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4REQ
Asym. Unit
Info
Asym.Unit (463 KB)
Biol.Unit 1 (231 KB)
Biol.Unit 2 (231 KB)
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(1)
Title
:
METHYLMALONYL-COA MUTASE SUBSTRATE COMPLEX
Authors
:
P. R. Evans, F. Mancia
Date
:
17 Jun 98 (Deposition) - 13 Jan 99 (Release) - 24 Oct 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Isomerase, Mutase, Intramolecular Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
F. Mancia, P. R. Evans
Conformational Changes On Substrate Binding To Methylmalony Coa Mutase And New Insights Into The Free Radical Mechanism
Structure V. 6 711 1998
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(5, 12)
Info
All Hetero Components
1a: 5'-DEOXYADENOSINE (5ADa)
1b: 5'-DEOXYADENOSINE (5ADb)
2a: COBALAMIN (B12a)
2b: COBALAMIN (B12b)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
4a: METHYLMALONYL-COENZYME A (MCAa)
4b: METHYLMALONYL-COENZYME A (MCAb)
5a: SUCCINYL-COENZYME A (SCAa)
5b: SUCCINYL-COENZYME A (SCAb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
5AD
2
Ligand/Ion
5'-DEOXYADENOSINE
2
B12
2
Ligand/Ion
COBALAMIN
3
GOL
4
Ligand/Ion
GLYCEROL
4
MCA
2
Ligand/Ion
METHYLMALONYL-COENZYME A
5
SCA
2
Ligand/Ion
SUCCINYL-COENZYME A
[
close Hetero Component info
]
Sites
(12, 12)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR A:89 , PHE A:117 , LEU A:119 , HIS A:122 , ALA A:139 , VAL A:206 , ARG A:207 , THR A:209 , TYR A:243 , GLU A:247 , GLY A:333 , TRP A:334 , LEU A:336 , GLU A:370 , ALA A:371 , ALA A:373 , LEU A:374 , GLN A:454 , LEU A:602 , GLY A:609 , HIS A:610 , ASP A:611 , ARG A:612 , GLY A:613 , ILE A:617 , TYR A:621 , SER A:655 , LEU A:657 , GLY A:659 , GLY A:685 , GLY A:686 , VAL A:687 , TYR A:705 , THR A:706 , THR A:709 , SCA A:801 , MCA A:802 , 5AD A:803 , HOH A:883 , HOH A:889 , HOH A:892 , HOH A:914 , HOH A:951 , HOH A:987 , HOH A:1021 , HOH A:1025 , HOH A:1072 , HOH A:1078
BINDING SITE FOR RESIDUE B12 A 800
02
AC2
SOFTWARE
TYR A:75 , THR A:77 , MET A:78 , ARG A:82 , THR A:85 , ARG A:87 , TYR A:89 , SER A:114 , SER A:164 , THR A:166 , THR A:195 , GLN A:197 , ARG A:207 , ASN A:236 , TYR A:243 , HIS A:244 , ARG A:283 , SER A:285 , PHE A:287 , ARG A:326 , THR A:327 , HIS A:328 , GLN A:330 , GLN A:361 , SER A:362 , B12 A:800 , HOH A:807 , HOH A:808 , HOH A:826 , HOH A:835 , HOH A:836 , HOH A:837 , HOH A:865 , HOH A:886 , HOH A:891 , HOH A:900 , HOH A:960 , HOH A:1028 , HOH A:1127 , HOH A:1129 , ARG B:45
BINDING SITE FOR RESIDUE SCA A 801
03
AC3
SOFTWARE
TYR A:75 , THR A:77 , MET A:78 , ARG A:82 , THR A:85 , ARG A:87 , TYR A:89 , SER A:114 , SER A:164 , THR A:166 , THR A:195 , GLN A:197 , ARG A:207 , ASN A:236 , TYR A:243 , HIS A:244 , ARG A:283 , SER A:285 , PHE A:287 , ARG A:326 , HIS A:328 , GLN A:330 , GLN A:361 , SER A:362 , B12 A:800 , 5AD A:803 , HOH A:807 , HOH A:808 , HOH A:826 , HOH A:835 , HOH A:836 , HOH A:837 , HOH A:865 , HOH A:886 , HOH A:891 , HOH A:900 , HOH A:944 , HOH A:960 , HOH A:1028 , HOH A:1127 , HOH A:1129 , ARG B:45
BINDING SITE FOR RESIDUE MCA A 802
04
AC4
SOFTWARE
TYR A:89 , ALA A:90 , GLY A:91 , ALA A:116 , ALA A:139 , GLY A:140 , TYR A:243 , GLN A:330 , ASN A:366 , GLU A:370 , LEU A:374 , B12 A:800 , MCA A:802 , HOH A:868 , HOH A:1074
BINDING SITE FOR RESIDUE 5AD A 803
05
AC5
SOFTWARE
ALA A:41 , GLU A:42 , THR A:251 , HOH A:804 , HOH A:912 , HOH A:915 , HOH A:1134
BINDING SITE FOR RESIDUE GOL A 1
06
AC6
SOFTWARE
PHE B:93 , THR B:97 , ASP B:316 , LYS B:317 , ARG B:318 , GLY B:319 , ARG B:321
BINDING SITE FOR RESIDUE GOL B 639
07
AC7
SOFTWARE
TYR C:89 , PHE C:117 , LEU C:119 , HIS C:122 , ALA C:139 , VAL C:206 , ARG C:207 , THR C:209 , HIS C:244 , GLU C:247 , GLY C:333 , TRP C:334 , LEU C:336 , GLU C:370 , ALA C:371 , ALA C:373 , LEU C:374 , GLN C:454 , LEU C:602 , ASP C:608 , GLY C:609 , HIS C:610 , ASP C:611 , ARG C:612 , GLY C:613 , ILE C:617 , TYR C:621 , SER C:655 , LEU C:657 , ALA C:658 , GLY C:659 , GLY C:685 , GLY C:686 , VAL C:687 , TYR C:705 , THR C:706 , THR C:709 , SCA C:801 , MCA C:802 , 5AD C:803 , HOH C:881 , HOH C:887 , HOH C:890 , HOH C:949 , HOH C:984 , HOH C:1018 , HOH C:1022 , HOH C:1069 , HOH C:1075
BINDING SITE FOR RESIDUE B12 C 800
08
AC8
SOFTWARE
TYR C:75 , THR C:77 , MET C:78 , PHE C:81 , ARG C:82 , THR C:85 , ARG C:87 , TYR C:89 , SER C:114 , SER C:164 , THR C:166 , THR C:195 , GLN C:197 , ARG C:207 , ASN C:236 , TYR C:243 , HIS C:244 , ARG C:283 , SER C:285 , PHE C:287 , ARG C:326 , THR C:327 , HIS C:328 , GLN C:330 , GLN C:361 , SER C:362 , B12 C:800 , 5AD C:803 , HOH C:807 , HOH C:808 , HOH C:826 , HOH C:835 , HOH C:836 , HOH C:837 , HOH C:863 , HOH C:884 , HOH C:889 , HOH C:943 , HOH C:958 , HOH C:1025 , HOH C:1123 , ARG D:45
BINDING SITE FOR RESIDUE SCA C 801
09
AC9
SOFTWARE
TYR C:75 , THR C:77 , MET C:78 , PHE C:81 , ARG C:82 , THR C:85 , ARG C:87 , TYR C:89 , SER C:114 , SER C:164 , THR C:166 , THR C:195 , GLN C:197 , ARG C:207 , ASN C:236 , TYR C:243 , HIS C:244 , ARG C:283 , SER C:285 , PHE C:287 , ARG C:326 , THR C:327 , HIS C:328 , GLN C:330 , GLN C:361 , SER C:362 , B12 C:800 , 5AD C:803 , HOH C:807 , HOH C:808 , HOH C:826 , HOH C:835 , HOH C:836 , HOH C:837 , HOH C:863 , HOH C:884 , HOH C:889 , HOH C:898 , HOH C:943 , HOH C:958 , HOH C:1025 , HOH C:1123 , ARG D:45
BINDING SITE FOR RESIDUE MCA C 802
10
BC1
SOFTWARE
TYR C:89 , ALA C:90 , GLY C:91 , ALA C:116 , ALA C:139 , GLY C:140 , TYR C:243 , GLN C:330 , ASN C:366 , GLU C:370 , LEU C:374 , B12 C:800 , SCA C:801 , MCA C:802 , HOH C:866 , HOH C:1071 , HOH C:1162
BINDING SITE FOR RESIDUE 5AD C 803
11
BC2
SOFTWARE
ALA C:41 , GLU C:42 , HOH C:804 , HOH C:910 , HOH C:913
BINDING SITE FOR RESIDUE GOL C 1
12
BC3
SOFTWARE
THR D:97 , ASP D:316 , LYS D:317 , GLY D:319 , ARG D:321
BINDING SITE FOR RESIDUE GOL D 639
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
[
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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End label:
Sorry, no Info available
[
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]
Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(4, 8)
Info
All SCOP Domains
1a: SCOP_d4reqa2 (A:561-728)
1b: SCOP_d4reqc2 (C:561-728)
2a: SCOP_d4reqb2 (B:476-638)
2b: SCOP_d4reqd2 (D:476-638)
3a: SCOP_d4reqa1 (A:3-560)
3b: SCOP_d4reqc1 (C:3-560)
4a: SCOP_d4reqb1 (B:20-475)
4b: SCOP_d4reqd1 (D:20-475)
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)
(
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)
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)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Flavodoxin-like
(1057)
Superfamily
:
Cobalamin (vitamin B12)-binding domain
(29)
Family
:
Cobalamin (vitamin B12)-binding domain
(29)
Protein domain
:
Methylmalonyl-CoA mutase alpha subunit, C-terminal domain
(8)
Propionibacterium freudenreichii, subsp. shermanii [TaxId: 1744]
(8)
1a
d4reqa2
A:561-728
1b
d4reqc2
C:561-728
Protein domain
:
Methylmalonyl-CoA mutase beta subunit, C-terminal domain
(8)
Propionibacterium freudenreichii, subsp. shermanii [TaxId: 1744]
(8)
2a
d4reqb2
B:476-638
2b
d4reqd2
D:476-638
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Cobalamin (vitamin B12)-dependent enzymes
(30)
Family
:
Methylmalonyl-CoA mutase, N-terminal (CoA-binding) domain
(16)
Protein domain
:
Methylmalonyl-CoA mutase alpha subunit, domain 1
(8)
Propionibacterium freudenreichii, subsp. shermanii [TaxId: 1744]
(8)
3a
d4reqa1
A:3-560
3b
d4reqc1
C:3-560
Protein domain
:
Methylmalonyl-CoA mutase beta subunit, domain 1
(8)
Propionibacterium freudenreichii, subsp. shermanii [TaxId: 1744]
(8)
4a
d4reqb1
B:20-475
4b
d4reqd1
D:20-475
[
close SCOP info
]
CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_4reqB02 (B:500-638)
1b: CATH_4reqA02 (A:563-726)
1c: CATH_4reqC02 (C:563-726)
1d: CATH_4reqD02 (D:500-638)
2a: CATH_4reqB01 (B:63-499)
2b: CATH_4reqA01 (A:38-559)
2c: CATH_4reqC01 (C:38-559)
2d: CATH_4reqD01 (D:63-499)
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(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.280, no name defined]
(23)
Shermanii (Propionibacterium freudenreichii subsp)
(7)
1a
4reqB02
B:500-638
1b
4reqA02
A:563-726
1c
4reqC02
C:563-726
1d
4reqD02
D:500-638
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
[code=3.20.20.240, no name defined]
(12)
Shermanii (Propionibacterium freudenreichii subsp)
(7)
2a
4reqB01
B:63-499
2b
4reqA01
A:38-559
2c
4reqC01
C:38-559
2d
4reqD01
D:63-499
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
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