 /
publication title	Proline dipeptidase from Deinococcus radiodurans R1 at 1.45 Angstrom resolution rcsb
molecule keywords	Proline dipeptidase
total genus	110
structure length	349
sequence length	349
ec nomenclature
pdb deposition date	2015-07-05

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF00557	Peptidase_M24	Metallopeptidase family M24
A	PF01321	Creatinase_N	Creatinase/Prolidase N-terminal domain

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

cath code	Class	Architecture	Topology	Homology	Domain
3.40.350.10	Alpha Beta	3-Layer(aba) Sandwich	Creatine Amidinohydrolase; Chain A, domain 1	Creatinase/prolidase N-terminal domain	5cdvA01
3.90.230.10	Alpha Beta	Alpha-Beta Complex	Creatine Amidinohydrolase	Creatinase/methionine aminopeptidase superfamily	5cdvA02

1N51A 4U6ZA 1BOAA 4EGEA 1R58A 2HOWA 1R5GA 2GA2A 4ZNGA 1QXYA 4IKUA 1MATA 1WBQA 1M35A 4ZWPA 2NQ6A 2BWWA 1YJ3A 2ADUA 3PEBA 2P99A 3MX6A 2BWYA 4A6WA 3CB6A 4IF7A 2GU4A 2B3LA 2OAZA 2P98A 1WLRA 3D27A 5E2CA 3IU7A 2GG8A 4IECA 2BH3A 2V3YA 2BWVA 2NQ7A 1W2MA 2Q92A 3CTZA 2GGCA 3MATA 4U6WA 4ZWOA 1WL6A 4S2RP 5E5BA 3TB5A 3BITA 5D6EA 4MATA 4FO7A 2V3ZA 3L7GA 4FUKA 1KQ9A 4U76A 1BN5A 2BWSA 3Q6DA 3BIPA 2GG2A 2GTXA 2GU7A 3O5VA 4U70A 2Q93A 1KP0A 2GG9A 1YVMA 3IU9A 4R60A 2BHAA 2Q8KA 1O0XA 4PV4A 3PKBA 4B28A 3PKEA 5JI6A 1B6AA 1YW8A 2GZ5A 4RZYA 2P9AA 1JAWA 4IDYA 2V3XA 3S6BA 1B59A 4FKCA 5FCHA 1C24A 2Q95A 1WKMA 4RZZA 2OKNA 2EA2A 4IU6A 2BWXA 5D6FA 5CDEA 2B3KA 4FLIA 1C22A 3RVAA 1Y1NA 2GGBA 5CE6A 1QXWA 3FMQA 4U1BA 3OVKA 2V6CA 1XGOA 4ZWUA 4FLLA 3MR1A 4IKTA 3L24A 4HXXA 2MATA 2Q96A 5JHUA 2Q94A 4U6CA 4U6JA 4PNCA 4S01A 1QZYA 1WY2A 1R5HA 3RORA 4U69A 3TAVA 1WN1A 4S2TP 3IL0A 3QOCA 1W7VA 4IPAA 4KM3A 2DFIA 3OOOA 2EVOA 2BWTA 4JUQA 5JFRA 5CLSA 1QXZA 4A6VA 2BWUA 4U6EA 5CDVA 4FO8A 1YW9A 4OOKA 3I7MA 4RGZ1 3PKDA 1A16A 4IKRA 4U71A 4Z7MA 4U73A 1CHMA 2BHCA 2GU6A 3BIQA 1YW7A 2EA4A 2BHDA 1XGSA 3CB5A 4IKSA 4QR8A 3PKCA 3PN9A 1XGMA 2GG5A 3IG4A 2GG7A 2BB7A 5CDLA 3FM3A 2ZSGA 2GG0A 2BHBA 3FMRA 5FCFA 1KQ0A 2EVMA 3PKAA 2G6PA 4U75A 5CNXA 1C23A 1PV9A 1XGNA 4FLKA 2GG3A 4S00A 2EVCA 2GU5A 1WL9A 5CIKA 1C27A 3IU8A 2B3HA 4FLJA 2BN7A 1C21A 2IW2A 1XNZA
chains in the Genus database with same CATH superfamily

#chains in the Genus database with same CATH superfamily
 1N51 A;  4U6Z A;  1BOA A;  4EGE A;  1R58 A;  2HOW A;  1R5G A;  2GA2 A;  4ZNG A;  1QXY A;  4IKU A;  1MAT A;  1WBQ A;  1M35 A;  4ZWP A;  2NQ6 A;  2BWW A;  1YJ3 A;  2ADU A;  3PEB A;  2P99 A;  3MX6 A;  2BWY A;  4A6W A;  3CB6 A;  4IF7 A;  2GU4 A;  2B3L A;  2OAZ A;  2P98 A;  1WLR A;  3D27 A;  5E2C A;  3IU7 A;  2GG8 A;  4IEC A;  2BH3 A;  2V3Y A;  2BWV A;  2NQ7 A;  1W2M A;  2Q92 A;  3CTZ A;  2GGC A;  3MAT A;  4U6W A;  4ZWO A;  1WL6 A;  4S2R P;  5E5B A;  3TB5 A;  3BIT A;  5D6E A;  4MAT A;  4FO7 A;  2V3Z A;  3L7G A;  4FUK A;  1KQ9 A;  4U76 A;  1BN5 A;  2BWS A;  3Q6D A;  3BIP A;  2GG2 A;  2GTX A;  2GU7 A;  3O5V A;  4U70 A;  2Q93 A;  1KP0 A;  2GG9 A;  1YVM A;  3IU9 A;  4R60 A;  2BHA A;  2Q8K A;  1O0X A;  4PV4 A;  3PKB A;  4B28 A;  3PKE A;  5JI6 A;  1B6A A;  1YW8 A;  2GZ5 A;  4RZY A;  2P9A A;  1JAW A;  4IDY A;  2V3X A;  3S6B A;  1B59 A;  4FKC A;  5FCH A;  1C24 A;  2Q95 A;  1WKM A;  4RZZ A;  2OKN A;  2EA2 A;  4IU6 A;  2BWX A;  5D6F A;  5CDE A;  2B3K A;  4FLI A;  1C22 A;  3RVA A;  1Y1N A;  2GGB A;  5CE6 A;  1QXW A;  3FMQ A;  4U1B A;  3OVK A;  2V6C A;  1XGO A;  4ZWU A;  4FLL A;  3MR1 A;  4IKT A;  3L24 A;  4HXX A;  2MAT A;  2Q96 A;  5JHU A;  2Q94 A;  4U6C A;  4U6J A;  4PNC A;  4S01 A;  1QZY A;  1WY2 A;  1R5H A;  3ROR A;  4U69 A;  3TAV A;  1WN1 A;  4S2T P;  3IL0 A;  3QOC A;  1W7V A;  4IPA A;  4KM3 A;  2DFI A;  3OOO A;  2EVO A;  2BWT A;  4JUQ A;  5JFR A;  5CLS A;  1QXZ A;  4A6V A;  2BWU A;  4U6E A;  5CDV A;  4FO8 A;  1YW9 A;  4OOK A;  3I7M A;  4RGZ 1;  3PKD A;  1A16 A;  4IKR A;  4U71 A;  4Z7M A;  4U73 A;  1CHM A;  2BHC A;  2GU6 A;  3BIQ A;  1YW7 A;  2EA4 A;  2BHD A;  1XGS A;  3CB5 A;  4IKS A;  4QR8 A;  3PKC A;  3PN9 A;  1XGM A;  2GG5 A;  3IG4 A;  2GG7 A;  2BB7 A;  5CDL A;  3FM3 A;  2ZSG A;  2GG0 A;  2BHB A;  3FMR A;  5FCF A;  1KQ0 A;  2EVM A;  3PKA A;  2G6P A;  4U75 A;  5CNX A;  1C23 A;  1PV9 A;  1XGN A;  4FLK A;  2GG3 A;  4S00 A;  2EVC A;  2GU5 A;  1WL9 A;  5CIK A;  1C27 A;  3IU8 A;  2B3H A;  4FLJ A;  2BN7 A;  1C21 A;  2IW2 A;  1XNZ A; 
#chains in the Genus database with same CATH topology
 1N51 A;  4U6Z A;  1BOA A;  4EGE A;  1R58 A;  2HOW A;  1R5G A;  2GA2 A;  4ZNG A;  1QXY A;  4IKU A;  1MAT A;  1WBQ A;  1M35 A;  4ZWP A;  2NQ6 A;  2BWW A;  1YJ3 A;  2ADU A;  3PEB A;  2P99 A;  3MX6 A;  2BWY A;  4A6W A;  3CB6 A;  4IF7 A;  2GU4 A;  2B3L A;  2OAZ A;  2P98 A;  1WLR A;  3D27 A;  5E2C A;  3IU7 A;  2GG8 A;  4IEC A;  2BH3 A;  2V3Y A;  2BWV A;  2NQ7 A;  1W2M A;  2Q92 A;  3CTZ A;  2GGC A;  3MAT A;  4U6W A;  4ZWO A;  1WL6 A;  4S2R P;  5E5B A;  3TB5 A;  3BIT A;  5D6E A;  4MAT A;  4FO7 A;  2V3Z A;  3L7G A;  4FUK A;  1KQ9 A;  4U76 A;  1BN5 A;  2BWS A;  3Q6D A;  3BIP A;  2GG2 A;  2GTX A;  2GU7 A;  3O5V A;  4U70 A;  2Q93 A;  1KP0 A;  2GG9 A;  1YVM A;  3IU9 A;  4R60 A;  2BHA A;  2Q8K A;  1O0X A;  4PV4 A;  3PKB A;  4B28 A;  3PKE A;  5JI6 A;  1B6A A;  1YW8 A;  2GZ5 A;  4RZY A;  2P9A A;  1JAW A;  4IDY A;  2V3X A;  3S6B A;  1B59 A;  4FKC A;  5FCH A;  1C24 A;  2Q95 A;  1WKM A;  4RZZ A;  2OKN A;  2EA2 A;  4IU6 A;  2BWX A;  5D6F A;  5CDE A;  2B3K A;  4FLI A;  1C22 A;  3RVA A;  1Y1N A;  2GGB A;  5CE6 A;  1QXW A;  3FMQ A;  4U1B A;  3OVK A;  2V6C A;  1XGO A;  4ZWU A;  4FLL A;  3MR1 A;  4IKT A;  3L24 A;  4HXX A;  2MAT A;  2Q96 A;  5JHU A;  2Q94 A;  4U6C A;  4U6J A;  4PNC A;  4S01 A;  1QZY A;  1WY2 A;  1R5H A;  3ROR A;  4U69 A;  3TAV A;  1WN1 A;  4S2T P;  3IL0 A;  3QOC A;  1W7V A;  4IPA A;  4KM3 A;  2DFI A;  3OOO A;  2EVO A;  2BWT A;  4JUQ A;  5JFR A;  5CLS A;  1QXZ A;  4A6V A;  2BWU A;  4U6E A;  5CDV A;  4FO8 A;  1YW9 A;  4OOK A;  3I7M A;  4RGZ 1;  3PKD A;  1A16 A;  4IKR A;  4U71 A;  4Z7M A;  4U73 A;  1CHM A;  2BHC A;  2GU6 A;  3BIQ A;  1YW7 A;  2EA4 A;  2BHD A;  1XGS A;  3CB5 A;  4IKS A;  4QR8 A;  3PKC A;  3PN9 A;  1XGM A;  2GG5 A;  3IG4 A;  2GG7 A;  2BB7 A;  5CDL A;  3FM3 A;  2ZSG A;  2GG0 A;  2BHB A;  3FMR A;  5FCF A;  1KQ0 A;  2EVM A;  3PKA A;  2G6P A;  4U75 A;  5CNX A;  1C23 A;  1PV9 A;  1XGN A;  4FLK A;  2GG3 A;  4S00 A;  2EVC A;  2GU5 A;  1WL9 A;  5CIK A;  1C27 A;  3IU8 A;  2B3H A;  4FLJ A;  2BN7 A;  1C21 A;  2IW2 A;  1XNZ A; 
#chains in the Genus database with same CATH homology
 1N51 A;  4U6Z A;  1BOA A;  4EGE A;  1R58 A;  2HOW A;  1R5G A;  2GA2 A;  4ZNG A;  1QXY A;  4IKU A;  1MAT A;  1WBQ A;  1M35 A;  4ZWP A;  2NQ6 A;  2BWW A;  1YJ3 A;  2ADU A;  3PEB A;  2P99 A;  3MX6 A;  2BWY A;  4A6W A;  3CB6 A;  4IF7 A;  2GU4 A;  2B3L A;  2OAZ A;  2P98 A;  1WLR A;  3D27 A;  5E2C A;  3IU7 A;  2GG8 A;  4IEC A;  2BH3 A;  2V3Y A;  2BWV A;  2NQ7 A;  1W2M A;  2Q92 A;  3CTZ A;  2GGC A;  3MAT A;  4U6W A;  4ZWO A;  1WL6 A;  4S2R P;  5E5B A;  3TB5 A;  3BIT A;  5D6E A;  4MAT A;  4FO7 A;  2V3Z A;  3L7G A;  4FUK A;  1KQ9 A;  4U76 A;  1BN5 A;  2BWS A;  3Q6D A;  3BIP A;  2GG2 A;  2GTX A;  2GU7 A;  3O5V A;  4U70 A;  2Q93 A;  1KP0 A;  2GG9 A;  1YVM A;  3IU9 A;  4R60 A;  2BHA A;  2Q8K A;  1O0X A;  4PV4 A;  3PKB A;  4B28 A;  3PKE A;  5JI6 A;  1B6A A;  1YW8 A;  2GZ5 A;  4RZY A;  2P9A A;  1JAW A;  4IDY A;  2V3X A;  3S6B A;  1B59 A;  4FKC A;  5FCH A;  1C24 A;  2Q95 A;  1WKM A;  4RZZ A;  2OKN A;  2EA2 A;  4IU6 A;  2BWX A;  5D6F A;  5CDE A;  2B3K A;  4FLI A;  1C22 A;  3RVA A;  1Y1N A;  2GGB A;  5CE6 A;  1QXW A;  3FMQ A;  4U1B A;  3OVK A;  2V6C A;  1XGO A;  4ZWU A;  4FLL A;  3MR1 A;  4IKT A;  3L24 A;  4HXX A;  2MAT A;  2Q96 A;  5JHU A;  2Q94 A;  4U6C A;  4U6J A;  4PNC A;  4S01 A;  1QZY A;  1WY2 A;  1R5H A;  3ROR A;  4U69 A;  3TAV A;  1WN1 A;  4S2T P;  3IL0 A;  3QOC A;  1W7V A;  4IPA A;  4KM3 A;  2DFI A;  3OOO A;  2EVO A;  2BWT A;  4JUQ A;  5JFR A;  5CLS A;  1QXZ A;  4A6V A;  2BWU A;  4U6E A;  5CDV A;  4FO8 A;  1YW9 A;  4OOK A;  3I7M A;  4RGZ 1;  3PKD A;  1A16 A;  4IKR A;  4U71 A;  4Z7M A;  4U73 A;  1CHM A;  2BHC A;  2GU6 A;  3BIQ A;  1YW7 A;  2EA4 A;  2BHD A;  1XGS A;  3CB5 A;  4IKS A;  4QR8 A;  3PKC A;  3PN9 A;  1XGM A;  2GG5 A;  3IG4 A;  2GG7 A;  2BB7 A;  5CDL A;  3FM3 A;  2ZSG A;  2GG0 A;  2BHB A;  3FMR A;  5FCF A;  1KQ0 A;  2EVM A;  3PKA A;  2G6P A;  4U75 A;  5CNX A;  1C23 A;  1PV9 A;  1XGN A;  4FLK A;  2GG3 A;  4S00 A;  2EVC A;  2GU5 A;  1WL9 A;  5CIK A;  1C27 A;  3IU8 A;  2B3H A;  4FLJ A;  2BN7 A;  1C21 A;  2IW2 A;  1XNZ 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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5CDVA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations