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3JYF
Asym. Unit
Info
Asym.Unit (127 KB)
Biol.Unit 1 (63 KB)
Biol.Unit 2 (61 KB)
Biol.Unit 3 (122 KB)
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(1)
Title
:
THE CRYSTAL STRUCTURE OF A 2,3-CYCLIC NUCLEOTIDE 2-PHOSPHODIESTERASE/3-NUCLEOTIDASE BIFUNCTIONAL PERIPLASMIC PRECURSOR PROTEIN FROM KLEBSIELLA PNEUMONIAE SUBSP. PNEUMONIAE MGH 78578
Authors
:
Y. Fan, L. Volkart, G. Cobb, A. Joachimiak, Midwest Center For Struc Genomics (Mcsg)
Date
:
21 Sep 09 (Deposition) - 29 Sep 09 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.43
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: A (2x)
Keywords
:
Apc63187. 2, Klebsiella Pneumoniae Subsp. Pneumoniae Mgh 78578, 2, 3- Cyclic Nucleotide 2-Phosphodiesterase, 3-Nucleotidase, Bifunctional Periplasmic Precursor Protein, Structural Genomics, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Metal-Binding, Nucleotide-Binding, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Y. Fan, L. Volkart, G. Cobb, A. Joachimiak
The Crystal Structure Of A 2, 3-Cyclic Nucleotide 2-Phosphodiesterase/3-Nucleotidase Bifunctional Periplasmic Precursor Protein From Klebsiella Pneumoniae Subsp. Pneumoniae Mgh 78578
To Be Published
[
close entry info
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Hetero Components
(6, 43)
Info
All Hetero Components
1a: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEa)
1b: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEb)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
2f: GLYCEROL (GOLf)
2g: GLYCEROL (GOLg)
2h: GLYCEROL (GOLh)
2i: GLYCEROL (GOLi)
3a: MANGANESE (II) ION (MNa)
3b: MANGANESE (II) ION (MNb)
3c: MANGANESE (II) ION (MNc)
3d: MANGANESE (II) ION (MNd)
4a: SELENOMETHIONINE (MSEa)
4b: SELENOMETHIONINE (MSEb)
4c: SELENOMETHIONINE (MSEc)
4d: SELENOMETHIONINE (MSEd)
4e: SELENOMETHIONINE (MSEe)
4f: SELENOMETHIONINE (MSEf)
4g: SELENOMETHIONINE (MSEg)
4h: SELENOMETHIONINE (MSEh)
4i: SELENOMETHIONINE (MSEi)
4j: SELENOMETHIONINE (MSEj)
4k: SELENOMETHIONINE (MSEk)
4l: SELENOMETHIONINE (MSEl)
4m: SELENOMETHIONINE (MSEm)
4n: SELENOMETHIONINE (MSEn)
4o: SELENOMETHIONINE (MSEo)
4p: SELENOMETHIONINE (MSEp)
4q: SELENOMETHIONINE (MSEq)
4r: SELENOMETHIONINE (MSEr)
4s: SELENOMETHIONINE (MSEs)
4t: SELENOMETHIONINE (MSEt)
4u: SELENOMETHIONINE (MSEu)
4v: SELENOMETHIONINE (MSEv)
4w: SELENOMETHIONINE (MSEw)
4x: SELENOMETHIONINE (MSEx)
5a: SULFATE ION (SO4a)
5b: SULFATE ION (SO4b)
5c: SULFATE ION (SO4c)
6a: TRIS(HYDROXYETHYL)AMINOMETHANE (TAMa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EPE
2
Ligand/Ion
4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
2
GOL
9
Ligand/Ion
GLYCEROL
3
MN
4
Ligand/Ion
MANGANESE (II) ION
4
MSE
24
Mod. Amino Acid
SELENOMETHIONINE
5
SO4
3
Ligand/Ion
SULFATE ION
6
TAM
1
Ligand/Ion
TRIS(HYDROXYETHYL)AMINOMETHANE
[
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Sites
(19, 19)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:16 , HIS A:18 , ASP A:61 , HIS A:244 , MN A:342 , HOH A:517
BINDING SITE FOR RESIDUE MN A 340
02
AC2
SOFTWARE
ASP A:61 , ASN A:101 , HIS A:102 , ASN A:105 , TRP A:172 , HIS A:242 , MN A:342 , GOL A:350 , HOH A:357 , HOH A:495 , HOH A:517 , HOH A:625 , HOH A:628 , HOH A:633
BINDING SITE FOR RESIDUE EPE A 341
03
AC3
SOFTWARE
ASP A:61 , ASN A:101 , HIS A:210 , HIS A:242 , MN A:340 , EPE A:341
BINDING SITE FOR RESIDUE MN A 342
04
AC4
SOFTWARE
PRO A:195 , GLU A:196 , LYS A:200 , HOH A:395
BINDING SITE FOR RESIDUE GOL A 343
05
AC5
SOFTWARE
LYS A:78 , GLU A:79 , LYS A:113
BINDING SITE FOR RESIDUE GOL A 344
06
AC6
SOFTWARE
ARG A:10 , VAL A:51 , ASP A:284 , LYS A:300 , HOH A:544
BINDING SITE FOR RESIDUE GOL A 345
07
AC7
SOFTWARE
ARG A:48 , ASN A:93 , HOH A:482 , HOH A:521
BINDING SITE FOR RESIDUE GOL A 346
08
AC8
SOFTWARE
LYS A:134 , ARG A:191 , GLN A:231 , PRO A:233 , HOH A:538
BINDING SITE FOR RESIDUE SO4 A 347
09
AC9
SOFTWARE
LYS A:256 , GLY A:257 , HOH A:491 , HOH A:518 , LYS B:256
BINDING SITE FOR RESIDUE SO4 A 348
10
BC1
SOFTWARE
ARG A:334
BINDING SITE FOR RESIDUE SO4 A 349
11
BC2
SOFTWARE
GLN A:64 , HIS A:102 , EPE A:341 , HOH A:486 , HOH A:628
BINDING SITE FOR RESIDUE GOL A 350
12
BC3
SOFTWARE
GLY A:107 , LEU A:108 , ASP A:109 , HOH A:361
BINDING SITE FOR RESIDUE GOL A 351
13
BC4
SOFTWARE
ASP B:61 , ASN B:101 , HIS B:210 , HIS B:242 , MN B:341 , EPE B:342
BINDING SITE FOR RESIDUE MN B 340
14
BC5
SOFTWARE
ASP B:16 , HIS B:18 , ASP B:61 , HIS B:244 , MN B:340 , HOH B:459
BINDING SITE FOR RESIDUE MN B 341
15
BC6
SOFTWARE
ASN B:101 , HIS B:102 , ASN B:105 , GLY B:152 , GLN B:153 , TRP B:172 , HIS B:242 , MN B:340 , HOH B:435 , HOH B:436 , HOH B:459 , HOH B:545
BINDING SITE FOR RESIDUE EPE B 342
16
BC7
SOFTWARE
HIS B:112 , TYR B:122 , PHE B:137 , THR B:138 , HOH B:512 , HOH B:543
BINDING SITE FOR RESIDUE TAM B 343
17
BC8
SOFTWARE
GLU B:188 , ARG B:191 , TYR B:218
BINDING SITE FOR RESIDUE GOL B 344
18
BC9
SOFTWARE
ARG B:146 , PRO B:167 , THR B:171 , HOH B:535
BINDING SITE FOR RESIDUE GOL B 345
19
CC1
SOFTWARE
ARG B:48 , ASN B:93 , LYS B:174 , HOH B:411 , HOH B:437 , HOH B:457
BINDING SITE FOR RESIDUE GOL B 346
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
Info
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;
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End label:
Sorry, no Info available
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Exons
(0, 0)
Info
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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
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Sorry, no Info available
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_3jyfB00 (B:4-338)
1b: CATH_3jyfA00 (A:4-339)
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Classes
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(
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Homologous Superfamilies
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(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
4-Layer Sandwich
(459)
Topology
:
Purple Acid Phosphatase; chain A, domain 2
(87)
Homologous Superfamily
:
[code=3.60.21.10, no name defined]
(83)
Pneumoniae mgh 78578 (Klebsiella pneumoniae subsp)
(1)
1a
3jyfB00
B:4-338
1b
3jyfA00
A:4-339
[
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]
Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Metallophos_3jyfB01 (B:9-246)
1b: PFAM_Metallophos_3jyfB02 (B:9-246)
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Clans
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(
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Organisms
(
)
(
)
Clan
:
Calcineurin
(56)
Family
:
Metallophos
(45)
Klebsiella pneumoniae subsp. pneumoniae (strain ATCC 700721 / MGH 78578)
(1)
1a
Metallophos-3jyfB01
B:9-246
1b
Metallophos-3jyfB02
B:9-246
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Asym.Unit (127 KB)
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