4V1W

3D structure of horse spleen apoferritin determined by electron cryomicroscopy

> Summary

Summary for 4V1W

EMDB informationEMD-2788
DescriptorFERRITIN LIGHT CHAIN (1 entity in total)
Functional Keywordsstorage protein, iron storage, iron transport, ferritins, apoferritins, horses, metals, spleen
Biological sourceEQUUS CABALLUS (HORSE)
Total number of polymer chains24
Total molecular weight476938.27
Authors
Russo, C.J.,Passmore, L.A. (deposition date: 2014-10-02, release date: 2014-12-10, Last modification date: 2017-08-02)
Primary citation
Russo, C.J.,Passmore, L.A.
Electron Microscopy. Ultrastable Gold Substrates for Electron Cryomicroscopy.
Science, 346:1377-, 2014
PubMed: 25504723 (PDB entries with the same primary citation)
DOI: 10.1126/SCIENCE.1259530
MImport into Mendeley
Experimental method
ELECTRON MICROSCOPY (4.7 Å)
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Structure validation

ClashscoreRamachandran outliersSidechain outliers80.6%5.9%MetricValuePercentile RanksWorseBetterPercentile relative to all structuresPercentile relative to all EM structures

More Asymmetric unit images

Molmil generated image of 4v1w
no rotation
Molmil generated image of 4v1w
rotated about x axis by 90°
Molmil generated image of 4v1w
rotated about y axis by 90°

> Structural details

Entity

Chain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
A, B, C, D, E...FERRITIN LIGHT CHAINpolymer17419872.424
UniProt (P02791)
Pfam (PF00210)
EQUUS CABALLUS (HORSE)@PDBjFERRITIN L SUBUNIT

Sequence viewer

Contents of the asymmetric unit

PolymersNumber of chains24
Total molecular weight476938.3
Non-Polymers*Number of molecules0
Total molecular weight0.0
All*Total molecular weight476938.3
*Water molecules are not included.

> Experimental details

Refinement Statistics

Experimental method:ELECTRON MICROSCOPY (4.7 Å)

Cell axes1.0001.0001.000
Cell angles90.0090.0090.00
SpacegroupP 1
Resolution limits - 4.70
the highest resolution shell value -

Data Collection Statistics

Resolution limits -
the highest resolution shell value -

Crystallization Conditions

crystal IDmethodpHpH rangetemperatureunit

Crystallization Reagents

IDcrystal IDsolution IDreagent nameconcentrationdetails
Crystallization Reagents in Literatures*
IDcrystal IDsolutionreagent nameconcentration (unit)details
Annotated Information is extracted from Literature Info*

> Functional details

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Functional Information from GO Data

ChainGOidnamespacecontents
A0005737cellular_componentcytoplasm
A0008043cellular_componentintracellular ferritin complex
A0008199molecular_functionferric iron binding
A0005506molecular_functioniron ion binding
A0006880biological_processintracellular sequestering of iron ion
A0006826biological_processiron ion transport
B0005737cellular_componentcytoplasm
B0008043cellular_componentintracellular ferritin complex
B0008199molecular_functionferric iron binding
B0005506molecular_functioniron ion binding
B0006880biological_processintracellular sequestering of iron ion
B0006826biological_processiron ion transport
C0005737cellular_componentcytoplasm
C0008043cellular_componentintracellular ferritin complex
C0008199molecular_functionferric iron binding
C0005506molecular_functioniron ion binding
C0006880biological_processintracellular sequestering of iron ion
C0006826biological_processiron ion transport
D0005737cellular_componentcytoplasm
D0008043cellular_componentintracellular ferritin complex
D0008199molecular_functionferric iron binding
D0005506molecular_functioniron ion binding
D0006880biological_processintracellular sequestering of iron ion
D0006826biological_processiron ion transport
E0005737cellular_componentcytoplasm
E0008043cellular_componentintracellular ferritin complex
E0008199molecular_functionferric iron binding
E0005506molecular_functioniron ion binding
E0006880biological_processintracellular sequestering of iron ion
E0006826biological_processiron ion transport
F0005737cellular_componentcytoplasm
F0008043cellular_componentintracellular ferritin complex
F0008199molecular_functionferric iron binding
F0005506molecular_functioniron ion binding
F0006880biological_processintracellular sequestering of iron ion
F0006826biological_processiron ion transport
G0005737cellular_componentcytoplasm
G0008043cellular_componentintracellular ferritin complex
G0008199molecular_functionferric iron binding
G0005506molecular_functioniron ion binding
G0006880biological_processintracellular sequestering of iron ion
G0006826biological_processiron ion transport
H0005737cellular_componentcytoplasm
H0008043cellular_componentintracellular ferritin complex
H0008199molecular_functionferric iron binding
H0005506molecular_functioniron ion binding
H0006880biological_processintracellular sequestering of iron ion
H0006826biological_processiron ion transport
I0005737cellular_componentcytoplasm
I0008043cellular_componentintracellular ferritin complex
I0008199molecular_functionferric iron binding
I0005506molecular_functioniron ion binding
I0006880biological_processintracellular sequestering of iron ion
I0006826biological_processiron ion transport
J0005737cellular_componentcytoplasm
J0008043cellular_componentintracellular ferritin complex
J0008199molecular_functionferric iron binding
J0005506molecular_functioniron ion binding
J0006880biological_processintracellular sequestering of iron ion
J0006826biological_processiron ion transport
K0005737cellular_componentcytoplasm
K0008043cellular_componentintracellular ferritin complex
K0008199molecular_functionferric iron binding
K0005506molecular_functioniron ion binding
K0006880biological_processintracellular sequestering of iron ion
K0006826biological_processiron ion transport
L0005737cellular_componentcytoplasm
L0008043cellular_componentintracellular ferritin complex
L0008199molecular_functionferric iron binding
L0005506molecular_functioniron ion binding
L0006880biological_processintracellular sequestering of iron ion
L0006826biological_processiron ion transport
M0005737cellular_componentcytoplasm
M0008043cellular_componentintracellular ferritin complex
M0008199molecular_functionferric iron binding
M0005506molecular_functioniron ion binding
M0006880biological_processintracellular sequestering of iron ion
M0006826biological_processiron ion transport
N0005737cellular_componentcytoplasm
N0008043cellular_componentintracellular ferritin complex
N0008199molecular_functionferric iron binding
N0005506molecular_functioniron ion binding
N0006880biological_processintracellular sequestering of iron ion
N0006826biological_processiron ion transport
O0005737cellular_componentcytoplasm
O0008043cellular_componentintracellular ferritin complex
O0008199molecular_functionferric iron binding
O0005506molecular_functioniron ion binding
O0006880biological_processintracellular sequestering of iron ion
O0006826biological_processiron ion transport
P0005737cellular_componentcytoplasm
P0008043cellular_componentintracellular ferritin complex
P0008199molecular_functionferric iron binding
P0005506molecular_functioniron ion binding
P0006880biological_processintracellular sequestering of iron ion
P0006826biological_processiron ion transport
Q0005737cellular_componentcytoplasm
Q0008043cellular_componentintracellular ferritin complex
Q0008199molecular_functionferric iron binding
Q0005506molecular_functioniron ion binding
Q0006880biological_processintracellular sequestering of iron ion
Q0006826biological_processiron ion transport
R0005737cellular_componentcytoplasm
R0008043cellular_componentintracellular ferritin complex
R0008199molecular_functionferric iron binding
R0005506molecular_functioniron ion binding
R0006880biological_processintracellular sequestering of iron ion
R0006826biological_processiron ion transport
S0005737cellular_componentcytoplasm
S0008043cellular_componentintracellular ferritin complex
S0008199molecular_functionferric iron binding
S0005506molecular_functioniron ion binding
S0006880biological_processintracellular sequestering of iron ion
S0006826biological_processiron ion transport
T0005737cellular_componentcytoplasm
T0008043cellular_componentintracellular ferritin complex
T0008199molecular_functionferric iron binding
T0005506molecular_functioniron ion binding
T0006880biological_processintracellular sequestering of iron ion
T0006826biological_processiron ion transport
U0005737cellular_componentcytoplasm
U0008043cellular_componentintracellular ferritin complex
U0008199molecular_functionferric iron binding
U0005506molecular_functioniron ion binding
U0006880biological_processintracellular sequestering of iron ion
U0006826biological_processiron ion transport
V0005737cellular_componentcytoplasm
V0008043cellular_componentintracellular ferritin complex
V0008199molecular_functionferric iron binding
V0005506molecular_functioniron ion binding
V0006880biological_processintracellular sequestering of iron ion
V0006826biological_processiron ion transport
W0005737cellular_componentcytoplasm
W0008043cellular_componentintracellular ferritin complex
W0008199molecular_functionferric iron binding
W0005506molecular_functioniron ion binding
W0006880biological_processintracellular sequestering of iron ion
W0006826biological_processiron ion transport
X0005737cellular_componentcytoplasm
X0008043cellular_componentintracellular ferritin complex
X0008199molecular_functionferric iron binding
X0005506molecular_functioniron ion binding
X0006880biological_processintracellular sequestering of iron ion
X0006826biological_processiron ion transport
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Functional Information from PDB Data

site_idNumber of ResiduesDetails
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Functional Information from PDB atom coordinates for the "HETATM" binding sites

site_idNumber of ResiduesDetails
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Functional Information from PROSITE/UniProt

site_idNumber of ResiduesDetails
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Functional Information from SwissProt/UniProt

site_idNumber of ResiduesDetails
SWS_FT_FI15Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
AGLU53
AGLU56
AGLU57
AGLU60
AGLU63

SWS_FT_FI25Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
BGLU53
BGLU56
BGLU57
BGLU60
BGLU63

SWS_FT_FI35Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
CGLU53
CGLU56
CGLU57
CGLU60
CGLU63

SWS_FT_FI45Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
DGLU53
DGLU56
DGLU57
DGLU60
DGLU63

SWS_FT_FI55Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
EGLU53
EGLU56
EGLU57
EGLU60
EGLU63

SWS_FT_FI65Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
FGLU53
FGLU56
FGLU57
FGLU60
FGLU63

SWS_FT_FI75Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
GGLU53
GGLU56
GGLU57
GGLU60
GGLU63

SWS_FT_FI85Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
HGLU53
HGLU56
HGLU57
HGLU60
HGLU63

SWS_FT_FI95Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
IGLU53
IGLU56
IGLU57
IGLU60
IGLU63

SWS_FT_FI105Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
JGLU53
JGLU56
JGLU57
JGLU60
JGLU63

SWS_FT_FI115Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
KGLU53
KGLU56
KGLU57
KGLU60
KGLU63

SWS_FT_FI125Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
LGLU53
LGLU56
LGLU57
LGLU60
LGLU63

SWS_FT_FI135Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
MGLU53
MGLU56
MGLU57
MGLU60
MGLU63

SWS_FT_FI145Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
NGLU53
NGLU56
NGLU57
NGLU60
NGLU63

SWS_FT_FI155Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
OGLU53
OGLU56
OGLU57
OGLU60
OGLU63

SWS_FT_FI165Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
PGLU53
PGLU56
PGLU57
PGLU60
PGLU63

SWS_FT_FI175Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
QGLU53
QGLU56
QGLU57
QGLU60
QGLU63

SWS_FT_FI185Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
RGLU53
RGLU56
RGLU57
RGLU60
RGLU63

SWS_FT_FI195Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
SGLU53
SGLU56
SGLU57
SGLU60
SGLU63

SWS_FT_FI205Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
TGLU53
TGLU56
TGLU57
TGLU60
TGLU63

SWS_FT_FI215Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
UGLU53
UGLU56
UGLU57
UGLU60
UGLU63

SWS_FT_FI225Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
VGLU53
VGLU56
VGLU57
VGLU60
VGLU63

SWS_FT_FI235Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
WGLU53
WGLU56
WGLU57
WGLU60
WGLU63

SWS_FT_FI245Iron. {ECO:0000255|PROSITE- ProRule:PRU00085}
ChainResidueDetails
XGLU53
XGLU56
XGLU57
XGLU60
XGLU63

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Catalytic Information from CSA

site_idNumber of ResiduesDetails

> Sequence Neighbor

> Downloads

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