PLEASE WAIT...
Getting 'Biological Unit' information from database.
PLEASE WAIT...
Getting 'Hetero Component' information from database.
PLEASE WAIT...
Getting 'Site' information from database.
PLEASE WAIT...
No precomputed SNP/Variant structure found.
Calculating the structure may take several minutes.
PLEASE WAIT...
Getting 'PROSITE' information from database.
1J0B
Biol. Unit 1
Info
Asym.Unit (1.2 MB)
Biol.Unit 1 (115 KB)
Biol.Unit 10 (116 KB)
Biol.Unit 11 (116 KB)
Biol.Unit 12 (114 KB)
Biol.Unit 2 (116 KB)
Biol.Unit 3 (116 KB)
Biol.Unit 4 (115 KB)
Biol.Unit 5 (114 KB)
Biol.Unit 6 (115 KB)
Biol.Unit 7 (115 KB)
Biol.Unit 8 (114 KB)
Biol.Unit 9 (114 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
CRYSTAL STRUCTURE ANALYSIS OF THE ACC DEAMINASE HOMOLOGUE COMPLEXED WITH INHIBITOR
Authors
:
A. Fujino, T. Ose, M. Honma, M. Yao, I. Tanaka
Date
:
12 Nov 02 (Deposition) - 12 May 03 (Release) - 13 Aug 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.70
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: E,F (1x)
Biol. Unit 4: G,H (1x)
Biol. Unit 5: I,J (1x)
Biol. Unit 6: K,L (1x)
Biol. Unit 7: M,N (1x)
Biol. Unit 8: O,P (1x)
Biol. Unit 9: Q,R (1x)
Biol. Unit 10: S,T (1x)
Biol. Unit 11: U,V (1x)
Biol. Unit 12: W,X (1x)
Keywords
:
Plp Dependent, Lyase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Fujino, T. Ose, M. Yao, T. Tokiwano, M. Honma, N. Watanabe, I. Tanaka
Structural And Enzymatic Properties Of 1-Aminocyclopropane-1-Carboxylate Deaminase Homologue From Pyrococcus Horikoshii
J. Mol. Biol. V. 341 999 2004
[
close entry info
]
Hetero Components
(1, 2)
Info
All Hetero Components
1a: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAa)
1b: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAb)
1c: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAc)
1d: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAd)
1e: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAe)
1f: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAf)
1g: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAg)
1h: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAh)
1i: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAi)
1j: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAj)
1k: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAk)
1l: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAl)
1m: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAm)
1n: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAn)
1o: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAo)
1p: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAp)
1q: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAq)
1r: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAr)
1s: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAs)
1t: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAt)
1u: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAu)
1v: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAv)
1w: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAw)
1x: N-[3-HYDROXY-2-METHYL-5-PHOSPHONOO... (5PAx)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
5PA
2
Ligand/Ion
N-[3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-Y-LMETHYL]-1-AMINO-CYCLOPROPANECARBOXYLIC ACID
[
close Hetero Component info
]
Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASN A:53 , LYS A:54 , SER A:81 , ASN A:82 , HIS A:83 , GLY A:157 , ALA A:188 , ALA A:189 , GLY A:190 , SER A:191 , GLY A:192 , GLY A:193 , THR A:194 , TYR A:282 , THR A:308 , GLY A:309 , GLY A:310 , HOH A:1013
BINDING SITE FOR RESIDUE 5PA A 1011
2
AC2
SOFTWARE
ASN B:53 , LYS B:54 , SER B:81 , ASN B:82 , HIS B:83 , GLY B:157 , ALA B:189 , GLY B:190 , SER B:191 , GLY B:192 , THR B:194 , TYR B:282 , THR B:308 , GLY B:310
BINDING SITE FOR RESIDUE 5PA B 1021
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 24)
Info
All SCOP Domains
1a: SCOP_d1j0ba_ (A:)
1b: SCOP_d1j0bh_ (H:)
1c: SCOP_d1j0bi_ (I:)
1d: SCOP_d1j0bj_ (J:)
1e: SCOP_d1j0bk_ (K:)
1f: SCOP_d1j0bl_ (L:)
1g: SCOP_d1j0bm_ (M:)
1h: SCOP_d1j0bn_ (N:)
1i: SCOP_d1j0bo_ (O:)
1j: SCOP_d1j0bp_ (P:)
1k: SCOP_d1j0bq_ (Q:)
1l: SCOP_d1j0br_ (R:)
1m: SCOP_d1j0bs_ (S:)
1n: SCOP_d1j0bt_ (T:)
1o: SCOP_d1j0bu_ (U:)
1p: SCOP_d1j0bv_ (V:)
1q: SCOP_d1j0bw_ (W:)
1r: SCOP_d1j0bx_ (X:)
1s: SCOP_d1j0bb_ (B:)
1t: SCOP_d1j0bc_ (C:)
1u: SCOP_d1j0bd_ (D:)
1v: SCOP_d1j0be_ (E:)
1w: SCOP_d1j0bf_ (F:)
1x: SCOP_d1j0bg_ (G:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Tryptophan synthase beta subunit-like PLP-dependent enzymes
(165)
Superfamily
:
Tryptophan synthase beta subunit-like PLP-dependent enzymes
(165)
Family
:
Tryptophan synthase beta subunit-like PLP-dependent enzymes
(120)
Protein domain
:
1-aminocyclopropane-1-carboxylate deaminase
(12)
Pyrococcus horikoshii [TaxId: 53953]
(2)
1a
d1j0ba_
A:
1b
d1j0bh_
H:
1c
d1j0bi_
I:
1d
d1j0bj_
J:
1e
d1j0bk_
K:
1f
d1j0bl_
L:
1g
d1j0bm_
M:
1h
d1j0bn_
N:
1i
d1j0bo_
O:
1j
d1j0bp_
P:
1k
d1j0bq_
Q:
1l
d1j0br_
R:
1m
d1j0bs_
S:
1n
d1j0bt_
T:
1o
d1j0bu_
U:
1p
d1j0bv_
V:
1q
d1j0bw_
W:
1r
d1j0bx_
X:
1s
d1j0bb_
B:
1t
d1j0bc_
C:
1u
d1j0bd_
D:
1v
d1j0be_
E:
1w
d1j0bf_
F:
1x
d1j0bg_
G:
[
close SCOP info
]
CATH Domains
(1, 48)
Info
all CATH domains
1a: CATH_1j0bA01 (A:1-52,A:158-325)
1b: CATH_1j0bB01 (B:1-52,B:158-325)
1c: CATH_1j0bK01 (K:1-52,K:158-325)
1d: CATH_1j0bL01 (L:1-52,L:158-325)
1e: CATH_1j0bM01 (M:1-52,M:158-325)
1f: CATH_1j0bN01 (N:1-52,N:158-325)
1g: CATH_1j0bO01 (O:1-52,O:158-325)
1h: CATH_1j0bP01 (P:1-52,P:158-325)
1i: CATH_1j0bQ01 (Q:1-52,Q:158-325)
1j: CATH_1j0bR01 (R:1-52,R:158-325)
1k: CATH_1j0bS01 (S:1-52,S:158-325)
1l: CATH_1j0bT01 (T:1-52,T:158-325)
1m: CATH_1j0bC01 (C:1-52,C:158-325)
1n: CATH_1j0bU01 (U:1-52,U:158-325)
1o: CATH_1j0bV01 (V:1-52,V:158-325)
1p: CATH_1j0bW01 (W:1-52,W:158-325)
1q: CATH_1j0bX01 (X:1-52,X:158-325)
1r: CATH_1j0bA02 (A:53-156)
1s: CATH_1j0bB02 (B:53-156)
1t: CATH_1j0bC02 (C:53-156)
1u: CATH_1j0bD02 (D:53-156)
1v: CATH_1j0bE02 (E:53-156)
1w: CATH_1j0bF02 (F:53-156)
1x: CATH_1j0bD01 (D:1-52,D:158-325)
1y: CATH_1j0bG02 (G:53-156)
1z: CATH_1j0bH02 (H:53-156)
1aa: CATH_1j0bI02 (I:53-156)
1ab: CATH_1j0bJ02 (J:53-156)
1ac: CATH_1j0bK02 (K:53-156)
1ad: CATH_1j0bL02 (L:53-156)
1ae: CATH_1j0bM02 (M:53-156)
1af: CATH_1j0bN02 (N:53-156)
1ag: CATH_1j0bO02 (O:53-156)
1ah: CATH_1j0bP02 (P:53-156)
1ai: CATH_1j0bE01 (E:1-52,E:158-325)
1aj: CATH_1j0bQ02 (Q:53-156)
1ak: CATH_1j0bR02 (R:53-156)
1al: CATH_1j0bS02 (S:53-156)
1am: CATH_1j0bT02 (T:53-156)
1an: CATH_1j0bU02 (U:53-156)
1ao: CATH_1j0bV02 (V:53-156)
1ap: CATH_1j0bW02 (W:53-156)
1aq: CATH_1j0bX02 (X:53-156)
1ar: CATH_1j0bF01 (F:1-52,F:158-325)
1as: CATH_1j0bG01 (G:1-52,G:158-325)
1at: CATH_1j0bH01 (H:1-52,H:158-325)
1au: CATH_1j0bI01 (I:1-52,I:158-325)
1av: CATH_1j0bJ01 (J:1-52,J:158-325)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.1100, no name defined]
(77)
Pyrococcus horikoshii. Organism_taxid: 70601. Strain: ot3.
(1)
1a
1j0bA01
A:1-52,A:158-325
1b
1j0bB01
B:1-52,B:158-325
1c
1j0bK01
K:1-52,K:158-325
1d
1j0bL01
L:1-52,L:158-325
1e
1j0bM01
M:1-52,M:158-325
1f
1j0bN01
N:1-52,N:158-325
1g
1j0bO01
O:1-52,O:158-325
1h
1j0bP01
P:1-52,P:158-325
1i
1j0bQ01
Q:1-52,Q:158-325
1j
1j0bR01
R:1-52,R:158-325
1k
1j0bS01
S:1-52,S:158-325
1l
1j0bT01
T:1-52,T:158-325
1m
1j0bC01
C:1-52,C:158-325
1n
1j0bU01
U:1-52,U:158-325
1o
1j0bV01
V:1-52,V:158-325
1p
1j0bW01
W:1-52,W:158-325
1q
1j0bX01
X:1-52,X:158-325
1r
1j0bA02
A:53-156
1s
1j0bB02
B:53-156
1t
1j0bC02
C:53-156
1u
1j0bD02
D:53-156
1v
1j0bE02
E:53-156
1w
1j0bF02
F:53-156
1x
1j0bD01
D:1-52,D:158-325
1y
1j0bG02
G:53-156
1z
1j0bH02
H:53-156
1aa
1j0bI02
I:53-156
1ab
1j0bJ02
J:53-156
1ac
1j0bK02
K:53-156
1ad
1j0bL02
L:53-156
1ae
1j0bM02
M:53-156
1af
1j0bN02
N:53-156
1ag
1j0bO02
O:53-156
1ah
1j0bP02
P:53-156
1ai
1j0bE01
E:1-52,E:158-325
1aj
1j0bQ02
Q:53-156
1ak
1j0bR02
R:53-156
1al
1j0bS02
S:53-156
1am
1j0bT02
T:53-156
1an
1j0bU02
U:53-156
1ao
1j0bV02
V:53-156
1ap
1j0bW02
W:53-156
1aq
1j0bX02
X:53-156
1ar
1j0bF01
F:1-52,F:158-325
1as
1j0bG01
G:1-52,G:158-325
1at
1j0bH01
H:1-52,H:158-325
1au
1j0bI01
I:1-52,I:158-325
1av
1j0bJ01
J:1-52,J:158-325
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Asymmetric Unit 1
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
by Exon
by Amino Acid
by Nucleotide
by Temperature
by Charge
by Rainbow (Group)
by Custom Color
Background Coloring
Choose
molecule
background
color...
[
close
]
RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
x
pixel
Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
close Script example commands
]
Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
QuickSearch:
by PDB,NDB,UniProt,PROSITE Code or
Search Term(s)
Show PDB file:
Asym.Unit (1.2 MB)
Header - Asym.Unit
Biol.Unit 1 (115 KB)
Header - Biol.Unit 1
Biol.Unit 10 (116 KB)
Header - Biol.Unit 10
Biol.Unit 11 (116 KB)
Header - Biol.Unit 11
Biol.Unit 12 (114 KB)
Header - Biol.Unit 12
Biol.Unit 2 (116 KB)
Header - Biol.Unit 2
Biol.Unit 3 (116 KB)
Header - Biol.Unit 3
Biol.Unit 4 (115 KB)
Header - Biol.Unit 4
Biol.Unit 5 (114 KB)
Header - Biol.Unit 5
Biol.Unit 6 (115 KB)
Header - Biol.Unit 6
Biol.Unit 7 (115 KB)
Header - Biol.Unit 7
Biol.Unit 8 (114 KB)
Header - Biol.Unit 8
Biol.Unit 9 (114 KB)
Header - Biol.Unit 9
Plain Text
HTML (compressed size)
use JSmol [Javascript]
use Jmol [Java applet]
Upload:
Select a local file
OR
Enter a remote file address
You can upload any molecular structure file format that is recognized by Jmol,
e.g.: PDB, mmCif, CIF, CML, MOL, XYZ
(also compressed with 'gzip', see the
Jmol documentation
for a complete list)
JenaLib Atlas Page
|
Sequence/Alignment View
1J0B
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help