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2PNK
Biol. Unit 2
Info
Asym.Unit (946 KB)
Biol.Unit 1 (243 KB)
Biol.Unit 2 (231 KB)
Biol.Unit 3 (243 KB)
Biol.Unit 4 (247 KB)
Biol.Unit 5 (475 KB)
Biol.Unit 6 (458 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF AN URONATE ISOMERASE (BH0493) FROM BACILLUS HALODURANS C-125 AT 2.00 A RESOLUTION
Authors
:
Joint Center For Structural Genomics (Jcsg)
Date
:
24 Apr 07 (Deposition) - 08 May 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,B,C (1x)
Biol. Unit 2: D,E,F (1x)
Biol. Unit 3: G,H,I (1x)
Biol. Unit 4: J,K,L (1x)
Biol. Unit 5: A,B,C,J,K,L (1x)
Biol. Unit 6: D,E,F,G,H,I (1x)
Keywords
:
Uronate Isomerase, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Isomerase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Uncharacterized Protein (Np_241359. 1) From Bacillus Halodurans At 2. 00 A Resolution
To Be Published
[
close entry info
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Hetero Components
(5, 60)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
1b: ACETATE ION (ACTb)
1c: ACETATE ION (ACTc)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
2c: CHLORIDE ION (CLc)
2d: CHLORIDE ION (CLd)
2e: CHLORIDE ION (CLe)
2f: CHLORIDE ION (CLf)
2g: CHLORIDE ION (CLg)
2h: CHLORIDE ION (CLh)
3a: FORMIC ACID (FMTa)
3b: FORMIC ACID (FMTb)
3c: FORMIC ACID (FMTc)
3d: FORMIC ACID (FMTd)
3e: FORMIC ACID (FMTe)
3f: FORMIC ACID (FMTf)
3g: FORMIC ACID (FMTg)
3h: FORMIC ACID (FMTh)
3i: FORMIC ACID (FMTi)
3j: FORMIC ACID (FMTj)
3k: FORMIC ACID (FMTk)
3l: FORMIC ACID (FMTl)
3m: FORMIC ACID (FMTm)
3n: FORMIC ACID (FMTn)
4a: GLYCEROL (GOLa)
4b: GLYCEROL (GOLb)
4c: GLYCEROL (GOLc)
4d: GLYCEROL (GOLd)
4e: GLYCEROL (GOLe)
4f: GLYCEROL (GOLf)
4g: GLYCEROL (GOLg)
4h: GLYCEROL (GOLh)
4i: GLYCEROL (GOLi)
4j: GLYCEROL (GOLj)
4k: GLYCEROL (GOLk)
4l: GLYCEROL (GOLl)
4m: GLYCEROL (GOLm)
4n: GLYCEROL (GOLn)
4o: GLYCEROL (GOLo)
4p: GLYCEROL (GOLp)
4q: GLYCEROL (GOLq)
4r: GLYCEROL (GOLr)
4s: GLYCEROL (GOLs)
4t: GLYCEROL (GOLt)
4u: GLYCEROL (GOLu)
4v: GLYCEROL (GOLv)
4w: GLYCEROL (GOLw)
4x: GLYCEROL (GOLx)
5a: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDa)
5b: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDb)
5c: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDc)
5d: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDd)
5e: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDe)
5f: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDf)
6a: SELENOMETHIONINE (MSEa)
6aa: SELENOMETHIONINE (MSEaa)
6ab: SELENOMETHIONINE (MSEab)
6ac: SELENOMETHIONINE (MSEac)
6ad: SELENOMETHIONINE (MSEad)
6ae: SELENOMETHIONINE (MSEae)
6af: SELENOMETHIONINE (MSEaf)
6ag: SELENOMETHIONINE (MSEag)
6ah: SELENOMETHIONINE (MSEah)
6ai: SELENOMETHIONINE (MSEai)
6aj: SELENOMETHIONINE (MSEaj)
6ak: SELENOMETHIONINE (MSEak)
6al: SELENOMETHIONINE (MSEal)
6am: SELENOMETHIONINE (MSEam)
6an: SELENOMETHIONINE (MSEan)
6ao: SELENOMETHIONINE (MSEao)
6ap: SELENOMETHIONINE (MSEap)
6aq: SELENOMETHIONINE (MSEaq)
6ar: SELENOMETHIONINE (MSEar)
6as: SELENOMETHIONINE (MSEas)
6at: SELENOMETHIONINE (MSEat)
6au: SELENOMETHIONINE (MSEau)
6av: SELENOMETHIONINE (MSEav)
6aw: SELENOMETHIONINE (MSEaw)
6ax: SELENOMETHIONINE (MSEax)
6ay: SELENOMETHIONINE (MSEay)
6az: SELENOMETHIONINE (MSEaz)
6b: SELENOMETHIONINE (MSEb)
6ba: SELENOMETHIONINE (MSEba)
6bb: SELENOMETHIONINE (MSEbb)
6bc: SELENOMETHIONINE (MSEbc)
6bd: SELENOMETHIONINE (MSEbd)
6be: SELENOMETHIONINE (MSEbe)
6bf: SELENOMETHIONINE (MSEbf)
6bg: SELENOMETHIONINE (MSEbg)
6bh: SELENOMETHIONINE (MSEbh)
6bi: SELENOMETHIONINE (MSEbi)
6bj: SELENOMETHIONINE (MSEbj)
6bk: SELENOMETHIONINE (MSEbk)
6bl: SELENOMETHIONINE (MSEbl)
6bm: SELENOMETHIONINE (MSEbm)
6bn: SELENOMETHIONINE (MSEbn)
6bo: SELENOMETHIONINE (MSEbo)
6bp: SELENOMETHIONINE (MSEbp)
6bq: SELENOMETHIONINE (MSEbq)
6br: SELENOMETHIONINE (MSEbr)
6bs: SELENOMETHIONINE (MSEbs)
6bt: SELENOMETHIONINE (MSEbt)
6bu: SELENOMETHIONINE (MSEbu)
6bv: SELENOMETHIONINE (MSEbv)
6bw: SELENOMETHIONINE (MSEbw)
6bx: SELENOMETHIONINE (MSEbx)
6by: SELENOMETHIONINE (MSEby)
6bz: SELENOMETHIONINE (MSEbz)
6c: SELENOMETHIONINE (MSEc)
6ca: SELENOMETHIONINE (MSEca)
6cb: SELENOMETHIONINE (MSEcb)
6cc: SELENOMETHIONINE (MSEcc)
6cd: SELENOMETHIONINE (MSEcd)
6ce: SELENOMETHIONINE (MSEce)
6cf: SELENOMETHIONINE (MSEcf)
6cg: SELENOMETHIONINE (MSEcg)
6ch: SELENOMETHIONINE (MSEch)
6ci: SELENOMETHIONINE (MSEci)
6cj: SELENOMETHIONINE (MSEcj)
6ck: SELENOMETHIONINE (MSEck)
6cl: SELENOMETHIONINE (MSEcl)
6cm: SELENOMETHIONINE (MSEcm)
6cn: SELENOMETHIONINE (MSEcn)
6co: SELENOMETHIONINE (MSEco)
6cp: SELENOMETHIONINE (MSEcp)
6cq: SELENOMETHIONINE (MSEcq)
6cr: SELENOMETHIONINE (MSEcr)
6cs: SELENOMETHIONINE (MSEcs)
6ct: SELENOMETHIONINE (MSEct)
6cu: SELENOMETHIONINE (MSEcu)
6cv: SELENOMETHIONINE (MSEcv)
6cw: SELENOMETHIONINE (MSEcw)
6cx: SELENOMETHIONINE (MSEcx)
6cy: SELENOMETHIONINE (MSEcy)
6cz: SELENOMETHIONINE (MSEcz)
6d: SELENOMETHIONINE (MSEd)
6da: SELENOMETHIONINE (MSEda)
6db: SELENOMETHIONINE (MSEdb)
6dc: SELENOMETHIONINE (MSEdc)
6dd: SELENOMETHIONINE (MSEdd)
6de: SELENOMETHIONINE (MSEde)
6df: SELENOMETHIONINE (MSEdf)
6dg: SELENOMETHIONINE (MSEdg)
6dh: SELENOMETHIONINE (MSEdh)
6di: SELENOMETHIONINE (MSEdi)
6dj: SELENOMETHIONINE (MSEdj)
6dk: SELENOMETHIONINE (MSEdk)
6dl: SELENOMETHIONINE (MSEdl)
6dm: SELENOMETHIONINE (MSEdm)
6dn: SELENOMETHIONINE (MSEdn)
6do: SELENOMETHIONINE (MSEdo)
6dp: SELENOMETHIONINE (MSEdp)
6dq: SELENOMETHIONINE (MSEdq)
6dr: SELENOMETHIONINE (MSEdr)
6ds: SELENOMETHIONINE (MSEds)
6dt: SELENOMETHIONINE (MSEdt)
6du: SELENOMETHIONINE (MSEdu)
6dv: SELENOMETHIONINE (MSEdv)
6dw: SELENOMETHIONINE (MSEdw)
6dx: SELENOMETHIONINE (MSEdx)
6dy: SELENOMETHIONINE (MSEdy)
6dz: SELENOMETHIONINE (MSEdz)
6e: SELENOMETHIONINE (MSEe)
6ea: SELENOMETHIONINE (MSEea)
6eb: SELENOMETHIONINE (MSEeb)
6ec: SELENOMETHIONINE (MSEec)
6ed: SELENOMETHIONINE (MSEed)
6ee: SELENOMETHIONINE (MSEee)
6ef: SELENOMETHIONINE (MSEef)
6eg: SELENOMETHIONINE (MSEeg)
6eh: SELENOMETHIONINE (MSEeh)
6ei: SELENOMETHIONINE (MSEei)
6ej: SELENOMETHIONINE (MSEej)
6ek: SELENOMETHIONINE (MSEek)
6el: SELENOMETHIONINE (MSEel)
6em: SELENOMETHIONINE (MSEem)
6en: SELENOMETHIONINE (MSEen)
6eo: SELENOMETHIONINE (MSEeo)
6ep: SELENOMETHIONINE (MSEep)
6eq: SELENOMETHIONINE (MSEeq)
6er: SELENOMETHIONINE (MSEer)
6es: SELENOMETHIONINE (MSEes)
6et: SELENOMETHIONINE (MSEet)
6eu: SELENOMETHIONINE (MSEeu)
6ev: SELENOMETHIONINE (MSEev)
6ew: SELENOMETHIONINE (MSEew)
6ex: SELENOMETHIONINE (MSEex)
6ey: SELENOMETHIONINE (MSEey)
6ez: SELENOMETHIONINE (MSEez)
6f: SELENOMETHIONINE (MSEf)
6fa: SELENOMETHIONINE (MSEfa)
6fb: SELENOMETHIONINE (MSEfb)
6fc: SELENOMETHIONINE (MSEfc)
6fd: SELENOMETHIONINE (MSEfd)
6fe: SELENOMETHIONINE (MSEfe)
6ff: SELENOMETHIONINE (MSEff)
6fg: SELENOMETHIONINE (MSEfg)
6fh: SELENOMETHIONINE (MSEfh)
6fi: SELENOMETHIONINE (MSEfi)
6fj: SELENOMETHIONINE (MSEfj)
6fk: SELENOMETHIONINE (MSEfk)
6fl: SELENOMETHIONINE (MSEfl)
6fm: SELENOMETHIONINE (MSEfm)
6fn: SELENOMETHIONINE (MSEfn)
6fo: SELENOMETHIONINE (MSEfo)
6fp: SELENOMETHIONINE (MSEfp)
6fq: SELENOMETHIONINE (MSEfq)
6fr: SELENOMETHIONINE (MSEfr)
6fs: SELENOMETHIONINE (MSEfs)
6ft: SELENOMETHIONINE (MSEft)
6fu: SELENOMETHIONINE (MSEfu)
6fv: SELENOMETHIONINE (MSEfv)
6fw: SELENOMETHIONINE (MSEfw)
6fx: SELENOMETHIONINE (MSEfx)
6fy: SELENOMETHIONINE (MSEfy)
6fz: SELENOMETHIONINE (MSEfz)
6g: SELENOMETHIONINE (MSEg)
6ga: SELENOMETHIONINE (MSEga)
6gb: SELENOMETHIONINE (MSEgb)
6gc: SELENOMETHIONINE (MSEgc)
6gd: SELENOMETHIONINE (MSEgd)
6ge: SELENOMETHIONINE (MSEge)
6gf: SELENOMETHIONINE (MSEgf)
6gg: SELENOMETHIONINE (MSEgg)
6gh: SELENOMETHIONINE (MSEgh)
6gi: SELENOMETHIONINE (MSEgi)
6gj: SELENOMETHIONINE (MSEgj)
6gk: SELENOMETHIONINE (MSEgk)
6gl: SELENOMETHIONINE (MSEgl)
6gm: SELENOMETHIONINE (MSEgm)
6gn: SELENOMETHIONINE (MSEgn)
6go: SELENOMETHIONINE (MSEgo)
6gp: SELENOMETHIONINE (MSEgp)
6gq: SELENOMETHIONINE (MSEgq)
6gr: SELENOMETHIONINE (MSEgr)
6h: SELENOMETHIONINE (MSEh)
6i: SELENOMETHIONINE (MSEi)
6j: SELENOMETHIONINE (MSEj)
6k: SELENOMETHIONINE (MSEk)
6l: SELENOMETHIONINE (MSEl)
6m: SELENOMETHIONINE (MSEm)
6n: SELENOMETHIONINE (MSEn)
6o: SELENOMETHIONINE (MSEo)
6p: SELENOMETHIONINE (MSEp)
6q: SELENOMETHIONINE (MSEq)
6r: SELENOMETHIONINE (MSEr)
6s: SELENOMETHIONINE (MSEs)
6t: SELENOMETHIONINE (MSEt)
6u: SELENOMETHIONINE (MSEu)
6v: SELENOMETHIONINE (MSEv)
6w: SELENOMETHIONINE (MSEw)
6x: SELENOMETHIONINE (MSEx)
6y: SELENOMETHIONINE (MSEy)
6z: SELENOMETHIONINE (MSEz)
7a: SODIUM ION (NAa)
7b: SODIUM ION (NAb)
7c: SODIUM ION (NAc)
8a: PHOSPHATE ION (PO4a)
8b: PHOSPHATE ION (PO4b)
8c: PHOSPHATE ION (PO4c)
8d: PHOSPHATE ION (PO4d)
9a: UNKNOWN LIGAND (UNLa)
9b: UNKNOWN LIGAND (UNLb)
9c: UNKNOWN LIGAND (UNLc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
1
Ligand/Ion
ACETATE ION
2
CL
-1
Ligand/Ion
CHLORIDE ION
3
FMT
4
Ligand/Ion
FORMIC ACID
4
GOL
4
Ligand/Ion
GLYCEROL
5
MPD
-1
Ligand/Ion
(4S)-2-METHYL-2,4-PENTANEDIOL
6
MSE
49
Mod. Amino Acid
SELENOMETHIONINE
7
NA
-1
Ligand/Ion
SODIUM ION
8
PO4
2
Ligand/Ion
PHOSPHATE ION
9
UNL
-1
Ligand/Ion
UNKNOWN LIGAND
[
close Hetero Component info
]
Sites
(12, 12)
Info
All Sites
01: AC9 (SOFTWARE)
02: BC2 (SOFTWARE)
03: BC4 (SOFTWARE)
04: BC7 (SOFTWARE)
05: CC5 (SOFTWARE)
06: DC4 (SOFTWARE)
07: DC5 (SOFTWARE)
08: DC7 (SOFTWARE)
09: EC6 (SOFTWARE)
10: FC2 (SOFTWARE)
11: FC5 (SOFTWARE)
12: GC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC9
SOFTWARE
LYS D:278 , GLU D:304 , LYS E:278 , GLU E:304 , LYS F:278 , GLU F:304
BINDING SITE FOR RESIDUE CL D 428
02
BC2
SOFTWARE
HIS F:28 , HIS F:49 , TYR F:50 , TRP F:326 , ASP F:355 , ARG F:357 , HOH F:447 , HOH F:546
BINDING SITE FOR RESIDUE PO4 F 428
03
BC4
SOFTWARE
HIS D:28 , HIS D:49 , TYR D:50 , TRP D:326 , ARG D:357 , HOH D:506
BINDING SITE FOR RESIDUE PO4 D 429
04
BC7
SOFTWARE
LEU F:156
BINDING SITE FOR RESIDUE ACT F 429
05
CC5
SOFTWARE
ARG E:314 , LYS E:315 , HIS F:49 , TRP F:326 , PHE F:327
BINDING SITE FOR RESIDUE FMT E 428
06
DC4
SOFTWARE
HIS D:49 , TRP D:326 , PHE D:327 , HOH D:570 , ARG F:314 , LYS F:315
BINDING SITE FOR RESIDUE FMT F 430
07
DC5
SOFTWARE
ARG D:314 , LYS D:315 , HIS E:49 , TRP E:326 , PHE E:327
BINDING SITE FOR RESIDUE FMT D 430
08
DC7
SOFTWARE
HIS D:26 , THR D:143 , ARG D:170 , MSE D:258
BINDING SITE FOR RESIDUE FMT D 431
09
EC6
SOFTWARE
HIS E:28 , HIS E:49 , TYR E:50 , ASP E:355 , ARG E:357 , HOH E:524
BINDING SITE FOR RESIDUE GOL E 429
10
FC2
SOFTWARE
PRO D:331 , HOH F:548
BINDING SITE FOR RESIDUE GOL D 432
11
FC5
SOFTWARE
TRP D:409
BINDING SITE FOR RESIDUE GOL D 433
12
GC4
SOFTWARE
SER E:5 , ASN G:18 , HOH G:631 , HOH G:753
BINDING SITE FOR RESIDUE GOL E 430
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
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Sorry, no Info available
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PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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Label:
End label:
Sorry, no Info available
[
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Exons
(0, 0)
Info
All Exons
View:
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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, 12)
Info
All SCOP Domains
1a: SCOP_d2pnka1 (A:1-423)
1b: SCOP_d2pnkb_ (B:)
1c: SCOP_d2pnkc_ (C:)
1d: SCOP_d2pnkd_ (D:)
1e: SCOP_d2pnke_ (E:)
1f: SCOP_d2pnkf_ (F:)
1g: SCOP_d2pnkg_ (G:)
1h: SCOP_d2pnkh_ (H:)
1i: SCOP_d2pnki_ (I:)
1j: SCOP_d2pnkj_ (J:)
1k: SCOP_d2pnkk_ (K:)
1l: SCOP_d2pnkl_ (L:)
View:
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Folds
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(
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Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Metallo-dependent hydrolases
(273)
Family
:
Uronate isomerase-like
(10)
Protein domain
:
Uncharacterized protein BH0493
(9)
Bacillus halodurans [TaxId: 86665]
(9)
1a
d2pnka1
A:1-423
1b
d2pnkb_
B:
1c
d2pnkc_
C:
1d
d2pnkd_
D:
1e
d2pnke_
E:
1f
d2pnkf_
F:
1g
d2pnkg_
G:
1h
d2pnkh_
H:
1i
d2pnki_
I:
1j
d2pnkj_
J:
1k
d2pnkk_
K:
1l
d2pnkl_
L:
[
close SCOP info
]
CATH Domains
(1, 12)
Info
all CATH domains
1a: CATH_2pnkA02 (A:39-120)
1b: CATH_2pnkB02 (B:39-120)
1c: CATH_2pnkC02 (C:39-120)
1d: CATH_2pnkD02 (D:39-120)
1e: CATH_2pnkE02 (E:39-120)
1f: CATH_2pnkF02 (F:39-120)
1g: CATH_2pnkG02 (G:39-120)
1h: CATH_2pnkH02 (H:39-120)
1i: CATH_2pnkI02 (I:39-120)
1j: CATH_2pnkJ02 (J:39-120)
1k: CATH_2pnkK02 (K:39-120)
1l: CATH_2pnkL02 (L:39-120)
View:
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Classes
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(
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Architectures
(
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(
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Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
uronate isomerase, domain 2, chain A
(11)
Homologous Superfamily
:
uronate isomerase, domain 2, chain A
(11)
Bacillus halodurans c-125. Organism_taxid: 272558. Strain: c-125, dsm18197, ferm 7344, jcm 9153.
(4)
1a
2pnkA02
A:39-120
1b
2pnkB02
B:39-120
1c
2pnkC02
C:39-120
1d
2pnkD02
D:39-120
1e
2pnkE02
E:39-120
1f
2pnkF02
F:39-120
1g
2pnkG02
G:39-120
1h
2pnkH02
H:39-120
1i
2pnkI02
I:39-120
1j
2pnkJ02
J:39-120
1k
2pnkK02
K:39-120
1l
2pnkL02
L:39-120
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Sorry, no Info available
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Atom Selection
(currently selected atoms:
all
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Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain D
Chain E
Chain F
Asymmetric Unit 1
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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)
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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") .
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