4KI8

Crystal structure of a GroEL-ADP complex in the relaxed allosteric state

Structural Biology Knowledgebase: 4KI8 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.72 Å
  • R-Value Free: 0.204
  • R-Value Work: 0.166

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4KI8

Classification: CHAPERONE

Total Structure Weight: 407033.36

Macromolecule Entities
Molecule Chains Length Organism Details
GroEL protein A, B, C..., D, E, F, GA, B, C, D, E, F, G 548 Escherichia coli Mutation: D83A, R197A
Gene Name(s): groEL groL mopA AA102_13095 AB850_22060 ABW50_15390 AC066_15575 AC067_05505 AC789_1c45570 ACU57_19295 ACU65_05105 ACU66_27525 ACU67_03880 ACU68_00305 ACU70_02220 ACU72_19265 ACU77_14315 ACU79_13015 ACU80_21395 ACU81_25310 ACU83_20260 ACU86_11665 ACU87_20330 ACU88_09885 ACU90_27610 ACU94_10720 ACU98_14225 AGA26_18650 AKG99_18195 AKK22_00910 AM258_09335 AM259_02825 AM260_05700 AM261_06530 AM262_21165 AM263_07565 AM264_12490 AM265_20425 AM266_00725 AM267_23330 AM268_15360 AM270_14500 AM271_13200 AM272_04160 AM273_01375 AML92_08050 AN203_21770 AN204_21255 AN205_22580 AN206_23215 AN669_06700 AO733_06850 AO737_05595 AO743_12040 ASE18_20315 BN17_41231 BN1843_1630 ECONIH1_24685 ECs5124 EL75_4022 EL79_4200 EL80_4116 ERS085365_01231 ERS085366_02367 ERS085367_02062 ERS085374_01721 ERS085379_04164 ERS085380_03766 ERS085383_01552 ERS085386_01025 ERS085398_04042 ERS085399_04146 ERS085404_01348 ERS085416_03698 ERS085426_03211 ERS139211_04024 ERS139215_03339 ERS139224_01232 ERS139235_02519 ERS139238_00732 ERS139262_03120 ERS139266_02617 ERS139269_04797 ERS139271_03433 ERS150873_01289 ERS150876_03930 ERS150905_02145 ERS451419_01960 ExPEC_2586 HUS2011_4962 HW42_02365 IY32_10395 JD73_27620 MJ49_08265 PD07_01525 PGD_03325 PU06_23700 PU15_04300 PU21_24115 PU33_13825 PU38_00830 PU53_16620 PU69_04115 QR62_01410 QR63_01410 RR31_21970 SK67_00349 SK74_01736 SK78_04410 SK83_03850 SK84_02596 SK85_04506 SK86_03858 SR35_21295 SY51_23895 UC21_09915 UC41_03555 UN91_24955 UN92_29345 WQ64_07350 WQ70_17235 WQ71_14950 WQ73_20345 WQ74_20685 WQ77_24205 WQ79_23040 WQ86_11330 WQ89_21775 WQ91_14645 WQ92_03190 WQ95_06635 WQ96_25585 WQ99_12885 WR00_20675 WR01_05775 WR03_25390 WR04_04160 WR05_09985 WR12_08780 WR13_02405 WR15_07175 WR17_02695 WR24_20545 XB00_12335 XB01_16245

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
ADP
Query on ADP

A, B, C, D, E, F, G ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MPD
Query on MPD

A, B, C, D, E, F, G (4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

A, B, D, E, F, G CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
K
Query on K

A, B, C, D, E, F, G POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B, C, D, E, F, G MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.72 Å
  • R-Value Free: 0.204
  • R-Value Work: 0.166
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 235.22 α = 90.00
b = 141.65 β = 113.84
c = 156.69 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-05-01
  • Released Date: 2013-07-17
  • Deposition author(s): Fei, X., Yang, D., LaRonde-LeBlanc, N., Lorimer, G.H.

Revision History

  • 2013-11-13
    Type: Other | Details: update tls record numbering
  • 2013-08-28
    Type: Citation | Details: Citation update
  • 2013-08-14
    Type: Other | Details: beamline update
  • 2013-08-07
    Type: Citation | Details: Citation update