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.
1N3R
Asym. Unit
Info
Asym.Unit (543 KB)
Biol.Unit 1 (183 KB)
Biol.Unit 2 (183 KB)
Biol.Unit 3 (183 KB)
Biol.Unit 4 (358 KB)
Biol.Unit 5 (358 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
BIOSYNTHESIS OF PTERIDINS. REACTION MECHANISM OF GTP CYCLOHYDROLASE I
Authors
:
J. Rebelo, G. Auerbach, G. Bader, A. Bracher, H. Nar, C. Hoesl, N. Schramek, J. Kaiser, A. Bacher, R. Huber, M. Fischer
Date
:
29 Oct 02 (Deposition) - 14 Oct 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O
Biol. Unit 1: A,B,C,D,E (1x)
Biol. Unit 2: F,G,H,I,J (1x)
Biol. Unit 3: K,L,M,N,O (1x)
Biol. Unit 4: A,B,C,D,E,F,G,H,I,J (1x)
Biol. Unit 5: K,L,M,N,O (2x)
Keywords
:
Biosynthesis, Folic Acid, Crystal Structure, Gtp Cyclohydrolase I, Tetrahydropterin, Pteridines
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Rebelo, G. Auerbach, G. Bader, A. Bracher, H. Nar, C. Hoesl, N. Schramek, J. Kaiser, A. Bacher, R. Huber, M. Fischer
Biosynthesis Of Pteridines. Reaction Mechanism Of Gtp Cyclohydrolase I
J. Mol. Biol. V. 326 503 2003
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(1, 15)
Info
All Hetero Components
1a: GUANOSINE-5'-TRIPHOSPHATE (GTPa)
1b: GUANOSINE-5'-TRIPHOSPHATE (GTPb)
1c: GUANOSINE-5'-TRIPHOSPHATE (GTPc)
1d: GUANOSINE-5'-TRIPHOSPHATE (GTPd)
1e: GUANOSINE-5'-TRIPHOSPHATE (GTPe)
1f: GUANOSINE-5'-TRIPHOSPHATE (GTPf)
1g: GUANOSINE-5'-TRIPHOSPHATE (GTPg)
1h: GUANOSINE-5'-TRIPHOSPHATE (GTPh)
1i: GUANOSINE-5'-TRIPHOSPHATE (GTPi)
1j: GUANOSINE-5'-TRIPHOSPHATE (GTPj)
1k: GUANOSINE-5'-TRIPHOSPHATE (GTPk)
1l: GUANOSINE-5'-TRIPHOSPHATE (GTPl)
1m: GUANOSINE-5'-TRIPHOSPHATE (GTPm)
1n: GUANOSINE-5'-TRIPHOSPHATE (GTPn)
1o: GUANOSINE-5'-TRIPHOSPHATE (GTPo)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GTP
15
Ligand/Ion
GUANOSINE-5'-TRIPHOSPHATE
[
close Hetero Component info
]
Sites
(15, 15)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
SER A:112 , HIS A:113 , VAL A:150 , GLN A:151 , GLU A:152 , HIS A:179 , CYS A:181 , ARG A:185 , THR B:87 , VAL B:131 , ILE B:132 , GLY B:133 , LEU B:134 , SER B:135 , LYS B:136 , ARG B:139 , HOH B:1413 , ARG I:65
BINDING SITE FOR RESIDUE GTP B 1411
02
AC2
SOFTWARE
SER B:112 , HIS B:113 , VAL B:150 , GLN B:151 , GLU B:152 , HIS B:179 , CYS B:181 , ARG B:185 , THR C:87 , VAL C:131 , ILE C:132 , GLY C:133 , LEU C:134 , SER C:135 , LYS C:136 , ARG C:139 , ARG H:65
BINDING SITE FOR RESIDUE GTP C 1412
03
AC3
SOFTWARE
SER C:112 , HIS C:113 , VAL C:150 , GLN C:151 , GLU C:152 , HIS C:179 , CYS C:181 , VAL C:182 , ARG C:185 , THR D:87 , VAL D:131 , ILE D:132 , GLY D:133 , LEU D:134 , SER D:135 , LYS D:136 , ARG D:139 , ARG G:65 , LYS G:68
BINDING SITE FOR RESIDUE GTP D 1413
04
AC4
SOFTWARE
SER D:112 , HIS D:113 , VAL D:150 , GLN D:151 , GLU D:152 , HIS D:179 , CYS D:181 , ARG D:185 , THR E:87 , VAL E:131 , ILE E:132 , GLY E:133 , LEU E:134 , SER E:135 , LYS E:136 , ARG E:139 , ARG F:65
BINDING SITE FOR RESIDUE GTP E 1414
05
AC5
SOFTWARE
THR A:87 , VAL A:131 , ILE A:132 , GLY A:133 , LEU A:134 , SER A:135 , LYS A:136 , ARG A:139 , SER E:112 , HIS E:113 , VAL E:150 , GLN E:151 , GLU E:152 , ARG E:185 , GLY E:186 , ARG J:65
BINDING SITE FOR RESIDUE GTP A 1415
06
AC6
SOFTWARE
ARG D:65 , CYS F:110 , SER F:112 , HIS F:113 , VAL F:150 , GLN F:151 , GLU F:152 , HIS F:179 , CYS F:181 , VAL F:182 , ARG F:185 , THR G:87 , ILE G:132 , GLY G:133 , LEU G:134 , SER G:135 , LYS G:136 , ARG G:139
BINDING SITE FOR RESIDUE GTP G 1416
07
AC7
SOFTWARE
ARG C:65 , LYS C:68 , SER G:112 , HIS G:113 , VAL G:150 , GLN G:151 , GLU G:152 , HIS G:179 , CYS G:181 , ARG G:185 , THR H:87 , VAL H:131 , ILE H:132 , GLY H:133 , LEU H:134 , SER H:135 , LYS H:136 , ARG H:139
BINDING SITE FOR RESIDUE GTP H 1417
08
AC8
SOFTWARE
ARG B:65 , SER H:112 , HIS H:113 , VAL H:150 , GLN H:151 , GLU H:152 , HIS H:179 , ARG H:185 , THR I:87 , ILE I:132 , GLY I:133 , LEU I:134 , SER I:135 , LYS I:136 , ARG I:139
BINDING SITE FOR RESIDUE GTP I 1418
09
AC9
SOFTWARE
ARG A:65 , LYS A:68 , SER I:112 , HIS I:113 , VAL I:150 , GLN I:151 , GLU I:152 , HIS I:179 , CYS I:181 , ARG I:185 , THR J:87 , VAL J:131 , ILE J:132 , GLY J:133 , LEU J:134 , SER J:135 , LYS J:136 , ARG J:139
BINDING SITE FOR RESIDUE GTP J 1419
10
BC1
SOFTWARE
ARG E:65 , THR F:87 , VAL F:131 , ILE F:132 , GLY F:133 , LEU F:134 , SER F:135 , LYS F:136 , ARG F:139 , HOH F:1425 , SER J:112 , HIS J:113 , VAL J:150 , GLN J:151 , GLU J:152 , HIS J:179 , CYS J:181 , ARG J:185
BINDING SITE FOR RESIDUE GTP F 1420
11
BC2
SOFTWARE
CYS K:110 , SER K:112 , HIS K:113 , VAL K:150 , GLN K:151 , GLU K:152 , HIS K:179 , CYS K:181 , VAL K:182 , ARG K:185 , THR L:87 , VAL L:131 , ILE L:132 , GLY L:133 , LEU L:134 , SER L:135 , LYS L:136 , ARG L:139 , ARG N:65
BINDING SITE FOR RESIDUE GTP L 1421
12
BC3
SOFTWARE
CYS L:110 , SER L:112 , HIS L:113 , VAL L:150 , GLN L:151 , GLU L:152 , HIS L:179 , CYS L:181 , ARG L:185 , ARG M:65 , LYS M:68 , THR M:87 , VAL M:131 , ILE M:132 , GLY M:133 , LEU M:134 , SER M:135 , LYS M:136 , ARG M:139
BINDING SITE FOR RESIDUE GTP M 1422
13
BC4
SOFTWARE
ARG L:65 , CYS M:110 , SER M:112 , HIS M:113 , GLN M:149 , VAL M:150 , GLN M:151 , GLU M:152 , HIS M:179 , CYS M:181 , ARG M:185 , HOH M:1428 , THR N:87 , VAL N:131 , ILE N:132 , GLY N:133 , LEU N:134 , SER N:135 , LYS N:136 , ARG N:139
BINDING SITE FOR RESIDUE GTP N 1423
14
BC5
SOFTWARE
ARG K:65 , CYS N:110 , SER N:112 , HIS N:113 , VAL N:150 , GLN N:151 , GLU N:152 , HIS N:179 , CYS N:181 , ARG N:185 , THR O:87 , VAL O:131 , ILE O:132 , GLY O:133 , LEU O:134 , SER O:135 , LYS O:136 , ARG O:139
BINDING SITE FOR RESIDUE GTP O 1424
15
BC6
SOFTWARE
THR K:87 , ILE K:132 , GLY K:133 , LEU K:134 , SER K:135 , LYS K:136 , ARG K:139 , ARG O:65 , LYS O:68 , CYS O:110 , SER O:112 , HIS O:113 , VAL O:150 , GLN O:151 , GLU O:152 , HIS O:179 , CYS O:181 , ARG O:185
BINDING SITE FOR RESIDUE GTP K 1425
[
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
(2, 30)
Info
All PROSITE Patterns/Profiles
1: GTP_CYCLOHYDROL_1_1 (A:97-113,B:97-113,C:97-113,D:97-11...)
2: GTP_CYCLOHYDROL_1_2 (A:145-155,B:145-155,C:145-155,D:14...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GTP_CYCLOHYDROL_1_1
PS00859
GTP cyclohydrolase I signature 1.
GCH1_ECOLI
98-114
15
A:97-113
B:97-113
C:97-113
D:97-113
E:97-113
F:97-113
G:97-113
H:97-113
I:97-113
J:97-113
K:97-113
L:97-113
M:97-113
N:97-113
O:97-113
2
GTP_CYCLOHYDROL_1_2
PS00860
GTP cyclohydrolase I signature 2.
GCH1_ECOLI
146-156
15
A:145-155
B:145-155
C:145-155
D:145-155
E:145-155
F:145-155
G:145-155
H:145-155
I:145-155
J:145-155
K:145-155
L:145-155
M:145-155
N:145-155
O:145-155
[
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
(1, 15)
Info
All SCOP Domains
1a: SCOP_d1n3ra_ (A:)
1b: SCOP_d1n3rb_ (B:)
1c: SCOP_d1n3rc_ (C:)
1d: SCOP_d1n3rd_ (D:)
1e: SCOP_d1n3re_ (E:)
1f: SCOP_d1n3rf_ (F:)
1g: SCOP_d1n3rg_ (G:)
1h: SCOP_d1n3rh_ (H:)
1i: SCOP_d1n3ri_ (I:)
1j: SCOP_d1n3rj_ (J:)
1k: SCOP_d1n3rk_ (K:)
1l: SCOP_d1n3rl_ (L:)
1m: SCOP_d1n3rm_ (M:)
1n: SCOP_d1n3rn_ (N:)
1o: SCOP_d1n3ro_ (O:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
T-fold
(116)
Superfamily
:
Tetrahydrobiopterin biosynthesis enzymes-like
(113)
Family
:
GTP cyclohydrolase I
(15)
Protein domain
:
GTP cyclohydrolase I
(14)
Escherichia coli [TaxId: 562]
(7)
1a
d1n3ra_
A:
1b
d1n3rb_
B:
1c
d1n3rc_
C:
1d
d1n3rd_
D:
1e
d1n3re_
E:
1f
d1n3rf_
F:
1g
d1n3rg_
G:
1h
d1n3rh_
H:
1i
d1n3ri_
I:
1j
d1n3rj_
J:
1k
d1n3rk_
K:
1l
d1n3rl_
L:
1m
d1n3rm_
M:
1n
d1n3rn_
N:
1o
d1n3ro_
O:
[
close SCOP info
]
CATH Domains
(2, 30)
Info
all CATH domains
1a: CATH_1n3rE02 (E:86-220)
1b: CATH_1n3rA02 (A:86-221)
1c: CATH_1n3rK02 (K:86-221)
1d: CATH_1n3rL02 (L:86-221)
1e: CATH_1n3rM02 (M:86-221)
1f: CATH_1n3rN02 (N:86-221)
1g: CATH_1n3rO02 (O:86-221)
1h: CATH_1n3rB02 (B:86-221)
1i: CATH_1n3rC02 (C:86-221)
1j: CATH_1n3rD02 (D:86-221)
1k: CATH_1n3rF02 (F:86-221)
1l: CATH_1n3rG02 (G:86-221)
1m: CATH_1n3rH02 (H:86-221)
1n: CATH_1n3rI02 (I:86-221)
1o: CATH_1n3rJ02 (J:86-221)
2a: CATH_1n3rA01 (A:1-85)
2b: CATH_1n3rB01 (B:1-85)
2c: CATH_1n3rC01 (C:1-85)
2d: CATH_1n3rD01 (D:1-85)
2e: CATH_1n3rE01 (E:1-85)
2f: CATH_1n3rF01 (F:1-85)
2g: CATH_1n3rG01 (G:1-85)
2h: CATH_1n3rH01 (H:1-85)
2i: CATH_1n3rI01 (I:1-85)
2j: CATH_1n3rJ01 (J:1-85)
2k: CATH_1n3rK01 (K:1-85)
2l: CATH_1n3rL01 (L:1-85)
2m: CATH_1n3rM01 (M:1-85)
2n: CATH_1n3rN01 (N:1-85)
2o: CATH_1n3rO01 (O:1-85)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
GTP Cyclohydrolase I, domain 2
(31)
Homologous Superfamily
:
[code=3.30.1130.10, no name defined]
(31)
Escherichia coli. Organism_taxid: 562.
(5)
1a
1n3rE02
E:86-220
1b
1n3rA02
A:86-221
1c
1n3rK02
K:86-221
1d
1n3rL02
L:86-221
1e
1n3rM02
M:86-221
1f
1n3rN02
N:86-221
1g
1n3rO02
O:86-221
1h
1n3rB02
B:86-221
1i
1n3rC02
C:86-221
1j
1n3rD02
D:86-221
1k
1n3rF02
F:86-221
1l
1n3rG02
G:86-221
1m
1n3rH02
H:86-221
1n
1n3rI02
I:86-221
1o
1n3rJ02
J:86-221
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
GTP Cyclohydrolase I; Chain A, domain 1
(23)
Homologous Superfamily
:
[code=1.10.286.10, no name defined]
(14)
Escherichia coli. Organism_taxid: 562.
(5)
2a
1n3rA01
A:1-85
2b
1n3rB01
B:1-85
2c
1n3rC01
C:1-85
2d
1n3rD01
D:1-85
2e
1n3rE01
E:1-85
2f
1n3rF01
F:1-85
2g
1n3rG01
G:1-85
2h
1n3rH01
H:1-85
2i
1n3rI01
I:1-85
2j
1n3rJ01
J:1-85
2k
1n3rK01
K:1-85
2l
1n3rL01
L:1-85
2m
1n3rM01
M:1-85
2n
1n3rN01
N:1-85
2o
1n3rO01
O:1-85
[
close CATH info
]
Pfam Domains
(1, 15)
Info
all PFAM domains
1a: PFAM_GTP_cyclohydroI_1n3rO01 (O:116-201)
1b: PFAM_GTP_cyclohydroI_1n3rO02 (O:116-201)
1c: PFAM_GTP_cyclohydroI_1n3rO03 (O:116-201)
1d: PFAM_GTP_cyclohydroI_1n3rO04 (O:116-201)
1e: PFAM_GTP_cyclohydroI_1n3rO05 (O:116-201)
1f: PFAM_GTP_cyclohydroI_1n3rO06 (O:116-201)
1g: PFAM_GTP_cyclohydroI_1n3rO07 (O:116-201)
1h: PFAM_GTP_cyclohydroI_1n3rO08 (O:116-201)
1i: PFAM_GTP_cyclohydroI_1n3rO09 (O:116-201)
1j: PFAM_GTP_cyclohydroI_1n3rO10 (O:116-201)
1k: PFAM_GTP_cyclohydroI_1n3rO11 (O:116-201)
1l: PFAM_GTP_cyclohydroI_1n3rO12 (O:116-201)
1m: PFAM_GTP_cyclohydroI_1n3rO13 (O:116-201)
1n: PFAM_GTP_cyclohydroI_1n3rO14 (O:116-201)
1o: PFAM_GTP_cyclohydroI_1n3rO15 (O:116-201)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
THBO-biosyn
(64)
Family
:
GTP_cyclohydroI
(9)
Escherichia coli (strain K12)
(3)
1a
GTP_cyclohydroI-1n3rO01
O:116-201
1b
GTP_cyclohydroI-1n3rO02
O:116-201
1c
GTP_cyclohydroI-1n3rO03
O:116-201
1d
GTP_cyclohydroI-1n3rO04
O:116-201
1e
GTP_cyclohydroI-1n3rO05
O:116-201
1f
GTP_cyclohydroI-1n3rO06
O:116-201
1g
GTP_cyclohydroI-1n3rO07
O:116-201
1h
GTP_cyclohydroI-1n3rO08
O:116-201
1i
GTP_cyclohydroI-1n3rO09
O:116-201
1j
GTP_cyclohydroI-1n3rO10
O:116-201
1k
GTP_cyclohydroI-1n3rO11
O:116-201
1l
GTP_cyclohydroI-1n3rO12
O:116-201
1m
GTP_cyclohydroI-1n3rO13
O:116-201
1n
GTP_cyclohydroI-1n3rO14
O:116-201
1o
GTP_cyclohydroI-1n3rO15
O:116-201
[
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
Chain E
Chain F
Chain G
Chain H
Chain I
Chain J
Chain K
Chain L
Chain M
Chain N
Chain O
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 (543 KB)
Header - Asym.Unit
Biol.Unit 1 (183 KB)
Header - Biol.Unit 1
Biol.Unit 2 (183 KB)
Header - Biol.Unit 2
Biol.Unit 3 (183 KB)
Header - Biol.Unit 3
Biol.Unit 4 (358 KB)
Header - Biol.Unit 4
Biol.Unit 5 (358 KB)
Header - Biol.Unit 5
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
1N3R
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
