4UB6O

Native structure of photosystem ii (dataset-1) by a femtosecond x-ray laser
Total Genus 54
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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
54
sequence length
243
structure length
243
Chain Sequence
TLTYDDIVGTGLANKCPTLDDTARGAYPIDSSQTYRIARLCLQPTTFLVKEEPKNKRQEAEFVPTKLVTRETTSLDQIQGELKVNSDGSLTFVEEDGIDFQPVTVQMAGGERIPLLFTVKNLVASTQPNVTSITTSTDFKGEFNVPSYRTANFLDPKGRGLASGYDSAIALPQAKEEELARANVKRFSLTKGQISLNVAKVDGRTGEIAGTFESEQLSDDDMGAHEPHEVKIQGVFYASIEPA
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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 tags Electron transport, photosynthesis
publication title Native structure of photosystem II at 1.95 angstrom resolution viewed by femtosecond X-ray pulses.
pubmed doi rcsb
molecule keywords Photosystem Q(B) protein
total genus 54
structure length 243
sequence length 243
chains with identical sequence o
ec nomenclature
pdb deposition date 2014-08-12

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
ClassArchitectureTopologyHomologyDomain
2.40.160.30 Mainly Beta Beta Barrel Porin Photosystem II, cytochrome c-550 precursor 4ub6O01
3.30.2050.10 Alpha Beta 2-Layer Sandwich photosynthetic oxygen evolving center fold photosynthetic oxygen evolving center domain 4ub6O02
5G3AA 5G38A 3A0HO 3KZIO 5GTHO 1S5LO 5TISO 5KAFO 3JCUO 5KAIO 4IL6O 2AXTO 5G39A 5H2FO 4UB8O 3WU2O 5GTIO 5E79O 4UB6O 5B66O 3A0BO 4PJ0O 5B5EO
chains in the Genus database with same CATH superfamily
2XTRA 2LFUA 2X27X 2XG6A 1OPFA 5G38A 5D5DA 4LSFA 1GFOA 3LK2B 3LK2A 3UAQA 1MPFA 5GTHO 4GCSA 4O4UA 1QJ9A 4FZNA 4N58A 5IYUA 2R4LA 1S5LO 1OSMA 2GE4A 3C5OA 2AXTO 2XTQA 4U9CA 5G39A 2N2LA 5JDPA 4AFKA 3POXA 4B61A 4G76A 2WVPA 3PGSA 4BUMX 8PRNA 1QJPA 4FSOA 2FGQX 3PORA 2Y7SA 3WU2O 2J4UP 3PRNA 4JCHA 1ZHWA 2ZFGA 2K4TA 2F1VA 2R4OA 3AAAB 4FRXA 4O3ZA 2IWVA 3AA1A 4O3WA 1ZHYA 1Q9GA 4FESA 3G7GA 1GFQA 2Y0KA 5E79O 4N59A 5DL6A 4PUXA 5G26A 3POUA 5B5EO 2J1NA 3SYSA 2JMMA 4FUVA 3EMNX 3HWBA 3AA0B 3AA0A 3GP6A 4AYID 4JFBA 2F1CX 3LK42 1QJ8A 4GCQA 3DA3A 4FSPA 2MHLA 3QRAA 3LK3B 3T0SA 1ZHTA 3LK3A 1H6S1 3T20A 4AUIA 1ZHZA 4O49A 4N74A 4LSEA 2M06A 2ZLDA 2MNHA 1BT9A 3BRZA 3VZWX 4AYEC 2M07A 1PHOA 4LSIA 4O3XB 2FGRA 3POQA 4GF4A 4C69X 4CTDA 1PRNA 1GFPA 2ERVA 4LSHA 2QTKA 1THQA 3AAAA 3HOEA 4RJWA 3PF1A 5T5FA 4D5UA 3VE2A 2Y2XA 4E1SA 2LHFA 1ZHXA 4FQEA 4GCPA 3O0EA 3UPGA 3A2SX 1GFNA 5DL5A 4KR8A 3PGUA 3WI5A 3VE1A 5G3AA 5DL7A 1T1LA 2K0LA 3T24A 2KDYA 1P4TA 1YS5A 2N2MA 4XNLA 3TZGA 4FMSA 2W80C 2X9KA 4RJXA 4RLCA 1MM4A 2R4PA 4Z3TA 1G90A 2ODJA 3UU2A 2XMXA 3JCUO 5KAIO 4IL6O 2WJQA 4KRAA 5H2FO 1HXXA 2O4VA 3JTYA 3RBHA 4D64A 2W81C 4FOZA 3BRYA 2F1TA 5DL8A 3SY9A 3SZVA 4PJ0O 1GFMA 3VY8X 2XE5A 2YNKA 3AA7B 5AFUL 1Q9FA 4FRTA 3VZTX 2PORA 3DWNA 3SY7A 1MM5A 4K3BA 4N75A 5EE2A 5GV0A 4E1TA 1IZNB 4PR7A 2PRNA 2OMFA 4K3CA 3DZMA 5GTIO 2KC0A 3WI4A 4AKMA 1BXWA 1T16A 3NJTA 4UB6O 2WJRA 4AKRA 3NSGA 3A0BO 4AKRB 5B66O 7PRNA 5ADXK 3V8UA 3HOLA 3PQSA 4D65A 3PGRA 3LK41 3A0HO 3KZIO 1E54A 2R88A 4AZLA 2KZ7B 2YPVA 3SYBA 2KZ7A 4KR4A 3SZDA 2Y0LA 3DWOX 4QQ1A 3FYXA 2Y0HA 3QRCA 1HXTA 3BS0A 5KAFO 5TISO 3K19A 4C4VB 4C4VA 3PQUA 5ADXL 4AYMC 2R8AA 4AYDC 2XE2A 3AAEB 4XNKA 2XE3A 1BH3A 3AAEA 5AFUK 6PRNA 2XE1A 3KVDD 3HW9A 5PRNA 3VY9X 4UB8O 1ORMA 4GHBA 5FVNA 4O4XA 4F4BA 3AA1B 4C00A 3AA7A 2R89A 2KXPB 3AA6B 2R4NA 2KXPA 3AA6A 3DA4A 4FZMA 4O3YA 4RL9A 2IWWA 4G75A 4FZLA 1IZNA 1HXUA 4AYNA 2JQYA 4FT6A 4RLBA 3VZUX
chains in the Genus database with same CATH topology
5G3AA 5G38A 3A0HO 3KZIO 5GTHO 1S5LO 5TISO 5KAFO 3JCUO 5KAIO 4IL6O 2AXTO 5G39A 5H2FO 4UB8O 3WU2O 5GTIO 5E79O 4UB6O 5B66O 3A0BO 4PJ0O 5B5EO
chains in the Genus database with same CATH homology


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

 
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