3JCU | Genus

Total Genus 41

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	41
sequence length	243
structure length	243
Chain Sequence	RLTYDEIQSKTYLEVKGTGTANQCPTVEGGVDSFAFKPGKYTAKKFCLEPTKFAVKAEGISKNSGPDFQNTKLMTRLTYTLDEIEGPFEVSSDGTVKFEEKDGIDYAAVTVQLPGGERVPFLFTIKQLVASGKPESFSGDFLVPSYRGSSFLDPKGRGGSTGYDNAVALPAGGRGDEEELQKENNKNVASSKGTITLSVTSSKPETGEVIGVFQSLQPSDTDLGAKVPKDVKIEGVWYAQLEQ

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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	Membrane protein
publication title	Structure of spinach photosystem II-LHCII supercomplex at 3.2 A resolution doi rcsb
molecule keywords	Photosystem II protein D1
total genus	41
structure length	243
sequence length	243
chains with identical sequence	o
ec nomenclature
pdb deposition date	2016-03-10

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
O	PF01716	MSP	Manganese-stabilising protein / photosystem II polypeptide

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

cath code	Class	Architecture	Topology	Homology	Domain
2.40.160.30	Mainly Beta	Beta Barrel	Porin	Photosystem II, cytochrome c-550 precursor	3jcuO01
3.30.2050.10	Alpha Beta	2-Layer Sandwich	photosynthetic oxygen evolving center fold	photosynthetic oxygen evolving center domain	3jcuO02

5G38A 5B5EO 5H2FO 4PJ0O 5G3AA 1S5LO 4IL6O 5KAIO 3A0BO 4UB8O 4UB6O 5GTIO 5GTHO 5E79O 3JCUO 3A0HO 5B66O 5KAFO 5TISO 3WU2O 5G39A 2AXTO 3KZIO
chains in the Genus database with same CATH superfamily

2R4NA 4Z3TA 5PRNA 5AFUL 3NJTA 4FRTA 4XNLA 2OMFA 1YS5A 2KZ7B 3DA3A 3LK3B 1OSMA 3POUA 3UAQA 3HOEA 4PR7A 5G3AA 3QRCA 4D64A 1QJPA 4FMSA 5KAIO 4GHBA 4FZLA 4RJWA 3DWNA 3T24A 1E54A 3AA0A 3QRAA 4UB6O 1Q9GA 3VY8X 4CTDA 2FGQX 1BXWA 2LFUA 5GV0A 3POXA 3JTYA 1IZNA 3SZVA 1GFNA 1THQA 3NSGA 2M06A 1GFQA 2PORA 4FT6A 2MNHA 5DL5A 4FZMA 3C5OA 4O49A 3AA7B 3VZWX 5TISO 3WI5A 4KRAA 3AA1B 4KR8A 4RJXA 3K19A 3WU2O 4AUIA 5ADXL 2ODJA 1G90A 4AZLA 2R88A 2AXTO 2XE5A 5DL8A 3PQUA 1GFMA 4AKRA 2J1NA 2WJQA 4GCPA 1ZHXA 3AAAB 2XE1A 1T16A 5G38A 3A2SX 4QQ1A 2KDYA 4JFBA 4LSFA 3KVDD 3T20A 1HXXA 1MM4A 3BS0A 4N58A 3HW9A 4FOZA 4PJ0O 3WI4A 3PGSA 3DWOX 3FYXA 5IYUA 4FSOA 1ZHWA 2R4OA 2KXPB 2W80C 3LK2A 4GF4A 3PORA 4N59A 4UB8O 4GCQA 3SYSA 3VE2A 5GTIO 4C4VA 4D65A 3V8UA 3PQSA 2X27X 3LK41 5FVNA 5GTHO 2N2MA 2ERVA 2XG6A 3AA6A 3PGRA 3PRNA 2KZ7A 3A0HO 4B61A 3LK42 6PRNA 1ZHZA 2XE2A 4E1SA 1PRNA 3SY7A 4KR4A 4FZNA 4D5UA 3T0SA 2M07A 4AYMC 1QJ8A 3AA0B 4FESA 2O4VA 2IWVA 2GE4A 4AKMA 4FRXA 4G76A 3VY9X 2F1TA 3AAEA 4AYEC 3UPGA 1IZNB 2R4PA 3VE1A 4C00A 5AFUK 1GFPA 3BRZA 4AFKA 1PHOA 2R8AA 3AA7A 1T1LA 1Q9FA 1BT9A 1S5LO 3EMNX 4IL6O 4LSIA 3VZTX 4FQEA 1HXTA 1OPFA 2R4LA 4O4UA 2XTRA 3RBHA 2IWWA 1ZHYA 4RLCA 3HOLA 3AAAA 2W81C 3DZMA 4C69X 4E1TA 4F4BA 2XMXA 5E79O 3SZDA 2LHFA 2X9KA 4PUXA 2JQYA 3GP6A 2YNKA 5G26A 1HXUA 1ORMA 3LK3A 5DL7A 4C4VB 3SYBA 1H6S1 3DA4A 2XTQA 2Y0LA 3LK2B 4O3WA 4AYID 5G39A 2PRNA 2K4TA 2WJRA 2XE3A 5T5FA 2J4UP 3KZIO 3SY9A 2Y0KA 2QTKA 4FSPA 3TZGA 3AA6B 4LSEA 2FGRA 3UU2A 2KC0A 2ZFGA 5B5EO 2N2LA 3HWBA 5H2FO 2K0LA 2R89A 2ZLDA 3POQA 1ZHTA 4N74A 4O3XB 3A0BO 4AYNA 1MM5A 5DL6A 1P4TA 4RL9A 3AA1A 2YPVA 4G75A 2WVPA 4FUVA 3AAEB 4AYDC 2Y0HA 3VZUX 4AKRB 4K3CA 1BH3A 2JMMA 4RLBA 4U9CA 5D5DA 3JCUO 2F1VA 1GFOA 3G7GA 4JCHA 3O0EA 2Y7SA 5B66O 4O3ZA 5KAFO 2MHLA 4XNKA 5EE2A 3BRYA 5JDPA 1MPFA 1QJ9A 2Y2XA 4N75A 3PF1A 4O3YA 4LSHA 2KXPA 4O4XA 8PRNA 5ADXK 2F1CX 7PRNA 4BUMX 3PGUA 4GCSA 4K3BA
chains in the Genus database with same CATH topology

5G38A 5B5EO 5H2FO 4PJ0O 5G3AA 1S5LO 4IL6O 5KAIO 3A0BO 4UB8O 4UB6O 5GTIO 5GTHO 5E79O 3JCUO 3A0HO 5B66O 5KAFO 5TISO 3WU2O 5G39A 2AXTO 3KZIO
chains in the Genus database with same CATH homology

#chains in the Genus database with same CATH superfamily
 5G38 A;  5B5E O;  5H2F O;  4PJ0 O;  5G3A A;  1S5L O;  4IL6 O;  5KAI O;  3A0B O;  4UB8 O;  4UB6 O;  5GTI O;  5GTH O;  5E79 O;  3JCU O;  3A0H O;  5B66 O;  5KAF O;  5TIS O;  3WU2 O;  5G39 A;  2AXT O;  3KZI O; 
#chains in the Genus database with same CATH topology
 2R4N A;  4Z3T A;  5PRN A;  5AFU L;  3NJT A;  4FRT A;  4XNL A;  2OMF A;  1YS5 A;  2KZ7 B;  3DA3 A;  3LK3 B;  1OSM A;  3POU A;  3UAQ A;  3HOE A;  4PR7 A;  5G3A A;  3QRC A;  4D64 A;  1QJP A;  4FMS A;  5KAI O;  4GHB A;  4FZL A;  4RJW A;  3DWN A;  3T24 A;  1E54 A;  3AA0 A;  3QRA A;  4UB6 O;  1Q9G A;  3VY8 X;  4CTD A;  2FGQ X;  1BXW A;  2LFU A;  5GV0 A;  3POX A;  3JTY A;  1IZN A;  3SZV A;  1GFN A;  1THQ A;  3NSG A;  2M06 A;  1GFQ A;  2POR A;  4FT6 A;  2MNH A;  5DL5 A;  4FZM A;  3C5O A;  4O49 A;  3AA7 B;  3VZW X;  5TIS O;  3WI5 A;  4KRA A;  3AA1 B;  4KR8 A;  4RJX A;  3K19 A;  3WU2 O;  4AUI A;  5ADX L;  2ODJ A;  1G90 A;  4AZL A;  2R88 A;  2AXT O;  2XE5 A;  5DL8 A;  3PQU A;  1GFM A;  4AKR A;  2J1N A;  2WJQ A;  4GCP A;  1ZHX A;  3AAA B;  2XE1 A;  1T16 A;  5G38 A;  3A2S X;  4QQ1 A;  2KDY A;  4JFB A;  4LSF A;  3KVD D;  3T20 A;  1HXX A;  1MM4 A;  3BS0 A;  4N58 A;  3HW9 A;  4FOZ A;  4PJ0 O;  3WI4 A;  3PGS A;  3DWO X;  3FYX A;  5IYU A;  4FSO A;  1ZHW A;  2R4O A;  2KXP B;  2W80 C;  3LK2 A;  4GF4 A;  3POR A;  4N59 A;  4UB8 O;  4GCQ A;  3SYS A;  3VE2 A;  5GTI O;  4C4V A;  4D65 A;  3V8U A;  3PQS A;  2X27 X;  3LK4 1;  5FVN A;  5GTH O;  2N2M A;  2ERV A;  2XG6 A;  3AA6 A;  3PGR A;  3PRN A;  2KZ7 A;  3A0H O;  4B61 A;  3LK4 2;  6PRN A;  1ZHZ A;  2XE2 A;  4E1S A;  1PRN A;  3SY7 A;  4KR4 A;  4FZN A;  4D5U A;  3T0S A;  2M07 A;  4AYM C;  1QJ8 A;  3AA0 B;  4FES A;  2O4V A;  2IWV A;  2GE4 A;  4AKM A;  4FRX A;  4G76 A;  3VY9 X;  2F1T A;  3AAE A;  4AYE C;  3UPG A;  1IZN B;  2R4P A;  3VE1 A;  4C00 A;  5AFU K;  1GFP A;  3BRZ A;  4AFK A;  1PHO A;  2R8A A;  3AA7 A;  1T1L A;  1Q9F A;  1BT9 A;  1S5L O;  3EMN X;  4IL6 O;  4LSI A;  3VZT X;  4FQE A;  1HXT A;  1OPF A;  2R4L A;  4O4U A;  2XTR A;  3RBH A;  2IWW A;  1ZHY A;  4RLC A;  3HOL A;  3AAA A;  2W81 C;  3DZM A;  4C69 X;  4E1T A;  4F4B A;  2XMX A;  5E79 O;  3SZD A;  2LHF A;  2X9K A;  4PUX A;  2JQY A;  3GP6 A;  2YNK A;  5G26 A;  1HXU A;  1ORM A;  3LK3 A;  5DL7 A;  4C4V B;  3SYB A;  1H6S 1;  3DA4 A;  2XTQ A;  2Y0L A;  3LK2 B;  4O3W A;  4AYI D;  5G39 A;  2PRN A;  2K4T A;  2WJR A;  2XE3 A;  5T5F A;  2J4U P;  3KZI O;  3SY9 A;  2Y0K A;  2QTK A;  4FSP A;  3TZG A;  3AA6 B;  4LSE A;  2FGR A;  3UU2 A;  2KC0 A;  2ZFG A;  5B5E O;  2N2L A;  3HWB A;  5H2F O;  2K0L A;  2R89 A;  2ZLD A;  3POQ A;  1ZHT A;  4N74 A;  4O3X B;  3A0B O;  4AYN A;  1MM5 A;  5DL6 A;  1P4T A;  4RL9 A;  3AA1 A;  2YPV A;  4G75 A;  2WVP A;  4FUV A;  3AAE B;  4AYD C;  2Y0H A;  3VZU X;  4AKR B;  4K3C A;  1BH3 A;  2JMM A;  4RLB A;  4U9C A;  5D5D A;  3JCU O;  2F1V A;  1GFO A;  3G7G A;  4JCH A;  3O0E A;  2Y7S A;  5B66 O;  4O3Z A;  5KAF O;  2MHL A;  4XNK A;  5EE2 A;  3BRY A;  5JDP A;  1MPF A;  1QJ9 A;  2Y2X A;  4N75 A;  3PF1 A;  4O3Y A;  4LSH A;  2KXP A;  4O4X A;  8PRN A;  5ADX K;  2F1C X;  7PRN A;  4BUM X;  3PGU A;  4GCS A;  4K3B A; 
#chains in the Genus database with same CATH homology
 5G38 A;  5B5E O;  5H2F O;  4PJ0 O;  5G3A A;  1S5L O;  4IL6 O;  5KAI O;  3A0B O;  4UB8 O;  4UB6 O;  5GTI O;  5GTH O;  5E79 O;  3JCU O;  3A0H O;  5B66 O;  5KAF O;  5TIS O;  3WU2 O;  5G39 A;  2AXT O;  3KZI O;

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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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3JCUO

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations