SCOPe 2.06: Structural Classification of Proteins

PDB entry 1upm

View 1upm on RCSB PDB site
Description: activated spinach rubisco complexed with 2-carboxyarabinitol 2 bisphosphat and ca2+.
Class: lyase
Keywords: lyase, carbon-carbon, oxidoreductase, photosynthesis, carbon-dioxide fixation lyase (carbon-carbon)
Deposited on 2003-10-08, released 2003-10-14
The last revision prior to the SCOPe 2.06 freeze date was dated 2009-02-24, with a file datestamp of 2009-03-01.
Experiment type: XRAY
Resolution: 2.3 Å
R-factor: 0.23
AEROSPACI score: 0.33 (click here for full SPACI score report)

Chains and heterogens:

Chain 'B':
Compound: ribulose bisphosphate carboxylase large chain
Species: Spinacia oleracea [TaxId:3562]
Database cross-references and differences (RAF-indexed):
- Uniprot P00875 (Start-474)
Domains in SCOPe 2.06: d1upmb1, d1upmb2
Chain 'C':
Compound: ribulose bisphosphate carboxylase small chain
Species: Spinacia oleracea [TaxId:3562]
Database cross-references and differences (RAF-indexed):
- Uniprot Q43832 (0-122)
  - conflict (1)
  - conflict (5-6)
  - conflict (8)
  - conflict (10)
  - conflict (108)
  - conflict (112)
Domains in SCOPe 2.06: d1upmc_
Chain 'E':
Compound: ribulose bisphosphate carboxylase large chain
Species: Spinacia oleracea [TaxId:3562]
Database cross-references and differences (RAF-indexed):
- Uniprot P00875 (Start-474)
Domains in SCOPe 2.06: d1upme1, d1upme2
Chain 'F':
Compound: ribulose bisphosphate carboxylase small chain
Species: Spinacia oleracea [TaxId:3562]
Database cross-references and differences (RAF-indexed):
- Uniprot Q43832 (0-122)
  - conflict (1)
  - conflict (5-6)
  - conflict (8)
  - conflict (10)
  - conflict (108)
  - conflict (112)
Domains in SCOPe 2.06: d1upmf_
Chain 'H':
Compound: ribulose bisphosphate carboxylase large chain
Species: Spinacia oleracea [TaxId:3562]
Database cross-references and differences (RAF-indexed):
- Uniprot P00875 (Start-474)
Domains in SCOPe 2.06: d1upmh1, d1upmh2
Chain 'I':
Compound: ribulose bisphosphate carboxylase small chain
Species: Spinacia oleracea [TaxId:3562]
Database cross-references and differences (RAF-indexed):
- Uniprot Q43832 (0-122)
  - conflict (1)
  - conflict (5-6)
  - conflict (8)
  - conflict (10)
  - conflict (108)
  - conflict (112)
Domains in SCOPe 2.06: d1upmi_
Chain 'K':
Compound: ribulose bisphosphate carboxylase large chain
Species: Spinacia oleracea [TaxId:3562]
Database cross-references and differences (RAF-indexed):
- Uniprot P00875 (Start-474)
Domains in SCOPe 2.06: d1upmk1, d1upmk2
Chain 'L':
Compound: ribulose bisphosphate carboxylase large chain
Species: Spinacia oleracea [TaxId:3562]
Database cross-references and differences (RAF-indexed):
- Uniprot P00875 (Start-474)
Domains in SCOPe 2.06: d1upml1, d1upml2
Chain 'M':
Compound: ribulose bisphosphate carboxylase small chain
Species: Spinacia oleracea [TaxId:3562]
Database cross-references and differences (RAF-indexed):
- Uniprot Q43832 (0-122)
  - conflict (1)
  - conflict (5-6)
  - conflict (8)
  - conflict (10)
  - conflict (108)
  - conflict (112)
Domains in SCOPe 2.06: d1upmm_
Chain 'O':
Compound: ribulose bisphosphate carboxylase large chain
Species: Spinacia oleracea [TaxId:3562]
Database cross-references and differences (RAF-indexed):
- Uniprot P00875 (Start-474)
Domains in SCOPe 2.06: d1upmo1, d1upmo2
Chain 'P':
Compound: ribulose bisphosphate carboxylase small chain
Species: Spinacia oleracea [TaxId:3562]
Database cross-references and differences (RAF-indexed):
- Uniprot Q43832 (0-122)
  - conflict (1)
  - conflict (5-6)
  - conflict (8)
  - conflict (10)
  - conflict (108)
  - conflict (112)
Domains in SCOPe 2.06: d1upmp_
Chain 'R':
Compound: ribulose bisphosphate carboxylase large chain
Species: Spinacia oleracea [TaxId:3562]
Database cross-references and differences (RAF-indexed):
- Uniprot P00875 (Start-474)
Domains in SCOPe 2.06: d1upmr1, d1upmr2
Chain 'S':
Compound: ribulose bisphosphate carboxylase small chain
Species: Spinacia oleracea [TaxId:3562]
Database cross-references and differences (RAF-indexed):
- Uniprot Q43832 (0-122)
  - conflict (1)
  - conflict (5-6)
  - conflict (8)
  - conflict (10)
  - conflict (108)
  - conflict (112)
Domains in SCOPe 2.06: d1upms_
Chain 'T':
Compound: ribulose bisphosphate carboxylase small chain
Species: Spinacia oleracea [TaxId:3562]
Database cross-references and differences (RAF-indexed):
- Uniprot Q43832 (0-122)
  - conflict (1)
  - conflict (5-6)
  - conflict (8)
  - conflict (10)
  - conflict (108)
  - conflict (112)
Domains in SCOPe 2.06: d1upmt_
Chain 'V':
Compound: ribulose bisphosphate carboxylase large chain
Species: Spinacia oleracea [TaxId:3562]
Database cross-references and differences (RAF-indexed):
- Uniprot P00875 (Start-474)
Domains in SCOPe 2.06: d1upmv1, d1upmv2
Chain 'W':
Compound: ribulose bisphosphate carboxylase small chain
Species: Spinacia oleracea [TaxId:3562]
Database cross-references and differences (RAF-indexed):
- Uniprot Q43832 (0-122)
  - conflict (1)
  - conflict (5-6)
  - conflict (8)
  - conflict (10)
  - conflict (108)
  - conflict (112)
Domains in SCOPe 2.06: d1upmw_
Heterogens: CA, CAP, HOH

PDB Chain Sequences:

Chain 'B':
Sequence, based on SEQRES records: (download)

>1upmB (B:)
mspqtetkasvefkagvkdykltyytpeyetldtdilaafrvspqpgvppeeagaavaae
sstgtwttvwtdgltnldrykgrcyhiepvageenqyicyvaypldlfeegsvtnmftsi
vgnvfgfkalralrledlripvayvktfqgpphgiqverdklnkygrpllgctikpklgl
saknygravyeclrggldftkddenvnsqpfmrwrdrflfcaealykaqaetgeikghyl
natagtcedmmkravfarelgvpivmhdyltggftanttlshycrdnglllhihramhav
idrqknhgmhfrvlakalrlsggdhihsgtvvgklegerditlgfvdllrddytekdrsr
giyftqswvstpgvlpvasggihvwhmpalteifgddsvlqfgggtlghpwgnapgavan
rvaleacvqarnegrdlaregntiireatkwspelaaacevwkeikfefpamdtv

Sequence, based on observed residues (ATOM records): (download)

>1upmB (B:)
asvefkagvkdykltyytpeyetldtdilaafrvspqpgvppeeagaavaaesstgtwtt
vwtdgltnldrykgrcyhiepvageenqyicyvaypldlfeegsvtnmftsivgnvfgfk
alralrledlripvayvktfqgpphgiqverdklnkygrpllgctikpklglsaknygra
vyeclrggldftkddenvnsqpfmrwrdrflfcaealykaqaetgeikghylnatagtce
dmmkravfarelgvpivmhdyltggftanttlshycrdnglllhihramhavidrqknhg
mhfrvlakalrlsggdhihsgtvvgklegerditlgfvdllrddytekdrsrgiyftqsw
vstpgvlpvasggihvwhmpalteifgddsvlqfgggtlghpwgnapgavanrvaleacv
qarnegrdlaregntiireatkwspelaaacevwkeikfefpamdtv

Chain 'C':
Sequence; same for both SEQRES and ATOM records: (download)

>1upmC (C:)
mqvwpilnlkkyetlsylpplttdqlarqvdyllnnkwvpclefetdhgfvyrehhnspg
yydgrywtmwklpmfgctdpaqvlneleeckkeypnafiriigfdsnrevqcisfiaykp
agy

Chain 'E':
Sequence, based on SEQRES records: (download)

>1upmE (E:)
mspqtetkasvefkagvkdykltyytpeyetldtdilaafrvspqpgvppeeagaavaae
sstgtwttvwtdgltnldrykgrcyhiepvageenqyicyvaypldlfeegsvtnmftsi
vgnvfgfkalralrledlripvayvktfqgpphgiqverdklnkygrpllgctikpklgl
saknygravyeclrggldftkddenvnsqpfmrwrdrflfcaealykaqaetgeikghyl
natagtcedmmkravfarelgvpivmhdyltggftanttlshycrdnglllhihramhav
idrqknhgmhfrvlakalrlsggdhihsgtvvgklegerditlgfvdllrddytekdrsr
giyftqswvstpgvlpvasggihvwhmpalteifgddsvlqfgggtlghpwgnapgavan
rvaleacvqarnegrdlaregntiireatkwspelaaacevwkeikfefpamdtv

Sequence, based on observed residues (ATOM records): (download)

>1upmE (E:)
asvefkagvkdykltyytpeyetldtdilaafrvspqpgvppeeagaavaaesstgtwtt
vwtdgltnldrykgrcyhiepvageenqyicyvaypldlfeegsvtnmftsivgnvfgfk
alralrledlripvayvktfqgpphgiqverdklnkygrpllgctikpklglsaknygra
vyeclrggldftkddenvnsqpfmrwrdrflfcaealykaqaetgeikghylnatagtce
dmmkravfarelgvpivmhdyltggftanttlshycrdnglllhihramhavidrqknhg
mhfrvlakalrlsggdhihsgtvvgklegerditlgfvdllrddytekdrsrgiyftqsw
vstpgvlpvasggihvwhmpalteifgddsvlqfgggtlghpwgnapgavanrvaleacv
qarnegrdlaregntiireatkwspelaaacevwkeikfefpamdtv

Chain 'F':
Sequence; same for both SEQRES and ATOM records: (download)

>1upmF (F:)
mqvwpilnlkkyetlsylpplttdqlarqvdyllnnkwvpclefetdhgfvyrehhnspg
yydgrywtmwklpmfgctdpaqvlneleeckkeypnafiriigfdsnrevqcisfiaykp
agy

Chain 'H':
Sequence, based on SEQRES records: (download)

>1upmH (H:)
mspqtetkasvefkagvkdykltyytpeyetldtdilaafrvspqpgvppeeagaavaae
sstgtwttvwtdgltnldrykgrcyhiepvageenqyicyvaypldlfeegsvtnmftsi
vgnvfgfkalralrledlripvayvktfqgpphgiqverdklnkygrpllgctikpklgl
saknygravyeclrggldftkddenvnsqpfmrwrdrflfcaealykaqaetgeikghyl
natagtcedmmkravfarelgvpivmhdyltggftanttlshycrdnglllhihramhav
idrqknhgmhfrvlakalrlsggdhihsgtvvgklegerditlgfvdllrddytekdrsr
giyftqswvstpgvlpvasggihvwhmpalteifgddsvlqfgggtlghpwgnapgavan
rvaleacvqarnegrdlaregntiireatkwspelaaacevwkeikfefpamdtv

Sequence, based on observed residues (ATOM records): (download)

>1upmH (H:)
asvefkagvkdykltyytpeyetldtdilaafrvspqpgvppeeagaavaaesstgtwtt
vwtdgltnldrykgrcyhiepvageenqyicyvaypldlfeegsvtnmftsivgnvfgfk
alralrledlripvayvktfqgpphgiqverdklnkygrpllgctikpklglsaknygra
vyeclrggldftkddenvnsqpfmrwrdrflfcaealykaqaetgeikghylnatagtce
dmmkravfarelgvpivmhdyltggftanttlshycrdnglllhihramhavidrqknhg
mhfrvlakalrlsggdhihsgtvvgklegerditlgfvdllrddytekdrsrgiyftqsw
vstpgvlpvasggihvwhmpalteifgddsvlqfgggtlghpwgnapgavanrvaleacv
qarnegrdlaregntiireatkwspelaaacevwkeikfefpamdtv

Chain 'I':
Sequence; same for both SEQRES and ATOM records: (download)

>1upmI (I:)
mqvwpilnlkkyetlsylpplttdqlarqvdyllnnkwvpclefetdhgfvyrehhnspg
yydgrywtmwklpmfgctdpaqvlneleeckkeypnafiriigfdsnrevqcisfiaykp
agy

Chain 'K':
Sequence, based on SEQRES records: (download)

>1upmK (K:)
mspqtetkasvefkagvkdykltyytpeyetldtdilaafrvspqpgvppeeagaavaae
sstgtwttvwtdgltnldrykgrcyhiepvageenqyicyvaypldlfeegsvtnmftsi
vgnvfgfkalralrledlripvayvktfqgpphgiqverdklnkygrpllgctikpklgl
saknygravyeclrggldftkddenvnsqpfmrwrdrflfcaealykaqaetgeikghyl
natagtcedmmkravfarelgvpivmhdyltggftanttlshycrdnglllhihramhav
idrqknhgmhfrvlakalrlsggdhihsgtvvgklegerditlgfvdllrddytekdrsr
giyftqswvstpgvlpvasggihvwhmpalteifgddsvlqfgggtlghpwgnapgavan
rvaleacvqarnegrdlaregntiireatkwspelaaacevwkeikfefpamdtv

Sequence, based on observed residues (ATOM records): (download)

>1upmK (K:)
asvefkagvkdykltyytpeyetldtdilaafrvspqpgvppeeagaavaaesstgtwtt
vwtdgltnldrykgrcyhiepvageenqyicyvaypldlfeegsvtnmftsivgnvfgfk
alralrledlripvayvktfqgpphgiqverdklnkygrpllgctikpklglsaknygra
vyeclrggldftkddenvnsqpfmrwrdrflfcaealykaqaetgeikghylnatagtce
dmmkravfarelgvpivmhdyltggftanttlshycrdnglllhihramhavidrqknhg
mhfrvlakalrlsggdhihsgtvvgklegerditlgfvdllrddytekdrsrgiyftqsw
vstpgvlpvasggihvwhmpalteifgddsvlqfgggtlghpwgnapgavanrvaleacv
qarnegrdlaregntiireatkwspelaaacevwkeikfefpamdtv

Chain 'L':
Sequence, based on SEQRES records: (download)

>1upmL (L:)
mspqtetkasvefkagvkdykltyytpeyetldtdilaafrvspqpgvppeeagaavaae
sstgtwttvwtdgltnldrykgrcyhiepvageenqyicyvaypldlfeegsvtnmftsi
vgnvfgfkalralrledlripvayvktfqgpphgiqverdklnkygrpllgctikpklgl
saknygravyeclrggldftkddenvnsqpfmrwrdrflfcaealykaqaetgeikghyl
natagtcedmmkravfarelgvpivmhdyltggftanttlshycrdnglllhihramhav
idrqknhgmhfrvlakalrlsggdhihsgtvvgklegerditlgfvdllrddytekdrsr
giyftqswvstpgvlpvasggihvwhmpalteifgddsvlqfgggtlghpwgnapgavan
rvaleacvqarnegrdlaregntiireatkwspelaaacevwkeikfefpamdtv

Sequence, based on observed residues (ATOM records): (download)

>1upmL (L:)
asvefkagvkdykltyytpeyetldtdilaafrvspqpgvppeeagaavaaesstgtwtt
vwtdgltnldrykgrcyhiepvageenqyicyvaypldlfeegsvtnmftsivgnvfgfk
alralrledlripvayvktfqgpphgiqverdklnkygrpllgctikpklglsaknygra
vyeclrggldftkddenvnsqpfmrwrdrflfcaealykaqaetgeikghylnatagtce
dmmkravfarelgvpivmhdyltggftanttlshycrdnglllhihramhavidrqknhg
mhfrvlakalrlsggdhihsgtvvgklegerditlgfvdllrddytekdrsrgiyftqsw
vstpgvlpvasggihvwhmpalteifgddsvlqfgggtlghpwgnapgavanrvaleacv
qarnegrdlaregntiireatkwspelaaacevwkeikfefpamdtv

Chain 'M':
Sequence; same for both SEQRES and ATOM records: (download)

>1upmM (M:)
mqvwpilnlkkyetlsylpplttdqlarqvdyllnnkwvpclefetdhgfvyrehhnspg
yydgrywtmwklpmfgctdpaqvlneleeckkeypnafiriigfdsnrevqcisfiaykp
agy

Chain 'O':
Sequence, based on SEQRES records: (download)

>1upmO (O:)
mspqtetkasvefkagvkdykltyytpeyetldtdilaafrvspqpgvppeeagaavaae
sstgtwttvwtdgltnldrykgrcyhiepvageenqyicyvaypldlfeegsvtnmftsi
vgnvfgfkalralrledlripvayvktfqgpphgiqverdklnkygrpllgctikpklgl
saknygravyeclrggldftkddenvnsqpfmrwrdrflfcaealykaqaetgeikghyl
natagtcedmmkravfarelgvpivmhdyltggftanttlshycrdnglllhihramhav
idrqknhgmhfrvlakalrlsggdhihsgtvvgklegerditlgfvdllrddytekdrsr
giyftqswvstpgvlpvasggihvwhmpalteifgddsvlqfgggtlghpwgnapgavan
rvaleacvqarnegrdlaregntiireatkwspelaaacevwkeikfefpamdtv

Sequence, based on observed residues (ATOM records): (download)

>1upmO (O:)
asvefkagvkdykltyytpeyetldtdilaafrvspqpgvppeeagaavaaesstgtwtt
vwtdgltnldrykgrcyhiepvageenqyicyvaypldlfeegsvtnmftsivgnvfgfk
alralrledlripvayvktfqgpphgiqverdklnkygrpllgctikpklglsaknygra
vyeclrggldftkddenvnsqpfmrwrdrflfcaealykaqaetgeikghylnatagtce
dmmkravfarelgvpivmhdyltggftanttlshycrdnglllhihramhavidrqknhg
mhfrvlakalrlsggdhihsgtvvgklegerditlgfvdllrddytekdrsrgiyftqsw
vstpgvlpvasggihvwhmpalteifgddsvlqfgggtlghpwgnapgavanrvaleacv
qarnegrdlaregntiireatkwspelaaacevwkeikfefpamdtv

Chain 'P':
Sequence; same for both SEQRES and ATOM records: (download)

>1upmP (P:)
mqvwpilnlkkyetlsylpplttdqlarqvdyllnnkwvpclefetdhgfvyrehhnspg
yydgrywtmwklpmfgctdpaqvlneleeckkeypnafiriigfdsnrevqcisfiaykp
agy

Chain 'R':
Sequence, based on SEQRES records: (download)

>1upmR (R:)
mspqtetkasvefkagvkdykltyytpeyetldtdilaafrvspqpgvppeeagaavaae
sstgtwttvwtdgltnldrykgrcyhiepvageenqyicyvaypldlfeegsvtnmftsi
vgnvfgfkalralrledlripvayvktfqgpphgiqverdklnkygrpllgctikpklgl
saknygravyeclrggldftkddenvnsqpfmrwrdrflfcaealykaqaetgeikghyl
natagtcedmmkravfarelgvpivmhdyltggftanttlshycrdnglllhihramhav
idrqknhgmhfrvlakalrlsggdhihsgtvvgklegerditlgfvdllrddytekdrsr
giyftqswvstpgvlpvasggihvwhmpalteifgddsvlqfgggtlghpwgnapgavan
rvaleacvqarnegrdlaregntiireatkwspelaaacevwkeikfefpamdtv

Sequence, based on observed residues (ATOM records): (download)

>1upmR (R:)
asvefkagvkdykltyytpeyetldtdilaafrvspqpgvppeeagaavaaesstgtwtt
vwtdgltnldrykgrcyhiepvageenqyicyvaypldlfeegsvtnmftsivgnvfgfk
alralrledlripvayvktfqgpphgiqverdklnkygrpllgctikpklglsaknygra
vyeclrggldftkddenvnsqpfmrwrdrflfcaealykaqaetgeikghylnatagtce
dmmkravfarelgvpivmhdyltggftanttlshycrdnglllhihramhavidrqknhg
mhfrvlakalrlsggdhihsgtvvgklegerditlgfvdllrddytekdrsrgiyftqsw
vstpgvlpvasggihvwhmpalteifgddsvlqfgggtlghpwgnapgavanrvaleacv
qarnegrdlaregntiireatkwspelaaacevwkeikfefpamdtv

Chain 'S':
Sequence; same for both SEQRES and ATOM records: (download)

>1upmS (S:)
mqvwpilnlkkyetlsylpplttdqlarqvdyllnnkwvpclefetdhgfvyrehhnspg
yydgrywtmwklpmfgctdpaqvlneleeckkeypnafiriigfdsnrevqcisfiaykp
agy

Chain 'T':
Sequence; same for both SEQRES and ATOM records: (download)

>1upmT (T:)
mqvwpilnlkkyetlsylpplttdqlarqvdyllnnkwvpclefetdhgfvyrehhnspg
yydgrywtmwklpmfgctdpaqvlneleeckkeypnafiriigfdsnrevqcisfiaykp
agy

Chain 'V':
Sequence, based on SEQRES records: (download)

>1upmV (V:)
mspqtetkasvefkagvkdykltyytpeyetldtdilaafrvspqpgvppeeagaavaae
sstgtwttvwtdgltnldrykgrcyhiepvageenqyicyvaypldlfeegsvtnmftsi
vgnvfgfkalralrledlripvayvktfqgpphgiqverdklnkygrpllgctikpklgl
saknygravyeclrggldftkddenvnsqpfmrwrdrflfcaealykaqaetgeikghyl
natagtcedmmkravfarelgvpivmhdyltggftanttlshycrdnglllhihramhav
idrqknhgmhfrvlakalrlsggdhihsgtvvgklegerditlgfvdllrddytekdrsr
giyftqswvstpgvlpvasggihvwhmpalteifgddsvlqfgggtlghpwgnapgavan
rvaleacvqarnegrdlaregntiireatkwspelaaacevwkeikfefpamdtv

Sequence, based on observed residues (ATOM records): (download)

>1upmV (V:)
asvefkagvkdykltyytpeyetldtdilaafrvspqpgvppeeagaavaaesstgtwtt
vwtdgltnldrykgrcyhiepvageenqyicyvaypldlfeegsvtnmftsivgnvfgfk
alralrledlripvayvktfqgpphgiqverdklnkygrpllgctikpklglsaknygra
vyeclrggldftkddenvnsqpfmrwrdrflfcaealykaqaetgeikghylnatagtce
dmmkravfarelgvpivmhdyltggftanttlshycrdnglllhihramhavidrqknhg
mhfrvlakalrlsggdhihsgtvvgklegerditlgfvdllrddytekdrsrgiyftqsw
vstpgvlpvasggihvwhmpalteifgddsvlqfgggtlghpwgnapgavanrvaleacv
qarnegrdlaregntiireatkwspelaaacevwkeikfefpamdtv

Chain 'W':
Sequence; same for both SEQRES and ATOM records: (download)

>1upmW (W:)
mqvwpilnlkkyetlsylpplttdqlarqvdyllnnkwvpclefetdhgfvyrehhnspg
yydgrywtmwklpmfgctdpaqvlneleeckkeypnafiriigfdsnrevqcisfiaykp
agy