Structure of cold grown pea Photosystem I
Nelson, N., Caspy, I., Subramanyam, R.To be published.
Experimental Data Snapshot
Starting Model: experimental
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This entry reflects an alternative modeling of the original data in: 5L8R
Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Photosystem I P700 chlorophyll a apoprotein A1 | 743 | Pisum sativum | Mutation(s): 0  EC: 1.97.1.12 Membrane Entity: Yes  | ||
UniProt | |||||
Find proteins for A0A0F6NFW5 (Pisum sativum) Explore A0A0F6NFW5  Go to UniProtKB:  A0A0F6NFW5 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | A0A0F6NFW5 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 2 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Photosystem I P700 chlorophyll a apoprotein A2 | 733 | Pisum sativum | Mutation(s): 0  EC: 1.97.1.12 Membrane Entity: Yes  | ||
UniProt | |||||
Find proteins for A0A0F6NGI2 (Pisum sativum) Explore A0A0F6NGI2  Go to UniProtKB:  A0A0F6NGI2 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | A0A0F6NGI2 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 3 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Photosystem I iron-sulfur center | 80 | Pisum sativum | Mutation(s): 0  EC: 1.97.1.12 Membrane Entity: Yes  | ||
UniProt | |||||
Find proteins for P10793 (Pisum sativum) Explore P10793  Go to UniProtKB:  P10793 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P10793 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 4 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
PsaD | 143 | Pisum sativum | Mutation(s): 0  | ||
UniProt | |||||
Find proteins for E1C9K8 (Pisum sativum) Explore E1C9K8  Go to UniProtKB:  E1C9K8 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | E1C9K8 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 5 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
PsaE | 66 | Pisum sativum | Mutation(s): 0  Membrane Entity: Yes  | ||
UniProt | |||||
Find proteins for E1C9K6 (Pisum sativum) Explore E1C9K6  Go to UniProtKB:  E1C9K6 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | E1C9K6 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 6 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Photosystem I reaction center subunit III | 154 | Pisum sativum | Mutation(s): 0  Membrane Entity: Yes  | ||
UniProt | |||||
Find proteins for A0A0M3KL12 (Pisum sativum) Explore A0A0M3KL12  Go to UniProtKB:  A0A0M3KL12 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | A0A0M3KL12 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 7 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
PsaG | 97 | Pisum sativum | Mutation(s): 0  | ||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 8 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Photosystem I reaction center subunit VI | 88 | Pisum sativum | Mutation(s): 0  Membrane Entity: Yes  | ||
UniProt | |||||
Find proteins for A0A0M3KL10 (Pisum sativum) Explore A0A0M3KL10  Go to UniProtKB:  A0A0M3KL10 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | A0A0M3KL10 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 9 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Photosystem I reaction center subunit VIII | 30 | Pisum sativum | Mutation(s): 0  Membrane Entity: Yes  | ||
UniProt | |||||
Find proteins for P17227 (Pisum sativum) Explore P17227  Go to UniProtKB:  P17227 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P17227 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 10 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Photosystem I reaction center subunit IX | 42 | Pisum sativum | Mutation(s): 0  Membrane Entity: Yes  | ||
UniProt | |||||
Find proteins for D5MAL3 (Pisum sativum) Explore D5MAL3  Go to UniProtKB:  D5MAL3 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | D5MAL3 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 11 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Photosystem I reaction center subunit X psaK | 80 | Pisum sativum | Mutation(s): 0  Membrane Entity: Yes  | ||
UniProt | |||||
Find proteins for E1C9L3 (Pisum sativum) Explore E1C9L3  Go to UniProtKB:  E1C9L3 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | E1C9L3 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 12 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
PsaL domain-containing protein | 157 | Pisum sativum | Mutation(s): 0  Membrane Entity: Yes  | ||
UniProt | |||||
Find proteins for E1C9L1 (Pisum sativum) Explore E1C9L1  Go to UniProtKB:  E1C9L1 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | E1C9L1 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 13 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Lhca1 | M [auth 1] | 193 | Pisum sativum | Mutation(s): 0  | |
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 14 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Chlorophyll a-b binding protein, chloroplastic | N [auth 2] | 208 | Pisum sativum | Mutation(s): 0  Membrane Entity: Yes  | |
UniProt | |||||
Find proteins for Q41038 (Pisum sativum) Explore Q41038  Go to UniProtKB:  Q41038 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q41038 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 15 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Chlorophyll a-b binding protein 3, chloroplastic | O [auth 3] | 221 | Pisum sativum | Mutation(s): 0  Membrane Entity: Yes  | |
UniProt | |||||
Find proteins for Q32904 (Pisum sativum) Explore Q32904  Go to UniProtKB:  Q32904 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q32904 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 16 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Chlorophyll a-b binding protein P4, chloroplastic | P [auth 4] | 198 | Pisum sativum | Mutation(s): 0  Membrane Entity: Yes  | |
UniProt | |||||
Find proteins for Q9SQL2 (Pisum sativum) Explore Q9SQL2  Go to UniProtKB:  Q9SQL2 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q9SQL2 | ||||
Sequence AnnotationsExpand | |||||
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Ligands 15 Unique | |||||
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ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
DGD Query on DGD | HH [auth 2], IE [auth F], OF [auth 1], VD [auth B], ZE [auth J] | DIGALACTOSYL DIACYL GLYCEROL (DGDG) C51 H96 O15 LDQFLSUQYHBXSX-HXXRYREZSA-N | |||
CHL Query on CHL | AG [auth 1] CG [auth 1] CI [auth 4] NI [auth 4] OI [auth 4] | CHLOROPHYLL B C55 H70 Mg N4 O6 MWVCRINOIIOUAU-UYSPMESUSA-M | |||
CLA Query on CLA | AA [auth A] AB [auth A] AC [auth B] AD [auth B] AE [auth F] | CHLOROPHYLL A C55 H72 Mg N4 O5 ATNHDLDRLWWWCB-AENOIHSZSA-M | |||
CL0 Query on CL0 | Q [auth A] | CHLOROPHYLL A ISOMER C55 H72 Mg N4 O5 VIQFHHZSLDFWDU-DVXFRRMCSA-M | |||
LMG Query on LMG | BH [auth 2] CH [auth 2] DH [auth 2] EH [auth 2] FE [auth F] | 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE C45 H86 O10 DCLTVZLYPPIIID-CVELTQQQSA-N | |||
LHG Query on LHG | AH [auth 2] FG [auth 1] LB [auth A] MB [auth A] OD [auth B] | 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE C38 H75 O10 P BIABMEZBCHDPBV-MPQUPPDSSA-N | |||
XAT Query on XAT | EI [auth 4], KG [auth 2] | (3S,5R,6S,3'S,5'R,6'S)-5,6,5',6'-DIEPOXY-5,6,5',6'- TETRAHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL C40 H56 O4 SZCBXWMUOPQSOX-WVJDLNGLSA-N | |||
LUT Query on LUT | DI [auth 4] JG [auth 2] KH [auth 3] LH [auth 3] PF [auth 1] | (3R,3'R,6S)-4,5-DIDEHYDRO-5,6-DIHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL C40 H56 O2 KBPHJBAIARWVSC-NSIPBSJQSA-N | |||
ZEX Query on ZEX | JE [auth F] | (1R,2S)-4-{(1E,3E,5E,7E,9E,11E,13E,15E,17E)-18-[(4S)-4-hydroxy-2,6,6-trimethylcyclohex-1-en-1-yl]-3,7,12,16-tetramethyloctadeca-1,3,5,7,9,11,13,15,17-nonaen-1-yl}-2,5,5-trimethylcyclohex-3-en-1-ol C40 H56 O2 YRMDXLDAZBQLBK-WIHRHFSMSA-N | |||
BCR Query on BCR | BI [auth 4] DE [auth F] EE [auth F] FF [auth K] GB [auth A] | BETA-CAROTENE C40 H56 OENHQHLEOONYIE-JLTXGRSLSA-N | |||
LMT Query on LMT | AF [auth J] FH [auth 2] NB [auth A] OE [auth G] PE [auth G] | DODECYL-BETA-D-MALTOSIDE C24 H46 O11 NLEBIOOXCVAHBD-QKMCSOCLSA-N | |||
PQN Query on PQN | EB [auth A], ID [auth B] | PHYLLOQUINONE C31 H46 O2 MBWXNTAXLNYFJB-NKFFZRIASA-N | |||
SF4 Query on SF4 | FB [auth A], YD [auth C], ZD [auth C] | IRON/SULFUR CLUSTER Fe4 S4 LJBDFODJNLIPKO-UHFFFAOYSA-N | |||
GOL Query on GOL | RB [auth A], VI [auth 4] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N | |||
CA Query on CA | JH [auth 3], XD [auth B] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 190.197 | α = 90 |
b = 201.786 | β = 90 |
c = 213.614 | γ = 90 |
Software Name | Purpose |
---|---|
PHENIX | refinement |
XDS | data reduction |
Aimless | data scaling |
MOLREP | phasing |
Funding Organization | Location | Grant Number |
---|---|---|
Israel Science Foundation | Israel | 569/17 |
The University Grants Committee, Research Grants Council (RGC) | India | 2716/17 |