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1ECC
Asym. Unit
Info
Asym.Unit (172 KB)
Biol.Unit 1 (327 KB)
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(1)
Title
:
ESCHERICHIA COLI GLUTAMINE PHOSPHORIBOSYLPYROPHOSPHATE (PRPP) AMIDOTRANSFERASE COMPLEXED WITH MN-CPRPP AND 5-OXO-NORLEUCINE
Authors
:
J. M. Krahn, J. L. Smith
Date
:
09 Jul 97 (Deposition) - 15 Apr 98 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.40
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (2x)
Keywords
:
Transferase, Glutamine Amidotransferase, Purine Biosynthesis, Glycosyltransferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. M. Krahn, J. H. Kim, M. R. Burns, R. J. Parry, H. Zalkin, J. L. Smith
Coupled Formation Of An Amidotransferase Interdomain Ammonia Channel And A Phosphoribosyltransferase Active Site.
Biochemistry V. 36 11061 1997
(for further references see the
PDB file header
)
[
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Hetero Components
(3, 9)
Info
All Hetero Components
1a: MANGANESE (II) ION (MNa)
1b: MANGANESE (II) ION (MNb)
1c: MANGANESE (II) ION (MNc)
1d: MANGANESE (II) ION (MNd)
1e: MANGANESE (II) ION (MNe)
2a: 5-OXO-L-NORLEUCINE (ONLa)
2b: 5-OXO-L-NORLEUCINE (ONLb)
3a: 1-ALPHA-PYROPHOSPHORYL-2-ALPHA,3-A... (PCPa)
3b: 1-ALPHA-PYROPHOSPHORYL-2-ALPHA,3-A... (PCPb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MN
5
Ligand/Ion
MANGANESE (II) ION
2
ONL
2
Ligand/Ion
5-OXO-L-NORLEUCINE
3
PCP
2
Ligand/Ion
1-ALPHA-PYROPHOSPHORYL-2-ALPHA,3-ALPHA-DIHYDROXY-4-BETA-CYCLOPENTANE-METHANOL-5-PHOSPHATE
[
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Sites
(13, 13)
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: NTA (UNKNOWN)
11: NTB (UNKNOWN)
12: PRB (UNKNOWN)
13: PRT (UNKNOWN)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:366 , ASP A:367 , PCP A:505 , HOH A:2378 , HOH A:2379
BINDING SITE FOR RESIDUE MN A 506
02
AC2
SOFTWARE
ASP B:366 , ASP B:367 , PCP B:505 , HOH B:2451 , HOH B:2452
BINDING SITE FOR RESIDUE MN B 506
03
AC3
SOFTWARE
ASP A:476 , THR A:480 , GLU B:376 , ILE B:428
BINDING SITE FOR RESIDUE MN B 1449
04
AC4
SOFTWARE
GLU A:449
BINDING SITE FOR RESIDUE MN A 2376
05
AC5
SOFTWARE
GLU B:449 , ASP B:471 , HOH B:2543 , HOH B:2597 , HOH B:2598 , HOH B:2599 , HOH B:2600
BINDING SITE FOR RESIDUE MN B 2449
06
AC6
SOFTWARE
CYS A:1 , ARG A:73 , TYR A:74 , THR A:76 , ALA A:77 , GLN A:86 , ASN A:101 , GLY A:102 , ASP A:127 , SER A:128 , HOH A:2402
BINDING SITE FOR RESIDUE ONL A 2377
07
AC7
SOFTWARE
TYR A:258 , GLU A:303 , THR A:304 , ARG A:332 , THR A:333 , PHE A:334 , LYS A:349 , ASP A:366 , ASP A:367 , SER A:368 , ILE A:369 , VAL A:370 , ARG A:371 , GLY A:372 , THR A:373 , THR A:374 , MN A:506 , HOH A:2378 , HOH A:2379 , HOH A:2411 , HOH A:2431 , ARG B:328
BINDING SITE FOR RESIDUE PCP A 505
08
AC8
SOFTWARE
CYS B:1 , ARG B:73 , TYR B:74 , THR B:76 , ALA B:77 , GLN B:86 , HIS B:100 , ASN B:101 , GLY B:102 , ASP B:127 , SER B:128 , HOH B:2482
BINDING SITE FOR RESIDUE ONL B 2450
09
AC9
SOFTWARE
ARG A:328 , TYR B:258 , GLU B:303 , THR B:304 , ARG B:332 , THR B:333 , PHE B:334 , LYS B:349 , ASP B:366 , ASP B:367 , SER B:368 , VAL B:370 , ARG B:371 , GLY B:372 , THR B:373 , THR B:374 , MN B:506 , HOH B:2457 , HOH B:2460 , HOH B:2502 , HOH B:2574
BINDING SITE FOR RESIDUE PCP B 505
10
NTA
UNKNOWN
CYS A:1
NTN AMIDOTRANSFERASE ACTIVE SITE. THE ACTIVE SITE IN THIS STRUCTURE CONTAINS THE PRODUCT OF COVALENT INACTIVATION BY THE GLUTAMINE ANALOGUE DON.
11
NTB
UNKNOWN
CYS B:1
NTN AMIDOTRANSFERASE ACTIVE SITE. THE ACTIVE SITE IN THIS STRUCTURE CONTAINS THE PRODUCT OF COVALENT INACTIVATION BY THE GLUTAMINE ANALOGUE DON.
12
PRB
UNKNOWN
ASP B:366 , ASP B:367
PHOSPHORIBOSYL TRANSFERASE ACTIVE SITE. THE ACTIVE SITE IN THIS STRUCTURE CONTAINS CPRPP, A CARBOCYCLIC PRPP ANALOGUE. ASP 366 AND ASP 367 FUNCTION AS METAL LIGANDS, AND ARE THE HALLMARK OF PRTASE ENZYMES. MG++ IS THE PRIMARY BIOLOGICALLY FUNCTIONAL METAL ION. MN++ IS PRESENT IN THIS STRUCTURE, AND DEMONSTRATES A COORDINATION GEOMETRY VERY SIMILAR TO TYPICAL MG++ COORDINATIONS.
13
PRT
UNKNOWN
ASP A:366 , ASP A:367
PHOSPHORIBOSYL TRANSFERASE ACTIVE SITE. THE ACTIVE SITE IN THIS STRUCTURE CONTAINS CPRPP, A CARBOCYCLIC PRPP ANALOGUE. ASP 366 AND ASP 367 FUNCTION AS METAL LIGANDS, AND ARE THE HALLMARK OF PRTASE ENZYMES. MG++ IS THE PRIMARY BIOLOGICALLY FUNCTIONAL METAL ION. MN++ IS PRESENT IN THIS STRUCTURE, AND DEMONSTRATES A COORDINATION GEOMETRY VERY SIMILAR TO TYPICAL MG++ COORDINATIONS.
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: GATASE_TYPE_2 (A:1-235,B:1-235,A:1-235,B:1-235)
2: PUR_PYR_PR_TRANSFER (A:362-374,B:362-374,A:362-374,B:36...)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GATASE_TYPE_2
PS51278
Glutamine amidotransferase type 2 domain profile.
PUR1_ECOLI
2-236
2
A:1-235
B:1-235
PUR1_SHIFL
2-236
2
A:1-235
B:1-235
2
PUR_PYR_PR_TRANSFER
PS00103
Purine/pyrimidine phosphoribosyl transferases signature.
PUR1_ECOLI
363-375
2
A:362-374
B:362-374
PUR1_SHIFL
363-375
2
A:362-374
B:362-374
[
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Exons
(0, 0)
Info
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d1ecca2 (A:1-249)
1b: SCOP_d1eccb2 (B:1-249)
2a: SCOP_d1ecca1 (A:250-492)
2b: SCOP_d1eccb1 (B:250-492)
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)
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(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Ntn hydrolase-like
(356)
Superfamily
:
N-terminal nucleophile aminohydrolases (Ntn hydrolases)
(352)
Family
:
Class II glutamine amidotransferases
(27)
Protein domain
:
Glutamine PRPP amidotransferase, N-terminal domain
(7)
Escherichia coli [TaxId: 562]
(5)
1a
d1ecca2
A:1-249
1b
d1eccb2
B:1-249
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
PRTase-like
(145)
Superfamily
:
PRTase-like
(145)
Family
:
Phosphoribosyltransferases (PRTases)
(100)
Protein domain
:
Glutamine PRPP amidotransferase, C-terminal domain
(7)
Escherichia coli [TaxId: 562]
(5)
2a
d1ecca1
A:250-492
2b
d1eccb1
B:250-492
[
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CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_1eccA02 (A:276-326,A:349-400,A:412-445)
1b: CATH_1eccB02 (B:276-326,B:349-400,B:412-445)
2a: CATH_1eccA01 (A:1-275,A:401-411,A:446-492)
2b: CATH_1eccB01 (B:1-275,B:401-411,B:446-492)
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)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.2020, no name defined]
(117)
Escherichia coli. Organism_taxid: 562.
(5)
1a
1eccA02
A:276-326,A:349-400,A:412-445
1b
1eccB02
B:276-326,B:349-400,B:412-445
Architecture
:
4-Layer Sandwich
(459)
Topology
:
Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
(128)
Homologous Superfamily
:
Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
(124)
Escherichia coli. Organism_taxid: 562.
(21)
2a
1eccA01
A:1-275,A:401-411,A:446-492
2b
1eccB01
B:1-275,B:401-411,B:446-492
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Pfam Domains
(0, 0)
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