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5A0Y
Asym. Unit
Info
Asym.Unit (927 KB)
Biol.Unit 1 (915 KB)
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(1)
Title
:
METHYL-COENZYME M REDUCTASE FROM METHANOTHERMOBACTER MARBURGENSIS AT 1.1 A RESOLUTION
Authors
:
T. Wagner, U. Ermler
Date
:
24 Apr 15 (Deposition) - 11 May 16 (Release) - 29 Mar 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.10
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,D,E,F (1x)
Keywords
:
Transferase, Post-Translational Modification, Binding Sites, Catalysis, Coenzymes, Disulfides, Hydrogen, Hydrogen Bonding, Ligands, Mesna, Metalloporphyrins, Methane, Methanobacterium, Models, Molecular, Nickel, Oxidation-Reduction, Oxidoreductases, Phosphothreonine, Protein Conformation, Protein Folding, Protein Structure
(Keyword Search:
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Reference
:
T. Wagner, J. Kahnt, U. Ermler, S. Shima
Didehydroaspartate Modification In Methyl-Coenzyme M Reductase Catalyzing Methane Formation.
Angew. Chem. Int. Ed. Engl. V. 55 10630 2016
[
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Hetero Components
(13, 39)
Info
All Hetero Components
01a: 5-METHYL-ARGININE (AGMa)
01b: 5-METHYL-ARGININE (AGMb)
02a: CHLORIDE ION (CLa)
02b: CHLORIDE ION (CLb)
03a: 1-THIOETHANESULFONIC ACID (COMa)
03b: 1-THIOETHANESULFONIC ACID (COMb)
04a: DIDEHYDROASPARTATE (DYAa)
04b: DIDEHYDROASPARTATE (DYAb)
05a: FACTOR 430 (F43a)
05b: FACTOR 430 (F43b)
06a: THIOGLYCIN (GL3a)
06b: THIOGLYCIN (GL3b)
07a: POTASSIUM ION (Ka)
09a: 2-METHYL-GLUTAMINE (MGNa)
09b: 2-METHYL-GLUTAMINE (MGNb)
08a: MAGNESIUM ION (MGa)
08b: MAGNESIUM ION (MGb)
08c: MAGNESIUM ION (MGc)
08d: MAGNESIUM ION (MGd)
08e: MAGNESIUM ION (MGe)
08f: MAGNESIUM ION (MGf)
08g: MAGNESIUM ION (MGg)
08h: MAGNESIUM ION (MGh)
08i: MAGNESIUM ION (MGi)
08j: MAGNESIUM ION (MGj)
08k: MAGNESIUM ION (MGk)
08l: MAGNESIUM ION (MGl)
08m: MAGNESIUM ION (MGm)
08n: MAGNESIUM ION (MGn)
09o: MAGNESIUM ION (MGo)
09p: MAGNESIUM ION (MGp)
10a: N1-METHYLATED HISTIDINE (MHSa)
10b: N1-METHYLATED HISTIDINE (MHSb)
11a: SODIUM ION (NAa)
11b: SODIUM ION (NAb)
12a: S-METHYLCYSTEINE (SMCa)
12b: S-METHYLCYSTEINE (SMCb)
13a: COENZYME B (TP7a)
13b: COENZYME B (TP7b)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
AGM
2
Mod. Amino Acid
5-METHYL-ARGININE
2
CL
2
Ligand/Ion
CHLORIDE ION
3
COM
2
Ligand/Ion
1-THIOETHANESULFONIC ACID
4
DYA
2
Mod. Amino Acid
DIDEHYDROASPARTATE
5
F43
2
Ligand/Ion
FACTOR 430
6
GL3
2
Mod. Amino Acid
THIOGLYCIN
7
K
1
Ligand/Ion
POTASSIUM ION
8
MG
16
Ligand/Ion
MAGNESIUM ION
9
MGN
2
Mod. Amino Acid
2-METHYL-GLUTAMINE
10
MHS
2
Mod. Amino Acid
N1-METHYLATED HISTIDINE
11
NA
2
Ligand/Ion
SODIUM ION
12
SMC
2
Mod. Amino Acid
S-METHYLCYSTEINE
13
TP7
2
Ligand/Ion
COENZYME B
[
close Hetero Component info
]
Sites
(27, 27)
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)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HOH A:2281 , HOH A:2285 , HOH A:2670
BINDING SITE FOR RESIDUE MG A 551
02
AC2
SOFTWARE
HOH A:2617 , HOH A:2619 , HOH A:2621 , HOH A:2631 , HOH A:2671 , HOH A:2672
BINDING SITE FOR RESIDUE MG A 553
03
AC3
SOFTWARE
ALA A:144 , VAL A:145 , VAL A:146 , GLN A:147 , GLN A:230 , MET A:233 , ALA A:243 , HOH A:2290 , HOH A:2294 , HOH A:2295 , HOH A:2297 , HOH A:2410 , HOH A:2673 , HOH A:2674 , HOH A:2675 , 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 , COM D:555 , SER E:365 , ILE E:366 , TYR E:367 , LEU F:117 , SER F:118 , GLY F:119 , LYS F:153 , SER F:154 , VAL F:155 , HIS F:156 , HIS F:158
BINDING SITE FOR RESIDUE F43 A 554
04
AC4
SOFTWARE
TYR A:333 , PHE A:443 , TYR A:444 , HOH A:2677 , PHE B:361 , SER B:365 , TYR B:367 , LEU C:117 , ARG C:120 , F43 D:552
BINDING SITE FOR RESIDUE COM A 555
05
AC5
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:2449 , HOH A:2456 , HOH A:2601 , HOH A:2678 , HOH A:2680 , HOH A:2681 , PHE B:362 , TYR B:367 , GLY B:369 , HIS B:379 , ILE B:380 , ARG D:225 , LYS D:256 , MHS D:257
BINDING SITE FOR RESIDUE TP7 A 557
06
AC6
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 K A 561
07
AC7
SOFTWARE
HOH A:2149 , HOH A:2152 , HOH A:2682 , HOH A:2684 , HOH A:2685 , ASN B:441
BINDING SITE FOR RESIDUE MG A 562
08
AC8
SOFTWARE
LYS A:11 , PHE A:14 , HOH A:2034 , HOH A:2035 , HOH A:2036 , HOH A:2050
BINDING SITE FOR RESIDUE MG A 563
09
AC9
SOFTWARE
PRO A:58 , ILE A:60 , THR A:62 , HOH A:2161 , HOH A:2169 , HOH A:2178
BINDING SITE FOR RESIDUE NA A 564
10
BC1
SOFTWARE
SER A:237 , HOH A:2403 , LYS F:153
BINDING SITE FOR RESIDUE CL A 565
11
BC2
SOFTWARE
HOH B:2400 , HOH B:2401 , HOH B:2550 , HOH B:2551 , HOH B:2552
BINDING SITE FOR RESIDUE MG B 444
12
BC3
SOFTWARE
ASP B:271 , HOH B:2409 , HOH B:2423 , HOH B:2426 , HOH B:2427 , HOH B:2553
BINDING SITE FOR RESIDUE MG B 445
13
BC4
SOFTWARE
GLU C:30 , HOH C:2066 , HOH C:2067 , HOH C:2076 , HOH C:2182 , HOH F:2054
BINDING SITE FOR RESIDUE MG C 250
14
BC5
SOFTWARE
HOH C:2256 , HOH C:2264 , HOH C:2285 , HOH C:2286 , HOH C:2287
BINDING SITE FOR RESIDUE MG C 251
15
BC6
SOFTWARE
HOH D:2533 , HOH D:2535 , HOH D:2536 , HOH D:2546 , HOH D:2569 , HOH E:2194
BINDING SITE FOR RESIDUE MG D 551
16
BC7
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 , COM A:555 , HOH A:2496 , HOH A:2553 , SER B:365 , ILE B:366 , TYR B:367 , LEU C:117 , SER C:118 , GLY C:119 , ARG C:120 , LYS C:153 , SER C:154 , VAL C:155 , HIS C:156 , HIS C:158 , HOH C:2155 , HOH C:2171 , HOH C:2172 , HOH C:2200 , HOH C:2201 , HOH C:2202 , ALA D:144 , VAL D:145 , VAL D:146 , GLN D:147 , GLN D:230 , MET D:233 , ALA D:243 , HOH D:2270
BINDING SITE FOR RESIDUE F43 D 552
17
BC8
SOFTWARE
F43 A:554 , HOH A:2412 , TYR D:333 , PHE D:443 , TYR D:444 , PHE E:361 , SER E:365 , TYR E:367 , LEU F:117 , ARG F:120
BINDING SITE FOR RESIDUE COM D 555
18
BC9
SOFTWARE
ARG A:225 , LYS A:256 , MHS A:257 , HOH A:2425 , ARG D:270 , LEU D:320 , MET D:324 , SER D:325 , PHE D:330 , PHE D:443 , MET D:480 , ASN D:481 , VAL D:482 , HOH D:2378 , HOH D:2385 , HOH D:2517 , HOH D:2570 , HOH D:2571 , PHE E:362 , TYR E:367 , GLY E:369 , HIS E:379 , ILE E:380
BINDING SITE FOR RESIDUE TP7 D 556
19
CC1
SOFTWARE
LYS D:11 , PHE D:14 , HOH D:2037 , HOH D:2038 , HOH D:2039 , HOH D:2053
BINDING SITE FOR RESIDUE MG D 557
20
CC2
SOFTWARE
HOH A:2288 , HOH A:2291 , PRO D:58 , ILE D:60 , THR D:62 , HOH D:2178
BINDING SITE FOR RESIDUE NA D 558
21
CC3
SOFTWARE
ASN D:296 , GLU D:298 , ASP D:299 , HOH D:2393 , HOH D:2396 , HOH D:2401
BINDING SITE FOR RESIDUE CL D 559
22
CC4
SOFTWARE
GLU D:175 , HOH D:2302
BINDING SITE FOR RESIDUE MG D 560
23
CC5
SOFTWARE
HOH E:2360 , HOH E:2361 , HOH E:2438 , HOH E:2439
BINDING SITE FOR RESIDUE MG E 444
24
CC6
SOFTWARE
ASP E:147 , HOH E:2240 , HOH E:2241 , HOH E:2242 , HOH E:2440
BINDING SITE FOR RESIDUE MG E 445
25
CC7
SOFTWARE
HOH E:2255 , HOH E:2283 , HOH E:2441 , HOH E:2442 , HOH E:2443 , HOH E:2444
BINDING SITE FOR RESIDUE MG E 446
26
CC8
SOFTWARE
HOH C:2064 , GLU F:30 , HOH F:2055 , HOH F:2056 , HOH F:2067 , HOH F:2156
BINDING SITE FOR RESIDUE MG F 250
27
CC9
SOFTWARE
HOH F:2248 , HOH F:2249 , HOH F:2250 , HOH F:2251 , HOH F:2253 , HOH F:2254
BINDING SITE FOR RESIDUE MG F 251
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
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Info
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End label:
Sorry, no Info available
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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
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Sorry, no Info available
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CATH Domains
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Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
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Sorry, no Info available
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