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.
PLEASE WAIT...
Getting 'Exon' information from database.
1H0I
Asym. Unit
Info
Asym.Unit (191 KB)
Biol.Unit 1 (94 KB)
Biol.Unit 2 (96 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
COMPLEX OF A CHITINASE WITH THE NATURAL PRODUCT CYCLOPENTAPEPTIDE ARGIFIN FROM GLIOCLADIUM
Authors
:
D. R. Houston, K. Shiomi, N. Arai, S. Omura, M. G. Peter, A. Turberg, B. Sy V. G. H. Eijsink, D. M. F. Aalten
Date
:
19 Jun 02 (Deposition) - 27 Jun 02 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,C (1x)
Biol. Unit 2: B,D (1x)
Keywords
:
Hydrolase-Inhibitor Complex, Hydrolase, Chitin Degradation, Argifin, Inhibitor, Hydrolase-Hydrolase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. R. Houston, K. Shiomi, N. Arai, S. Omura, M. G. Peter, A. Turberg, B. Synstad, V. G. H. Eijsink, D. M. F. Van Aalten
High Resolution Inhibited Complexes Of A Chitinase With Natural Product Cyclopentapeptides - Peptide Mimicry Of A Carbohydrate Substrate
Proc. Natl. Acad. Sci. Usa V. 99 9127 2002
[
close entry info
]
Hetero Components
(6, 27)
Info
All Hetero Components
1a: D-ALANINE (DALa)
1b: D-ALANINE (DALb)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
2f: GLYCEROL (GOLf)
2g: GLYCEROL (GOLg)
3a: L-ASPARTIC ACID (IASa)
3b: L-ASPARTIC ACID (IASb)
3c: L-ASPARTIC ACID (IASc)
3d: L-ASPARTIC ACID (IASd)
4a: N-METHYLPHENYLALANINE (MEAa)
4b: N-METHYLPHENYLALANINE (MEAb)
5a: SULFATE ION (SO4a)
5b: SULFATE ION (SO4b)
5c: SULFATE ION (SO4c)
5d: SULFATE ION (SO4d)
5e: SULFATE ION (SO4e)
5f: SULFATE ION (SO4f)
5g: SULFATE ION (SO4g)
5h: SULFATE ION (SO4h)
5i: SULFATE ION (SO4i)
5j: SULFATE ION (SO4j)
6a: N~5~-[N-(METHYLCARBAMOYL)CARBAMIMI... (VR0a)
6b: N~5~-[N-(METHYLCARBAMOYL)CARBAMIMI... (VR0b)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
DAL
2
OTHER
D-ALANINE
2
GOL
7
Ligand/Ion
GLYCEROL
3
IAS
4
OTHER
L-ASPARTIC ACID
4
MEA
2
OTHER
N-METHYLPHENYLALANINE
5
SO4
10
Ligand/Ion
SULFATE ION
6
VR0
2
OTHER
N~5~-[N-(METHYLCARBAMOYL)CARBAMIMIDOYL]-L-ORNITHINE
[
close Hetero Component info
]
Sites
(21, 21)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
PRO A:260 , PHE A:263 , SER A:264 , ARG A:439 , TYR A:440 , THR A:441 , HOH A:2401 , HOH A:2443 , HOH A:2445
BINDING SITE FOR RESIDUE GOL A 1502
02
AC2
SOFTWARE
ARG A:4 , HIS A:46 , ARG A:89 , TYR A:208 , SO4 A:1506 , HOH A:2134 , HOH A:2253
BINDING SITE FOR RESIDUE GOL A 1503
03
AC3
SOFTWARE
PRO A:14 , ASN A:16 , GLN A:17 , ARG A:333 , HOH A:2045
BINDING SITE FOR RESIDUE SO4 A 1504
04
AC4
SOFTWARE
PRO A:281 , SER A:282 , HOH A:2446 , HOH A:2447
BINDING SITE FOR RESIDUE SO4 A 1505
05
AC5
SOFTWARE
ARG A:89 , PRO A:178 , GOL A:1503 , HOH A:2237 , HOH A:2253 , HOH A:2449
BINDING SITE FOR RESIDUE SO4 A 1506
06
AC6
SOFTWARE
ARG A:343 , GLN A:347 , ARG A:410 , HOH A:2450
BINDING SITE FOR RESIDUE SO4 A 1507
07
AC7
SOFTWARE
ARG B:4 , HIS B:46 , ARG B:89 , HOH B:2094
BINDING SITE FOR RESIDUE GOL B 1501
08
AC8
SOFTWARE
TYR B:323 , LEU B:325 , VAL B:326 , GLY B:327 , CYS B:328 , VAL B:332 , HOH B:2532 , HOH B:2533 , HOH B:2534
BINDING SITE FOR RESIDUE GOL B 1502
09
AC9
SOFTWARE
TYR B:11 , PHE B:12 , GLN B:17 , PRO B:30 , PHE B:31 , HIS B:404 , GLY B:406 , HOH B:2456 , HOH B:2535
BINDING SITE FOR RESIDUE GOL B 1503
10
BC1
SOFTWARE
ARG B:162 , ALA B:204 , LEU B:206 , ASP B:207 , LYS B:284 , HOH B:2281 , HOH B:2314 , HOH B:2433 , HOH B:2537
BINDING SITE FOR RESIDUE GOL B 1504
11
BC2
SOFTWARE
ARG A:420 , HOH A:2379 , LYS B:386 , HOH B:2538 , HOH B:2539 , HOH B:2541 , HOH B:2542
BINDING SITE FOR RESIDUE SO4 B 1505
12
BC3
SOFTWARE
PRO B:281 , SER B:282 , HOH B:2367 , HOH B:2544 , HOH B:2545 , HOH B:2546
BINDING SITE FOR RESIDUE SO4 B 1506
13
BC4
SOFTWARE
PRO B:14 , ASN B:16 , GLN B:17 , ARG B:333 , HOH B:2060 , HOH B:2548 , HOH B:2549
BINDING SITE FOR RESIDUE SO4 B 1507
14
BC5
SOFTWARE
GLY B:188 , ALA B:189 , PHE B:190 , PHE B:191 , HOH B:2320 , HOH B:2550 , HOH B:2551
BINDING SITE FOR RESIDUE SO4 B 1508
15
BC6
SOFTWARE
ARG B:343 , GLN B:347 , ARG B:410 , HOH B:2407
BINDING SITE FOR RESIDUE SO4 B 1509
16
BC7
SOFTWARE
PRO B:260 , PHE B:263 , SER B:264 , TYR B:440 , HOH B:2356 , HOH B:2552
BINDING SITE FOR RESIDUE GOL B 1510
17
BC8
SOFTWARE
TYR A:10 , ASP A:142 , GLU A:144 , MET A:212 , TYR A:214 , TRP A:403
BINDING SITE FOR RESIDUE RGI C 1
18
BC9
SOFTWARE
TYR B:10 , ASP B:142 , GLU B:144 , MET B:212 , TYR B:214 , TRP B:403
BINDING SITE FOR RESIDUE RGI D 1
19
CC1
SOFTWARE
TYR B:98 , HOH D:2004 , HOH D:2016 , HOH D:2018 , HOH D:2019
BINDING SITE FOR RESIDUE SO4 D 1007
20
CC2
SOFTWARE
TRP A:97 , GLU A:144 , MET A:212 , TYR A:214 , ASP A:215 , TRP A:220 , ARG A:294 , ASP A:316 , PRO A:317 , HOH A:2255 , HOH C:2003 , HOH C:2004
BINDING SITE FOR CHAIN C OF ARGIFIN
21
CC3
SOFTWARE
TRP B:97 , GLU B:144 , MET B:212 , TYR B:214 , ASP B:215 , TRP B:220 , ASP B:316 , PRO B:317 , HOH B:2370 , HOH B:2372 , HOH B:2384 , HOH B:2397 , SO4 D:1007 , HOH D:2002 , HOH D:2004 , HOH D:2007 , HOH D:2008 , HOH D:2009 , HOH D:2010 , HOH D:2011
BINDING SITE FOR CHAIN D OF ARGIFIN
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: CHITINASE_18 (A:136-144,B:136-144)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CHITINASE_18
PS01095
Chitinases family 18 active site.
CHIB_SERMA
136-144
2
A:136-144
B:136-144
[
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.
SCOP Domains
(3, 6)
Info
All SCOP Domains
1a: SCOP_d1h0ia1 (A:447-498)
1b: SCOP_d1h0ib1 (B:447-499)
2a: SCOP_d1h0ia3 (A:292-379)
2b: SCOP_d1h0ib3 (B:292-379)
3a: SCOP_d1h0ia2 (A:3-291,A:380-446)
3b: SCOP_d1h0ib2 (B:3-291,B:380-446)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
WW domain-like
(101)
Superfamily
:
Carbohydrate binding domain
(20)
Family
:
Carbohydrate binding domain
(20)
Protein domain
:
Chitinase B, C-terminal domain
(18)
Serratia marcescens [TaxId: 615]
(18)
1a
d1h0ia1
A:447-498
1b
d1h0ib1
B:447-499
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
FKBP-like
(309)
Superfamily
:
Chitinase insertion domain
(107)
Family
:
Chitinase insertion domain
(107)
Protein domain
:
Chitinase B
(18)
Serratia marcescens [TaxId: 615]
(18)
2a
d1h0ia3
A:292-379
2b
d1h0ib3
B:292-379
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
(Trans)glycosidases
(1191)
Family
:
Type II chitinase
(131)
Protein domain
:
Chitinase B, catalytic domain
(18)
Serratia marcescens [TaxId: 615]
(18)
3a
d1h0ia2
A:3-291,A:380-446
3b
d1h0ib2
B:3-291,B:380-446
[
close SCOP info
]
CATH Domains
(3, 6)
Info
all CATH domains
1a: CATH_1h0iA01 (A:3-290,A:381-448)
1b: CATH_1h0iB01 (B:3-290,B:381-448)
2a: CATH_1h0iA02 (A:291-380)
2b: CATH_1h0iB02 (B:291-380)
3a: CATH_1h0iA03 (A:449-499)
3b: CATH_1h0iB03 (B:449-499)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Glycosidases
(843)
Serratia marcescens. Organism_taxid: 615.
(19)
1a
1h0iA01
A:3-290,A:381-448
1b
1h0iB01
B:3-290,B:381-448
Architecture
:
Roll
(3276)
Topology
:
Chitinase A; domain 3
(225)
Homologous Superfamily
:
[code=3.10.50.10, no name defined]
(121)
Serratia marcescens. Organism_taxid: 615.
(17)
2a
1h0iA02
A:291-380
2b
1h0iB02
B:291-380
Class
:
Mainly Beta
(13760)
Architecture
:
Ribbon
(789)
Topology
:
Seminal Fluid Protein PDC-109 (Domain B)
(33)
Homologous Superfamily
:
[code=2.10.10.20, no name defined]
(20)
Serratia marcescens. Organism_taxid: 615.
(13)
3a
1h0iA03
A:449-499
3b
1h0iB03
B:449-499
[
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
Chain C
Chain D
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 (191 KB)
Header - Asym.Unit
Biol.Unit 1 (94 KB)
Header - Biol.Unit 1
Biol.Unit 2 (96 KB)
Header - Biol.Unit 2
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
1H0I
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
