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1T60
Biol. Unit 1
Info
Asym.Unit (909 KB)
Biol.Unit 1 (235 KB)
Biol.Unit 2 (238 KB)
Biol.Unit 3 (237 KB)
Biol.Unit 4 (238 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF TYPE IV COLLAGEN NC1 DOMAIN FROM BOVINE LENS CAPSULE
Authors
:
R. M. Vanacore, S. Shanmugasundararaj, D. B. Friedman, O. Bondar, B. G. Hudson, M. Sundaramoorthy
Date
:
05 May 04 (Deposition) - 21 Sep 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.50
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X
Biol. Unit 1: A,B,C,D,E,F (1x)
Biol. Unit 2: G,H,I,J,K,L (1x)
Biol. Unit 3: M,N,O,P,Q,R (1x)
Biol. Unit 4: S,T,U,V,W,X (1x)
Keywords
:
Basement Membrane, Type Iv Collagen, Nc1 Domain, Structural Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. M. Vanacore, S. Shanmugasundararaj, D. B. Friedman, O. Bondar, B. G. Hudson, M. Sundaramoorthy
The Alpha1. Alpha2 Network Of Collagen Iv. Reinforced Stabilization Of The Noncollagenous Domain-1 By Noncovalent Forces And The Absence Of Met-Lys Cross-Links
J. Biol. Chem. V. 279 44723 2004
(for further references see the
PDB file header
)
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
1e: CHLORIDE ION (CLe)
1f: CHLORIDE ION (CLf)
1g: CHLORIDE ION (CLg)
1h: CHLORIDE ION (CLh)
1i: CHLORIDE ION (CLi)
1j: CHLORIDE ION (CLj)
1k: CHLORIDE ION (CLk)
1l: CHLORIDE ION (CLl)
1m: CHLORIDE ION (CLm)
1n: CHLORIDE ION (CLn)
1o: CHLORIDE ION (CLo)
1p: CHLORIDE ION (CLp)
2a: POTASSIUM ION (Ka)
2b: POTASSIUM ION (Kb)
2c: POTASSIUM ION (Kc)
2d: POTASSIUM ION (Kd)
2e: POTASSIUM ION (Ke)
2f: POTASSIUM ION (Kf)
2g: POTASSIUM ION (Kg)
2h: POTASSIUM ION (Kh)
2i: POTASSIUM ION (Ki)
2j: POTASSIUM ION (Kj)
2k: POTASSIUM ION (Kk)
2l: POTASSIUM ION (Kl)
2m: POTASSIUM ION (Km)
2n: POTASSIUM ION (Kn)
2o: POTASSIUM ION (Ko)
2p: POTASSIUM ION (Kp)
3a: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDa)
3b: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDb)
3c: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDc)
3d: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDd)
3e: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDe)
3f: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDf)
3g: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDg)
3h: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDh)
3i: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDi)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
-1
Ligand/Ion
CHLORIDE ION
2
K
-1
Ligand/Ion
POTASSIUM ION
3
MPD
2
Ligand/Ion
(4S)-2-METHYL-2,4-PENTANEDIOL
[
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Sites
(10, 10)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC9 (SOFTWARE)
04: BC1 (SOFTWARE)
05: BC8 (SOFTWARE)
06: BC9 (SOFTWARE)
07: CC1 (SOFTWARE)
08: CC2 (SOFTWARE)
09: DC6 (SOFTWARE)
10: EC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR A:189 , TYR C:63 , ASN C:65 , ALA E:186
BINDING SITE FOR RESIDUE K C 5101
02
AC2
SOFTWARE
ALA B:186 , TYR D:189 , TYR F:63 , ASN F:65
BINDING SITE FOR RESIDUE K D 5102
03
AC9
SOFTWARE
ASN B:66 , HOH B:5142 , TYR C:187 , TYR F:183 , ALA F:184
BINDING SITE FOR RESIDUE K B 5109
04
BC1
SOFTWARE
TYR C:183 , ALA C:184 , ASN E:66 , TYR F:187
BINDING SITE FOR RESIDUE K C 5110
05
BC8
SOFTWARE
ALA A:74 , ARG A:76 , ASP A:78 , HOH A:5203 , HOH D:5256
BINDING SITE FOR RESIDUE CL A 5201
06
BC9
SOFTWARE
ALA C:73 , ARG C:75 , ASN C:76 , ASP C:77 , HOH C:5209 , HOH C:5221
BINDING SITE FOR RESIDUE CL C 5202
07
CC1
SOFTWARE
HOH A:5246 , ALA D:74 , ARG D:76 , ASN D:77 , ASP D:78 , HOH D:5211
BINDING SITE FOR RESIDUE CL D 5203
08
CC2
SOFTWARE
ALA F:73 , ARG F:75 , ASP F:77 , HOH F:5224 , HOH F:5225
BINDING SITE FOR RESIDUE CL F 5204
09
DC6
SOFTWARE
HIS A:121 , GLN A:129 , PRO A:131
BINDING SITE FOR RESIDUE MPD A 5001
10
EC3
SOFTWARE
MET D:89 , MET D:93 , TYR D:185 , ALA D:186 , HOH D:5262 , PRO F:66 , GLY F:67
BINDING SITE FOR RESIDUE MPD D 5007
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 5)
Info
All PROSITE Patterns/Profiles
1: NC1_IV (C:4-225)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
NC1_IV
PS51403
Collagen IV carboxyl-terminal non-collagenous (NC1) domain profile.
CO4A2_BOVIN
4-227
1
C:4-225
-
-
-
-
-
CO4A1_BOVIN
5-229
4
A:5-227
B:5-228
D:5-227
E:5-228
-
-
-
-
-
-
-
-
-
-
-
[
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 48)
Info
All SCOP Domains
1a: SCOP_d1t60a1 (A:6-114)
1b: SCOP_d1t60a2 (A:115-225)
1c: SCOP_d1t60b1 (B:6-114)
1d: SCOP_d1t60b2 (B:115-225)
1e: SCOP_d1t60c1 (C:3-114)
1f: SCOP_d1t60c2 (C:115-225)
1g: SCOP_d1t60d1 (D:6-114)
1h: SCOP_d1t60d2 (D:115-225)
1i: SCOP_d1t60e1 (E:6-114)
1j: SCOP_d1t60e2 (E:115-225)
1k: SCOP_d1t60f1 (F:5-114)
1l: SCOP_d1t60f2 (F:115-226)
1m: SCOP_d1t60g1 (G:6-114)
1n: SCOP_d1t60g2 (G:115-225)
1o: SCOP_d1t60h1 (H:6-114)
1p: SCOP_d1t60h2 (H:115-225)
1q: SCOP_d1t60i1 (I:2-114)
1r: SCOP_d1t60i2 (I:115-226)
1s: SCOP_d1t60j1 (J:6-114)
1t: SCOP_d1t60j2 (J:115-225)
1u: SCOP_d1t60k1 (K:6-114)
1v: SCOP_d1t60k2 (K:115-225)
1w: SCOP_d1t60l1 (L:6-114)
1x: SCOP_d1t60l2 (L:115-226)
1y: SCOP_d1t60m1 (M:6-114)
1z: SCOP_d1t60m2 (M:115-225)
1aa: SCOP_d1t60n1 (N:6-114)
1ab: SCOP_d1t60n2 (N:115-225)
1ac: SCOP_d1t60o1 (O:3-114)
1ad: SCOP_d1t60o2 (O:115-226)
1ae: SCOP_d1t60p1 (P:6-114)
1af: SCOP_d1t60p2 (P:115-225)
1ag: SCOP_d1t60q1 (Q:6-114)
1ah: SCOP_d1t60q2 (Q:115-225)
1ai: SCOP_d1t60r1 (R:3-114)
1aj: SCOP_d1t60r2 (R:115-226)
1ak: SCOP_d1t60s1 (S:6-114)
1al: SCOP_d1t60s2 (S:115-225)
1am: SCOP_d1t60t1 (T:6-114)
1an: SCOP_d1t60t2 (T:115-225)
1ao: SCOP_d1t60u1 (U:3-114)
1ap: SCOP_d1t60u2 (U:115-226)
1aq: SCOP_d1t60v1 (V:6-114)
1ar: SCOP_d1t60v2 (V:115-225)
1as: SCOP_d1t60w1 (W:6-114)
1at: SCOP_d1t60w2 (W:115-225)
1au: SCOP_d1t60x1 (X:4-114)
1av: SCOP_d1t60x2 (X:115-226)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
C-type lectin-like
(322)
Superfamily
:
C-type lectin-like
(322)
Family
:
Noncollagenous (NC1) domain of collagen IV
(4)
Protein domain
:
Noncollagenous (NC1) domain of collagen IV
(4)
Cow (Bos taurus) [TaxId: 9913]
(3)
1a
d1t60a1
A:6-114
1b
d1t60a2
A:115-225
1c
d1t60b1
B:6-114
1d
d1t60b2
B:115-225
1e
d1t60c1
C:3-114
1f
d1t60c2
C:115-225
1g
d1t60d1
D:6-114
1h
d1t60d2
D:115-225
1i
d1t60e1
E:6-114
1j
d1t60e2
E:115-225
1k
d1t60f1
F:5-114
1l
d1t60f2
F:115-226
1m
d1t60g1
G:6-114
1n
d1t60g2
G:115-225
1o
d1t60h1
H:6-114
1p
d1t60h2
H:115-225
1q
d1t60i1
I:2-114
1r
d1t60i2
I:115-226
1s
d1t60j1
J:6-114
1t
d1t60j2
J:115-225
1u
d1t60k1
K:6-114
1v
d1t60k2
K:115-225
1w
d1t60l1
L:6-114
1x
d1t60l2
L:115-226
1y
d1t60m1
M:6-114
1z
d1t60m2
M:115-225
1aa
d1t60n1
N:6-114
1ab
d1t60n2
N:115-225
1ac
d1t60o1
O:3-114
1ad
d1t60o2
O:115-226
1ae
d1t60p1
P:6-114
1af
d1t60p2
P:115-225
1ag
d1t60q1
Q:6-114
1ah
d1t60q2
Q:115-225
1ai
d1t60r1
R:3-114
1aj
d1t60r2
R:115-226
1ak
d1t60s1
S:6-114
1al
d1t60s2
S:115-225
1am
d1t60t1
T:6-114
1an
d1t60t2
T:115-225
1ao
d1t60u1
U:3-114
1ap
d1t60u2
U:115-226
1aq
d1t60v1
V:6-114
1ar
d1t60v2
V:115-225
1as
d1t60w1
W:6-114
1at
d1t60w2
W:115-225
1au
d1t60x1
X:4-114
1av
d1t60x2
X:115-226
[
close SCOP info
]
CATH Domains
(1, 24)
Info
all CATH domains
1a: CATH_1t60D00 (D:4-227)
1b: CATH_1t60E00 (E:5-228)
1c: CATH_1t60B00 (B:4-228)
1d: CATH_1t60P00 (P:4-228)
1e: CATH_1t60S00 (S:4-228)
1f: CATH_1t60A00 (A:5-227)
1g: CATH_1t60M00 (M:5-227)
1h: CATH_1t60H00 (H:3-229)
1i: CATH_1t60T00 (T:3-229)
1j: CATH_1t60G00 (G:2-229)
1k: CATH_1t60J00 (J:4-227)
1l: CATH_1t60O00 (O:3-226)
1m: CATH_1t60R00 (R:3-226)
1n: CATH_1t60K00 (K:4-227)
1o: CATH_1t60U00 (U:3-226)
1p: CATH_1t60I00 (I:2-226)
1q: CATH_1t60C00 (C:3-225)
1r: CATH_1t60X00 (X:4-226)
1s: CATH_1t60F00 (F:5-226)
1t: CATH_1t60L00 (L:6-226)
1u: CATH_1t60N00 (N:6-229)
1v: CATH_1t60Q00 (Q:4-227)
1w: CATH_1t60V00 (V:4-227)
1x: CATH_1t60W00 (W:4-227)
View:
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)
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)
Architectures
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)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Complex
(381)
Topology
:
Noncollagenous (NC1) domain of collagen IV
(4)
Homologous Superfamily
:
Noncollagenous (NC1) domain of collagen IV
(4)
Cattle (Bos taurus)
(3)
1a
1t60D00
D:4-227
1b
1t60E00
E:5-228
1c
1t60B00
B:4-228
1d
1t60P00
P:4-228
1e
1t60S00
S:4-228
1f
1t60A00
A:5-227
1g
1t60M00
M:5-227
1h
1t60H00
H:3-229
1i
1t60T00
T:3-229
1j
1t60G00
G:2-229
1k
1t60J00
J:4-227
1l
1t60O00
O:3-226
1m
1t60R00
R:3-226
1n
1t60K00
K:4-227
1o
1t60U00
U:3-226
1p
1t60I00
I:2-226
1q
1t60C00
C:3-225
1r
1t60X00
X:4-226
1s
1t60F00
F:5-226
1t
1t60L00
L:6-226
1u
1t60N00
N:6-229
1v
1t60Q00
Q:4-227
1w
1t60V00
V:4-227
1x
1t60W00
W:4-227
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Asym.Unit (909 KB)
Header - Asym.Unit
Biol.Unit 1 (235 KB)
Header - Biol.Unit 1
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