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1NKQ
Biol. Unit 4
Info
Asym.Unit (254 KB)
Biol.Unit 1 (86 KB)
Biol.Unit 2 (86 KB)
Biol.Unit 3 (86 KB)
Biol.Unit 4 (245 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF YEAST YNQ8, A FUMARYLACETOACETATE HYDROLASE FAMILY PROTEIN
Authors
:
S. Eswaramoorthy, D. Kumaran, B. Daniels, F. W. Studier, S. Swaminathan, S. K. Burley, New York Sgx Research Center For Structural Genomics (Nysgxrc)
Date
:
03 Jan 03 (Deposition) - 15 Jun 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: E,F (1x)
Biol. Unit 4: A,B,C,D,E,F (1x)
Keywords
:
Dimer, Psi, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Nysgxrc, Structural Genomics, Unknown Function
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Eswaramoorthy, D. Kumaran, B. Daniels, F. W. Studier, S. Swaminathan
Crtystal Structure Of Yeast Hypothetical Protein Ynq8_yeast
To Be Published
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(3, 19)
Info
All Hetero Components
1a: ACETIC ACID (ACYa)
1b: ACETIC ACID (ACYb)
1c: ACETIC ACID (ACYc)
1d: ACETIC ACID (ACYd)
1e: ACETIC ACID (ACYe)
1f: ACETIC ACID (ACYf)
1g: ACETIC ACID (ACYg)
1h: ACETIC ACID (ACYh)
1i: ACETIC ACID (ACYi)
1j: ACETIC ACID (ACYj)
1k: ACETIC ACID (ACYk)
1l: ACETIC ACID (ACYl)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
2e: CALCIUM ION (CAe)
2f: CALCIUM ION (CAf)
3a: SELENOMETHIONINE (MSEa)
3aa: SELENOMETHIONINE (MSEaa)
3ab: SELENOMETHIONINE (MSEab)
3ac: SELENOMETHIONINE (MSEac)
3ad: SELENOMETHIONINE (MSEad)
3b: SELENOMETHIONINE (MSEb)
3c: SELENOMETHIONINE (MSEc)
3d: SELENOMETHIONINE (MSEd)
3e: SELENOMETHIONINE (MSEe)
3f: SELENOMETHIONINE (MSEf)
3g: SELENOMETHIONINE (MSEg)
3h: SELENOMETHIONINE (MSEh)
3i: SELENOMETHIONINE (MSEi)
3j: SELENOMETHIONINE (MSEj)
3k: SELENOMETHIONINE (MSEk)
3l: SELENOMETHIONINE (MSEl)
3m: SELENOMETHIONINE (MSEm)
3n: SELENOMETHIONINE (MSEn)
3o: SELENOMETHIONINE (MSEo)
3p: SELENOMETHIONINE (MSEp)
3q: SELENOMETHIONINE (MSEq)
3r: SELENOMETHIONINE (MSEr)
3s: SELENOMETHIONINE (MSEs)
3t: SELENOMETHIONINE (MSEt)
3u: SELENOMETHIONINE (MSEu)
3v: SELENOMETHIONINE (MSEv)
3w: SELENOMETHIONINE (MSEw)
3x: SELENOMETHIONINE (MSEx)
3y: SELENOMETHIONINE (MSEy)
3z: SELENOMETHIONINE (MSEz)
4a: SULFATE ION (SO4a)
4b: SULFATE ION (SO4b)
4c: SULFATE ION (SO4c)
4d: SULFATE ION (SO4d)
4e: SULFATE ION (SO4e)
4f: SULFATE ION (SO4f)
4g: SULFATE ION (SO4g)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACY
4
Ligand/Ion
ACETIC ACID
2
CA
-1
Ligand/Ion
CALCIUM ION
3
MSE
10
Mod. Amino Acid
SELENOMETHIONINE
4
SO4
5
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(25, 25)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:87 , GLU A:89 , ASP A:121 , ACY A:701 , HOH A:833
BINDING SITE FOR RESIDUE CA A 260
02
AC2
SOFTWARE
PHE A:37 , PRO A:137 , TRP A:138 , THR A:139 , PRO B:437 , TRP B:438 , THR B:439 , HOH B:872
BINDING SITE FOR RESIDUE SO4 B 800
03
AC3
SOFTWARE
ARG A:80 , GLY A:81 , ARG A:257 , HOH A:883 , HOH A:905 , ARG D:310 , HIS D:397 , PRO D:508 , HOH D:819
BINDING SITE FOR RESIDUE SO4 A 801
04
AC4
SOFTWARE
HIS A:22 , ILE A:23 , HIS C:22 , ILE C:23
BINDING SITE FOR RESIDUE SO4 A 803
05
AC5
SOFTWARE
GLU B:387 , GLU B:389 , ASP B:421 , ACY B:703 , HOH B:854
BINDING SITE FOR RESIDUE CA B 560
06
AC6
SOFTWARE
ARG B:380 , GLY B:381 , ARG B:557 , HOH B:814 , HOH B:859 , HOH B:892 , HOH B:908 , ARG F:310 , HIS F:397 , PRO F:508
BINDING SITE FOR RESIDUE SO4 B 802
07
AC7
SOFTWARE
HIS B:322 , ILE B:323 , HOH B:836 , HOH B:858 , HIS E:22 , ILE E:23
BINDING SITE FOR RESIDUE SO4 B 805
08
AC8
SOFTWARE
GLU C:87 , GLU C:89 , ASP C:121 , ACY C:705 , HOH C:867
BINDING SITE FOR RESIDUE CA C 260
09
AC9
SOFTWARE
PRO C:137 , TRP C:138 , THR C:139 , HOH C:839 , PRO D:437 , TRP D:438 , THR D:439 , HOH D:817
BINDING SITE FOR RESIDUE SO4 C 806
10
BC1
SOFTWARE
GLU D:387 , GLU D:389 , ASP D:421 , ACY D:707 , HOH D:784
BINDING SITE FOR RESIDUE CA D 560
11
BC2
SOFTWARE
GLU E:87 , GLU E:89 , ASP E:121 , ACY E:709 , HOH E:882
BINDING SITE FOR RESIDUE CA E 260
12
BC3
SOFTWARE
PRO E:137 , TRP E:138 , THR E:139 , HOH E:907 , PRO F:437 , TRP F:438 , THR F:439
BINDING SITE FOR RESIDUE SO4 E 807
13
BC4
SOFTWARE
GLU F:387 , GLU F:389 , ASP F:421 , ACY F:711 , HOH F:789
BINDING SITE FOR RESIDUE CA F 560
14
BC5
SOFTWARE
ARG A:17 , GLN A:128 , LYS A:132 , TRP A:138
BINDING SITE FOR RESIDUE ACY A 700
15
BC6
SOFTWARE
ILE A:15 , GLY A:16 , ARG A:17 , GLU A:87 , GLU A:89 , CA A:260
BINDING SITE FOR RESIDUE ACY A 701
16
BC7
SOFTWARE
ARG B:317 , LYS B:432
BINDING SITE FOR RESIDUE ACY B 702
17
BC8
SOFTWARE
ARG B:317 , GLU B:387 , GLU B:389 , CA B:560
BINDING SITE FOR RESIDUE ACY B 703
18
BC9
SOFTWARE
ARG C:17 , GLN C:128 , LYS C:132 , TRP C:138 , ACY C:705
BINDING SITE FOR RESIDUE ACY C 704
19
CC1
SOFTWARE
GLY C:16 , ARG C:17 , GLU C:87 , CA C:260 , ACY C:704
BINDING SITE FOR RESIDUE ACY C 705
20
CC2
SOFTWARE
ARG D:317 , LYS D:432 , ACY D:707
BINDING SITE FOR RESIDUE ACY D 706
21
CC3
SOFTWARE
ARG D:317 , GLU D:387 , THR D:516 , CA D:560 , ACY D:706
BINDING SITE FOR RESIDUE ACY D 707
22
CC4
SOFTWARE
ARG E:17 , GLN E:128 , LYS E:132 , TRP E:138
BINDING SITE FOR RESIDUE ACY E 708
23
CC5
SOFTWARE
ILE E:15 , GLY E:16 , ARG E:17 , PHE E:37 , GLU E:87 , CA E:260
BINDING SITE FOR RESIDUE ACY E 709
24
CC6
SOFTWARE
ARG F:317 , ARG F:425 , LYS F:432
BINDING SITE FOR RESIDUE ACY F 710
25
CC7
SOFTWARE
ILE F:315 , GLY F:316 , ARG F:317 , PHE F:337 , GLU F:387 , GLU F:389 , LYS F:442 , CA F:560 , HOH F:731
BINDING SITE FOR RESIDUE ACY F 711
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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]
PROSITE Patterns/Profiles
(, 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.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 6)
Info
All SCOP Domains
1a: SCOP_d1nkqa_ (A:)
1b: SCOP_d1nkqb_ (B:)
1c: SCOP_d1nkqc_ (C:)
1d: SCOP_d1nkqd_ (D:)
1e: SCOP_d1nkqe_ (E:)
1f: SCOP_d1nkqf_ (F:)
View:
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Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
FAH
(16)
Superfamily
:
FAH
(16)
Family
:
FAH
(13)
Protein domain
:
Hypothetical protein Ynl168c
(1)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(1)
1a
d1nkqa_
A:
1b
d1nkqb_
B:
1c
d1nkqc_
C:
1d
d1nkqd_
D:
1e
d1nkqe_
E:
1f
d1nkqf_
F:
[
close SCOP info
]
CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_1nkqB00 (B:302-558)
1b: CATH_1nkqD00 (D:302-558)
1c: CATH_1nkqC00 (C:2-258)
1d: CATH_1nkqE00 (E:2-257)
1e: CATH_1nkqF00 (F:302-558)
1f: CATH_1nkqA00 (A:2-258)
View:
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Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Fumarylacetoacetate hydrolase; domain 2
(15)
Homologous Superfamily
:
Fumarylacetoacetate hydrolase, domain 2
(15)
Baker's yeast (Saccharomyces cerevisiae)
(1)
1a
1nkqB00
B:302-558
1b
1nkqD00
D:302-558
1c
1nkqC00
C:2-258
1d
1nkqE00
E:2-257
1e
1nkqF00
F:302-558
1f
1nkqA00
A:2-258
[
close CATH info
]
Pfam Domains
(1, 6)
Info
all PFAM domains
1a: PFAM_FAA_hydrolase_1nkqF01 (F:311-548)
1b: PFAM_FAA_hydrolase_1nkqF02 (F:311-548)
1c: PFAM_FAA_hydrolase_1nkqF03 (F:311-548)
1d: PFAM_FAA_hydrolase_1nkqF04 (F:311-548)
1e: PFAM_FAA_hydrolase_1nkqF05 (F:311-548)
1f: PFAM_FAA_hydrolase_1nkqF06 (F:311-548)
View:
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
FAH
(11)
Family
:
FAA_hydrolase
(11)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(1)
1a
FAA_hydrolase-1nkqF01
F:311-548
1b
FAA_hydrolase-1nkqF02
F:311-548
1c
FAA_hydrolase-1nkqF03
F:311-548
1d
FAA_hydrolase-1nkqF04
F:311-548
1e
FAA_hydrolase-1nkqF05
F:311-548
1f
FAA_hydrolase-1nkqF06
F:311-548
[
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]
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Asym.Unit (254 KB)
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Biol.Unit 3 (86 KB)
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