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

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
AH1 (7-10)TII1 (10-13)EMPTY3H1 (15-17)TIV3 (72-75)S2 (38-53)O2 (19-44)S1 (30-31)TI2 (33-36)S6 (93-101)S5 (78-87)S3 (65-67)TIV1 (58-61)S7 (103-109)S4 (69-70)S9 (126-129)TI4 (88-91)TIV4 (130-133)TII3 (122-125)S8 (115-121)S11 (141-149)TI5 (137-140)S10 (135-136)TVIII2 (133-136)TVIII3 (150-153)TI6 (153-156)AH2 (183-186)TI7 (158-161)TIV5 (163-166)TI8 (171-174)TI9 (174-177)3H2 (180-182)3H3 (224-226)S12 (192-205)S13 (210-220)TIV2 (70-73)TI1 (23-26)S14 (232-245)TI10 (206-209)TIV8 (205-208)TII2 (110-113)Updating...
connected with : NaN
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
5G39A 5KAIO 5GTIO 3KZIO 5B5EO 4UB8O 5E79O 5TISO 3A0HO 3WU2O 4UB6O 5H2FO 4IL6O 5B66O 2AXTO 5G38A 5GTHO 5KAFO 1S5LO 4PJ0O 3JCUO 3A0BO 5G3AA
chains in the Genus database with same CATH superfamily
4N75A 4U9CA 1IZNA 3AA7A 1HXXA 3BRYA 3KVDD 4GCQA 4O3YA 3PF1A 4FZNA 4RL9A 5KAIO 3SYBA 4GHBA 1BXWA 2KDYA 4AKRA 2F1TA 1P4TA 4FSOA 5DL7A 3SZDA 3SY9A 4LSIA 3SY7A 3LK2B 2PRNA 3AAEB 1GFQA 1MM5A 3VZWX 4IL6O 3AA0A 3G7GA 3LK41 5JDPA 2R88A 3HOEA 2Y2XA 2FGRA 2IWVA 3C5OA 4JCHA 2YNKA 5IYUA 4FESA 1T16A 3K19A 2W80C 5AFUK 2XG6A 4PJ0O 3T20A 2M07A 3WI4A 4KR8A 3LK2A 3DWNA 4AKRB 4C69X 2F1CX 4E1SA 1ZHWA 2XMXA 2Y0LA 4G76A 4O3ZA 4N74A 4AZLA 5G3AA 2MNHA 5PRNA 3AAAA 1OSMA 1PHOA 2R4OA 4N58A 5DL8A 4Z3TA 4FOZA 3AA0B 2MHLA 2ODJA 2ZFGA 3A2SX 3O0EA 3QRAA 4N59A 4RLCA 2R4LA 2WVPA 3PQSA 3HWBA 4FUVA 4O3XB 4D65A 5B5EO 4AKMA 2J4UP 4AFKA 4BUMX 3UU2A 4F4BA 1H6S1 2KZ7B 4LSHA 3WU2O 2Y0KA 5T5FA 3VY9X 3DA4A 4FZLA 5G26A 2WJQA 3LK3A 3PQUA 4RLBA 5H2FO 3NJTA 4FSPA 2AXTO 2F1VA 3PGUA 2QTKA 3FYXA 4AUIA 2ZLDA 2XTRA 4FRTA 2GE4A 2PORA 3AAAB 4GF4A 4C00A 2JQYA 3LK42 1MM4A 2R89A 2X9KA 3VZUX 3PGRA 2KZ7A 3POXA 2J1NA 3PRNA 3JTYA 3POUA 3DA3A 2K4TA 3JCUO 1GFMA 2LHFA 1ZHXA 2YPVA 2M06A 1BT9A 1ZHZA 4G75A 1GFNA 4B61A 5G39A 4AYEC 3LK3B 4RJWA 5ADXL 1QJPA 4KRAA 3DWOX 3VY8X 3HOLA 4O4UA 1THQA 3UAQA 5E79O 4AYDC 1Q9FA 1YS5A 4PUXA 2XE2A 3A0HO 3T24A 3T0SA 7PRNA 2KXPB 4UB6O 8PRNA 1MPFA 2XE1A 2XTQA 4FRXA 3SYSA 2FGQX 2WJRA 3AA6A 3BS0A 3WI5A 5B66O 4RJXA 1ORMA 4CTDA 1QJ8A 3PGSA 3V8UA 2XE3A 3QRCA 1ZHYA 4LSEA 3EMNX 2KC0A 4LSFA 5KAFO 4E1TA 1G90A 3VE1A 1S5LO 3NSGA 5DL6A 4AYMC 2R4NA 2KXPA 3PORA 5D5DA 5GV0A 2LFUA 3TZGA 1ZHTA 2N2LA 3AA1B 3GP6A 4FMSA 4QQ1A 2K0LA 4O4XA 4AYNA 5EE2A 4C4VB 3A0BO 5AFUL 1GFPA 3DZMA 4GCSA 6PRNA 3BRZA 4O3WA 3AA6B 2IWWA 4K3BA 5GTIO 3KZIO 4AYID 4D5UA 4UB8O 4XNKA 5TISO 4PR7A 2XE5A 3HW9A 4D64A 1E54A 3AA1A 1OPFA 4C4VA 1Q9GA 4GCPA 2N2MA 2ERVA 4K3CA 2Y0HA 1PRNA 4FT6A 4FQEA 4XNLA 1GFOA 2X27X 5DL5A 3SZVA 1IZNB 2W81C 2OMFA 3AA7B 4FZMA 5G38A 5GTHO 1HXTA 1HXUA 1QJ9A 4JFBA 2R8AA 4O49A 5FVNA 3UPGA 3AAEA 2Y7SA 5ADXK 1BH3A 4KR4A 2R4PA 3VE2A 3VZTX 2O4VA 3RBHA 2JMMA 1T1LA 3POQA
chains in the Genus database with same CATH topology
5G39A 5KAIO 5GTIO 3KZIO 5B5EO 4UB8O 5E79O 5TISO 3A0HO 3WU2O 4UB6O 5H2FO 4IL6O 5B66O 2AXTO 5G38A 5GTHO 5KAFO 1S5LO 4PJ0O 3JCUO 3A0BO 5G3AA
chains in the Genus database with same CATH homology


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