PLEASE WAIT...
Getting 'Biological Unit' information from database.
PLEASE WAIT...
Getting 'Hetero Component' information from database.
PLEASE WAIT...
Getting 'Site' information from database.
PLEASE WAIT...
No precomputed SNP/Variant structure found.
Calculating the structure may take several minutes.
PLEASE WAIT...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
3MI5
Asym. Unit
Info
Asym.Unit (499 KB)
Biol.Unit 1 (962 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
AXIAL LIGAND SWAPPING IN DOUBLE MUTANT MAINTAINS INTRADIOL-CLEAVAGE CHEMISTRY IN PROTOCATECHUATE 3,4-DIOXYGENASE
Authors
:
V. M. Purpero, J. D. Lipscomb
Date
:
09 Apr 10 (Deposition) - 27 Apr 11 (Release) - 27 Apr 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.78
Chains
:
Asym. Unit : A,B,C,D,E,F,M,N,O,P,Q,R
Biol. Unit 1: A,B,C,D,E,F,M,N,O,P,Q,R (2x)
Keywords
:
Dioxygenase, Non-Heme, Iron, Intradiol, Catechol, Substrate Analogue, Protocatechuate, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
V. M. Purpero, J. D. Lipscomb
Axial Ligand Swapping In Double Mutant Maintains Intradiol-Cleavage Chemistry In Protocatechuate 3, 4-Dioxygenase
To Be Published
[
close entry info
]
Hetero Components
(6, 102)
Info
All Hetero Components
1a: BETA-MERCAPTOETHANOL (BMEa)
1b: BETA-MERCAPTOETHANOL (BMEb)
1c: BETA-MERCAPTOETHANOL (BMEc)
1d: BETA-MERCAPTOETHANOL (BMEd)
1e: BETA-MERCAPTOETHANOL (BMEe)
1f: BETA-MERCAPTOETHANOL (BMEf)
1g: BETA-MERCAPTOETHANOL (BMEg)
1h: BETA-MERCAPTOETHANOL (BMEh)
1i: BETA-MERCAPTOETHANOL (BMEi)
1j: BETA-MERCAPTOETHANOL (BMEj)
1k: BETA-MERCAPTOETHANOL (BMEk)
1l: BETA-MERCAPTOETHANOL (BMEl)
1m: BETA-MERCAPTOETHANOL (BMEm)
1n: BETA-MERCAPTOETHANOL (BMEn)
1o: BETA-MERCAPTOETHANOL (BMEo)
1p: BETA-MERCAPTOETHANOL (BMEp)
1q: BETA-MERCAPTOETHANOL (BMEq)
1r: BETA-MERCAPTOETHANOL (BMEr)
1s: BETA-MERCAPTOETHANOL (BMEs)
1t: BETA-MERCAPTOETHANOL (BMEt)
1u: BETA-MERCAPTOETHANOL (BMEu)
1v: BETA-MERCAPTOETHANOL (BMEv)
1w: BETA-MERCAPTOETHANOL (BMEw)
1x: BETA-MERCAPTOETHANOL (BMEx)
1y: BETA-MERCAPTOETHANOL (BMEy)
2a: CATECHOL (CAQa)
2b: CATECHOL (CAQb)
2c: CATECHOL (CAQc)
2d: CATECHOL (CAQd)
2e: CATECHOL (CAQe)
2f: CATECHOL (CAQf)
2g: CATECHOL (CAQg)
2h: CATECHOL (CAQh)
2i: CATECHOL (CAQi)
2j: CATECHOL (CAQj)
2k: CATECHOL (CAQk)
2l: CATECHOL (CAQl)
3a: CHLORIDE ION (CLa)
3b: CHLORIDE ION (CLb)
3c: CHLORIDE ION (CLc)
3d: CHLORIDE ION (CLd)
3e: CHLORIDE ION (CLe)
4a: FE (III) ION (FEa)
4b: FE (III) ION (FEb)
4c: FE (III) ION (FEc)
4d: FE (III) ION (FEd)
4e: FE (III) ION (FEe)
4f: FE (III) ION (FEf)
5a: GLYCEROL (GOLa)
5aa: GLYCEROL (GOLaa)
5ab: GLYCEROL (GOLab)
5ac: GLYCEROL (GOLac)
5ad: GLYCEROL (GOLad)
5ae: GLYCEROL (GOLae)
5af: GLYCEROL (GOLaf)
5ag: GLYCEROL (GOLag)
5ah: GLYCEROL (GOLah)
5ai: GLYCEROL (GOLai)
5aj: GLYCEROL (GOLaj)
5ak: GLYCEROL (GOLak)
5al: GLYCEROL (GOLal)
5am: GLYCEROL (GOLam)
5an: GLYCEROL (GOLan)
5ao: GLYCEROL (GOLao)
5ap: GLYCEROL (GOLap)
5b: GLYCEROL (GOLb)
5c: GLYCEROL (GOLc)
5d: GLYCEROL (GOLd)
5e: GLYCEROL (GOLe)
5f: GLYCEROL (GOLf)
5g: GLYCEROL (GOLg)
5h: GLYCEROL (GOLh)
5i: GLYCEROL (GOLi)
5j: GLYCEROL (GOLj)
5k: GLYCEROL (GOLk)
5l: GLYCEROL (GOLl)
5m: GLYCEROL (GOLm)
5n: GLYCEROL (GOLn)
5o: GLYCEROL (GOLo)
5p: GLYCEROL (GOLp)
5q: GLYCEROL (GOLq)
5r: GLYCEROL (GOLr)
5s: GLYCEROL (GOLs)
5t: GLYCEROL (GOLt)
5u: GLYCEROL (GOLu)
5v: GLYCEROL (GOLv)
5w: GLYCEROL (GOLw)
5x: GLYCEROL (GOLx)
5y: GLYCEROL (GOLy)
5z: GLYCEROL (GOLz)
6a: SULFATE ION (SO4a)
6b: SULFATE ION (SO4b)
6c: SULFATE ION (SO4c)
6d: SULFATE ION (SO4d)
6e: SULFATE ION (SO4e)
6f: SULFATE ION (SO4f)
6g: SULFATE ION (SO4g)
6h: SULFATE ION (SO4h)
6i: SULFATE ION (SO4i)
6j: SULFATE ION (SO4j)
6k: SULFATE ION (SO4k)
6l: SULFATE ION (SO4l)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BME
25
Ligand/Ion
BETA-MERCAPTOETHANOL
2
CAQ
12
Ligand/Ion
CATECHOL
3
CL
5
Ligand/Ion
CHLORIDE ION
4
FE
6
Ligand/Ion
FE (III) ION
5
GOL
42
Ligand/Ion
GLYCEROL
6
SO4
12
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(101, 101)
Info
All Sites
001: AC1 (SOFTWARE)
002: AC2 (SOFTWARE)
003: AC3 (SOFTWARE)
004: AC4 (SOFTWARE)
005: AC5 (SOFTWARE)
006: AC6 (SOFTWARE)
007: AC7 (SOFTWARE)
008: AC8 (SOFTWARE)
009: AC9 (SOFTWARE)
010: BC1 (SOFTWARE)
011: BC2 (SOFTWARE)
012: BC3 (SOFTWARE)
013: BC4 (SOFTWARE)
014: BC5 (SOFTWARE)
015: BC6 (SOFTWARE)
016: BC7 (SOFTWARE)
017: BC8 (SOFTWARE)
018: BC9 (SOFTWARE)
019: CC1 (SOFTWARE)
020: CC2 (SOFTWARE)
021: CC3 (SOFTWARE)
022: CC4 (SOFTWARE)
023: CC5 (SOFTWARE)
024: CC6 (SOFTWARE)
025: CC7 (SOFTWARE)
026: CC8 (SOFTWARE)
027: CC9 (SOFTWARE)
028: DC1 (SOFTWARE)
029: DC2 (SOFTWARE)
030: DC3 (SOFTWARE)
031: DC4 (SOFTWARE)
032: DC5 (SOFTWARE)
033: DC6 (SOFTWARE)
034: DC7 (SOFTWARE)
035: DC8 (SOFTWARE)
036: DC9 (SOFTWARE)
037: EC1 (SOFTWARE)
038: EC2 (SOFTWARE)
039: EC3 (SOFTWARE)
040: EC4 (SOFTWARE)
041: EC5 (SOFTWARE)
042: EC6 (SOFTWARE)
043: EC7 (SOFTWARE)
044: EC8 (SOFTWARE)
045: EC9 (SOFTWARE)
046: FC1 (SOFTWARE)
047: FC2 (SOFTWARE)
048: FC3 (SOFTWARE)
049: FC4 (SOFTWARE)
050: FC5 (SOFTWARE)
051: FC6 (SOFTWARE)
052: FC7 (SOFTWARE)
053: FC8 (SOFTWARE)
054: FC9 (SOFTWARE)
055: GC1 (SOFTWARE)
056: GC2 (SOFTWARE)
057: GC3 (SOFTWARE)
058: GC4 (SOFTWARE)
059: GC5 (SOFTWARE)
060: GC6 (SOFTWARE)
061: GC7 (SOFTWARE)
062: GC8 (SOFTWARE)
063: GC9 (SOFTWARE)
064: HC1 (SOFTWARE)
065: HC2 (SOFTWARE)
066: HC3 (SOFTWARE)
067: HC4 (SOFTWARE)
068: HC5 (SOFTWARE)
069: HC6 (SOFTWARE)
070: HC7 (SOFTWARE)
071: HC8 (SOFTWARE)
072: HC9 (SOFTWARE)
073: IC1 (SOFTWARE)
074: IC2 (SOFTWARE)
075: IC3 (SOFTWARE)
076: IC4 (SOFTWARE)
077: IC5 (SOFTWARE)
078: IC6 (SOFTWARE)
079: IC7 (SOFTWARE)
080: IC8 (SOFTWARE)
081: IC9 (SOFTWARE)
082: JC1 (SOFTWARE)
083: JC2 (SOFTWARE)
084: JC3 (SOFTWARE)
085: JC4 (SOFTWARE)
086: JC5 (SOFTWARE)
087: JC6 (SOFTWARE)
088: JC7 (SOFTWARE)
089: JC8 (SOFTWARE)
090: JC9 (SOFTWARE)
091: KC1 (SOFTWARE)
092: KC2 (SOFTWARE)
093: KC3 (SOFTWARE)
094: KC4 (SOFTWARE)
095: KC5 (SOFTWARE)
096: KC6 (SOFTWARE)
097: KC7 (SOFTWARE)
098: KC8 (SOFTWARE)
099: KC9 (SOFTWARE)
100: LC1 (SOFTWARE)
101: LC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
001
AC1
SOFTWARE
ASN A:37 , THR A:105 , HIS A:107 , GOL A:204 , HOH A:1194
BINDING SITE FOR RESIDUE SO4 A 201
002
AC2
SOFTWARE
THR A:98 , PHE A:99 , ASP A:100 , HOH A:2124
BINDING SITE FOR RESIDUE BME A 202
003
AC3
SOFTWARE
THR A:169 , ILE A:171 , ARG A:184 , PHE A:185 , ASP A:186 , ARG A:188 , HOH A:2061 , HOH A:2062
BINDING SITE FOR RESIDUE GOL A 203
004
AC4
SOFTWARE
TRP A:36 , ASN A:37 , THR A:95 , ALA A:96 , TRP A:104 , THR A:105 , SO4 A:201 , HOH A:1768
BINDING SITE FOR RESIDUE GOL A 204
005
AC5
SOFTWARE
ARG A:38 , LEU A:39 , LYS A:41 , ASN A:84 , LEU A:85 , ASN A:87 , ASN A:90
BINDING SITE FOR RESIDUE GOL A 205
006
AC6
SOFTWARE
LEU A:23 , ASN A:28 , PRO A:29 , HOH A:222 , ASN M:366 , PHE M:367 , GLY M:424 , VAL M:426
BINDING SITE FOR RESIDUE GOL A 206
007
AC7
SOFTWARE
ASN A:152 , PRO A:164 , ARG A:167 , HOH A:1266
BINDING SITE FOR RESIDUE CAQ A 207
008
AC8
SOFTWARE
LEU A:21 , ALA A:22 , LEU A:23 , GLU A:24 , THR A:30 , GLU A:34 , TRP A:36 , HOH A:1136 , HOH A:1674
BINDING SITE FOR RESIDUE GOL A 208
009
AC9
SOFTWARE
TYR M:408 , HIS M:447 , HIS M:460 , TYR M:462 , CAQ M:539
BINDING SITE FOR RESIDUE FE M 600
010
BC1
SOFTWARE
GLN M:503 , ILE M:505 , ARG M:522 , PHE M:523 , ASP M:524
BINDING SITE FOR RESIDUE GOL M 12
011
BC2
SOFTWARE
ARG M:407 , LEU M:419
BINDING SITE FOR RESIDUE GOL M 16
012
BC3
SOFTWARE
ARG M:409 , PRO M:421
BINDING SITE FOR RESIDUE BME M 28
013
BC4
SOFTWARE
PRO M:515 , ARG O:307 , GLN O:341
BINDING SITE FOR RESIDUE BME M 30
014
BC5
SOFTWARE
ARG M:333 , HOH M:1220 , PRO N:322 , ILE N:328
BINDING SITE FOR RESIDUE GOL M 10
015
BC6
SOFTWARE
ARG M:450 , PRO M:453 , HOH M:2057 , HOH M:2254 , SER O:338 , PRO O:340
BINDING SITE FOR RESIDUE GOL M 14
016
BC7
SOFTWARE
TYR A:16 , ASP M:413 , HIS M:447 , PRO M:448 , TRP M:449 , ARG M:450 , MET M:516 , CAQ M:539 , HOH M:2287 , HOH M:2303
BINDING SITE FOR RESIDUE BME M 1
017
BC8
SOFTWARE
ASP M:432 , SER M:433
BINDING SITE FOR RESIDUE CL M 2
018
BC9
SOFTWARE
PRO A:15 , TYR A:16 , BME M:1 , TYR M:408 , HIS M:447 , TRP M:449 , ARG M:457 , HIS M:460 , TYR M:462 , FE M:600 , HOH M:861 , HOH M:2030 , HOH M:2117
BINDING SITE FOR RESIDUE CAQ M 539
019
CC1
SOFTWARE
PHE M:356 , CYS M:429 , LEU M:430 , HOH M:917
BINDING SITE FOR RESIDUE BME M 540
020
CC2
SOFTWARE
ASN B:37 , THR B:105 , HIS B:107 , HOH B:2181
BINDING SITE FOR RESIDUE SO4 B 201
021
CC3
SOFTWARE
THR B:98 , PHE B:99 , ASP B:100 , HOH B:2116 , HOH B:2193
BINDING SITE FOR RESIDUE BME B 202
022
CC4
SOFTWARE
LEU B:23 , ASN B:28 , PRO B:29 , HOH B:949 , ASN N:366 , PHE N:367 , GLY N:424 , VAL N:426 , HOH N:873
BINDING SITE FOR RESIDUE GOL B 203
023
CC5
SOFTWARE
GLY B:60 , ARG B:188
BINDING SITE FOR RESIDUE BME B 204
024
CC6
SOFTWARE
THR B:169 , ILE B:171 , ARG B:184 , PHE B:185 , ASP B:186 , ARG B:188 , HOH B:2083 , HOH B:2084
BINDING SITE FOR RESIDUE GOL B 205
025
CC7
SOFTWARE
ARG B:167 , HOH B:1873
BINDING SITE FOR RESIDUE CAQ B 206
026
CC8
SOFTWARE
ARG B:38 , LEU B:39 , ASN B:84 , LEU B:85 , ASN B:87 , ASN B:90
BINDING SITE FOR RESIDUE GOL B 207
027
CC9
SOFTWARE
CAQ N:3 , TYR N:408 , HIS N:447 , HIS N:460 , TYR N:462
BINDING SITE FOR RESIDUE FE N 600
028
DC1
SOFTWARE
ARG N:409 , LEU N:419 , PRO N:421 , HOH N:830
BINDING SITE FOR RESIDUE SO4 N 11
029
DC2
SOFTWARE
ARG N:307 , GLN N:341 , ARG N:531 , PRO R:515
BINDING SITE FOR RESIDUE BME N 18
030
DC3
SOFTWARE
ARG N:333 , HOH N:1079 , ILE O:328
BINDING SITE FOR RESIDUE GOL N 26
031
DC4
SOFTWARE
SER M:338 , PRO M:340 , ARG N:450 , HOH N:1404 , MET Q:516
BINDING SITE FOR RESIDUE BME N 8
032
DC5
SOFTWARE
GLN N:503 , ILE N:505 , LYS N:507 , ARG N:522 , PHE N:523 , ASP N:524
BINDING SITE FOR RESIDUE GOL N 1
033
DC6
SOFTWARE
PRO B:15 , TYR B:16 , HOH B:2031 , TYR N:408 , HIS N:447 , TRP N:449 , ARG N:457 , HIS N:460 , TYR N:462 , HOH N:563 , FE N:600
BINDING SITE FOR RESIDUE CAQ N 3
034
DC7
SOFTWARE
ARG N:450
BINDING SITE FOR RESIDUE CL N 539
035
DC8
SOFTWARE
ASN C:37 , ARG C:38 , THR C:105 , HIS C:107 , GOL C:203
BINDING SITE FOR RESIDUE SO4 C 201
036
DC9
SOFTWARE
ARG C:38 , LEU C:39 , ALA C:40 , LYS C:41 , ASN C:84 , LEU C:85 , ASN C:87 , ALA C:88 , PHE C:89 , ASN C:90
BINDING SITE FOR RESIDUE GOL C 202
037
EC1
SOFTWARE
TRP C:36 , THR C:95 , ALA C:96 , TRP C:104 , THR C:105 , SO4 C:201 , HOH C:2056
BINDING SITE FOR RESIDUE GOL C 203
038
EC2
SOFTWARE
GLU C:168 , THR C:169 , ILE C:171 , ARG C:184 , PHE C:185 , ASP C:186 , ARG C:188
BINDING SITE FOR RESIDUE GOL C 204
039
EC3
SOFTWARE
THR C:98 , PHE C:99 , ASP C:100 , HOH C:2129
BINDING SITE FOR RESIDUE BME C 205
040
EC4
SOFTWARE
PRO C:164 , ARG C:167 , GLU C:168 , HOH C:923
BINDING SITE FOR RESIDUE CAQ C 206
041
EC5
SOFTWARE
LEU C:21 , ALA C:22 , LEU C:23 , GLU C:24 , GLU C:34 , TRP C:36 , HOH C:1634 , HOH C:1974
BINDING SITE FOR RESIDUE GOL C 207
042
EC6
SOFTWARE
CAQ O:4 , TYR O:408 , HIS O:447 , HIS O:460 , TYR O:462
BINDING SITE FOR RESIDUE FE O 600
043
EC7
SOFTWARE
ARG O:450 , CL O:541 , HOH O:1779 , HOH O:2187
BINDING SITE FOR RESIDUE SO4 O 12
044
EC8
SOFTWARE
GLU D:176 , PHE O:356 , CYS O:429 , LEU O:430 , HOH O:1397 , HOH O:2176
BINDING SITE FOR RESIDUE GOL O 17
045
EC9
SOFTWARE
LEU C:23 , ASN C:28 , PRO C:29 , HOH O:148 , ASN O:366 , PHE O:367 , ARG O:409 , GLY O:424 , VAL O:426 , HOH O:557
BINDING SITE FOR RESIDUE GOL O 29
046
FC1
SOFTWARE
SER N:338 , PRO N:340 , ARG O:450 , MET R:516
BINDING SITE FOR RESIDUE BME O 9
047
FC2
SOFTWARE
GLN O:503 , ILE O:505 , LYS O:507 , ARG O:522 , PHE O:523 , ASP O:524
BINDING SITE FOR RESIDUE GOL O 1
048
FC3
SOFTWARE
ILE M:328 , ARG O:333 , HOH O:1292
BINDING SITE FOR RESIDUE GOL O 539
049
FC4
SOFTWARE
PRO C:15 , TYR C:16 , TYR O:408 , HIS O:447 , TRP O:449 , ARG O:457 , HIS O:460 , TYR O:462 , FE O:600 , HOH O:698 , HOH O:2032 , HOH O:2091
BINDING SITE FOR RESIDUE CAQ O 4
050
FC5
SOFTWARE
THR O:321 , PRO O:322 , ASP O:323 , LYS O:493 , HOH O:553
BINDING SITE FOR RESIDUE BME O 540
051
FC6
SOFTWARE
SO4 O:12 , TRP O:449 , ARG O:450
BINDING SITE FOR RESIDUE CL O 541
052
FC7
SOFTWARE
ARG O:383 , PRO O:391
BINDING SITE FOR RESIDUE BME O 542
053
FC8
SOFTWARE
ASN D:37 , THR D:105 , HIS D:107 , BME D:207 , HOH D:1068
BINDING SITE FOR RESIDUE SO4 D 201
054
FC9
SOFTWARE
THR D:98 , PHE D:99 , ASP D:100 , HOH D:2036 , HOH D:2122
BINDING SITE FOR RESIDUE BME D 202
055
GC1
SOFTWARE
ARG D:38 , LEU D:39 , LYS D:41 , ASN D:84 , LEU D:85 , ASN D:87 , ASN D:90 , HOH D:1227
BINDING SITE FOR RESIDUE GOL D 203
056
GC2
SOFTWARE
THR D:169 , ILE D:171 , ARG D:184 , PHE D:185 , ASP D:186 , ARG D:188 , HOH D:1590 , HOH D:2114
BINDING SITE FOR RESIDUE GOL D 204
057
GC3
SOFTWARE
GLN C:33 , ASN C:84 , HOH C:865 , ARG D:174 , HIS O:353 , GLY O:355
BINDING SITE FOR RESIDUE GOL D 205
058
GC4
SOFTWARE
LEU D:23 , ASN D:28 , PRO D:29 , HOH D:222 , HOH D:257 , ASN P:366 , PHE P:367 , GLY P:424 , VAL P:426
BINDING SITE FOR RESIDUE GOL D 206
059
GC5
SOFTWARE
TRP D:36 , ASN D:37 , THR D:95 , ALA D:96 , TRP D:104 , THR D:105 , SO4 D:201 , HOH D:1448 , HOH D:1498
BINDING SITE FOR RESIDUE BME D 207
060
GC6
SOFTWARE
ASN D:152 , PRO D:164 , ARG D:167 , HOH D:1190
BINDING SITE FOR RESIDUE CAQ D 208
061
GC7
SOFTWARE
TYR P:408 , HIS P:447 , HIS P:460 , TYR P:462 , CAQ P:542
BINDING SITE FOR RESIDUE FE P 600
062
GC8
SOFTWARE
ALA P:358
BINDING SITE FOR RESIDUE BME P 5
063
GC9
SOFTWARE
ARG P:450 , PRO P:453 , PRO P:515 , MET P:516 , HOH P:2077 , SER R:338 , ILE R:339 , PRO R:340
BINDING SITE FOR RESIDUE GOL P 17
064
HC1
SOFTWARE
GLN P:503 , ILE P:505 , ARG P:522 , PHE P:523 , ASP P:524 , HOH P:2169
BINDING SITE FOR RESIDUE GOL P 1
065
HC2
SOFTWARE
TYR D:16 , SO4 P:2 , ASP P:413 , ARG P:414 , HIS P:447 , PRO P:448 , TRP P:449 , ARG P:450
BINDING SITE FOR RESIDUE BME P 539
066
HC3
SOFTWARE
PHE P:356 , CYS P:429 , LEU P:430 , HOH P:1172
BINDING SITE FOR RESIDUE GOL P 540
067
HC4
SOFTWARE
HIS P:534 , PHE P:535 , GLU P:536
BINDING SITE FOR RESIDUE BME P 541
068
HC5
SOFTWARE
ARG P:450 , BME P:539
BINDING SITE FOR RESIDUE SO4 P 2
069
HC6
SOFTWARE
PRO D:15 , TYR D:16 , TYR P:408 , HIS P:447 , TRP P:449 , ARG P:457 , HIS P:460 , TYR P:462 , FE P:600 , HOH P:815 , HOH P:2033 , HOH P:2094
BINDING SITE FOR RESIDUE CAQ P 542
070
HC7
SOFTWARE
ARG P:333 , HOH P:1001
BINDING SITE FOR RESIDUE BME P 543
071
HC8
SOFTWARE
ASN E:37 , THR E:105 , HIS E:107 , BME E:208 , HOH E:2299
BINDING SITE FOR RESIDUE SO4 E 201
072
HC9
SOFTWARE
GLU E:168 , THR E:169 , ILE E:171 , ARG E:184 , ASP E:186 , ARG E:188 , HOH E:1822 , HOH E:2148
BINDING SITE FOR RESIDUE GOL E 202
073
IC1
SOFTWARE
TYR E:56 , GLY E:60 , ARG E:188 , HOH E:2177
BINDING SITE FOR RESIDUE GOL E 203
074
IC2
SOFTWARE
ALA E:25 , PHE E:99 , ASP E:100 , LYS Q:411
BINDING SITE FOR RESIDUE BME E 204
075
IC3
SOFTWARE
ARG E:38 , LEU E:39 , ALA E:40 , LYS E:41 , ASN E:84 , LEU E:85 , ASN E:87 , ASN E:90
BINDING SITE FOR RESIDUE GOL E 205
076
IC4
SOFTWARE
LEU E:23 , ASN E:28 , PRO E:29 , HOH E:1218 , ASN Q:366 , PHE Q:367 , GLY Q:424 , VAL Q:426 , HOH Q:821
BINDING SITE FOR RESIDUE GOL E 206
077
IC5
SOFTWARE
PRO E:164 , ARG E:167 , HOH E:1521
BINDING SITE FOR RESIDUE CAQ E 207
078
IC6
SOFTWARE
TRP E:36 , ASN E:37 , THR E:95 , ALA E:96 , GLU E:103 , TRP E:104 , THR E:105 , SO4 E:201 , HOH E:1562
BINDING SITE FOR RESIDUE BME E 208
079
IC7
SOFTWARE
CAQ Q:6 , TYR Q:408 , HIS Q:447 , HIS Q:460 , TYR Q:462
BINDING SITE FOR RESIDUE FE Q 600
080
IC8
SOFTWARE
ARG Q:409 , LEU Q:419 , PRO Q:421 , HOH Q:691 , HOH Q:1756
BINDING SITE FOR RESIDUE SO4 Q 10
081
IC9
SOFTWARE
ASN O:514 , PRO O:515 , ARG Q:307 , GLN Q:341 , ARG Q:531 , GLU Q:536 , HOH Q:1457 , HOH Q:1529
BINDING SITE FOR RESIDUE GOL Q 15
082
JC1
SOFTWARE
GLN Q:503 , ILE Q:505 , ARG Q:522 , PHE Q:523 , ASP Q:524
BINDING SITE FOR RESIDUE GOL Q 1
083
JC2
SOFTWARE
LYS M:390 , ARG Q:383 , ASP Q:434
BINDING SITE FOR RESIDUE SO4 Q 539
084
JC3
SOFTWARE
PRO E:15 , TYR E:16 , TYR Q:408 , HIS Q:447 , TRP Q:449 , ARG Q:457 , HIS Q:460 , TYR Q:462 , FE Q:600 , HOH Q:618 , HOH Q:2045
BINDING SITE FOR RESIDUE CAQ Q 6
085
JC4
SOFTWARE
SER P:338 , PRO P:340 , ARG Q:450
BINDING SITE FOR RESIDUE GOL Q 540
086
JC5
SOFTWARE
ARG Q:450
BINDING SITE FOR RESIDUE CL Q 541
087
JC6
SOFTWARE
ASN F:37 , ARG F:38 , THR F:105 , HIS F:107 , GOL F:203 , HOH F:1200
BINDING SITE FOR RESIDUE SO4 F 201
088
JC7
SOFTWARE
GLU F:168 , ILE F:171 , ARG F:184 , PHE F:185 , ASP F:186
BINDING SITE FOR RESIDUE GOL F 202
089
JC8
SOFTWARE
ASN F:37 , THR F:95 , ALA F:96 , TRP F:104 , THR F:105 , SO4 F:201 , BME F:207 , HOH F:2064 , HOH F:2070
BINDING SITE FOR RESIDUE GOL F 203
090
JC9
SOFTWARE
ARG F:38 , LEU F:39 , ALA F:40 , LYS F:41 , ASN F:84 , LEU F:85 , ASN F:87 , ASN F:90
BINDING SITE FOR RESIDUE GOL F 204
091
KC1
SOFTWARE
PRO F:29 , ASN R:366 , PHE R:367
BINDING SITE FOR RESIDUE BME F 205
092
KC2
SOFTWARE
PRO F:164 , ARG F:167 , HOH F:1181
BINDING SITE FOR RESIDUE CAQ F 206
093
KC3
SOFTWARE
THR F:98 , PHE F:99 , ASP F:100 , GOL F:203 , HOH F:1149 , HOH F:2074
BINDING SITE FOR RESIDUE BME F 207
094
KC4
SOFTWARE
CAQ R:1 , TYR R:408 , HIS R:447 , HIS R:460 , TYR R:462
BINDING SITE FOR RESIDUE FE R 600
095
KC5
SOFTWARE
GLN R:503 , ILE R:505 , LYS R:507 , ARG R:522 , PHE R:523 , ASP R:524
BINDING SITE FOR RESIDUE GOL R 15
096
KC6
SOFTWARE
ASN R:305 , GLN R:530 , LYS R:532
BINDING SITE FOR RESIDUE BME R 21
097
KC7
SOFTWARE
ILE P:328 , ARG R:333 , HOH R:1543
BINDING SITE FOR RESIDUE GOL R 23
098
KC8
SOFTWARE
PRO P:515 , ARG R:307 , PRO R:340 , GLN R:341 , ARG R:531 , GLU R:536 , HOH R:549 , HOH R:1528
BINDING SITE FOR RESIDUE GOL R 13
099
KC9
SOFTWARE
ARG R:409 , LEU R:419 , PRO R:421 , HOH R:1680
BINDING SITE FOR RESIDUE SO4 R 3
100
LC1
SOFTWARE
PRO F:15 , TYR F:16 , TYR R:408 , HIS R:447 , TRP R:449 , ARG R:457 , HIS R:460 , TYR R:462 , FE R:600 , HOH R:750 , HOH R:2037
BINDING SITE FOR RESIDUE CAQ R 1
101
LC2
SOFTWARE
ARG R:383
BINDING SITE FOR RESIDUE BME R 540
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 12)
Info
All PROSITE Patterns/Profiles
1: INTRADIOL_DIOXYGENAS (A:51-79,B:51-79,C:51-79,D:51-79,E:...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
INTRADIOL_DIOXYGENAS
PS00083
Intradiol ring-cleavage dioxygenases signature.
PCXA_PSEPU
52-80
6
A:51-79
B:51-79
C:51-79
D:51-79
E:51-79
F:51-79
PCXB_PSEPU
81-109
6
M:380-408
N:380-408
O:380-408
P:380-408
Q:380-408
R:380-408
[
close PROSITE info
]
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
(2, 12)
Info
All SCOP Domains
1a: SCOP_d3mi5a_ (A:)
1b: SCOP_d3mi5b_ (B:)
1c: SCOP_d3mi5c_ (C:)
1d: SCOP_d3mi5d_ (D:)
1e: SCOP_d3mi5e_ (E:)
1f: SCOP_d3mi5f_ (F:)
2a: SCOP_d3mi5m_ (M:)
2b: SCOP_d3mi5n_ (N:)
2c: SCOP_d3mi5o_ (O:)
2d: SCOP_d3mi5p_ (P:)
2e: SCOP_d3mi5q_ (Q:)
2f: SCOP_d3mi5r_ (R:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Prealbumin-like
(433)
Superfamily
:
Aromatic compound dioxygenase
(111)
Family
:
Aromatic compound dioxygenase
(100)
Protein domain
:
Protocatechuate-3,4-dioxygenase, alpha chain
(37)
Pseudomonas putida [TaxId: 303]
(31)
1a
d3mi5a_
A:
1b
d3mi5b_
B:
1c
d3mi5c_
C:
1d
d3mi5d_
D:
1e
d3mi5e_
E:
1f
d3mi5f_
F:
Protein domain
:
Protocatechuate-3,4-dioxygenase, beta chain
(44)
Pseudomonas putida [TaxId: 303]
(31)
2a
d3mi5m_
M:
2b
d3mi5n_
N:
2c
d3mi5o_
O:
2d
d3mi5p_
P:
2e
d3mi5q_
Q:
2f
d3mi5r_
R:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(2, 18)
Info
all PFAM domains
1a: PFAM_Dioxygenase_C_3mi5F01 (F:23-192)
1b: PFAM_Dioxygenase_C_3mi5F02 (F:23-192)
1c: PFAM_Dioxygenase_C_3mi5F03 (F:23-192)
1d: PFAM_Dioxygenase_C_3mi5F04 (F:23-192)
1e: PFAM_Dioxygenase_C_3mi5F05 (F:23-192)
1f: PFAM_Dioxygenase_C_3mi5F06 (F:23-192)
1g: PFAM_Dioxygenase_C_3mi5R01 (R:346-530)
1h: PFAM_Dioxygenase_C_3mi5R02 (R:346-530)
1i: PFAM_Dioxygenase_C_3mi5R03 (R:346-530)
1j: PFAM_Dioxygenase_C_3mi5R04 (R:346-530)
1k: PFAM_Dioxygenase_C_3mi5R05 (R:346-530)
1l: PFAM_Dioxygenase_C_3mi5R06 (R:346-530)
2a: PFAM_PCDO_beta_N_3mi5R07 (R:308-343)
2b: PFAM_PCDO_beta_N_3mi5R08 (R:308-343)
2c: PFAM_PCDO_beta_N_3mi5R09 (R:308-343)
2d: PFAM_PCDO_beta_N_3mi5R10 (R:308-343)
2e: PFAM_PCDO_beta_N_3mi5R11 (R:308-343)
2f: PFAM_PCDO_beta_N_3mi5R12 (R:308-343)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Transthyretin
(88)
Family
:
Dioxygenase_C
(32)
Pseudomonas putida (Arthrobacter siderocapsulatus)
(27)
1a
Dioxygenase_C-3mi5F01
F:23-192
1b
Dioxygenase_C-3mi5F02
F:23-192
1c
Dioxygenase_C-3mi5F03
F:23-192
1d
Dioxygenase_C-3mi5F04
F:23-192
1e
Dioxygenase_C-3mi5F05
F:23-192
1f
Dioxygenase_C-3mi5F06
F:23-192
1g
Dioxygenase_C-3mi5R01
R:346-530
1h
Dioxygenase_C-3mi5R02
R:346-530
1i
Dioxygenase_C-3mi5R03
R:346-530
1j
Dioxygenase_C-3mi5R04
R:346-530
1k
Dioxygenase_C-3mi5R05
R:346-530
1l
Dioxygenase_C-3mi5R06
R:346-530
Clan
:
no clan defined [family: PCDO_beta_N]
(26)
Family
:
PCDO_beta_N
(26)
Pseudomonas putida (Arthrobacter siderocapsulatus)
(26)
2a
PCDO_beta_N-3mi5R07
R:308-343
2b
PCDO_beta_N-3mi5R08
R:308-343
2c
PCDO_beta_N-3mi5R09
R:308-343
2d
PCDO_beta_N-3mi5R10
R:308-343
2e
PCDO_beta_N-3mi5R11
R:308-343
2f
PCDO_beta_N-3mi5R12
R:308-343
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Chain C
Chain D
Chain E
Chain F
Chain M
Chain N
Chain O
Chain P
Chain Q
Chain R
Asymmetric Unit 1
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
by Exon
by Amino Acid
by Nucleotide
by Temperature
by Charge
by Rainbow (Group)
by Custom Color
Background Coloring
Choose
molecule
background
color...
[
close
]
RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
x
pixel
Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
close Script example commands
]
Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
QuickSearch:
by PDB,NDB,UniProt,PROSITE Code or
Search Term(s)
Show PDB file:
Asym.Unit (499 KB)
Header - Asym.Unit
Biol.Unit 1 (962 KB)
Header - Biol.Unit 1
Plain Text
HTML (compressed size)
use JSmol [Javascript]
use Jmol [Java applet]
Upload:
Select a local file
OR
Enter a remote file address
You can upload any molecular structure file format that is recognized by Jmol,
e.g.: PDB, mmCif, CIF, CML, MOL, XYZ
(also compressed with 'gzip', see the
Jmol documentation
for a complete list)
JenaLib Atlas Page
|
Sequence/Alignment View
3MI5
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help