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1YCP
Biol. Unit 1
Info
Asym.Unit (106 KB)
Biol.Unit 1 (52 KB)
Biol.Unit 2 (51 KB)
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Title
:
THE CRYSTAL STRUCTURE OF FIBRINOGEN-AA PEPTIDE 1-23 (F8Y) BOUND TO BOVINE THROMBIN EXPLAINS WHY THE MUTATION OF PHE-8 TO TYROSINE STRONGLY INHIBITS NORMAL CLEAVAGE AT ARGININE-16
Authors
:
M. G. Malkowski, B. F. P. Edwards
Date
:
01 May 97 (Deposition) - 06 May 98 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : F,H,J,K,L,M,N
Biol. Unit 1: F,H,L (1x)
Biol. Unit 2: J,K,M,N (1x)
Keywords
:
Fibrinopeptide-A, Complex (Serine Protease-Peptide), Thrombin, Hydrolase-Hydrolase Substrate Complex
(Keyword Search:
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Reference
:
M. G. Malkowski, P. D. Martin, S. T. Lord, B. F. Edwards
Crystal Structure Of Fibrinogen-Aalpha Peptide 1-23 (F8Y) Bound To Bovine Thrombin Explains Why The Mutation Of Phe-8 To Tyrosine Strongly Inhibits Normal Cleavage At Arg-16.
Biochem. J. V. 326 815 1997
(for further references see the
PDB file header
)
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Hetero Components
(0, 0)
Info
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
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Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HOH F:450 , HOH F:481 , HOH F:482 , HOH F:668 , LEU H:41 , HIS H:57 , TYR H:60A , TRP H:96 , LYS H:97 , GLU H:97A , LEU H:99 , ILE H:174 , ASP H:189 , ALA H:190 , CYS H:191 , GLU H:192 , GLY H:193 , SER H:195 , SER H:214 , TRP H:215 , GLY H:216 , GLY H:219 , HOH H:411
BINDING SITE FOR CHAIN F OF FIBRINOPEPTIDE A- ALPHA
2
AC2
SOFTWARE
TRP H:60D , HOH H:504 , HIS K:57 , LYS K:97 , GLU K:97A , HOH K:442 , HOH K:495 , ILE M:174 , ASP M:189 , GLU M:192 , GLY M:193 , SER M:195 , SER M:214 , TRP M:215 , GLY M:216 , GLY M:219
BINDING SITE FOR CHAIN N OF FIBRINOPEPTIDE A- ALPHA
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SAPs(SNPs)/Variants
(4, 4)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_THRB_BOVIN_001 (D222N, chain H, )
2: VAR_002392 (R316C, chain F, )
3: VAR_002393 (R316H, chain F, )
4: VAR_002394 (P318L, chain F, )
View:
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dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_THRB_BOVIN_001
*
D
600
N
THRB_BOVIN
---
---
H
D
222
N
2
UniProt
VAR_002392
R
35
C
FIBA_HUMAN
Disease (DYSFIBRIN)
---
F
R
316
C
3
UniProt
VAR_002393
R
35
H
FIBA_HUMAN
Polymorphism
---
F
R
316
H
4
UniProt
VAR_002394
P
37
L
FIBA_HUMAN
Unclassified
---
F
P
318
L
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(3, 3)
Info
All PROSITE Patterns/Profiles
1: TRYPSIN_DOM (H:16-243)
2: TRYPSIN_HIS (H:53-58)
3: TRYPSIN_SER (H:189-200)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TRYPSIN_DOM
PS50240
Serine proteases, trypsin domain profile.
THRB_BOVIN
367-621
1
H:16-243
-
2
TRYPSIN_HIS
PS00134
Serine proteases, trypsin family, histidine active site.
THRB_BOVIN
405-410
1
H:53-58
-
3
TRYPSIN_SER
PS00135
Serine proteases, trypsin family, serine active site.
THRB_BOVIN
565-576
1
H:189-200
-
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Exons
(0, 0)
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
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SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d1ycp_1 (L:,H:)
1b: SCOP_d1ycp_2 (J:,K:,M:)
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Trypsin-like serine proteases
(1752)
Superfamily
:
Trypsin-like serine proteases
(1752)
Family
:
Eukaryotic proteases
(1343)
Protein domain
:
Thrombin
(188)
Cow (Bos taurus) [TaxId: 9913]
(19)
1a
d1ycp.1
L:,H:
1b
d1ycp.2
J:,K:,M:
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CATH Domains
(2, 6)
Info
all CATH domains
1a: CATH_1ycpJ00 (J:1B-14M)
1b: CATH_1ycpL00 (L:1B-14M)
2a: CATH_1ycpH02 (H:28-120,H:233-242)
2b: CATH_1ycpH01 (H:16-27,H:121-232)
2c: CATH_1ycpM00 (M:150-243)
2d: CATH_1ycpK00 (K:16-146)
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)
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(
)
(
)
Organisms
(
)
(
)
Class
:
Few Secondary Structures
(1120)
Architecture
:
Irregular
(1120)
Topology
:
Epsilon-Thrombin; Chain L
(37)
Homologous Superfamily
:
Epsilon-Thrombin, subunit L
(37)
Cattle (Bos taurus)
(17)
1a
1ycpJ00
J:1B-14M
1b
1ycpL00
L:1B-14M
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Thrombin, subunit H
(1535)
Homologous Superfamily
:
Trypsin-like serine proteases
(1488)
Cattle (Bos taurus)
(308)
2a
1ycpH02
H:28-120,H:233-242
2b
1ycpH01
H:16-27,H:121-232
2c
1ycpM00
M:150-243
2d
1ycpK00
K:16-146
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Pfam Domains
(2, 5)
Info
all PFAM domains
1a: PFAM_Trypsin_1ycpM01 (M:150-238)
1b: PFAM_Trypsin_1ycpM02 (M:150-238)
1c: PFAM_Trypsin_1ycpM03 (M:150-238)
2a: PFAM_Thrombin_light_1ycpL01 (L:1B-14M)
2b: PFAM_Thrombin_light_1ycpL02 (L:1B-14M)
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Clan
:
Peptidase_PA
(797)
Family
:
Trypsin
(679)
Bos taurus (Bovine)
(190)
1a
Trypsin-1ycpM01
M:150-238
1b
Trypsin-1ycpM02
M:150-238
1c
Trypsin-1ycpM03
M:150-238
Clan
:
no clan defined [family: Thrombin_light]
(136)
Family
:
Thrombin_light
(136)
Bos taurus (Bovine)
(10)
2a
Thrombin_light-1ycpL01
L:1B-14M
2b
Thrombin_light-1ycpL02
L:1B-14M
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Asymmetric Unit 1
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Asym.Unit (106 KB)
Header - Asym.Unit
Biol.Unit 1 (52 KB)
Header - Biol.Unit 1
Biol.Unit 2 (51 KB)
Header - Biol.Unit 2
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