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1MRO
Asym. Unit
Info
Asym.Unit (429 KB)
Biol.Unit 1 (420 KB)
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(1)
Title
:
METHYL-COENZYME M REDUCTASE
Authors
:
U. Ermler, W. Grabarse
Date
:
01 Oct 97 (Deposition) - 11 Nov 98 (Release) - 29 Mar 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.16
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,D,E,F (1x)
Keywords
:
Biological Methanogenesis, Ni-Enzyme, Oxidoreductase, Methanogenesis
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
U. Ermler, W. Grabarse, S. Shima, M. Goubeaud, R. K. Thauer
Crystal Structure Of Methyl-Coenzyme M Reductase: The Key Enzyme Of Biological Methane Formation.
Science V. 278 1457 1997
[
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Hetero Components
(11, 23)
Info
All Hetero Components
01a: 5-METHYL-ARGININE (AGMa)
01b: 5-METHYL-ARGININE (AGMb)
02a: 1-THIOETHANESULFONIC ACID (COMa)
02b: 1-THIOETHANESULFONIC ACID (COMb)
03a: FACTOR 430 (F43a)
03b: FACTOR 430 (F43b)
04a: THIOGLYCIN (GL3a)
04b: THIOGLYCIN (GL3b)
05a: GLYCEROL (GOLa)
05b: GLYCEROL (GOLb)
05c: GLYCEROL (GOLc)
05d: GLYCEROL (GOLd)
06a: 2-METHYL-GLUTAMINE (MGNa)
06b: 2-METHYL-GLUTAMINE (MGNb)
07a: N1-METHYLATED HISTIDINE (MHSa)
07b: N1-METHYLATED HISTIDINE (MHSb)
08a: SODIUM ION (NAa)
08b: SODIUM ION (NAb)
09a: S-METHYLCYSTEINE (SMCa)
09b: S-METHYLCYSTEINE (SMCb)
10a: COENZYME B (TP7a)
10b: COENZYME B (TP7b)
11a: ZINC ION (ZNa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
AGM
2
Mod. Amino Acid
5-METHYL-ARGININE
2
COM
2
Ligand/Ion
1-THIOETHANESULFONIC ACID
3
F43
2
Ligand/Ion
FACTOR 430
4
GL3
2
Mod. Amino Acid
THIOGLYCIN
5
GOL
4
Ligand/Ion
GLYCEROL
6
MGN
2
Mod. Amino Acid
2-METHYL-GLUTAMINE
7
MHS
2
Mod. Amino Acid
N1-METHYLATED HISTIDINE
8
NA
2
Ligand/Ion
SODIUM ION
9
SMC
2
Mod. Amino Acid
S-METHYLCYSTEINE
10
TP7
2
Ligand/Ion
COENZYME B
11
ZN
1
Ligand/Ion
ZINC ION
[
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]
Sites
(14, 14)
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: F43 (UNKNOWN)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:102 , SER A:215 , ARG A:216 , CYS A:218 , ARG D:102 , SER D:215 , ARG D:216 , CYS D:218
BINDING SITE FOR RESIDUE ZN A 801
02
AC2
SOFTWARE
GLU F:30 , HOH F:8034 , HOH F:8122 , HOH F:8217 , HOH F:8225 , HOH F:8267
BINDING SITE FOR RESIDUE NA F 802
03
AC3
SOFTWARE
GLU C:30 , HOH C:8044 , HOH C:8195 , HOH C:8213 , HOH C:8338
BINDING SITE FOR RESIDUE NA C 803
04
AC4
SOFTWARE
ALA A:144 , VAL A:145 , VAL A:146 , GLN A:147 , GLN A:230 , MET A:233 , ALA A:243 , HOH A:7583 , HOH A:7660 , HOH A:7680 , HOH A:7758 , HOH A:7792 , HOH A:7795 , GLY D:326 , GLY D:327 , VAL D:328 , GLY D:329 , PHE D:330 , THR D:331 , GLN D:332 , TYR D:333 , PHE D:396 , GLY D:397 , GLY D:442 , PHE D:443 , HOH D:7593 , COM D:9700 , SER E:365 , ILE E:366 , TYR E:367 , LEU F:117 , SER F:118 , GLY F:119 , ARG F:120 , LYS F:153 , SER F:154 , VAL F:155 , HIS F:156 , HIS F:158 , HOH F:7686
BINDING SITE FOR RESIDUE F43 A 700
05
AC5
SOFTWARE
GLY A:326 , GLY A:327 , VAL A:328 , GLY A:329 , PHE A:330 , THR A:331 , GLN A:332 , TYR A:333 , PHE A:396 , GLY A:397 , GLY A:442 , PHE A:443 , HOH A:7574 , COM A:9800 , SER B:365 , ILE B:366 , TYR B:367 , LEU C:117 , SER C:118 , GLY C:119 , LYS C:153 , SER C:154 , VAL C:155 , HIS C:156 , HIS C:158 , HOH C:7624 , ALA D:144 , VAL D:145 , VAL D:146 , GLN D:147 , GLN D:230 , MET D:233 , ALA D:243 , HOH D:7585 , HOH D:7606 , HOH D:7636 , HOH D:7644 , HOH D:7664 , HOH D:7740
BINDING SITE FOR RESIDUE F43 D 800
06
AC6
SOFTWARE
ARG A:270 , LEU A:320 , MET A:324 , SER A:325 , PHE A:330 , PHE A:443 , MET A:480 , ASN A:481 , VAL A:482 , HOH A:7548 , HOH A:7578 , HOH A:7633 , HOH A:7679 , TYR B:367 , GLY B:369 , HIS B:379 , ILE B:380 , HOH B:7580 , ARG D:225 , LYS D:256 , MHS D:257
BINDING SITE FOR RESIDUE TP7 A 9000
07
AC7
SOFTWARE
ARG A:225 , LYS A:256 , MHS A:257 , HOH A:7552 , HOH A:7567 , HOH A:7618 , HOH A:7724 , ARG D:270 , LEU D:320 , MET D:324 , PHE D:330 , PHE D:443 , MET D:480 , ASN D:481 , VAL D:482 , TYR E:367 , GLY E:369 , HIS E:379 , ILE E:380 , HOH E:7555
BINDING SITE FOR RESIDUE TP7 A 9500
08
AC8
SOFTWARE
F43 A:700 , TYR D:333 , PHE D:443 , TYR D:444 , PHE E:361 , SER E:365 , TYR E:367 , LEU F:117 , ARG F:120 , HOH F:7782
BINDING SITE FOR RESIDUE COM D 9700
09
AC9
SOFTWARE
TYR A:333 , PHE A:443 , TYR A:444 , PHE B:361 , SER B:365 , TYR B:367 , LEU C:117 , ARG C:120 , HOH C:7741 , F43 D:800
BINDING SITE FOR RESIDUE COM A 9800
10
BC1
SOFTWARE
SER A:224 , LYS A:256 , HIS A:262 , GLU A:275 , HOH A:7956 , HOH A:7977 , HOH D:7916
BINDING SITE FOR RESIDUE GOL A 804
11
BC2
SOFTWARE
ALA D:173 , ASP D:174 , ASP D:183 , ASN D:185 , HOH D:7891
BINDING SITE FOR RESIDUE GOL D 805
12
BC3
SOFTWARE
HOH A:7800 , SER D:224 , LYS D:256 , GLU D:275 , HOH D:7968 , HOH D:7970
BINDING SITE FOR RESIDUE GOL D 806
13
BC4
SOFTWARE
ASP A:174 , ASP A:183 , ASN A:185 , HOH A:8004
BINDING SITE FOR RESIDUE GOL A 807
14
F43
UNKNOWN
F43 A:700
ACTIVE SITE
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
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]
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
(5, 10)
Info
All SCOP Domains
1a: SCOP_d1mroa1 (A:270-549)
1b: SCOP_d1mrod1 (D:270-549)
2a: SCOP_d1mrob1 (B:189-443)
2b: SCOP_d1mroe1 (E:189-443)
3a: SCOP_d1mroa2 (A:2-269)
3b: SCOP_d1mrod2 (D:2-269)
4a: SCOP_d1mrob2 (B:2-188)
4b: SCOP_d1mroe2 (E:2-188)
5a: SCOP_d1mroc_ (C:)
5b: SCOP_d1mrof_ (F:)
View:
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Classes
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)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Methyl-coenzyme M reductase alpha and beta chain C-terminal domain
(28)
Superfamily
:
Methyl-coenzyme M reductase alpha and beta chain C-terminal domain
(28)
Family
:
Methyl-coenzyme M reductase alpha and beta chain C-terminal domain
(26)
Protein domain
:
Alpha chain
(13)
Methanobacterium thermoautotrophicum [TaxId: 145262]
(11)
1a
d1mroa1
A:270-549
1b
d1mrod1
D:270-549
Protein domain
:
Beta chain
(13)
Methanobacterium thermoautotrophicum [TaxId: 145262]
(11)
2a
d1mrob1
B:189-443
2b
d1mroe1
E:189-443
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Ferredoxin-like
(1795)
Superfamily
:
Methyl-coenzyme M reductase subunits
(42)
Family
:
Methyl-coenzyme M reductase alpha and beta chain N-terminal domain
(26)
Protein domain
:
Alpha chain
(13)
Methanobacterium thermoautotrophicum [TaxId: 145262]
(11)
3a
d1mroa2
A:2-269
3b
d1mrod2
D:2-269
Protein domain
:
Beta chain
(13)
Methanobacterium thermoautotrophicum [TaxId: 145262]
(11)
4a
d1mrob2
B:2-188
4b
d1mroe2
E:2-188
Family
:
Methyl-coenzyme M reductase gamma chain
(14)
Protein domain
:
Methyl-coenzyme M reductase gamma chain
(14)
Methanobacterium thermoautotrophicum [TaxId: 145262]
(12)
5a
d1mroc_
C:
5b
d1mrof_
F:
[
close SCOP info
]
CATH Domains
(4, 12)
Info
all CATH domains
1a: CATH_1mroA02 (A:102-276)
1b: CATH_1mroD02 (D:102-276)
1c: CATH_1mroB01 (B:45-191)
1d: CATH_1mroE01 (E:45-191)
2a: CATH_1mroC00 (C:2-248)
2b: CATH_1mroF00 (F:2-248)
3a: CATH_1mroA01 (A:3-101)
3b: CATH_1mroD01 (D:3-101)
4a: CATH_1mroA03 (A:277-506)
4b: CATH_1mroD03 (D:277-506)
4c: CATH_1mroB02 (B:2-44,B:192-443)
4d: CATH_1mroE02 (E:2-44,E:192-443)
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)
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)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Alpha-Beta Plaits
(1688)
Homologous Superfamily
:
[code=3.30.70.470, no name defined]
(7)
Marburg (Methanothermobacter marburgensis str)
(1)
1a
1mroA02
A:102-276
1b
1mroD02
D:102-276
1c
1mroB01
B:45-191
1d
1mroE01
E:45-191
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Lambda Exonuclease; Chain A
(10)
Homologous Superfamily
:
[code=3.90.320.20, no name defined]
(7)
Marburg (Methanothermobacter marburgensis str)
(1)
2a
1mroC00
C:2-248
2b
1mroF00
F:2-248
Topology
:
Methyl-coenzyme M Reductase; Chain A, domain 1
(7)
Homologous Superfamily
:
Methyl-coenzyme M Reductase; Chain A, domain 1
(7)
Marburg (Methanothermobacter marburgensis str)
(1)
3a
1mroA01
A:3-101
3b
1mroD01
D:3-101
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Methyl-coenzyme M Reductase; Chain B, domain 2
(7)
Homologous Superfamily
:
Methyl-coenzyme M Reductase; Chain B, domain 2
(7)
Marburg (Methanothermobacter marburgensis str)
(1)
4a
1mroA03
A:277-506
4b
1mroD03
D:277-506
4c
1mroB02
B:2-44,B:192-443
4d
1mroE02
E:2-44,E:192-443
[
close CATH info
]
Pfam Domains
(5, 10)
Info
all PFAM domains
1a: PFAM_MCR_alpha_1mroD01 (D:316-441)
1b: PFAM_MCR_alpha_1mroD02 (D:316-441)
2a: PFAM_MCR_alpha_N_1mroD03 (D:2-268)
2b: PFAM_MCR_alpha_N_1mroD04 (D:2-268)
3a: PFAM_MCR_beta_1mroE01 (E:189-442)
3b: PFAM_MCR_beta_1mroE02 (E:189-442)
4a: PFAM_MCR_beta_N_1mroE03 (E:6-187)
4b: PFAM_MCR_beta_N_1mroE04 (E:6-187)
5a: PFAM_MCR_gamma_1mroF01 (F:2-248)
5b: PFAM_MCR_gamma_1mroF02 (F:2-248)
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Clans
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)
(
)
Families
(
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(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: MCR_alpha]
(8)
Family
:
MCR_alpha
(8)
Methanothermobacter marburgensis (strain DSM 2133 / 14651 / NBRC 100331 / OCM 82 / Marburg) (Methano
(8)
1a
MCR_alpha-1mroD01
D:316-441
1b
MCR_alpha-1mroD02
D:316-441
Clan
:
no clan defined [family: MCR_alpha_N]
(8)
Family
:
MCR_alpha_N
(8)
Methanothermobacter marburgensis (strain DSM 2133 / 14651 / NBRC 100331 / OCM 82 / Marburg) (Methano
(8)
2a
MCR_alpha_N-1mroD03
D:2-268
2b
MCR_alpha_N-1mroD04
D:2-268
Clan
:
no clan defined [family: MCR_beta]
(8)
Family
:
MCR_beta
(8)
Methanothermobacter marburgensis (strain DSM 2133 / 14651 / NBRC 100331 / OCM 82 / Marburg) (Methano
(8)
3a
MCR_beta-1mroE01
E:189-442
3b
MCR_beta-1mroE02
E:189-442
Clan
:
no clan defined [family: MCR_beta_N]
(8)
Family
:
MCR_beta_N
(8)
Methanothermobacter marburgensis (strain DSM 2133 / 14651 / NBRC 100331 / OCM 82 / Marburg) (Methano
(8)
4a
MCR_beta_N-1mroE03
E:6-187
4b
MCR_beta_N-1mroE04
E:6-187
Clan
:
no clan defined [family: MCR_gamma]
(8)
Family
:
MCR_gamma
(8)
Methanothermobacter marburgensis (strain DSM 2133 / 14651 / NBRC 100331 / OCM 82 / Marburg) (Methano
(8)
5a
MCR_gamma-1mroF01
F:2-248
5b
MCR_gamma-1mroF02
F:2-248
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