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2OZ3
Biol. Unit 1
Info
Asym.Unit (556 KB)
Biol.Unit 1 (546 KB)
Biol.Unit 2 (270 KB)
Biol.Unit 3 (531 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF L-RHAMNONATE DEHYDRATASE FROM AZOTOBACTER VINELANDII
Authors
:
Y. Patskovsky, R. Toro, J. M. Sauder, J. C. Freeman, K. Bain, T. Gheyi, B. S. R. Wasserman, D. Smith, J. Gerlt, S. K. Burley, S. C. Almo, New York Research Center For Structural Genomics (Nysgxrc)
Date
:
23 Feb 07 (Deposition) - 06 Mar 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D (2x)
Biol. Unit 2: E,F,G,H (1x)
Biol. Unit 3: E,F,G,H (2x)
Keywords
:
Enolase, Structural Genomics, Psi, Protein Structure Initiative, New York Structural Genomics Research Consortium, Nysgrc, New York Sgx Research Center For Structural Genomics, Nysgxrc, Lyase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Y. Patskovsky, R. Toro, J. M. Sauder, J. C. Freeman, K. Bain, B. Wu, T. Gheyi, S. R. Wasserman, D. Smith, J. Gerlt, S. K. Burley, S. C. Almo
Crystal Structure Of L-Rhamnonate Dehydratase From Azotobacter Vinelandii
To Be Published
[
close entry info
]
Hetero Components
(2, 166)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1aa: GLYCEROL (GOLaa)
1ab: GLYCEROL (GOLab)
1ac: GLYCEROL (GOLac)
1ad: GLYCEROL (GOLad)
1ae: GLYCEROL (GOLae)
1b: GLYCEROL (GOLb)
1c: GLYCEROL (GOLc)
1d: GLYCEROL (GOLd)
1e: GLYCEROL (GOLe)
1f: GLYCEROL (GOLf)
1g: GLYCEROL (GOLg)
1h: GLYCEROL (GOLh)
1i: GLYCEROL (GOLi)
1j: GLYCEROL (GOLj)
1k: GLYCEROL (GOLk)
1l: GLYCEROL (GOLl)
1m: GLYCEROL (GOLm)
1n: GLYCEROL (GOLn)
1o: GLYCEROL (GOLo)
1p: GLYCEROL (GOLp)
1q: GLYCEROL (GOLq)
1r: GLYCEROL (GOLr)
1s: GLYCEROL (GOLs)
1t: GLYCEROL (GOLt)
1u: GLYCEROL (GOLu)
1v: GLYCEROL (GOLv)
1w: GLYCEROL (GOLw)
1x: GLYCEROL (GOLx)
1y: GLYCEROL (GOLy)
1z: GLYCEROL (GOLz)
2a: SELENOMETHIONINE (MSEa)
2aa: SELENOMETHIONINE (MSEaa)
2ab: SELENOMETHIONINE (MSEab)
2ac: SELENOMETHIONINE (MSEac)
2ad: SELENOMETHIONINE (MSEad)
2ae: SELENOMETHIONINE (MSEae)
2af: SELENOMETHIONINE (MSEaf)
2ag: SELENOMETHIONINE (MSEag)
2ah: SELENOMETHIONINE (MSEah)
2ai: SELENOMETHIONINE (MSEai)
2aj: SELENOMETHIONINE (MSEaj)
2ak: SELENOMETHIONINE (MSEak)
2al: SELENOMETHIONINE (MSEal)
2am: SELENOMETHIONINE (MSEam)
2an: SELENOMETHIONINE (MSEan)
2ao: SELENOMETHIONINE (MSEao)
2ap: SELENOMETHIONINE (MSEap)
2aq: SELENOMETHIONINE (MSEaq)
2ar: SELENOMETHIONINE (MSEar)
2as: SELENOMETHIONINE (MSEas)
2at: SELENOMETHIONINE (MSEat)
2au: SELENOMETHIONINE (MSEau)
2av: SELENOMETHIONINE (MSEav)
2aw: SELENOMETHIONINE (MSEaw)
2ax: SELENOMETHIONINE (MSEax)
2ay: SELENOMETHIONINE (MSEay)
2az: SELENOMETHIONINE (MSEaz)
2b: SELENOMETHIONINE (MSEb)
2ba: SELENOMETHIONINE (MSEba)
2bb: SELENOMETHIONINE (MSEbb)
2bc: SELENOMETHIONINE (MSEbc)
2bd: SELENOMETHIONINE (MSEbd)
2be: SELENOMETHIONINE (MSEbe)
2bf: SELENOMETHIONINE (MSEbf)
2bg: SELENOMETHIONINE (MSEbg)
2bh: SELENOMETHIONINE (MSEbh)
2bi: SELENOMETHIONINE (MSEbi)
2bj: SELENOMETHIONINE (MSEbj)
2bk: SELENOMETHIONINE (MSEbk)
2bl: SELENOMETHIONINE (MSEbl)
2bm: SELENOMETHIONINE (MSEbm)
2bn: SELENOMETHIONINE (MSEbn)
2bo: SELENOMETHIONINE (MSEbo)
2bp: SELENOMETHIONINE (MSEbp)
2bq: SELENOMETHIONINE (MSEbq)
2br: SELENOMETHIONINE (MSEbr)
2bs: SELENOMETHIONINE (MSEbs)
2bt: SELENOMETHIONINE (MSEbt)
2bu: SELENOMETHIONINE (MSEbu)
2bv: SELENOMETHIONINE (MSEbv)
2bw: SELENOMETHIONINE (MSEbw)
2bx: SELENOMETHIONINE (MSEbx)
2by: SELENOMETHIONINE (MSEby)
2bz: SELENOMETHIONINE (MSEbz)
2c: SELENOMETHIONINE (MSEc)
2ca: SELENOMETHIONINE (MSEca)
2cb: SELENOMETHIONINE (MSEcb)
2cc: SELENOMETHIONINE (MSEcc)
2cd: SELENOMETHIONINE (MSEcd)
2ce: SELENOMETHIONINE (MSEce)
2cf: SELENOMETHIONINE (MSEcf)
2cg: SELENOMETHIONINE (MSEcg)
2ch: SELENOMETHIONINE (MSEch)
2ci: SELENOMETHIONINE (MSEci)
2cj: SELENOMETHIONINE (MSEcj)
2ck: SELENOMETHIONINE (MSEck)
2cl: SELENOMETHIONINE (MSEcl)
2cm: SELENOMETHIONINE (MSEcm)
2cn: SELENOMETHIONINE (MSEcn)
2co: SELENOMETHIONINE (MSEco)
2cp: SELENOMETHIONINE (MSEcp)
2cq: SELENOMETHIONINE (MSEcq)
2cr: SELENOMETHIONINE (MSEcr)
2cs: SELENOMETHIONINE (MSEcs)
2ct: SELENOMETHIONINE (MSEct)
2cu: SELENOMETHIONINE (MSEcu)
2cv: SELENOMETHIONINE (MSEcv)
2cw: SELENOMETHIONINE (MSEcw)
2cx: SELENOMETHIONINE (MSEcx)
2cy: SELENOMETHIONINE (MSEcy)
2cz: SELENOMETHIONINE (MSEcz)
2d: SELENOMETHIONINE (MSEd)
2da: SELENOMETHIONINE (MSEda)
2db: SELENOMETHIONINE (MSEdb)
2dc: SELENOMETHIONINE (MSEdc)
2dd: SELENOMETHIONINE (MSEdd)
2de: SELENOMETHIONINE (MSEde)
2df: SELENOMETHIONINE (MSEdf)
2dg: SELENOMETHIONINE (MSEdg)
2dh: SELENOMETHIONINE (MSEdh)
2di: SELENOMETHIONINE (MSEdi)
2dj: SELENOMETHIONINE (MSEdj)
2dk: SELENOMETHIONINE (MSEdk)
2dl: SELENOMETHIONINE (MSEdl)
2dm: SELENOMETHIONINE (MSEdm)
2dn: SELENOMETHIONINE (MSEdn)
2do: SELENOMETHIONINE (MSEdo)
2dp: SELENOMETHIONINE (MSEdp)
2e: SELENOMETHIONINE (MSEe)
2f: SELENOMETHIONINE (MSEf)
2g: SELENOMETHIONINE (MSEg)
2h: SELENOMETHIONINE (MSEh)
2i: SELENOMETHIONINE (MSEi)
2j: SELENOMETHIONINE (MSEj)
2k: SELENOMETHIONINE (MSEk)
2l: SELENOMETHIONINE (MSEl)
2m: SELENOMETHIONINE (MSEm)
2n: SELENOMETHIONINE (MSEn)
2o: SELENOMETHIONINE (MSEo)
2p: SELENOMETHIONINE (MSEp)
2q: SELENOMETHIONINE (MSEq)
2r: SELENOMETHIONINE (MSEr)
2s: SELENOMETHIONINE (MSEs)
2t: SELENOMETHIONINE (MSEt)
2u: SELENOMETHIONINE (MSEu)
2v: SELENOMETHIONINE (MSEv)
2w: SELENOMETHIONINE (MSEw)
2x: SELENOMETHIONINE (MSEx)
2y: SELENOMETHIONINE (MSEy)
2z: SELENOMETHIONINE (MSEz)
3a: SODIUM ION (NAa)
3b: SODIUM ION (NAb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
46
Ligand/Ion
GLYCEROL
2
MSE
120
Mod. Amino Acid
SELENOMETHIONINE
3
NA
-1
Ligand/Ion
SODIUM ION
[
close Hetero Component info
]
Sites
(25, 25)
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: BC7 (SOFTWARE)
11: BC8 (SOFTWARE)
12: BC9 (SOFTWARE)
13: CC2 (SOFTWARE)
14: CC3 (SOFTWARE)
15: CC4 (SOFTWARE)
16: CC5 (SOFTWARE)
17: CC6 (SOFTWARE)
18: CC7 (SOFTWARE)
19: CC9 (SOFTWARE)
20: DC1 (SOFTWARE)
21: DC2 (SOFTWARE)
22: DC3 (SOFTWARE)
23: DC4 (SOFTWARE)
24: DC5 (SOFTWARE)
25: DC6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP B:214 , GLU B:240 , GLU B:268 , HOH B:3066 , HOH B:3132
BINDING SITE FOR RESIDUE NA B 2001
02
AC2
SOFTWARE
ASP D:214 , GLU D:240 , GLU D:268
BINDING SITE FOR RESIDUE NA D 2002
03
AC3
SOFTWARE
LYS B:40 , ASP C:106 , ASN C:110 , TRP C:274 , HOH C:3216 , HOH C:3236 , HOH D:3153
BINDING SITE FOR RESIDUE GOL C 3001
04
AC4
SOFTWARE
ASP B:106 , ASN B:110 , HOH B:3190 , HOH B:3239 , LYS C:40
BINDING SITE FOR RESIDUE GOL B 3002
05
AC5
SOFTWARE
VAL A:152 , ARG A:153 , GLN A:332 , HOH A:3173 , LYS C:40 , TYR C:41
BINDING SITE FOR RESIDUE GOL A 3003
06
AC6
SOFTWARE
LYS A:40 , TYR A:41 , VAL B:152 , ARG B:153 , GLN B:332
BINDING SITE FOR RESIDUE GOL B 3004
07
AC7
SOFTWARE
HOH C:3244 , LYS D:40 , TRP D:105 , ASP D:106 , ASN D:110 , ARG D:273 , TRP D:274 , HOH D:3157
BINDING SITE FOR RESIDUE GOL D 3005
08
AC8
SOFTWARE
VAL C:152 , ARG C:153 , GLN C:332 , HOH C:3228 , LYS D:40 , TYR D:41
BINDING SITE FOR RESIDUE GOL D 3006
09
AC9
SOFTWARE
LYS B:40 , TYR B:41 , VAL D:152 , ARG D:153 , GLN D:332
BINDING SITE FOR RESIDUE GOL D 3007
10
BC7
SOFTWARE
PRO A:361 , ARG A:372 , HOH A:3269
BINDING SITE FOR RESIDUE GOL A 3014
11
BC8
SOFTWARE
PRO A:351 , LEU A:357 , GLY A:359 , GLU A:360 , HOH A:3099 , HOH A:3234 , ASP C:347
BINDING SITE FOR RESIDUE GOL A 3016
12
BC9
SOFTWARE
GOL C:3022 , GLU D:102 , LEU D:147 , HOH D:3127
BINDING SITE FOR RESIDUE GOL D 3017
13
CC2
SOFTWARE
GLN C:157 , PRO C:335 , HOH C:3226
BINDING SITE FOR RESIDUE GOL C 3019
14
CC3
SOFTWARE
GLU C:155 , GLU C:364 , ARG C:367 , MSE C:368 , ARG C:369 , ARG C:372 , HOH C:3141
BINDING SITE FOR RESIDUE GOL C 3020
15
CC4
SOFTWARE
ASP B:220 , LEU B:221 , ASN B:222 , ASP D:286 , ASN D:312 , ALA D:313 , LEU D:314
BINDING SITE FOR RESIDUE GOL B 3021
16
CC5
SOFTWARE
GLU C:102 , THR C:299 , LEU C:302 , LYS C:303 , HOH C:3189 , LEU D:302 , ARG D:331 , GOL D:3017
BINDING SITE FOR RESIDUE GOL C 3022
17
CC6
SOFTWARE
LYS A:40 , ASP A:106 , ASN A:110 , LEU A:113 , TRP A:274 , HOH A:3076
BINDING SITE FOR RESIDUE GOL A 3023
18
CC7
SOFTWARE
GLN A:157 , TRP A:210 , HOH A:3231 , PRO C:184 , SER C:185
BINDING SITE FOR RESIDUE GOL A 3024
19
CC9
SOFTWARE
ARG C:164 , ARG C:204
BINDING SITE FOR RESIDUE GOL C 3026
20
DC1
SOFTWARE
ILE C:30 , ARG C:48 , THR C:161 , ASP C:214 , HOH C:3064
BINDING SITE FOR RESIDUE GOL C 3027
21
DC2
SOFTWARE
TRP A:249 , GLU A:281 , MSE A:282
BINDING SITE FOR RESIDUE GOL A 3028
22
DC3
SOFTWARE
GLU B:281 , TRP C:249 , MSE C:282
BINDING SITE FOR RESIDUE GOL B 3029
23
DC4
SOFTWARE
ASP A:67 , ASN A:69
BINDING SITE FOR RESIDUE GOL A 3030
24
DC5
SOFTWARE
HIS A:22 , ILE A:30 , ILE A:34 , ARG A:48 , THR A:161 , ASP A:214 , TRP A:216 , HOH A:3057 , HOH A:3264
BINDING SITE FOR RESIDUE GOL A 3031
25
DC6
SOFTWARE
GLY A:235 , LEU A:236 , HOH A:3066 , ARG C:226 , HOH C:3242
BINDING SITE FOR RESIDUE GOL A 3032
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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Label:
End label:
Sorry, no Info available
[
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]
Exons
(0, 0)
Info
All Exons
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(0, 0)
Info
All SCOP Domains
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Select:
Label:
Sorry, no Info available
[
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CATH Domains
(0, 0)
Info
all CATH domains
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Label:
Sorry, no Info available
[
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Pfam Domains
(2, 16)
Info
all PFAM domains
1a: PFAM_MR_MLE_N_2oz3H01 (H:52-149)
1b: PFAM_MR_MLE_N_2oz3H02 (H:52-149)
1c: PFAM_MR_MLE_N_2oz3H03 (H:52-149)
1d: PFAM_MR_MLE_N_2oz3H04 (H:52-149)
1e: PFAM_MR_MLE_N_2oz3H05 (H:52-149)
1f: PFAM_MR_MLE_N_2oz3H06 (H:52-149)
1g: PFAM_MR_MLE_N_2oz3H07 (H:52-149)
1h: PFAM_MR_MLE_N_2oz3H08 (H:52-149)
2a: PFAM_MR_MLE_2oz3H09 (H:197-267)
2b: PFAM_MR_MLE_2oz3H10 (H:197-267)
2c: PFAM_MR_MLE_2oz3H11 (H:197-267)
2d: PFAM_MR_MLE_2oz3H12 (H:197-267)
2e: PFAM_MR_MLE_2oz3H13 (H:197-267)
2f: PFAM_MR_MLE_2oz3H14 (H:197-267)
2g: PFAM_MR_MLE_2oz3H15 (H:197-267)
2h: PFAM_MR_MLE_2oz3H16 (H:197-267)
View:
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Clans
(
)
(
)
Families
(
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(
)
Organisms
(
)
(
)
Clan
:
Enolase_N
(69)
Family
:
MR_MLE_N
(47)
Azotobacter vinelandii (strain DJ / ATCC BAA-1303)
(1)
1a
MR_MLE_N-2oz3H01
H:52-149
1b
MR_MLE_N-2oz3H02
H:52-149
1c
MR_MLE_N-2oz3H03
H:52-149
1d
MR_MLE_N-2oz3H04
H:52-149
1e
MR_MLE_N-2oz3H05
H:52-149
1f
MR_MLE_N-2oz3H06
H:52-149
1g
MR_MLE_N-2oz3H07
H:52-149
1h
MR_MLE_N-2oz3H08
H:52-149
Clan
:
Enolase_TIM
(82)
Family
:
MR_MLE
(48)
Azotobacter vinelandii (strain DJ / ATCC BAA-1303)
(1)
2a
MR_MLE-2oz3H09
H:197-267
2b
MR_MLE-2oz3H10
H:197-267
2c
MR_MLE-2oz3H11
H:197-267
2d
MR_MLE-2oz3H12
H:197-267
2e
MR_MLE-2oz3H13
H:197-267
2f
MR_MLE-2oz3H14
H:197-267
2g
MR_MLE-2oz3H15
H:197-267
2h
MR_MLE-2oz3H16
H:197-267
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