6N7L | pdb_00006n7l

Crystal structure of an alcohol dehydrogenase from Elizabethkingia anophelis NUHP1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 
    0.191 (Depositor), 0.192 (DCC) 
  • R-Value Work: 
    0.149 (Depositor), 0.151 (DCC) 
  • R-Value Observed: 
    0.151 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history

Literature

Crystal structure of an alcohol dehydrogenase from Elizabethkingia anophelis NUHP1

Edwards, T.E.Dranow, D.M.Horanyi, P.S.Lorimer, D.D.Seattle Structural Genomics Center for Infectious Disease

To be published.

Macromolecule Content 

  • Total Structure Weight: 468.51 kDa 
  • Atom Count: 33,393 
  • Modeled Residue Count: 4,102 
  • Deposited Residue Count: 4,236 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Alcohol dehydrogenase
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J, K, L
353Elizabethkingia anophelis NUHP1Mutation(s): 0 
Gene Names: BD94_3066
EC: 1.1.1.1
UniProt
Find proteins for A0A077EGR8 (Elizabethkingia anophelis NUHP1)
Explore A0A077EGR8 
Go to UniProtKB:  A0A077EGR8
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A077EGR8
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
NAD

Query on NAD



Download:Ideal Coordinates CCD File
CA [auth B]
CB [auth D]
CC [auth F]
CD [auth H]
GE [auth K]
CA [auth B],
CB [auth D],
CC [auth F],
CD [auth H],
GE [auth K],
LD [auth I],
N [auth A],
NA [auth C],
OE [auth L],
PB [auth E],
PC [auth G],
VD [auth J]
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
C21 H27 N7 O14 P2
BAWFJGJZGIEFAR-NNYOXOHSSA-N
ZN

Query on ZN



Download:Ideal Coordinates CCD File
AB [auth C]
CE [auth J]
DE [auth J]
HD [auth H]
ID [auth H]
AB [auth C],
CE [auth J],
DE [auth J],
HD [auth H],
ID [auth H],
JA [auth B],
KA [auth B],
KE [auth K],
LB [auth D],
LE [auth K],
MB [auth D],
MC [auth F],
NC [auth F],
RD [auth I],
RE [auth L],
SD [auth I],
SE [auth L],
XC [auth G],
Y [auth A],
YB [auth E],
YC [auth G],
Z [auth A],
ZA [auth C],
ZB [auth E]
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
EDO

Query on EDO



Download:Ideal Coordinates CCD File
AD [auth H]
AE [auth J]
BA [auth B]
BC [auth F]
BD [auth H]
AD [auth H],
AE [auth J],
BA [auth B],
BC [auth F],
BD [auth H],
BE [auth J],
DA [auth B],
DB [auth D],
DC [auth F],
DD [auth H],
EA [auth B],
EB [auth D],
EC [auth F],
ED [auth H],
FA [auth B],
FB [auth D],
FC [auth F],
FD [auth H],
FE [auth K],
GA [auth B],
GB [auth D],
GC [auth F],
GD [auth H],
HA [auth B],
HB [auth D],
HC [auth F],
HE [auth K],
IA [auth B],
IB [auth D],
IC [auth F],
IE [auth K],
JB [auth D],
JC [auth F],
JE [auth K],
KB [auth D],
KC [auth F],
KD [auth I],
LC [auth F],
M [auth A],
MA [auth C],
MD [auth I],
ND [auth I],
NE [auth L],
O [auth A],
OA [auth C],
OB [auth E],
OD [auth I],
P [auth A],
PA [auth C],
PD [auth I],
PE [auth L],
Q [auth A],
QA [auth C],
QB [auth E],
QC [auth G],
QD [auth I],
QE [auth L],
R [auth A],
RA [auth C],
RB [auth E],
RC [auth G],
S [auth A],
SA [auth C],
SB [auth E],
SC [auth G],
T [auth A],
TA [auth C],
TB [auth E],
TC [auth G],
U [auth A],
UA [auth C],
UB [auth E],
UC [auth G],
UD [auth J],
V [auth A],
VA [auth C],
VB [auth E],
VC [auth G],
W [auth A],
WA [auth C],
WB [auth E],
WC [auth G],
WD [auth J],
X [auth A],
XA [auth C],
XB [auth E],
XD [auth J],
YA [auth C],
YD [auth J],
ZD [auth J]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
CL

Query on CL



Download:Ideal Coordinates CCD File
AA [auth A]
AC [auth E]
BB [auth C]
EE [auth J]
JD [auth H]
AA [auth A],
AC [auth E],
BB [auth C],
EE [auth J],
JD [auth H],
LA [auth B],
ME [auth K],
NB [auth D],
OC [auth F],
TD [auth I],
TE [auth L],
ZC [auth G]
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free:  0.191 (Depositor), 0.192 (DCC) 
  • R-Value Work:  0.149 (Depositor), 0.151 (DCC) 
  • R-Value Observed: 0.151 (Depositor) 
Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 70.15α = 90
b = 168.29β = 97.97
c = 199.73γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
MOLREPphasing
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2018-12-12
    Type: Initial release
  • Version 1.1: 2023-10-11
    Changes: Data collection, Database references, Derived calculations, Refinement description
  • Version 1.2: 2024-12-25
    Changes: Advisory, Derived calculations, Structure summary