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.
3FEQ
Asym. Unit
Info
Asym.Unit (989 KB)
Biol.Unit 1 (501 KB)
Biol.Unit 2 (492 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 OF UNCHARACTERIZED PROTEIN EAH89906
Authors
:
Y. Patskovsky, J. Bonanno, R. Romero, J. Freeman, C. Lau, D. Smith, K. Ba S. R. Wasserman, F. Raushel, J. M. Sauder, S. K. Burley, S. C. Almo, New Research Center For Structural Genomics (Nysgxrc)
Date
:
30 Nov 08 (Deposition) - 16 Dec 08 (Release) - 10 Oct 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.63
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P
Biol. Unit 1: A,B,C,D,E,F,G,H (1x)
Biol. Unit 2: I,J,K,L,M,N,O,P (1x)
Keywords
:
Unknown Source, Amidohydrolase, Sargasso Sea, Structural Genomics, Protein Structure Initiative, Psi, New York Structural Genomix Research Consortium, Nysgxrc, Unknown Function, New York Sgx Research Center For Structural Genomics
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. F. Xiang, Y. Patskovsky, C. Xu, A. A. Fedorov, E. V. Fedorov, A. A. Sisco, J. M. Sauder, S. K. Burley, S. C. Almo, F. M. Raushel
Functional Identification And Structure Determination Of Tw Novel Prolidases From Cog1228 In The Amidohydrolase Superfamily .
Biochemistry V. 49 6791 2010
[
close entry info
]
Hetero Components
(1, 32)
Info
All Hetero Components
1a: ZINC ION (ZNa)
1aa: ZINC ION (ZNaa)
1ab: ZINC ION (ZNab)
1ac: ZINC ION (ZNac)
1ad: ZINC ION (ZNad)
1ae: ZINC ION (ZNae)
1af: ZINC ION (ZNaf)
1b: ZINC ION (ZNb)
1c: ZINC ION (ZNc)
1d: ZINC ION (ZNd)
1e: ZINC ION (ZNe)
1f: ZINC ION (ZNf)
1g: ZINC ION (ZNg)
1h: ZINC ION (ZNh)
1i: ZINC ION (ZNi)
1j: ZINC ION (ZNj)
1k: ZINC ION (ZNk)
1l: ZINC ION (ZNl)
1m: ZINC ION (ZNm)
1n: ZINC ION (ZNn)
1o: ZINC ION (ZNo)
1p: ZINC ION (ZNp)
1q: ZINC ION (ZNq)
1r: ZINC ION (ZNr)
1s: ZINC ION (ZNs)
1t: ZINC ION (ZNt)
1u: ZINC ION (ZNu)
1v: ZINC ION (ZNv)
1w: ZINC ION (ZNw)
1x: ZINC ION (ZNx)
1y: ZINC ION (ZNy)
1z: ZINC ION (ZNz)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ZN
32
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(32, 32)
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)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:63 , HIS A:65 , LYS A:188 , ASP A:321 , ZN A:426 , HOH A:437
BINDING SITE FOR RESIDUE ZN A 425
02
AC2
SOFTWARE
HIS A:63 , LYS A:188 , HIS A:229 , HIS A:249 , ZN A:425 , HOH A:437
BINDING SITE FOR RESIDUE ZN A 426
03
AC3
SOFTWARE
HIS B:63 , HIS B:65 , LYS B:188 , ASP B:321 , ZN B:426 , HOH B:445
BINDING SITE FOR RESIDUE ZN B 425
04
AC4
SOFTWARE
LYS B:188 , HIS B:229 , HIS B:249 , ZN B:425 , HOH B:445
BINDING SITE FOR RESIDUE ZN B 426
05
AC5
SOFTWARE
HIS C:63 , HIS C:65 , LYS C:188 , ASP C:321 , HOH C:422 , ZN C:426
BINDING SITE FOR RESIDUE ZN C 425
06
AC6
SOFTWARE
LYS C:188 , HIS C:229 , HIS C:249 , HOH C:422 , ZN C:425
BINDING SITE FOR RESIDUE ZN C 426
07
AC7
SOFTWARE
HIS D:63 , HIS D:65 , LYS D:188 , ASP D:321 , ZN D:426
BINDING SITE FOR RESIDUE ZN D 425
08
AC8
SOFTWARE
LYS D:188 , HIS D:229 , HIS D:249 , ZN D:425
BINDING SITE FOR RESIDUE ZN D 426
09
AC9
SOFTWARE
HIS E:63 , HIS E:65 , LYS E:188 , ASP E:321 , ZN E:426
BINDING SITE FOR RESIDUE ZN E 425
10
BC1
SOFTWARE
LYS E:188 , HIS E:229 , HIS E:249 , ZN E:425
BINDING SITE FOR RESIDUE ZN E 426
11
BC2
SOFTWARE
HIS F:63 , HIS F:65 , LYS F:188 , ASP F:321 , ZN F:426
BINDING SITE FOR RESIDUE ZN F 425
12
BC3
SOFTWARE
LYS F:188 , HIS F:229 , HIS F:249 , ZN F:425
BINDING SITE FOR RESIDUE ZN F 426
13
BC4
SOFTWARE
HIS G:63 , HIS G:65 , LYS G:188 , ASP G:321 , ZN G:426
BINDING SITE FOR RESIDUE ZN G 425
14
BC5
SOFTWARE
LYS G:188 , HIS G:229 , HIS G:249 , ZN G:425
BINDING SITE FOR RESIDUE ZN G 426
15
BC6
SOFTWARE
HIS H:63 , HIS H:65 , LYS H:188 , ASP H:321 , ZN H:426
BINDING SITE FOR RESIDUE ZN H 425
16
BC7
SOFTWARE
LYS H:188 , HIS H:229 , HIS H:249 , ZN H:425
BINDING SITE FOR RESIDUE ZN H 426
17
BC8
SOFTWARE
HIS I:63 , HIS I:65 , LYS I:188 , ASP I:321 , ZN I:426
BINDING SITE FOR RESIDUE ZN I 425
18
BC9
SOFTWARE
HIS I:140 , LYS I:188 , HIS I:229 , HIS I:249 , ZN I:425
BINDING SITE FOR RESIDUE ZN I 426
19
CC1
SOFTWARE
HIS J:63 , HIS J:65 , LYS J:188 , ASP J:321 , ZN J:426
BINDING SITE FOR RESIDUE ZN J 425
20
CC2
SOFTWARE
LYS J:188 , HIS J:229 , HIS J:249 , ZN J:425
BINDING SITE FOR RESIDUE ZN J 426
21
CC3
SOFTWARE
HIS K:63 , HIS K:65 , LYS K:188 , ASP K:321 , ZN K:426
BINDING SITE FOR RESIDUE ZN K 425
22
CC4
SOFTWARE
LYS K:188 , HIS K:229 , HIS K:249 , ZN K:425
BINDING SITE FOR RESIDUE ZN K 426
23
CC5
SOFTWARE
HIS L:63 , HIS L:65 , LYS L:188 , ASP L:321 , ZN L:426
BINDING SITE FOR RESIDUE ZN L 425
24
CC6
SOFTWARE
HIS L:63 , LYS L:188 , HIS L:229 , HIS L:249 , ZN L:425
BINDING SITE FOR RESIDUE ZN L 426
25
CC7
SOFTWARE
HIS M:63 , HIS M:65 , LYS M:188 , ASP M:321 , ZN M:426
BINDING SITE FOR RESIDUE ZN M 425
26
CC8
SOFTWARE
LYS M:188 , HIS M:229 , HIS M:249 , ZN M:425
BINDING SITE FOR RESIDUE ZN M 426
27
CC9
SOFTWARE
HIS N:63 , HIS N:65 , LYS N:188 , ASP N:321 , ZN N:426
BINDING SITE FOR RESIDUE ZN N 425
28
DC1
SOFTWARE
HIS N:140 , HIS N:229 , HIS N:249 , ZN N:425
BINDING SITE FOR RESIDUE ZN N 426
29
DC2
SOFTWARE
HIS O:63 , HIS O:65 , LYS O:188 , ASP O:321 , ZN O:426
BINDING SITE FOR RESIDUE ZN O 425
30
DC3
SOFTWARE
LYS O:188 , HIS O:229 , HIS O:249 , ZN O:425
BINDING SITE FOR RESIDUE ZN O 426
31
DC4
SOFTWARE
HIS P:63 , HIS P:65 , LYS P:188 , ASP P:321 , ZN P:426
BINDING SITE FOR RESIDUE ZN P 425
32
DC5
SOFTWARE
HIS P:63 , LYS P:188 , HIS P:229 , HIS P:249 , ZN P:425
BINDING SITE FOR RESIDUE ZN P 426
[
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
(0, 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.
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
]
CATH Domains
(2, 32)
Info
all CATH domains
1a: CATH_3feqC02 (C:59-361)
1b: CATH_3feqA02 (A:59-361)
1c: CATH_3feqB02 (B:59-361)
1d: CATH_3feqD02 (D:59-361)
1e: CATH_3feqE02 (E:59-361)
1f: CATH_3feqF02 (F:59-361)
1g: CATH_3feqG02 (G:59-361)
1h: CATH_3feqH02 (H:59-361)
1i: CATH_3feqI02 (I:59-361)
1j: CATH_3feqK02 (K:59-361)
1k: CATH_3feqP02 (P:59-361)
1l: CATH_3feqJ02 (J:59-361)
1m: CATH_3feqL02 (L:59-361)
1n: CATH_3feqN02 (N:59-361)
1o: CATH_3feqO02 (O:59-361)
1p: CATH_3feqM02 (M:59-361)
2a: CATH_3feqA01 (A:2-58,A:362-409)
2b: CATH_3feqC01 (C:2-58,C:362-409)
2c: CATH_3feqD01 (D:2-58,D:362-409)
2d: CATH_3feqE01 (E:2-58,E:362-409)
2e: CATH_3feqF01 (F:2-58,F:362-409)
2f: CATH_3feqG01 (G:2-58,G:362-409)
2g: CATH_3feqH01 (H:2-58,H:362-409)
2h: CATH_3feqI01 (I:2-58,I:362-409)
2i: CATH_3feqL01 (L:2-58,L:362-409)
2j: CATH_3feqM01 (M:2-58,M:362-409)
2k: CATH_3feqN01 (N:2-58,N:362-409)
2l: CATH_3feqO01 (O:2-58,O:362-409)
2m: CATH_3feqP01 (P:2-58,P:362-409)
2n: CATH_3feqJ01 (J:2-58,J:362-409)
2o: CATH_3feqK01 (K:2-58,K:362-409)
2p: CATH_3feqB01 (B:2-58,B:362-409)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Metal-dependent hydrolases
(190)
Unidentified. Organism_taxid: 32644
(2)
1a
3feqC02
C:59-361
1b
3feqA02
A:59-361
1c
3feqB02
B:59-361
1d
3feqD02
D:59-361
1e
3feqE02
E:59-361
1f
3feqF02
F:59-361
1g
3feqG02
G:59-361
1h
3feqH02
H:59-361
1i
3feqI02
I:59-361
1j
3feqK02
K:59-361
1k
3feqP02
P:59-361
1l
3feqJ02
J:59-361
1m
3feqL02
L:59-361
1n
3feqN02
N:59-361
1o
3feqO02
O:59-361
1p
3feqM02
M:59-361
Class
:
Mainly Beta
(13760)
Architecture
:
Roll
(1513)
Topology
:
Urease, subunit C; domain 1
(95)
Homologous Superfamily
:
Urease, subunit C, domain 1
(95)
Unidentified. Organism_taxid: 32644
(2)
2a
3feqA01
A:2-58,A:362-409
2b
3feqC01
C:2-58,C:362-409
2c
3feqD01
D:2-58,D:362-409
2d
3feqE01
E:2-58,E:362-409
2e
3feqF01
F:2-58,F:362-409
2f
3feqG01
G:2-58,G:362-409
2g
3feqH01
H:2-58,H:362-409
2h
3feqI01
I:2-58,I:362-409
2i
3feqL01
L:2-58,L:362-409
2j
3feqM01
M:2-58,M:362-409
2k
3feqN01
N:2-58,N:362-409
2l
3feqO01
O:2-58,O:362-409
2m
3feqP01
P:2-58,P:362-409
2n
3feqJ01
J:2-58,J:362-409
2o
3feqK01
K:2-58,K:362-409
2p
3feqB01
B:2-58,B:362-409
[
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
Chain E
Chain F
Chain G
Chain H
Chain I
Chain J
Chain K
Chain L
Chain M
Chain N
Chain O
Chain P
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 (989 KB)
Header - Asym.Unit
Biol.Unit 1 (501 KB)
Header - Biol.Unit 1
Biol.Unit 2 (492 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
3FEQ
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
