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3PFD
Biol. Unit 1
Info
Asym.Unit (480 KB)
Biol.Unit 1 (469 KB)
Biol.Unit 2 (122 KB)
Biol.Unit 3 (121 KB)
Biol.Unit 4 (121 KB)
Biol.Unit 5 (123 KB)
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Title
:
CRYSTAL STRUCTURE OF AN ACYL-COA DEHYDROGENASE FROM MYCOBACTERIUM THERMORESISTIBILE BOUND TO REDUCED FLAVIN ADENINE DINUCLEOTIDE SOLVED BY COMBINED IODIDE ION SAD MR
Authors
:
Seattle Structural Genomics Center For Infectious Disease (S
Date
:
28 Oct 10 (Deposition) - 10 Nov 10 (Release) - 22 Apr 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: A (1x)
Biol. Unit 3: B (1x)
Biol. Unit 4: C (1x)
Biol. Unit 5: D (1x)
Keywords
:
Structural Genomics, Seattle Structural Genomics Center For Infectious Disease, Ssgcid, Dehydrogenase, De Novo Phase Determination, Iodide Ion Sad, Acyl Coa Dehydrogenase, Reduced Flavin Adenine Dinucleotide, Fad, Fatty Acid Metabolism, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Abendroth, A. S. Gardberg, J. I. Robinson, J. S. Christensen, B. L. Staker, P. J. Myler, L. J. Stewart, T. E. Edwards
Sad Phasing Using Iodide Ions In A High-Throughput Structural Genomics Environment.
J. Struct. Funct. Genom. V. 12 83 2011
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 113)
Info
All Hetero Components
1a: DIHYDROFLAVINE-ADENINE DINUCLEOTID... (FDAa)
1b: DIHYDROFLAVINE-ADENINE DINUCLEOTID... (FDAb)
1c: DIHYDROFLAVINE-ADENINE DINUCLEOTID... (FDAc)
1d: DIHYDROFLAVINE-ADENINE DINUCLEOTID... (FDAd)
2a: IODIDE ION (IODa)
2aa: IODIDE ION (IODaa)
2ab: IODIDE ION (IODab)
2ac: IODIDE ION (IODac)
2ad: IODIDE ION (IODad)
2ae: IODIDE ION (IODae)
2af: IODIDE ION (IODaf)
2ag: IODIDE ION (IODag)
2ah: IODIDE ION (IODah)
2ai: IODIDE ION (IODai)
2aj: IODIDE ION (IODaj)
2ak: IODIDE ION (IODak)
2al: IODIDE ION (IODal)
2am: IODIDE ION (IODam)
2an: IODIDE ION (IODan)
2ao: IODIDE ION (IODao)
2ap: IODIDE ION (IODap)
2aq: IODIDE ION (IODaq)
2ar: IODIDE ION (IODar)
2as: IODIDE ION (IODas)
2at: IODIDE ION (IODat)
2au: IODIDE ION (IODau)
2av: IODIDE ION (IODav)
2aw: IODIDE ION (IODaw)
2ax: IODIDE ION (IODax)
2ay: IODIDE ION (IODay)
2az: IODIDE ION (IODaz)
2b: IODIDE ION (IODb)
2ba: IODIDE ION (IODba)
2bb: IODIDE ION (IODbb)
2bc: IODIDE ION (IODbc)
2bd: IODIDE ION (IODbd)
2be: IODIDE ION (IODbe)
2bf: IODIDE ION (IODbf)
2bg: IODIDE ION (IODbg)
2bh: IODIDE ION (IODbh)
2bi: IODIDE ION (IODbi)
2bj: IODIDE ION (IODbj)
2bk: IODIDE ION (IODbk)
2bl: IODIDE ION (IODbl)
2bm: IODIDE ION (IODbm)
2bn: IODIDE ION (IODbn)
2bo: IODIDE ION (IODbo)
2bp: IODIDE ION (IODbp)
2bq: IODIDE ION (IODbq)
2br: IODIDE ION (IODbr)
2bs: IODIDE ION (IODbs)
2bt: IODIDE ION (IODbt)
2bu: IODIDE ION (IODbu)
2bv: IODIDE ION (IODbv)
2bw: IODIDE ION (IODbw)
2bx: IODIDE ION (IODbx)
2by: IODIDE ION (IODby)
2bz: IODIDE ION (IODbz)
2c: IODIDE ION (IODc)
2ca: IODIDE ION (IODca)
2cb: IODIDE ION (IODcb)
2cc: IODIDE ION (IODcc)
2cd: IODIDE ION (IODcd)
2ce: IODIDE ION (IODce)
2cf: IODIDE ION (IODcf)
2cg: IODIDE ION (IODcg)
2ch: IODIDE ION (IODch)
2ci: IODIDE ION (IODci)
2cj: IODIDE ION (IODcj)
2ck: IODIDE ION (IODck)
2cl: IODIDE ION (IODcl)
2cm: IODIDE ION (IODcm)
2cn: IODIDE ION (IODcn)
2co: IODIDE ION (IODco)
2cp: IODIDE ION (IODcp)
2cq: IODIDE ION (IODcq)
2cr: IODIDE ION (IODcr)
2cs: IODIDE ION (IODcs)
2ct: IODIDE ION (IODct)
2cu: IODIDE ION (IODcu)
2cv: IODIDE ION (IODcv)
2cw: IODIDE ION (IODcw)
2cx: IODIDE ION (IODcx)
2cy: IODIDE ION (IODcy)
2cz: IODIDE ION (IODcz)
2d: IODIDE ION (IODd)
2da: IODIDE ION (IODda)
2db: IODIDE ION (IODdb)
2dc: IODIDE ION (IODdc)
2dd: IODIDE ION (IODdd)
2de: IODIDE ION (IODde)
2e: IODIDE ION (IODe)
2f: IODIDE ION (IODf)
2g: IODIDE ION (IODg)
2h: IODIDE ION (IODh)
2i: IODIDE ION (IODi)
2j: IODIDE ION (IODj)
2k: IODIDE ION (IODk)
2l: IODIDE ION (IODl)
2m: IODIDE ION (IODm)
2n: IODIDE ION (IODn)
2o: IODIDE ION (IODo)
2p: IODIDE ION (IODp)
2q: IODIDE ION (IODq)
2r: IODIDE ION (IODr)
2s: IODIDE ION (IODs)
2t: IODIDE ION (IODt)
2u: IODIDE ION (IODu)
2v: IODIDE ION (IODv)
2w: IODIDE ION (IODw)
2x: IODIDE ION (IODx)
2y: IODIDE ION (IODy)
2z: IODIDE ION (IODz)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FDA
4
Ligand/Ion
DIHYDROFLAVINE-ADENINE DINUCLEOTIDE
2
IOD
109
Ligand/Ion
IODIDE ION
[
close Hetero Component info
]
Sites
(80, 80)
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)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
36: DC9 (SOFTWARE)
37: EC1 (SOFTWARE)
38: EC2 (SOFTWARE)
39: EC3 (SOFTWARE)
40: EC4 (SOFTWARE)
41: EC5 (SOFTWARE)
42: EC6 (SOFTWARE)
43: EC7 (SOFTWARE)
44: EC8 (SOFTWARE)
45: EC9 (SOFTWARE)
46: FC1 (SOFTWARE)
47: FC2 (SOFTWARE)
48: FC3 (SOFTWARE)
49: FC4 (SOFTWARE)
50: FC5 (SOFTWARE)
51: FC6 (SOFTWARE)
52: FC7 (SOFTWARE)
53: FC8 (SOFTWARE)
54: FC9 (SOFTWARE)
55: GC1 (SOFTWARE)
56: GC2 (SOFTWARE)
57: GC3 (SOFTWARE)
58: GC4 (SOFTWARE)
59: GC5 (SOFTWARE)
60: GC6 (SOFTWARE)
61: GC7 (SOFTWARE)
62: GC8 (SOFTWARE)
63: GC9 (SOFTWARE)
64: HC1 (SOFTWARE)
65: HC2 (SOFTWARE)
66: HC3 (SOFTWARE)
67: HC4 (SOFTWARE)
68: HC5 (SOFTWARE)
69: HC6 (SOFTWARE)
70: HC7 (SOFTWARE)
71: HC8 (SOFTWARE)
72: HC9 (SOFTWARE)
73: IC1 (SOFTWARE)
74: IC2 (SOFTWARE)
75: IC3 (SOFTWARE)
76: IC4 (SOFTWARE)
77: IC5 (SOFTWARE)
78: IC6 (SOFTWARE)
79: IC7 (SOFTWARE)
80: IC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR A:132 , LEU A:134 , SER A:135 , GLY A:140 , SER A:141 , TRP A:165 , ILE A:166 , THR A:167 , LYS A:210 , ILE A:368 , TYR A:372 , THR A:375 , GLN A:377 , IOD A:421 , HOH A:437 , HOH A:451 , HOH A:469 , ARG B:277 , GLN B:279 , PHE B:280 , VAL B:284 , ASN B:287 , VAL B:290 , GLN B:346 , LEU B:347 , GLY B:349 , GLY B:350 , HOH B:468 , GLN D:288
BINDING SITE FOR RESIDUE FDA A 390
02
AC2
SOFTWARE
IOD A:392
BINDING SITE FOR RESIDUE IOD A 391
03
AC3
SOFTWARE
ASP A:75 , IOD A:391
BINDING SITE FOR RESIDUE IOD A 392
04
AC4
SOFTWARE
ARG A:23
BINDING SITE FOR RESIDUE IOD A 394
05
AC5
SOFTWARE
HOH A:439
BINDING SITE FOR RESIDUE IOD A 396
06
AC6
SOFTWARE
PHE A:47
BINDING SITE FOR RESIDUE IOD A 398
07
AC7
SOFTWARE
LYS A:101 , IOD A:400
BINDING SITE FOR RESIDUE IOD A 399
08
AC8
SOFTWARE
LYS A:101 , HIS A:250 , IOD A:399
BINDING SITE FOR RESIDUE IOD A 400
09
AC9
SOFTWARE
HIS A:250
BINDING SITE FOR RESIDUE IOD A 401
10
BC1
SOFTWARE
SER A:125
BINDING SITE FOR RESIDUE IOD A 405
11
BC2
SOFTWARE
ARG A:137 , SER A:162 , HOH A:527
BINDING SITE FOR RESIDUE IOD A 406
12
BC3
SOFTWARE
ASP A:156
BINDING SITE FOR RESIDUE IOD A 408
13
BC4
SOFTWARE
ARG A:227
BINDING SITE FOR RESIDUE IOD A 409
14
BC5
SOFTWARE
THR A:181
BINDING SITE FOR RESIDUE IOD A 410
15
BC6
SOFTWARE
GLU A:236
BINDING SITE FOR RESIDUE IOD A 412
16
BC7
SOFTWARE
ASP A:286 , GLN A:291 , IOD A:414
BINDING SITE FOR RESIDUE IOD A 413
17
BC8
SOFTWARE
IOD A:413
BINDING SITE FOR RESIDUE IOD A 414
18
BC9
SOFTWARE
ASP A:296 , ARG D:380 , HOH D:431
BINDING SITE FOR RESIDUE IOD A 416
19
CC1
SOFTWARE
ARG A:314
BINDING SITE FOR RESIDUE IOD A 418
20
CC2
SOFTWARE
GLN A:377 , HOH A:461
BINDING SITE FOR RESIDUE IOD A 419
21
CC3
SOFTWARE
GLN A:377 , ARG A:380
BINDING SITE FOR RESIDUE IOD A 420
22
CC4
SOFTWARE
GLU A:373 , FDA A:390 , HOH A:484
BINDING SITE FOR RESIDUE IOD A 421
23
CC5
SOFTWARE
ARG A:277 , GLN A:279 , PHE A:280 , VAL A:284 , ASN A:287 , VAL A:290 , GLN A:346 , LEU A:347 , GLY A:349 , GLY A:350 , HOH A:497 , TYR B:132 , LEU B:134 , SER B:135 , GLY B:140 , SER B:141 , TRP B:165 , THR B:167 , LYS B:210 , ILE B:368 , TYR B:372 , THR B:375 , GLN B:377 , IOD B:398 , HOH B:431 , HOH B:456 , HOH B:467 , HOH B:475 , GLN C:288
BINDING SITE FOR RESIDUE FDA B 390
24
CC6
SOFTWARE
GLN B:377 , ARG B:380
BINDING SITE FOR RESIDUE IOD B 392
25
CC7
SOFTWARE
GLN B:377
BINDING SITE FOR RESIDUE IOD B 393
26
CC8
SOFTWARE
ASP B:296 , ARG C:380
BINDING SITE FOR RESIDUE IOD B 395
27
CC9
SOFTWARE
IOD B:397 , HOH C:491
BINDING SITE FOR RESIDUE IOD B 396
28
DC1
SOFTWARE
SER B:285 , ASP B:286 , IOD B:396
BINDING SITE FOR RESIDUE IOD B 397
29
DC2
SOFTWARE
GLU B:373 , FDA B:390
BINDING SITE FOR RESIDUE IOD B 398
30
DC3
SOFTWARE
ILE B:20 , ARG B:23
BINDING SITE FOR RESIDUE IOD B 400
31
DC4
SOFTWARE
HOH B:527
BINDING SITE FOR RESIDUE IOD B 401
32
DC5
SOFTWARE
IOD B:403
BINDING SITE FOR RESIDUE IOD B 402
33
DC6
SOFTWARE
ASP B:75 , IOD B:402
BINDING SITE FOR RESIDUE IOD B 403
34
DC7
SOFTWARE
GLU B:40 , PHE C:47
BINDING SITE FOR RESIDUE IOD B 407
35
DC8
SOFTWARE
LYS B:101 , HIS B:250
BINDING SITE FOR RESIDUE IOD B 410
36
DC9
SOFTWARE
LYS B:101 , HIS B:250 , IOD B:412
BINDING SITE FOR RESIDUE IOD B 411
37
EC1
SOFTWARE
LYS B:101 , IOD B:411
BINDING SITE FOR RESIDUE IOD B 412
38
EC2
SOFTWARE
ARG B:137 , SER B:162
BINDING SITE FOR RESIDUE IOD B 413
39
EC3
SOFTWARE
THR B:181
BINDING SITE FOR RESIDUE IOD B 414
40
EC4
SOFTWARE
ASP B:156
BINDING SITE FOR RESIDUE IOD B 415
41
EC5
SOFTWARE
ARG B:314 , GLU C:302
BINDING SITE FOR RESIDUE IOD B 417
42
EC6
SOFTWARE
ARG B:314
BINDING SITE FOR RESIDUE IOD B 418
43
EC7
SOFTWARE
GLN B:288 , TYR C:132 , LEU C:134 , SER C:135 , GLY C:140 , SER C:141 , TRP C:165 , ILE C:166 , THR C:167 , LYS C:210 , ILE C:368 , TYR C:372 , THR C:375 , GLN C:377 , IOD C:396 , HOH C:417 , HOH C:428 , HOH C:431 , ARG D:277 , GLN D:279 , PHE D:280 , ARG D:282 , VAL D:284 , ASN D:287 , VAL D:290 , GLN D:346 , LEU D:347 , GLY D:350 , HOH D:430
BINDING SITE FOR RESIDUE FDA C 390
44
EC8
SOFTWARE
ARG B:380 , ASP C:296
BINDING SITE FOR RESIDUE IOD C 391
45
EC9
SOFTWARE
GLN C:377 , ARG C:380
BINDING SITE FOR RESIDUE IOD C 392
46
FC1
SOFTWARE
GLN C:377
BINDING SITE FOR RESIDUE IOD C 393
47
FC2
SOFTWARE
GLU C:138
BINDING SITE FOR RESIDUE IOD C 395
48
FC3
SOFTWARE
GLU C:373 , FDA C:390
BINDING SITE FOR RESIDUE IOD C 396
49
FC4
SOFTWARE
ARG C:314 , HOH C:532
BINDING SITE FOR RESIDUE IOD C 397
50
FC5
SOFTWARE
ARG C:23
BINDING SITE FOR RESIDUE IOD C 398
51
FC6
SOFTWARE
HOH C:415
BINDING SITE FOR RESIDUE IOD C 400
52
FC7
SOFTWARE
GLY C:281 , HOH C:619
BINDING SITE FOR RESIDUE IOD C 403
53
FC8
SOFTWARE
LYS C:101 , IOD C:406
BINDING SITE FOR RESIDUE IOD C 405
54
FC9
SOFTWARE
LYS C:101 , HIS C:250 , IOD C:405
BINDING SITE FOR RESIDUE IOD C 406
55
GC1
SOFTWARE
LYS C:101 , HIS C:250
BINDING SITE FOR RESIDUE IOD C 407
56
GC2
SOFTWARE
ARG C:137 , SER C:162
BINDING SITE FOR RESIDUE IOD C 409
57
GC3
SOFTWARE
THR C:181
BINDING SITE FOR RESIDUE IOD C 410
58
GC4
SOFTWARE
SER C:285 , ASP C:286
BINDING SITE FOR RESIDUE IOD C 411
59
GC5
SOFTWARE
GLN A:288 , ARG C:277 , GLN C:279 , PHE C:280 , ARG C:282 , VAL C:284 , ASN C:287 , VAL C:290 , GLN C:346 , LEU C:347 , GLY C:350 , TYR D:132 , LEU D:134 , SER D:135 , GLY D:140 , SER D:141 , TRP D:165 , ILE D:166 , THR D:167 , LYS D:210 , ILE D:368 , TYR D:372 , THR D:375 , GLN D:377 , IOD D:410 , HOH D:424 , HOH D:438 , HOH D:464 , HOH D:492
BINDING SITE FOR RESIDUE FDA D 390
60
GC6
SOFTWARE
ARG D:385
BINDING SITE FOR RESIDUE IOD D 391
61
GC7
SOFTWARE
SER D:285 , ASP D:286
BINDING SITE FOR RESIDUE IOD D 393
62
GC8
SOFTWARE
PRO D:358 , HOH D:421 , HOH D:602
BINDING SITE FOR RESIDUE IOD D 395
63
GC9
SOFTWARE
GLN D:377
BINDING SITE FOR RESIDUE IOD D 396
64
HC1
SOFTWARE
GLN D:377 , HOH D:459
BINDING SITE FOR RESIDUE IOD D 397
65
HC2
SOFTWARE
ARG D:314 , HOH D:449
BINDING SITE FOR RESIDUE IOD D 398
66
HC3
SOFTWARE
ARG D:23
BINDING SITE FOR RESIDUE IOD D 399
67
HC4
SOFTWARE
ARG A:380 , ASP D:296
BINDING SITE FOR RESIDUE IOD D 401
68
HC5
SOFTWARE
ARG C:277 , LYS C:278 , GLU D:138
BINDING SITE FOR RESIDUE IOD D 402
69
HC6
SOFTWARE
IOD D:404
BINDING SITE FOR RESIDUE IOD D 403
70
HC7
SOFTWARE
ASP D:75 , IOD D:403
BINDING SITE FOR RESIDUE IOD D 404
71
HC8
SOFTWARE
LYS D:101 , IOD D:408
BINDING SITE FOR RESIDUE IOD D 407
72
HC9
SOFTWARE
LYS D:101 , HIS D:250 , IOD D:407
BINDING SITE FOR RESIDUE IOD D 408
73
IC1
SOFTWARE
HIS D:250
BINDING SITE FOR RESIDUE IOD D 409
74
IC2
SOFTWARE
GLU D:373 , FDA D:390
BINDING SITE FOR RESIDUE IOD D 410
75
IC3
SOFTWARE
TRP D:174 , HOH D:535
BINDING SITE FOR RESIDUE IOD D 411
76
IC4
SOFTWARE
ARG D:137 , SER D:162
BINDING SITE FOR RESIDUE IOD D 412
77
IC5
SOFTWARE
ASP D:231
BINDING SITE FOR RESIDUE IOD D 413
78
IC6
SOFTWARE
ASP D:156
BINDING SITE FOR RESIDUE IOD D 414
79
IC7
SOFTWARE
THR D:181
BINDING SITE FOR RESIDUE IOD D 416
80
IC8
SOFTWARE
GLY D:281 , HOH D:555
BINDING SITE FOR RESIDUE IOD D 417
[
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
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
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.
(no "Exon" information available for biological units yet)
SCOP Domains
(2, 8)
Info
All SCOP Domains
1a: SCOP_d3pfda2 (A:239-389)
1b: SCOP_d3pfdb2 (B:239-389)
1c: SCOP_d3pfdc2 (C:239-389)
1d: SCOP_d3pfdd2 (D:239-389)
2a: SCOP_d3pfda1 (A:18-238)
2b: SCOP_d3pfdb1 (B:18-238)
2c: SCOP_d3pfdc1 (C:19-238)
2d: SCOP_d3pfdd1 (D:18-238)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Bromodomain-like
(339)
Superfamily
:
Acyl-CoA dehydrogenase C-terminal domain-like
(61)
Family
:
automated matches
(29)
Protein domain
:
automated matches
(29)
Mycobacterium thermoresistibile [TaxId: 1797]
(2)
1a
d3pfda2
A:239-389
1b
d3pfdb2
B:239-389
1c
d3pfdc2
C:239-389
1d
d3pfdd2
D:239-389
Class
:
Multi-domain proteins (alpha and beta)
(2421)
Fold
:
Acyl-CoA dehydrogenase NM domain-like
(61)
Superfamily
:
Acyl-CoA dehydrogenase NM domain-like
(61)
Family
:
automated matches
(26)
Protein domain
:
automated matches
(26)
Mycobacterium thermoresistibile [TaxId: 1797]
(2)
2a
d3pfda1
A:18-238
2b
d3pfdb1
B:18-238
2c
d3pfdc1
C:19-238
2d
d3pfdd1
D:18-238
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
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
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...
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RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
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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
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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") .
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Asym.Unit (480 KB)
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Header - Biol.Unit 1
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Header - Biol.Unit 3
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Header - Biol.Unit 4
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Header - Biol.Unit 5
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