5IM5
Crystal structure of designed two-component self-assembling icosahedral cage i53-40
PDB DOI: 10.2210/pdb5im5/pdb
Classification: PROTEIN BINDING Organism(s): Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3)
Deposited: 2016-03-05 Deposition Author(s): Baker, D. , Bale, J.B. , Cascio, D. , Collazo, M.J. , King, N.P. , Liu, Y.A. , Sawaya, M.R. , Sheffler, W. , Thomas, C. , Yeates, T.O.
Experimental Data Snapshot
Method: X-RAY DIFFRACTION Resolution: 3.699 Å
Crystal structure of designed two-component self-assembling icosahedral cage i53-40
Baker, D. , Bale, J.B. , Cascio, D. , Collazo, M.J. , King, N.P. , Liu, Y.A. , Sawaya, M.R. , Sheffler, W. , Thomas, C. , Yeates, T.O.
Primary Citation of Related Structures: 5IM5
| Proteins | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| Designed Riboflavin synthase | K | 156 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MTKKVGIVDTTFARVDMASAAILTLKMESPNIKIIRKTVPGIKDLPVACKKLLEEEGCDIVMALGMPGKAEKDKVCAHEASLGLMLAQLMTNKHIIEVFVHEDEAKDDAELKILAARRAIEHALNVYYLLFKPEYLTRMAGKGLRQGFEDAGPARE |
| Designed Riboflavin synthase | M | 156 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MTKKVGIVDTTFARVDMASAAILTLKMESPNIKIIRKTVPGIKDLPVACKKLLEEEGCDIVMALGMPGKAEKDKVCAHEASLGLMLAQLMTNKHIIEVFVHEDEAKDDAELKILAARRAIEHALNVYYLLFKPEYLTRMAGKGLRQGFEDAGPARE |
| Designed Riboflavin synthase | O | 156 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MTKKVGIVDTTFARVDMASAAILTLKMESPNIKIIRKTVPGIKDLPVACKKLLEEEGCDIVMALGMPGKAEKDKVCAHEASLGLMLAQLMTNKHIIEVFVHEDEAKDDAELKILAARRAIEHALNVYYLLFKPEYLTRMAGKGLRQGFEDAGPARE |
| Designed Riboflavin synthase | Q | 156 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MTKKVGIVDTTFARVDMASAAILTLKMESPNIKIIRKTVPGIKDLPVACKKLLEEEGCDIVMALGMPGKAEKDKVCAHEASLGLMLAQLMTNKHIIEVFVHEDEAKDDAELKILAARRAIEHALNVYYLLFKPEYLTRMAGKGLRQGFEDAGPARE |
| Designed Riboflavin synthase | S | 156 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MTKKVGIVDTTFARVDMASAAILTLKMESPNIKIIRKTVPGIKDLPVACKKLLEEEGCDIVMALGMPGKAEKDKVCAHEASLGLMLAQLMTNKHIIEVFVHEDEAKDDAELKILAARRAIEHALNVYYLLFKPEYLTRMAGKGLRQGFEDAGPARE |
| Designed Riboflavin synthase | A | 156 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MTKKVGIVDTTFARVDMASAAILTLKMESPNIKIIRKTVPGIKDLPVACKKLLEEEGCDIVMALGMPGKAEKDKVCAHEASLGLMLAQLMTNKHIIEVFVHEDEAKDDAELKILAARRAIEHALNVYYLLFKPEYLTRMAGKGLRQGFEDAGPARE |
| Designed Riboflavin synthase | B | 156 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MTKKVGIVDTTFARVDMASAAILTLKMESPNIKIIRKTVPGIKDLPVACKKLLEEEGCDIVMALGMPGKAEKDKVCAHEASLGLMLAQLMTNKHIIEVFVHEDEAKDDAELKILAARRAIEHALNVYYLLFKPEYLTRMAGKGLRQGFEDAGPARE |
| Designed Riboflavin synthase | C | 156 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MTKKVGIVDTTFARVDMASAAILTLKMESPNIKIIRKTVPGIKDLPVACKKLLEEEGCDIVMALGMPGKAEKDKVCAHEASLGLMLAQLMTNKHIIEVFVHEDEAKDDAELKILAARRAIEHALNVYYLLFKPEYLTRMAGKGLRQGFEDAGPARE |
| Designed Riboflavin synthase | D | 156 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MTKKVGIVDTTFARVDMASAAILTLKMESPNIKIIRKTVPGIKDLPVACKKLLEEEGCDIVMALGMPGKAEKDKVCAHEASLGLMLAQLMTNKHIIEVFVHEDEAKDDAELKILAARRAIEHALNVYYLLFKPEYLTRMAGKGLRQGFEDAGPARE |
| Designed Riboflavin synthase | E | 156 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MTKKVGIVDTTFARVDMASAAILTLKMESPNIKIIRKTVPGIKDLPVACKKLLEEEGCDIVMALGMPGKAEKDKVCAHEASLGLMLAQLMTNKHIIEVFVHEDEAKDDAELKILAARRAIEHALNVYYLLFKPEYLTRMAGKGLRQGFEDAGPARE |
| Designed Riboflavin synthase | F | 156 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MTKKVGIVDTTFARVDMASAAILTLKMESPNIKIIRKTVPGIKDLPVACKKLLEEEGCDIVMALGMPGKAEKDKVCAHEASLGLMLAQLMTNKHIIEVFVHEDEAKDDAELKILAARRAIEHALNVYYLLFKPEYLTRMAGKGLRQGFEDAGPARE |
| Designed Riboflavin synthase | G | 156 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MTKKVGIVDTTFARVDMASAAILTLKMESPNIKIIRKTVPGIKDLPVACKKLLEEEGCDIVMALGMPGKAEKDKVCAHEASLGLMLAQLMTNKHIIEVFVHEDEAKDDAELKILAARRAIEHALNVYYLLFKPEYLTRMAGKGLRQGFEDAGPARE |
| Designed Riboflavin synthase | H | 156 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MTKKVGIVDTTFARVDMASAAILTLKMESPNIKIIRKTVPGIKDLPVACKKLLEEEGCDIVMALGMPGKAEKDKVCAHEASLGLMLAQLMTNKHIIEVFVHEDEAKDDAELKILAARRAIEHALNVYYLLFKPEYLTRMAGKGLRQGFEDAGPARE |
| Designed Riboflavin synthase | I | 156 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MTKKVGIVDTTFARVDMASAAILTLKMESPNIKIIRKTVPGIKDLPVACKKLLEEEGCDIVMALGMPGKAEKDKVCAHEASLGLMLAQLMTNKHIIEVFVHEDEAKDDAELKILAARRAIEHALNVYYLLFKPEYLTRMAGKGLRQGFEDAGPARE |
| Designed Riboflavin synthase | J | 156 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MTKKVGIVDTTFARVDMASAAILTLKMESPNIKIIRKTVPGIKDLPVACKKLLEEEGCDIVMALGMPGKAEKDKVCAHEASLGLMLAQLMTNKHIIEVFVHEDEAKDDAELKILAARRAIEHALNVYYLLFKPEYLTRMAGKGLRQGFEDAGPARE |
| Designed Keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase | P | 219 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MSTINNQLKALKVIPVIAIDNAEDIIPLGKVLAENGLPAAEITFRSSAAVKAIMLLRSAQPEMLIGAGTILNGVQALAAKEAGATFVVSPGFNPNTVRACQIIGIDIVPGVNNPSTVEAALEMGLTTLKFFPAEASGGISMVKSLVGPYGDIRLMPTGGITPSNIDNYLAIPQVLACGGTWMVDKKLVTNGEWDEIARLTREIVEQVNPGSLEHHHHHH |
| Designed Keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase | T | 219 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MSTINNQLKALKVIPVIAIDNAEDIIPLGKVLAENGLPAAEITFRSSAAVKAIMLLRSAQPEMLIGAGTILNGVQALAAKEAGATFVVSPGFNPNTVRACQIIGIDIVPGVNNPSTVEAALEMGLTTLKFFPAEASGGISMVKSLVGPYGDIRLMPTGGITPSNIDNYLAIPQVLACGGTWMVDKKLVTNGEWDEIARLTREIVEQVNPGSLEHHHHHH |
| Designed Keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase | N | 219 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MSTINNQLKALKVIPVIAIDNAEDIIPLGKVLAENGLPAAEITFRSSAAVKAIMLLRSAQPEMLIGAGTILNGVQALAAKEAGATFVVSPGFNPNTVRACQIIGIDIVPGVNNPSTVEAALEMGLTTLKFFPAEASGGISMVKSLVGPYGDIRLMPTGGITPSNIDNYLAIPQVLACGGTWMVDKKLVTNGEWDEIARLTREIVEQVNPGSLEHHHHHH |
| Designed Keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase | V | 219 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MSTINNQLKALKVIPVIAIDNAEDIIPLGKVLAENGLPAAEITFRSSAAVKAIMLLRSAQPEMLIGAGTILNGVQALAAKEAGATFVVSPGFNPNTVRACQIIGIDIVPGVNNPSTVEAALEMGLTTLKFFPAEASGGISMVKSLVGPYGDIRLMPTGGITPSNIDNYLAIPQVLACGGTWMVDKKLVTNGEWDEIARLTREIVEQVNPGSLEHHHHHH |
| Designed Keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase | W | 219 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MSTINNQLKALKVIPVIAIDNAEDIIPLGKVLAENGLPAAEITFRSSAAVKAIMLLRSAQPEMLIGAGTILNGVQALAAKEAGATFVVSPGFNPNTVRACQIIGIDIVPGVNNPSTVEAALEMGLTTLKFFPAEASGGISMVKSLVGPYGDIRLMPTGGITPSNIDNYLAIPQVLACGGTWMVDKKLVTNGEWDEIARLTREIVEQVNPGSLEHHHHHH |
| Designed Keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase | U | 219 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MSTINNQLKALKVIPVIAIDNAEDIIPLGKVLAENGLPAAEITFRSSAAVKAIMLLRSAQPEMLIGAGTILNGVQALAAKEAGATFVVSPGFNPNTVRACQIIGIDIVPGVNNPSTVEAALEMGLTTLKFFPAEASGGISMVKSLVGPYGDIRLMPTGGITPSNIDNYLAIPQVLACGGTWMVDKKLVTNGEWDEIARLTREIVEQVNPGSLEHHHHHH |
| Designed Keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase | Y | 219 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MSTINNQLKALKVIPVIAIDNAEDIIPLGKVLAENGLPAAEITFRSSAAVKAIMLLRSAQPEMLIGAGTILNGVQALAAKEAGATFVVSPGFNPNTVRACQIIGIDIVPGVNNPSTVEAALEMGLTTLKFFPAEASGGISMVKSLVGPYGDIRLMPTGGITPSNIDNYLAIPQVLACGGTWMVDKKLVTNGEWDEIARLTREIVEQVNPGSLEHHHHHH |
| Designed Keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase | Z | 219 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MSTINNQLKALKVIPVIAIDNAEDIIPLGKVLAENGLPAAEITFRSSAAVKAIMLLRSAQPEMLIGAGTILNGVQALAAKEAGATFVVSPGFNPNTVRACQIIGIDIVPGVNNPSTVEAALEMGLTTLKFFPAEASGGISMVKSLVGPYGDIRLMPTGGITPSNIDNYLAIPQVLACGGTWMVDKKLVTNGEWDEIARLTREIVEQVNPGSLEHHHHHH |
| Designed Keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase | X | 219 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MSTINNQLKALKVIPVIAIDNAEDIIPLGKVLAENGLPAAEITFRSSAAVKAIMLLRSAQPEMLIGAGTILNGVQALAAKEAGATFVVSPGFNPNTVRACQIIGIDIVPGVNNPSTVEAALEMGLTTLKFFPAEASGGISMVKSLVGPYGDIRLMPTGGITPSNIDNYLAIPQVLACGGTWMVDKKLVTNGEWDEIARLTREIVEQVNPGSLEHHHHHH |
| Designed Keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase | 2 | 219 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MSTINNQLKALKVIPVIAIDNAEDIIPLGKVLAENGLPAAEITFRSSAAVKAIMLLRSAQPEMLIGAGTILNGVQALAAKEAGATFVVSPGFNPNTVRACQIIGIDIVPGVNNPSTVEAALEMGLTTLKFFPAEASGGISMVKSLVGPYGDIRLMPTGGITPSNIDNYLAIPQVLACGGTWMVDKKLVTNGEWDEIARLTREIVEQVNPGSLEHHHHHH |
| Designed Keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase | 4 | 219 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MSTINNQLKALKVIPVIAIDNAEDIIPLGKVLAENGLPAAEITFRSSAAVKAIMLLRSAQPEMLIGAGTILNGVQALAAKEAGATFVVSPGFNPNTVRACQIIGIDIVPGVNNPSTVEAALEMGLTTLKFFPAEASGGISMVKSLVGPYGDIRLMPTGGITPSNIDNYLAIPQVLACGGTWMVDKKLVTNGEWDEIARLTREIVEQVNPGSLEHHHHHH |
| Designed Keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase | 1 | 219 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MSTINNQLKALKVIPVIAIDNAEDIIPLGKVLAENGLPAAEITFRSSAAVKAIMLLRSAQPEMLIGAGTILNGVQALAAKEAGATFVVSPGFNPNTVRACQIIGIDIVPGVNNPSTVEAALEMGLTTLKFFPAEASGGISMVKSLVGPYGDIRLMPTGGITPSNIDNYLAIPQVLACGGTWMVDKKLVTNGEWDEIARLTREIVEQVNPGSLEHHHHHH |
| Designed Keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase | L | 219 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MSTINNQLKALKVIPVIAIDNAEDIIPLGKVLAENGLPAAEITFRSSAAVKAIMLLRSAQPEMLIGAGTILNGVQALAAKEAGATFVVSPGFNPNTVRACQIIGIDIVPGVNNPSTVEAALEMGLTTLKFFPAEASGGISMVKSLVGPYGDIRLMPTGGITPSNIDNYLAIPQVLACGGTWMVDKKLVTNGEWDEIARLTREIVEQVNPGSLEHHHHHH |
| Designed Keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase | R | 219 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MSTINNQLKALKVIPVIAIDNAEDIIPLGKVLAENGLPAAEITFRSSAAVKAIMLLRSAQPEMLIGAGTILNGVQALAAKEAGATFVVSPGFNPNTVRACQIIGIDIVPGVNNPSTVEAALEMGLTTLKFFPAEASGGISMVKSLVGPYGDIRLMPTGGITPSNIDNYLAIPQVLACGGTWMVDKKLVTNGEWDEIARLTREIVEQVNPGSLEHHHHHH |
| Designed Keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase | 3 | 219 | Methanocaldococcus Jannaschii (Strain Atcc 43067 / Dsm 2661 / Jal-1 / Jcm 10045 / Nbrc 100440) , Vibrionales Bacterium (Strain Swat-3) | MSTINNQLKALKVIPVIAIDNAEDIIPLGKVLAENGLPAAEITFRSSAAVKAIMLLRSAQPEMLIGAGTILNGVQALAAKEAGATFVVSPGFNPNTVRACQIIGIDIVPGVNNPSTVEAALEMGLTTLKFFPAEASGGISMVKSLVGPYGDIRLMPTGGITPSNIDNYLAIPQVLACGGTWMVDKKLVTNGEWDEIARLTREIVEQVNPGSLEHHHHHH |
Experimental Data
Method: X-RAY DIFFRACTION
Deposited Date: 2016-03-05 Deposition Author(s): Baker, D. , Bale, J.B. , Cascio, D. , Collazo, M.J. , King, N.P. , Liu, Y.A. , Sawaya, M.R. , Sheffler, W. , Thomas, C. , Yeates, T.O.