1RXOC

Activated spinach rubisco in complex with its substrate ribulose-1,5-bisphosphate and calcium
Total Genus 26

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
26
sequence length
123
structure length
123
Chain Sequence
MQVWPILNLKKYETLSYLPPLTTDQLARQVDYLLNNKWVPCLEFETDHGFVYREHHNSPGYYDGRYWTMWKLPMFGCTDPAQVLNELEECKKEYPNAFIRIIGFDSNREVQCISFIAYKPAGY
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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.


  Genus data interpretation
Chord Diagram
EMPTYTII1 (13-16)TI1 (15-18)S1 (39-45)TII3 (74-77)TIV2 (45-48)TIV4 (62-65)TII2 (58-61)S3 (98-105)AH2 (80-93)S2 (68-70)TIV5 (69-72)TI2 (94-97)S4 (110-118)TIV3 (53-56)TI3 (105-108)AH1 (23-36)Updating...
connected with : NaN
publication title The structure of the complex between rubisco and its natural substrate ribulose 1,5-bisphosphate.
pubmed doi rcsb
molecule keywords RIBULOSE BISPHOSPHATE CARBOXYLASE/OXYGENASE
molecule tags Lyase (carbon-carbon)
total genus 26
structure length 123
sequence length 123
chains with identical sequence F, I, S
ec nomenclature ec 4.1.1.39: Ribulose-bisphosphate carboxylase.
pdb deposition date 1996-12-06

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
C PF00101 RuBisCO_small Ribulose bisphosphate carboxylase, small chain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.30.190.10 Alpha Beta 2-Layer Sandwich Ribulose 1,5 Bisphosphate Carboxylase/Oxygenase Ribulose bisphosphate carboxylase, small subunit 1rxoC00
1SVDM 1UWAC 1UZDC 1AUSS 1RLDS 1WDDS 2V6AI 3RUBS 2YBVB 3AXKS 1RXOC 1UZHC 1IR1S 1IR21 1RCXC 4F0HB 1RLCS 4HHHS 1RCOC 2V63I 3ZXWB 1RSCI 4F0MB 1EJ7S 2VDHI 1RBLI 4MKVS 2V67I 1AA1C 4RUBS 8RUCI 4F0KB 1UW9C 1GK8I 1IWAB 1RBOC 1BWVS 2VDII 2V69I 1UPPI 2V68I 3AXMS 1BXNI 1UPMC
chains in the Genus database with same CATH superfamily
3QOYA 1DWUA 1SVDM 1UWAC 1UZDC 1AUSS 1RLDS 1WDDS 2V6AI 5DM70 1AD2A 2DFXI 3RUBS 4DFCB 1I2AA 2YBVB 3UMYA 3AXKS 1RXOC 1UZHC 1U63A 3FPNA 4QVIA 1IR1S 1IR21 4QGBA 1RCXC 4F0HB 1RLCS 3TG8A 4QG3A 4HHHS 1RCOC 2V63I 3U4MA 3ZXWB 2HW8A 1RSCI 3ZQJA 4F0MB 1EJ7S 4F9TA 2VDHI 4REOA 1RBLI 2FHZA 4MKVS 2V67I 5DM60 1AA1C 4RUBS 3U56A 1CJSA 4LQ4A 8RUCI 4F0KB 1UW9C 1GK8I 1IWAB 1RBOC 1BWVS 2VDII 1ZHOA 1MZPA 2V69I 1UPPI 2V68I 3AXMS 1BXNI 1UPMC
chains in the Genus database with same CATH topology
1SVDM 1UWAC 1UZDC 1AUSS 1RLDS 1WDDS 2V6AI 3RUBS 2YBVB 3AXKS 1RXOC 1UZHC 1IR1S 1IR21 1RCXC 4F0HB 1RLCS 4HHHS 1RCOC 2V63I 3ZXWB 1RSCI 4F0MB 1EJ7S 2VDHI 1RBLI 4MKVS 2V67I 1AA1C 4RUBS 8RUCI 4F0KB 1UW9C 1GK8I 1IWAB 1RBOC 1BWVS 2VDII 2V69I 1UPPI 2V68I 3AXMS 1BXNI 1UPMC
chains in the Genus database with same CATH homology

  
#chains in the Genus database with same CATH superfamily
 1SVD M;  1UWA C;  1UZD C;  1AUS S;  1RLD S;  1WDD S;  2V6A I;  3RUB S;  2YBV B;  3AXK S;  1RXO C;  1UZH C;  1IR1 S;  1IR2 1;  1RCX C;  4F0H B;  1RLC S;  4HHH S;  1RCO C;  2V63 I;  3ZXW B;  1RSC I;  4F0M B;  1EJ7 S;  2VDH I;  1RBL I;  4MKV S;  2V67 I;  1AA1 C;  4RUB S;  8RUC I;  4F0K B;  1UW9 C;  1GK8 I;  1IWA B;  1RBO C;  1BWV S;  2VDI I;  2V69 I;  1UPP I;  2V68 I;  3AXM S;  1BXN I;  1UPM C; 
#chains in the Genus database with same CATH topology
 3QOY A;  1DWU A;  1SVD M;  1UWA C;  1UZD C;  1AUS S;  1RLD S;  1WDD S;  2V6A I;  5DM7 0;  1AD2 A;  2DFX I;  3RUB S;  4DFC B;  1I2A A;  2YBV B;  3UMY A;  3AXK S;  1RXO C;  1UZH C;  1U63 A;  3FPN A;  4QVI A;  1IR1 S;  1IR2 1;  4QGB A;  1RCX C;  4F0H B;  1RLC S;  3TG8 A;  4QG3 A;  4HHH S;  1RCO C;  2V63 I;  3U4M A;  3ZXW B;  2HW8 A;  1RSC I;  3ZQJ A;  4F0M B;  1EJ7 S;  4F9T A;  2VDH I;  4REO A;  1RBL I;  2FHZ A;  4MKV S;  2V67 I;  5DM6 0;  1AA1 C;  4RUB S;  3U56 A;  1CJS A;  4LQ4 A;  8RUC I;  4F0K B;  1UW9 C;  1GK8 I;  1IWA B;  1RBO C;  1BWV S;  2VDI I;  1ZHO A;  1MZP A;  2V69 I;  1UPP I;  2V68 I;  3AXM S;  1BXN I;  1UPM C; 
#chains in the Genus database with same CATH homology
 1SVD M;  1UWA C;  1UZD C;  1AUS S;  1RLD S;  1WDD S;  2V6A I;  3RUB S;  2YBV B;  3AXK S;  1RXO C;  1UZH C;  1IR1 S;  1IR2 1;  1RCX C;  4F0H B;  1RLC S;  4HHH S;  1RCO C;  2V63 I;  3ZXW B;  1RSC I;  4F0M B;  1EJ7 S;  2VDH I;  1RBL I;  4MKV S;  2V67 I;  1AA1 C;  4RUB S;  8RUC I;  4F0K B;  1UW9 C;  1GK8 I;  1IWA B;  1RBO C;  1BWV S;  2VDI I;  2V69 I;  1UPP I;  2V68 I;  3AXM S;  1BXN I;  1UPM C;
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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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