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.
1NJS
Asym. Unit
Info
Asym.Unit (140 KB)
Biol.Unit 1 (69 KB)
Biol.Unit 2 (69 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
HUMAN GAR TFASE IN COMPLEX WITH HYDROLYZED FORM OF 10-TRIFLUOROACETYL-5,10-DIDEAZA-ACYCLIC-5,6,7,8-TETRAHYDROFOLIC ACID
Authors
:
Y. Zhang, J. Desharnais, T. H. Marsilje, C. Li, M. P. Hedrick, L. T. Gooljarsingh, A. Tavassoli, S. J. Benkovic, A. J. Olson, D. L. Boger, I. A. Wilson
Date
:
02 Jan 03 (Deposition) - 10 Jun 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.98
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Protein-Cofactor Analogue Complex, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Y. Zhang, J. Desharnais, T. H. Marsilje, C. Li, M. P. Hedrick, L. T. Gooljarsingh, A. Tavassoli, S. J. Benkovic, A. J. Olson, D. L. Boger, I. A. Wilson
Rational Design, Synthesis, Evaluation, And Crystal Structure Of A Potent Inhibitor Of Human Gar Tfase: 10-(Trifluoroacetyl)-5, 10-Dideazaacyclic-5, 6, 7, 8- Tetrahydrofolic Acid
Biochemistry V. 42 6043 2003
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 5)
Info
All Hetero Components
1a: N-{4-[(1R)-4-[(2R,4R,5S)-2,4-DIAMI... (KEUa)
1b: N-{4-[(1R)-4-[(2R,4R,5S)-2,4-DIAMI... (KEUb)
2a: PHOSPHATE ION (PO4a)
2b: PHOSPHATE ION (PO4b)
2c: PHOSPHATE ION (PO4c)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
KEU
2
Ligand/Ion
N-{4-[(1R)-4-[(2R,4R,5S)-2,4-DIAMINO-6-OXOHEXAHYDROPYRIMIDIN-5-YL]-1-(2,2,2-TRIFLUORO-1,1-DIHYDROXYETHYL)BUTYL]BENZOYL}-D-GLUTAMIC ACID
2
PO4
3
Ligand/Ion
PHOSPHATE ION
[
close Hetero Component info
]
Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
THR A:10 , GLY A:11 , SER A:12 , ASN A:13 , LYS A:170 , HOH A:527 , HOH A:535 , HOH A:577
BINDING SITE FOR RESIDUE PO4 A 521
2
AC2
SOFTWARE
LYS A:157 , ARG A:168 , HOH A:560 , HOH A:611
BINDING SITE FOR RESIDUE PO4 A 522
3
AC3
SOFTWARE
GLY B:11 , SER B:12 , ASN B:13 , LEU B:14 , GLN B:15 , ALA B:16 , LYS B:45 , HIS B:174 , HOH B:652 , HOH B:656 , HOH B:705
BINDING SITE FOR RESIDUE PO4 B 621
4
AC4
SOFTWARE
ARG A:64 , LEU A:85 , MET A:89 , ARG A:90 , ILE A:91 , LEU A:92 , VAL A:97 , ASN A:106 , HIS A:108 , PRO A:109 , GLY A:117 , SER A:118 , VAL A:139 , ALA A:140 , GLU A:141 , VAL A:143 , ASP A:144 , HOH A:528 , HOH A:529 , HOH A:533 , HOH A:543 , HOH A:563 , HOH A:565 , HOH B:661
BINDING SITE FOR RESIDUE KEU A 510
5
AC5
SOFTWARE
ARG B:64 , MET B:89 , ARG B:90 , ILE B:91 , LEU B:92 , VAL B:97 , ASN B:106 , HIS B:108 , PRO B:109 , GLY B:117 , VAL B:139 , ALA B:140 , GLU B:141 , VAL B:143 , ASP B:144 , HOH B:631 , HOH B:684
BINDING SITE FOR RESIDUE KEU B 610
[
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: GART (A:133-156,B:133-156)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GART
PS00373
Phosphoribosylglycinamide formyltransferase active site.
PUR2_HUMAN
940-963
2
A:133-156
B:133-156
[
close PROSITE info
]
Exons
(5, 10)
Info
All Exons
Exon 1.20b (A:1-11 | B:1-11)
Exon 1.21b (A:11-54 | B:11-54)
Exon 1.22 (A:55-102 | B:55-102)
Exon 1.23 (A:102-140 | B:102-140)
Exon 1.24b (A:141-200 | B:141-200)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.19a/1.20b
2: Boundary 1.20b/1.21b
3: Boundary 1.21b/1.22
4: Boundary 1.22/1.23
5: Boundary 1.23/1.24b
6: Boundary 1.24b/-
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.2b
ENST00000381839
2b
ENSE00001490224
chr21:
34915167-34914966
202
PUR2_HUMAN
-
0
0
-
-
1.4a
ENST00000381839
4a
ENSE00002148759
chr21:
34911662-34911477
186
PUR2_HUMAN
1-49
49
0
-
-
1.5
ENST00000381839
5
ENSE00001043425
chr21:
34907626-34907531
96
PUR2_HUMAN
49-81
33
0
-
-
1.6b
ENST00000381839
6b
ENSE00002174056
chr21:
34907059-34906885
175
PUR2_HUMAN
81-139
59
0
-
-
1.7a
ENST00000381839
7a
ENSE00001043434
chr21:
34904762-34904651
112
PUR2_HUMAN
139-176
38
0
-
-
1.8a
ENST00000381839
8a
ENSE00001043411
chr21:
34903863-34903795
69
PUR2_HUMAN
177-199
23
0
-
-
1.9c
ENST00000381839
9c
ENSE00002197902
chr21:
34903190-34903065
126
PUR2_HUMAN
200-241
42
0
-
-
1.11
ENST00000381839
11
ENSE00001751727
chr21:
34901243-34901156
88
PUR2_HUMAN
242-271
30
0
-
-
1.12c
ENST00000381839
12c
ENSE00001753916
chr21:
34900910-34900825
86
PUR2_HUMAN
271-299
29
0
-
-
1.12f
ENST00000381839
12f
ENSE00001621771
chr21:
34900641-34900473
169
PUR2_HUMAN
300-356
57
0
-
-
1.13a
ENST00000381839
13a
ENSE00001777765
chr21:
34897307-34897076
232
PUR2_HUMAN
356-433
78
0
-
-
1.14b
ENST00000381839
14b
ENSE00001646436
chr21:
34894589-34894495
95
PUR2_HUMAN
433-465
33
0
-
-
1.15
ENST00000381839
15
ENSE00001653663
chr21:
34893322-34893213
110
PUR2_HUMAN
465-501
37
0
-
-
1.16b
ENST00000381839
16b
ENSE00001638032
chr21:
34892869-34892671
199
PUR2_HUMAN
502-568
67
0
-
-
1.17
ENST00000381839
17
ENSE00001683013
chr21:
34889915-34889664
252
PUR2_HUMAN
568-652
85
0
-
-
1.18
ENST00000381839
18
ENSE00001681935
chr21:
34889448-34889296
153
PUR2_HUMAN
652-703
52
0
-
-
1.19a
ENST00000381839
19a
ENSE00001696316
chr21:
34883765-34883559
207
PUR2_HUMAN
703-772
70
0
-
-
1.20b
ENST00000381839
20b
ENSE00001689617
chr21:
34882227-34882090
138
PUR2_HUMAN
772-818
47
2
A:1-11
B:1-11
11
11
1.21b
ENST00000381839
21b
ENSE00001632330
chr21:
34878411-34878281
131
PUR2_HUMAN
818-861
44
2
A:11-54
B:11-54
44
44
1.22
ENST00000381839
22
ENSE00001656872
chr21:
34878009-34877868
142
PUR2_HUMAN
862-909
48
2
A:55-102
B:55-102
48
48
1.23
ENST00000381839
23
ENSE00001636975
chr21:
34876834-34876719
116
PUR2_HUMAN
909-947
39
2
A:102-140
B:102-140
39
39
1.24b
ENST00000381839
24b
ENSE00001736479
chr21:
34876622-34876238
385
PUR2_HUMAN
948-1010
63
2
A:141-200
B:141-200
60
60
[
close EXON info
]
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d1njsa_ (A:)
1b: SCOP_d1njsb_ (B:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Formyltransferase
(42)
Superfamily
:
Formyltransferase
(42)
Family
:
Formyltransferase
(34)
Protein domain
:
Glycinamide ribonucleotide transformylase, GART
(24)
Human (Homo sapiens) [TaxId: 9606]
(15)
1a
d1njsa_
A:
1b
d1njsb_
B:
[
close SCOP info
]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_1njsA00 (A:1-200)
1b: CATH_1njsB00 (B:1-200)
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=3.40.50.170, no name defined]
(28)
Human (Homo sapiens)
(14)
1a
1njsA00
A:1-200
1b
1njsB00
B:1-200
[
close CATH info
]
Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Formyl_trans_N_1njsB01 (B:1-181)
1b: PFAM_Formyl_trans_N_1njsB02 (B:1-181)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: Formyl_trans_N]
(25)
Family
:
Formyl_trans_N
(25)
Homo sapiens (Human)
(11)
1a
Formyl_trans_N-1njsB01
B:1-181
1b
Formyl_trans_N-1njsB02
B:1-181
[
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 (140 KB)
Header - Asym.Unit
Biol.Unit 1 (69 KB)
Header - Biol.Unit 1
Biol.Unit 2 (69 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
1NJS
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
