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3RJL
Asym. Unit
Info
Asym.Unit (667 KB)
Biol.Unit 1 (91 KB)
Biol.Unit 10 (174 KB)
Biol.Unit 11 (172 KB)
Biol.Unit 12 (171 KB)
Biol.Unit 2 (92 KB)
Biol.Unit 3 (92 KB)
Biol.Unit 4 (92 KB)
Biol.Unit 5 (92 KB)
Biol.Unit 6 (91 KB)
Biol.Unit 7 (91 KB)
Biol.Unit 8 (90 KB)
Biol.Unit 9 (172 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF 1-PYRROLINE-5-CARBOXYLATE DEHYDROGENASE FROM BACILLUS LICHENIFORMIS (TARGET NYSGRC-000337)
Authors
:
Y. Patskovsky, R. Toro, R. Foti, R. D. Seidel, S. C. Almo, New York Stru Genomics Research Consortium (Nysgrc)
Date
:
15 Apr 11 (Deposition) - 27 Apr 11 (Release) - 27 Apr 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Biol. Unit 5: E (1x)
Biol. Unit 6: F (1x)
Biol. Unit 7: G (1x)
Biol. Unit 8: H (1x)
Biol. Unit 9: A,D (1x)
Biol. Unit 10: B,C (1x)
Biol. Unit 11: E,G (1x)
Biol. Unit 12: F,H (1x)
Keywords
:
Proline Oxidation, Redox Control, Apoptosis, Nad Binding, Oxidoreductase, Psi-Biology, Protein Structure Initiative, New York Structural Genomics Research Consortium (Nysgrc)
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Y. Patskovsky, R. Toro, R. Foti, R. D. Seidel, S. C. Almo
Crystal Structure Of 1-Pyrroline-5-Carboxylate Dehydrogenas From Bacillus Licheniformis
To Be Published
[
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Hetero Components
(2, 55)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
1b: ACETATE ION (ACTb)
1c: ACETATE ION (ACTc)
1d: ACETATE ION (ACTd)
1e: ACETATE ION (ACTe)
1f: ACETATE ION (ACTf)
1g: ACETATE ION (ACTg)
1h: ACETATE ION (ACTh)
2a: CADMIUM ION (CDa)
2aa: CADMIUM ION (CDaa)
2ab: CADMIUM ION (CDab)
2ac: CADMIUM ION (CDac)
2ad: CADMIUM ION (CDad)
2ae: CADMIUM ION (CDae)
2af: CADMIUM ION (CDaf)
2ag: CADMIUM ION (CDag)
2ah: CADMIUM ION (CDah)
2ai: CADMIUM ION (CDai)
2aj: CADMIUM ION (CDaj)
2ak: CADMIUM ION (CDak)
2al: CADMIUM ION (CDal)
2am: CADMIUM ION (CDam)
2an: CADMIUM ION (CDan)
2ao: CADMIUM ION (CDao)
2ap: CADMIUM ION (CDap)
2aq: CADMIUM ION (CDaq)
2ar: CADMIUM ION (CDar)
2as: CADMIUM ION (CDas)
2at: CADMIUM ION (CDat)
2au: CADMIUM ION (CDau)
2b: CADMIUM ION (CDb)
2c: CADMIUM ION (CDc)
2d: CADMIUM ION (CDd)
2e: CADMIUM ION (CDe)
2f: CADMIUM ION (CDf)
2g: CADMIUM ION (CDg)
2h: CADMIUM ION (CDh)
2i: CADMIUM ION (CDi)
2j: CADMIUM ION (CDj)
2k: CADMIUM ION (CDk)
2l: CADMIUM ION (CDl)
2m: CADMIUM ION (CDm)
2n: CADMIUM ION (CDn)
2o: CADMIUM ION (CDo)
2p: CADMIUM ION (CDp)
2q: CADMIUM ION (CDq)
2r: CADMIUM ION (CDr)
2s: CADMIUM ION (CDs)
2t: CADMIUM ION (CDt)
2u: CADMIUM ION (CDu)
2v: CADMIUM ION (CDv)
2w: CADMIUM ION (CDw)
2x: CADMIUM ION (CDx)
2y: CADMIUM ION (CDy)
2z: CADMIUM ION (CDz)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
8
Ligand/Ion
ACETATE ION
2
CD
47
Ligand/Ion
CADMIUM ION
[
close Hetero Component info
]
Sites
(55, 55)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:343 , HOH A:557 , HOH A:587 , GLU B:343
BINDING SITE FOR RESIDUE CD A 539
02
AC2
SOFTWARE
ASP A:393
BINDING SITE FOR RESIDUE CD A 540
03
AC3
SOFTWARE
GLU A:352 , HOH A:803 , GLU B:16 , HOH B:802
BINDING SITE FOR RESIDUE CD A 541
04
AC4
SOFTWARE
SER A:429 , GLU A:433
BINDING SITE FOR RESIDUE CD A 542
05
AC5
SOFTWARE
ASP A:432 , HOH A:634 , HOH A:635 , HOH A:636 , ASP D:455 , CD D:539 , ACT D:544 , HOH D:797
BINDING SITE FOR RESIDUE CD A 543
06
AC6
SOFTWARE
ASP A:455 , GLU D:436
BINDING SITE FOR RESIDUE CD A 544
07
AC7
SOFTWARE
GLU A:224 , ACT A:548 , LYS D:108
BINDING SITE FOR RESIDUE CD A 545
08
AC8
SOFTWARE
ASP A:94 , GLU A:96
BINDING SITE FOR RESIDUE CD A 546
09
AC9
SOFTWARE
GLU A:298 , ASP D:299 , ASN D:453 , HIS D:456
BINDING SITE FOR RESIDUE CD A 547
10
BC1
SOFTWARE
LYS A:108 , ARG A:111 , GLU A:224 , CD A:545 , GLU D:224 , HOH D:799
BINDING SITE FOR RESIDUE ACT A 548
11
BC2
SOFTWARE
LYS B:108 , GLU B:224 , ACT B:543 , HOH B:638 , HOH B:639 , HOH B:801
BINDING SITE FOR RESIDUE CD B 539
12
BC3
SOFTWARE
GLU B:352 , HOH B:662 , HOH B:663 , HOH B:664
BINDING SITE FOR RESIDUE CD B 540
13
BC4
SOFTWARE
ASP B:297 , GLU B:298 , HIS B:456 , GLU C:298
BINDING SITE FOR RESIDUE CD B 541
14
BC5
SOFTWARE
GLU B:400 , HOH B:659 , HOH B:660 , HOH B:661
BINDING SITE FOR RESIDUE CD B 542
15
BC6
SOFTWARE
LYS B:108 , GLU B:224 , CD B:539 , HOH B:801
BINDING SITE FOR RESIDUE ACT B 543
16
BC7
SOFTWARE
LYS B:108 , HOH B:800 , GLU C:224 , HOH C:678
BINDING SITE FOR RESIDUE CD C 539
17
BC8
SOFTWARE
GLU C:343
BINDING SITE FOR RESIDUE CD C 540
18
BC9
SOFTWARE
GLU C:433
BINDING SITE FOR RESIDUE CD C 541
19
CC1
SOFTWARE
GLU C:23 , HOH C:677 , HOH C:812 , GLU D:16 , CD D:543
BINDING SITE FOR RESIDUE CD C 542
20
CC2
SOFTWARE
ASP C:74 , ASP G:74
BINDING SITE FOR RESIDUE CD C 543
21
CC3
SOFTWARE
ASP C:94 , GLU C:96
BINDING SITE FOR RESIDUE CD C 544
22
CC4
SOFTWARE
GLU C:162 , HOH C:825 , HOH C:826
BINDING SITE FOR RESIDUE CD C 545
23
CC5
SOFTWARE
ASP C:374 , HOH C:827 , HOH C:828 , HOH C:829
BINDING SITE FOR RESIDUE CD C 546
24
CC6
SOFTWARE
ASP C:432 , CD C:549 , HOH C:813 , HOH C:814 , HOH C:816 , HOH C:830
BINDING SITE FOR RESIDUE CD C 547
25
CC7
SOFTWARE
GLU B:436 , ASP C:455
BINDING SITE FOR RESIDUE CD C 548
26
CC8
SOFTWARE
ASP B:432 , HIS C:456 , CD C:547 , HOH C:816 , HOH C:817 , HOH C:818
BINDING SITE FOR RESIDUE CD C 549
27
CC9
SOFTWARE
HIS A:456 , CD A:543 , ASP D:432 , ACT D:544 , HOH D:797
BINDING SITE FOR RESIDUE CD D 539
28
DC1
SOFTWARE
GLU D:224 , HOH D:716 , HOH D:718 , HOH D:798 , HOH D:799
BINDING SITE FOR RESIDUE CD D 540
29
DC2
SOFTWARE
ASP A:432 , ASP D:455
BINDING SITE FOR RESIDUE CD D 541
30
DC3
SOFTWARE
HOH A:550 , ASP D:94 , GLU D:96 , HOH D:571
BINDING SITE FOR RESIDUE CD D 542
31
DC4
SOFTWARE
GLU C:16 , CD C:542 , ARG D:19
BINDING SITE FOR RESIDUE CD D 543
32
DC5
SOFTWARE
ARG A:459 , CD A:543 , HOH A:635 , ARG D:459 , CD D:539
BINDING SITE FOR RESIDUE ACT D 544
33
DC6
SOFTWARE
ASP E:432 , ACT E:544 , ACT E:545 , HOH E:791 , HIS G:456 , HOH G:809
BINDING SITE FOR RESIDUE CD E 539
34
DC7
SOFTWARE
GLU E:352 , HOH E:794 , GLU F:16 , HOH F:795
BINDING SITE FOR RESIDUE CD E 540
35
DC8
SOFTWARE
GLU E:343 , HOH E:555 , GLU F:343 , HOH F:583
BINDING SITE FOR RESIDUE CD E 541
36
DC9
SOFTWARE
GLU E:224 , HOH E:819 , HOH E:820 , HOH E:821
BINDING SITE FOR RESIDUE CD E 542
37
EC1
SOFTWARE
GLU E:436 , ASP G:455
BINDING SITE FOR RESIDUE CD E 543
38
EC2
SOFTWARE
ASP E:432 , HIS E:456 , CD E:539 , HOH E:791 , GLU G:298 , ASN G:453 , HIS G:456 , HOH G:808
BINDING SITE FOR RESIDUE ACT E 544
39
EC3
SOFTWARE
ASP E:432 , CD E:539 , ASP G:455 , HIS G:456 , ARG G:459 , HOH G:807 , HOH G:809
BINDING SITE FOR RESIDUE ACT E 545
40
EC4
SOFTWARE
ACT F:543 , ACT F:544 , HOH F:824 , CD H:539 , ACT H:542
BINDING SITE FOR RESIDUE CD F 539
41
EC5
SOFTWARE
GLU F:224 , LYS H:108
BINDING SITE FOR RESIDUE CD F 540
42
EC6
SOFTWARE
ASP F:393
BINDING SITE FOR RESIDUE CD F 541
43
EC7
SOFTWARE
ASP F:455
BINDING SITE FOR RESIDUE CD F 542
44
EC8
SOFTWARE
GLU F:298 , HIS F:456 , CD F:539 , HOH F:824 , HIS H:456 , CD H:539
BINDING SITE FOR RESIDUE ACT F 543
45
EC9
SOFTWARE
ASP F:432 , ARG F:459 , CD F:539 , HOH F:824 , ASP H:455 , ACT H:542
BINDING SITE FOR RESIDUE ACT F 544
46
FC1
SOFTWARE
GLU G:433
BINDING SITE FOR RESIDUE CD G 539
47
FC2
SOFTWARE
ASP E:299 , HIS E:456 , HOH E:550 , GLU G:298 , HOH G:806
BINDING SITE FOR RESIDUE CD G 540
48
FC3
SOFTWARE
ASP G:432 , HOH G:807 , HOH G:808 , HOH G:809
BINDING SITE FOR RESIDUE CD G 541
49
FC4
SOFTWARE
GLU G:16 , CD G:543 , HOH H:823
BINDING SITE FOR RESIDUE CD G 542
50
FC5
SOFTWARE
GLU G:23 , CD G:542 , HOH G:822 , GLU H:16 , HOH H:823
BINDING SITE FOR RESIDUE CD G 543
51
FC6
SOFTWARE
ASP G:94 , GLU G:96
BINDING SITE FOR RESIDUE CD G 544
52
FC7
SOFTWARE
HIS F:456 , CD F:539 , ACT F:543 , ASP H:432 , ACT H:542
BINDING SITE FOR RESIDUE CD H 539
53
FC8
SOFTWARE
GLU H:224 , HOH H:597
BINDING SITE FOR RESIDUE CD H 540
54
FC9
SOFTWARE
ASP H:94 , GLU H:96 , HOH H:547
BINDING SITE FOR RESIDUE CD H 541
55
GC1
SOFTWARE
HIS F:456 , ARG F:459 , CD F:539 , ACT F:544 , ARG H:459 , CD H:539
BINDING SITE FOR RESIDUE ACT H 542
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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]
PROSITE Patterns/Profiles
(2, 16)
Info
All PROSITE Patterns/Profiles
1: ALDEHYDE_DEHYDR_GLU (A:286-293,B:286-293,C:286-293,D:28...)
2: ALDEHYDE_DEHYDR_CYS (A:314-325,B:314-325,C:314-325,D:31...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ALDEHYDE_DEHYDR_GLU
PS00687
Aldehyde dehydrogenases glutamic acid active site.
ROCA_BACLD
286-293
8
A:286-293
B:286-293
C:286-293
D:286-293
E:286-293
F:286-293
G:286-293
H:286-293
2
ALDEHYDE_DEHYDR_CYS
PS00070
Aldehyde dehydrogenases cysteine active site.
ROCA_BACLD
314-325
8
A:314-325
B:314-325
C:314-325
D:314-325
E:314-325
F:314-325
G:314-325
H:314-325
[
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]
Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 8)
Info
All SCOP Domains
1a: SCOP_d3rjla_ (A:)
1b: SCOP_d3rjlb_ (B:)
1c: SCOP_d3rjlc_ (C:)
1d: SCOP_d3rjld_ (D:)
1e: SCOP_d3rjle_ (E:)
1f: SCOP_d3rjlf_ (F:)
1g: SCOP_d3rjlg_ (G:)
1h: SCOP_d3rjlh_ (H:)
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(
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
ALDH-like
(168)
Superfamily
:
ALDH-like
(168)
Family
:
automated matches
(88)
Protein domain
:
automated matches
(88)
Bacillus licheniformis [TaxId: 279010]
(1)
1a
d3rjla_
A:
1b
d3rjlb_
B:
1c
d3rjlc_
C:
1d
d3rjld_
D:
1e
d3rjle_
E:
1f
d3rjlf_
F:
1g
d3rjlg_
G:
1h
d3rjlh_
H:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(1, 8)
Info
all PFAM domains
1a: PFAM_Aldedh_3rjlH01 (H:46-512)
1b: PFAM_Aldedh_3rjlH02 (H:46-512)
1c: PFAM_Aldedh_3rjlH03 (H:46-512)
1d: PFAM_Aldedh_3rjlH04 (H:46-512)
1e: PFAM_Aldedh_3rjlH05 (H:46-512)
1f: PFAM_Aldedh_3rjlH06 (H:46-512)
1g: PFAM_Aldedh_3rjlH07 (H:46-512)
1h: PFAM_Aldedh_3rjlH08 (H:46-512)
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Clans
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)
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(
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(
)
Organisms
(
)
(
)
Clan
:
ALDH-like
(49)
Family
:
Aldedh
(45)
Bacillus licheniformis (strain DSM 13 / ATCC 14580)
(1)
1a
Aldedh-3rjlH01
H:46-512
1b
Aldedh-3rjlH02
H:46-512
1c
Aldedh-3rjlH03
H:46-512
1d
Aldedh-3rjlH04
H:46-512
1e
Aldedh-3rjlH05
H:46-512
1f
Aldedh-3rjlH06
H:46-512
1g
Aldedh-3rjlH07
H:46-512
1h
Aldedh-3rjlH08
H:46-512
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