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3SQG
Biol. Unit 2
Info
Asym.Unit (1.2 MB)
Biol.Unit 1 (844 KB)
Biol.Unit 2 (844 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF A METHYL-COENZYME M REDUCTASE PURIFIED FROM BLACK SEA MATS
Authors
:
S. Shima, M. Krueger, T. Weinert, U. Demmer, R. K. Thauer, U. Ermler
Date
:
05 Jul 11 (Deposition) - 30 Nov 11 (Release) - 27 May 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I
Biol. Unit 1: A,B,C,D,E,F (1x)
Biol. Unit 2: G,H,I (2x)
Keywords
:
Anaerobic Methane Oxidation, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Shima, M. Krueger, T. Weinert, U. Demmer, J. Kahnt, R. K. Thauer, U. Ermler
Structure Of A Methyl-Coenzyme M Reductase From Black Sea Mats That Oxidize Methane Anaerobically.
Nature V. 481 98 2011
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Hetero Components
(10, 26)
Info
All Hetero Components
01a: 7-HYDROXY-L-TRYPTOPHAN (0AFa)
01b: 7-HYDROXY-L-TRYPTOPHAN (0AFb)
01c: 7-HYDROXY-L-TRYPTOPHAN (0AFc)
02a: PENTAETHYLENE GLYCOL (1PEa)
02b: PENTAETHYLENE GLYCOL (1PEb)
02c: PENTAETHYLENE GLYCOL (1PEc)
02d: PENTAETHYLENE GLYCOL (1PEd)
02e: PENTAETHYLENE GLYCOL (1PEe)
02f: PENTAETHYLENE GLYCOL (1PEf)
03a: CALCIUM ION (CAa)
03b: CALCIUM ION (CAb)
04a: CHLORIDE ION (CLa)
05a: 1-THIOETHANESULFONIC ACID (COMa)
05b: 1-THIOETHANESULFONIC ACID (COMb)
05c: 1-THIOETHANESULFONIC ACID (COMc)
06a: THIOGLYCIN (GL3a)
06b: THIOGLYCIN (GL3b)
06c: THIOGLYCIN (GL3c)
07a: GLYCEROL (GOLa)
07b: GLYCEROL (GOLb)
08a: (17[2]S)-17[2]-METHYLTHIO-COENZYME... (M43a)
08b: (17[2]S)-17[2]-METHYLTHIO-COENZYME... (M43b)
08c: (17[2]S)-17[2]-METHYLTHIO-COENZYME... (M43c)
09a: S-OXYMETHIONINE (MHOa)
09b: S-OXYMETHIONINE (MHOb)
09c: S-OXYMETHIONINE (MHOc)
10a: N1-METHYLATED HISTIDINE (MHSa)
10b: N1-METHYLATED HISTIDINE (MHSb)
10c: N1-METHYLATED HISTIDINE (MHSc)
11a: HEXAETHYLENE GLYCOL (P6Ga)
12a: TRIETHYLENE GLYCOL (PGEa)
12b: TRIETHYLENE GLYCOL (PGEb)
12c: TRIETHYLENE GLYCOL (PGEc)
12d: TRIETHYLENE GLYCOL (PGEd)
12e: TRIETHYLENE GLYCOL (PGEe)
12f: TRIETHYLENE GLYCOL (PGEf)
13a: SULFATE ION (SO4a)
13b: SULFATE ION (SO4b)
13c: SULFATE ION (SO4c)
13d: SULFATE ION (SO4d)
13e: SULFATE ION (SO4e)
13f: SULFATE ION (SO4f)
13g: SULFATE ION (SO4g)
13h: SULFATE ION (SO4h)
13i: SULFATE ION (SO4i)
14a: COENZYME B (TP7a)
14b: COENZYME B (TP7b)
14c: COENZYME B (TP7c)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
0AF
2
Mod. Amino Acid
7-HYDROXY-L-TRYPTOPHAN
2
1PE
4
Ligand/Ion
PENTAETHYLENE GLYCOL
3
CA
-1
Ligand/Ion
CALCIUM ION
4
CL
-1
Ligand/Ion
CHLORIDE ION
5
COM
2
Ligand/Ion
1-THIOETHANESULFONIC ACID
6
GL3
2
Mod. Amino Acid
THIOGLYCIN
7
GOL
-1
Ligand/Ion
GLYCEROL
8
M43
2
Ligand/Ion
(17[2]S)-17[2]-METHYLTHIO-COENZYME F43
9
MHO
2
Mod. Amino Acid
S-OXYMETHIONINE
10
MHS
2
Mod. Amino Acid
N1-METHYLATED HISTIDINE
11
P6G
-1
Ligand/Ion
HEXAETHYLENE GLYCOL
12
PGE
4
Ligand/Ion
TRIETHYLENE GLYCOL
13
SO4
4
Ligand/Ion
SULFATE ION
14
TP7
2
Ligand/Ion
COENZYME B
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Sites
(11, 11)
Info
All Sites
01: CC1 (SOFTWARE)
02: CC9 (SOFTWARE)
03: DC1 (SOFTWARE)
04: DC2 (SOFTWARE)
05: DC3 (SOFTWARE)
06: DC4 (SOFTWARE)
07: DC5 (SOFTWARE)
08: DC6 (SOFTWARE)
09: DC7 (SOFTWARE)
10: DC8 (SOFTWARE)
11: DC9 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
CC1
SOFTWARE
ASP D:16 , PHE D:18 , ALA D:19 , GLU D:20 , TYR D:76 , ARG F:161 , VAL G:58 , ASN G:59 , ARG G:186
BINDING SITE FOR RESIDUE 1PE D 580
02
CC9
SOFTWARE
ALA G:152 , VAL G:153 , ILE G:154 , GLN G:155 , GLN G:244 , MET G:247 , ALA G:257 , GLY G:340 , VAL G:342 , GLY G:343 , PHE G:344 , THR G:345 , GLN G:346 , TYR G:347 , PHE G:415 , GLY G:416 , GLY G:461 , PHE G:462 , HOH G:599 , HOH G:618 , HOH G:625 , HOH G:626 , HOH G:692 , HOH G:702 , HOH G:706 , HOH G:929 , COM G:1003 , SER H:361 , ILE H:362 , TYR H:363 , LEU I:117 , SER I:118 , GLY I:119 , ARG I:153 , THR I:154 , VAL I:155 , HIS I:156 , GLY I:157 , HIS I:158
BINDING SITE FOR RESIDUE M43 G 1001
03
DC1
SOFTWARE
ARG G:239 , LYS G:270 , MHS G:271 , LYS G:284 , PHE G:334 , MET G:338 , PHE G:462 , MHO G:499 , ASN G:500 , VAL G:501 , HOH G:585 , HOH G:608 , HOH G:1225 , HOH G:1251 , HOH G:1985 , TYR H:363 , GLY H:364 , GLY H:365 , HIS H:375 , VAL H:377 , HOH H:902
BINDING SITE FOR RESIDUE TP7 G 1002
04
DC2
SOFTWARE
TYR G:347 , PHE G:462 , PHE G:463 , M43 G:1001 , PHE H:357 , SER H:361 , TYR H:363 , HOH H:1344 , LEU I:117 , ARG I:120
BINDING SITE FOR RESIDUE COM G 1003
05
DC3
SOFTWARE
VAL A:58 , ASN A:59 , ARG D:186 , ASP G:16 , PHE G:18 , ALA G:19 , GLU G:20 , THR G:27 , ARG I:161
BINDING SITE FOR RESIDUE 1PE G 580
06
DC4
SOFTWARE
LYS G:38 , MET G:88 , ASN G:90 , ASN G:553 , HOH G:1266 , HOH G:1357
BINDING SITE FOR RESIDUE PGE G 581
07
DC5
SOFTWARE
THR G:31 , TYR G:32 , HOH G:1736
BINDING SITE FOR RESIDUE PGE G 582
08
DC6
SOFTWARE
ALA G:229 , ARG G:230 , THR G:232
BINDING SITE FOR RESIDUE CA G 583
09
DC7
SOFTWARE
TYR G:267 , HOH G:751 , LYS H:171 , MET H:172 , LEU H:173 , VAL H:174 , ASP H:175 , ASN H:189 , PRO H:191 , HIS H:194 , TYR H:372 , TYR H:411 , HOH H:1900
BINDING SITE FOR RESIDUE 1PE H 434
10
DC8
SOFTWARE
ARG H:62
BINDING SITE FOR RESIDUE SO4 H 435
11
DC9
SOFTWARE
ARG I:276 , HOH I:1117
BINDING SITE FOR RESIDUE SO4 I 281
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(, 0)
Info
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Exons
(0, 0)
Info
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All Exon Boundaries
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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
(2, 12)
Info
All SCOP Domains
1a: SCOP_d3sqga2 (A:284-579)
1b: SCOP_d3sqgb2 (B:184-433)
1c: SCOP_d3sqgd2 (D:284-579)
1d: SCOP_d3sqge2 (E:184-433)
1e: SCOP_d3sqgg2 (G:284-579)
1f: SCOP_d3sqgh2 (H:184-433)
2a: SCOP_d3sqga1 (A:2-283)
2b: SCOP_d3sqgb1 (B:3-183)
2c: SCOP_d3sqgd1 (D:2-283)
2d: SCOP_d3sqge1 (E:3-183)
2e: SCOP_d3sqgg1 (G:2-283)
2f: SCOP_d3sqgh1 (H:3-183)
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Protein Domains
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Organisms
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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
:
automated matches
(2)
Protein domain
:
automated matches
(2)
Uncultured archaeon [TaxId: 115547]
(1)
1a
d3sqga2
A:284-579
1b
d3sqgb2
B:184-433
1c
d3sqgd2
D:284-579
1d
d3sqge2
E:184-433
1e
d3sqgg2
G:284-579
1f
d3sqgh2
H:184-433
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Ferredoxin-like
(1795)
Superfamily
:
Methyl-coenzyme M reductase subunits
(42)
Family
:
automated matches
(2)
Protein domain
:
automated matches
(2)
Uncultured archaeon [TaxId: 115547]
(1)
2a
d3sqga1
A:2-283
2b
d3sqgb1
B:3-183
2c
d3sqgd1
D:2-283
2d
d3sqge1
E:3-183
2e
d3sqgg1
G:2-283
2f
d3sqgh1
H:3-183
[
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CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
(0, 0)
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