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5WYF
Asym. Unit
Info
Asym.Unit (297 KB)
Biol.Unit 1 (290 KB)
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(1)
Title
:
STRUCTURE OF AMINO ACID RACEMASE, 2.12 A
Authors
:
H. Sakuraba, Y. Mutaguchi, J. Hayashi, T. Ohshima
Date
:
12 Jan 17 (Deposition) - 19 Apr 17 (Release) - 17 May 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.12
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Plp-Dependent Enzyme, Fold Type I, Isomerase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Hayashi, Y. Mutaguchi, Y. Minemura, N. Nakagawa, K. Yoneda, T. Ohmori, T. Ohshima, H. Sakuraba
Crystal Structure Of The Novel Amino-Acid Racemase Isoleucine 2-Epimerase From Lactobacillus Buchneri.
Acta Crystallogr D Struct V. 73 428 2017 Biol
[
close entry info
]
Hetero Components
(2, 40)
Info
All Hetero Components
1a: CADMIUM ION (CDa)
1aa: CADMIUM ION (CDaa)
1ab: CADMIUM ION (CDab)
1ac: CADMIUM ION (CDac)
1ad: CADMIUM ION (CDad)
1ae: CADMIUM ION (CDae)
1af: CADMIUM ION (CDaf)
1ag: CADMIUM ION (CDag)
1ah: CADMIUM ION (CDah)
1ai: CADMIUM ION (CDai)
1aj: CADMIUM ION (CDaj)
1b: CADMIUM ION (CDb)
1c: CADMIUM ION (CDc)
1d: CADMIUM ION (CDd)
1e: CADMIUM ION (CDe)
1f: CADMIUM ION (CDf)
1g: CADMIUM ION (CDg)
1h: CADMIUM ION (CDh)
1i: CADMIUM ION (CDi)
1j: CADMIUM ION (CDj)
1k: CADMIUM ION (CDk)
1l: CADMIUM ION (CDl)
1m: CADMIUM ION (CDm)
1n: CADMIUM ION (CDn)
1o: CADMIUM ION (CDo)
1p: CADMIUM ION (CDp)
1q: CADMIUM ION (CDq)
1r: CADMIUM ION (CDr)
1s: CADMIUM ION (CDs)
1t: CADMIUM ION (CDt)
1u: CADMIUM ION (CDu)
1v: CADMIUM ION (CDv)
1w: CADMIUM ION (CDw)
1x: CADMIUM ION (CDx)
1y: CADMIUM ION (CDy)
1z: CADMIUM ION (CDz)
2a: N-[O-PHOSPHONO-PYRIDOXYL]-ISOLEUCI... (ILPa)
2b: N-[O-PHOSPHONO-PYRIDOXYL]-ISOLEUCI... (ILPb)
2c: N-[O-PHOSPHONO-PYRIDOXYL]-ISOLEUCI... (ILPc)
2d: N-[O-PHOSPHONO-PYRIDOXYL]-ISOLEUCI... (ILPd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CD
36
Ligand/Ion
CADMIUM ION
2
ILP
4
Ligand/Ion
N-[O-PHOSPHONO-PYRIDOXYL]-ISOLEUCINE
[
close Hetero Component info
]
Sites
(40, 40)
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: AD1 (SOFTWARE)
11: AD2 (SOFTWARE)
12: AD3 (SOFTWARE)
13: AD4 (SOFTWARE)
14: AD5 (SOFTWARE)
15: AD6 (SOFTWARE)
16: AD7 (SOFTWARE)
17: AD8 (SOFTWARE)
18: AD9 (SOFTWARE)
19: AE1 (SOFTWARE)
20: AE2 (SOFTWARE)
21: AE3 (SOFTWARE)
22: AE4 (SOFTWARE)
23: AE5 (SOFTWARE)
24: AE6 (SOFTWARE)
25: AE7 (SOFTWARE)
26: AE8 (SOFTWARE)
27: AE9 (SOFTWARE)
28: AF1 (SOFTWARE)
29: AF2 (SOFTWARE)
30: AF3 (SOFTWARE)
31: AF4 (SOFTWARE)
32: AF5 (SOFTWARE)
33: AF6 (SOFTWARE)
34: AF7 (SOFTWARE)
35: AF8 (SOFTWARE)
36: AF9 (SOFTWARE)
37: AG1 (SOFTWARE)
38: AG2 (SOFTWARE)
39: AG3 (SOFTWARE)
40: AG4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ALA A:54 , SER A:114 , GLY A:115 , SER A:116 , TYR A:142 , HIS A:143 , GLU A:217 , ASP A:222 , ASP A:250 , VAL A:252 , ASN A:253 , LYS A:280 , ARG A:408 , HOH A:1117 , HOH A:1155 , HOH A:1167 , ALA B:83 , TYR B:84 , PHE B:308 , THR B:309 , HOH B:1119
binding site for residue ILP A 1001
02
AC2
SOFTWARE
ASP A:5 , HIS A:241 , ASP A:274
binding site for residue CD A 1002
03
AC3
SOFTWARE
HIS A:33 , HOH A:1222
binding site for residue CD A 1003
04
AC4
SOFTWARE
HIS A:35 , HOH A:1221
binding site for residue CD A 1004
05
AC5
SOFTWARE
GLU A:64 , HOH A:1223
binding site for residue CD A 1005
06
AC6
SOFTWARE
HIS A:188 , GLU A:231
binding site for residue CD A 1006
07
AC7
SOFTWARE
HIS A:243 , HOH A:1216
binding site for residue CD A 1007
08
AC8
SOFTWARE
ARG A:353 , HIS A:354 , GLU A:435 , HOH A:1218
binding site for residue CD A 1008
09
AC9
SOFTWARE
ASP A:381
binding site for residue CD A 1009
10
AD1
SOFTWARE
HIS A:395
binding site for residue CD A 1010
11
AD2
SOFTWARE
GLU A:95 , GLU B:13
binding site for residue CD A 1011
12
AD3
SOFTWARE
ALA A:83 , TYR A:84 , THR A:309 , ALA B:54 , SER B:114 , GLY B:115 , SER B:116 , TYR B:142 , HIS B:143 , GLU B:217 , ASP B:222 , ASP B:250 , ASN B:253 , LYS B:280 , ARG B:408 , HOH B:1122 , HOH B:1129 , HOH B:1143 , HOH B:1170
binding site for residue ILP B 1001
13
AD4
SOFTWARE
GLU A:13 , GLU B:95
binding site for residue CD B 1002
14
AD5
SOFTWARE
HIS B:33
binding site for residue CD B 1003
15
AD6
SOFTWARE
HIS B:35 , GLU B:64
binding site for residue CD B 1004
16
AD7
SOFTWARE
HIS B:188 , GLU B:231
binding site for residue CD B 1005
17
AD8
SOFTWARE
HIS B:243
binding site for residue CD B 1006
18
AD9
SOFTWARE
ARG B:353 , HIS B:354 , GLU B:435
binding site for residue CD B 1007
19
AE1
SOFTWARE
ASP B:381 , HOH B:1124 , HOH B:1206
binding site for residue CD B 1008
20
AE2
SOFTWARE
GLU B:418
binding site for residue CD B 1009
21
AE3
SOFTWARE
ALA C:54 , SER C:114 , GLY C:115 , SER C:116 , TYR C:142 , HIS C:143 , GLU C:217 , ASP C:222 , ASP C:250 , VAL C:252 , ASN C:253 , LYS C:280 , ARG C:408 , HOH C:1133 , HOH C:1138 , HOH C:1147 , ALA D:83 , TYR D:84 , PHE D:308 , THR D:309 , HOH D:1110
binding site for residue ILP C 1001
22
AE4
SOFTWARE
HIS C:33 , HOH C:1194
binding site for residue CD C 1002
23
AE5
SOFTWARE
HIS C:35 , GLU C:64
binding site for residue CD C 1003
24
AE6
SOFTWARE
HIS C:188 , GLU C:231 , HOH C:1196
binding site for residue CD C 1004
25
AE7
SOFTWARE
ASP C:5 , HIS C:241 , ASP C:274 , HOH C:1192
binding site for residue CD C 1005
26
AE8
SOFTWARE
HIS C:243
binding site for residue CD C 1006
27
AE9
SOFTWARE
ARG C:353 , HIS C:354 , GLU C:435
binding site for residue CD C 1007
28
AF1
SOFTWARE
ASP C:381
binding site for residue CD C 1008
29
AF2
SOFTWARE
HIS C:395
binding site for residue CD C 1009
30
AF3
SOFTWARE
GLU C:95 , HOH C:1124 , GLU D:13
binding site for residue CD C 1010
31
AF4
SOFTWARE
GLU C:328
binding site for residue CD C 1011
32
AF5
SOFTWARE
ALA C:83 , TYR C:84 , PHE C:308 , THR C:309 , ALA D:54 , SER D:114 , GLY D:115 , SER D:116 , TYR D:142 , HIS D:143 , GLU D:217 , ASP D:222 , ASP D:250 , VAL D:252 , ASN D:253 , LYS D:280 , ARG D:408 , HOH D:1116 , HOH D:1118
binding site for residue ILP D 1001
33
AF6
SOFTWARE
HIS D:33
binding site for residue CD D 1002
34
AF7
SOFTWARE
HIS D:35 , GLU D:64
binding site for residue CD D 1003
35
AF8
SOFTWARE
HIS D:188 , GLU D:231 , HOH D:1177
binding site for residue CD D 1004
36
AF9
SOFTWARE
HIS D:243
binding site for residue CD D 1005
37
AG1
SOFTWARE
ARG D:353 , HIS D:354 , GLU D:435
binding site for residue CD D 1006
38
AG2
SOFTWARE
ASP D:381
binding site for residue CD D 1007
39
AG3
SOFTWARE
HIS D:395
binding site for residue CD D 1008
40
AG4
SOFTWARE
GLU C:13 , GLU D:95
binding site for residue CD D 1009
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
Info
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;
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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
(0, 0)
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CATH Domains
(0, 0)
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all CATH domains
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Pfam Domains
(0, 0)
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Sorry, no Info available
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