Uniprot accession / id : Q99JW4  OR   Uniprot accession / id : P48059
 
Filter by :
Entry Information
Entry status  (1)
REL
(14)
 
Experimental methods  (2)
Solution NMR
(7)
X-ray diffraction
(7)
 
Authors  (39)
Qin J
(6)
Wu C
(6)
Boggon TJ
(3)
Calderwood DA
(3)
Chen W
(3)
Chiswell BP
(3)
Li L
(3)
Lin L
(3)
Sun K
(3)
Vaynberg J
(3)
Velyvis A
(3)
Wei Z
(3)
Xie Y
(3)
Yang H
(3)
Yu C
(3)
Zhang T
(3)
Cong Y
(2)
Fukuda K
(2)
Hayashi F
(2)
Jakoncic J
(2)
Lu F
(2)
Qin XR
(2)
RIKEN Structural Genomics/Proteomics Initiative (RSGI)
(2)
Stiegler AL
(2)
Stojanoff V
(2)
Vinogradova O
(2)
Yang Y
(2)
Yokoyama S
(2)
Bialkowska K
(1)
Chen K
(1)
Chen Y
(1)
Fukuda T
(1)
Murphy JW
(1)
Nagashima T
(1)
Ng L
(1)
Plow EF
(1)
Tu Y
(1)
Zhang R
(1)
Zhang Y
(1)
 
Homo / hetero assembly  (2)
hetero
(9)
homo
(5)
 
Assembly composition  (2)
protein/protein complex
(9)
protein structure
(5)
 
Assembly polymer count  (2)
dimer
(9)
monomer
(5)
 
Resolution distribution
1.0 - 1.5
(2)
1.5 - 2
(2)
2.0 - 2.5
(1)
3.0 - 3.5
(2)
 
Release year distribution
2000 - 2005
(4)
2005 - 2010
(5)
2010 - 2015
(2)
2015 - 2020
(1)
2020 - 2025
(4)
 
Journal  (7)
To be published
(5)
Elife
(3)
J Biol Chem
(2)
Mol Cell
(1)
Nat Commun
(1)
Nat Struct Biol
(1)
Proc Natl Acad Sci U S A
(1)
 
Macromolecules
Organism superkingdom  (1)
Eukaryota
(14)
 
Organism name  (1)
Homo sapiens
(14)
 
Molecule name  (4)
LIM and senescent cell antigen-like-containing domain protein 1
(14)
PINCH-1
(14)
Particularly interesting new Cys-His protein 1
(14)
Renal carcinoma antigen NY-REN-48
(14)
 
Molecule type  (1)
Protein
(14)
 
Gene names  (3)
LIMS1
(14)
PINCH
(14)
PINCH1
(14)
 
Interacting Molecules  (3)
Ras suppressor protein 1
(4)
Scaffold protein ILK
(4)
Cytoplasmic protein NCK2
(1)
 
Interacting ligands  (5)
ZN : ZINC ION
(14)
PO4 : PHOSPHATE ION
(3)
IOD : IODIDE ION
(2)
MLI : MALONATE ION
(1)
PGE : TRIETHYLENE GLYCOL
(1)
 
Sequence and Structure classification
SCOP fold  (1)
Glucocorticoid receptor-like (DNA-binding domain)
(5)
 
SCOP family  (1)
LIM domain
(5)
 
CATH class  (1)
Mainly Beta
(9)
 
CATH topology  (1)
Cysteine Rich Protein
(9)
 
Pfam accession / name  (1)
PF00412 : LIM
(14)
 
Experimental Information
Diffraction protocol  (1)
Single wavelength
(9)
 
Diffraction radiation source type  (2)
Synchrotron
(6)
Rotating anode
(1)
 
Diffraction source  (5)
SSRF BEAMLINE BL18U1
(3)
APS BEAMLINE 19-BM
(1)
APS BEAMLINE 24-ID-C
(1)
OTHER
(1)
RIGAKU MICROMAX-007
(1)
 
Synchrotron site  (2)
SSRF
(3)
APS
(2)
 
Diffraction detector type  (3)
Pixel
(3)
CCD
(2)
Image plate
(2)
 
Refinement software  (2)
PHENIX
(6)
REFMAC
(2)
 
NMR
NMR software packages  (10)
NMRPipe
(5)
VNMR
(3)
X-PLOR
(3)
Xplor-NIH
(3)
CYANA
(2)
KUJIRA
(2)
NMRView
(2)
PIPP
(2)
TALOS
(1)
XwinNMR
(1)
 
NMR Field Strength
400.0 - 500
(3)
500.0 - 600
(5)
600.0 - 700
(2)
700.0 - 800
(2)
800.0 - 900
(2)
900.0 - 1000
(1)
 
Representative Structures
Representative Structures
100%
95%
90%
70%
50%
40%
30%
Entries 1 to 10 of 14
Entries 1 to 10 of 14
 Select all entries on this page
Crystal structure of Ras suppressor-1 in complex with PINCH-1 LIM4-5 domains
Fukuda K, Qin J
J Biol Chem (2021) [PMID: 33891945  ]
Source organism: Homo sapiens  
Assembly composition: protein/protein complex
Bound ligands: ZN    ZN   
Assembly name: LIM and senescent cell antigen-like-containing domain protein 1 and Ras suppressor protein 1 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-155701 (Preferred)   search this ID
PDBe-KB: P48059    Q15404   
X-ray diffraction
3.050112Å resolution
Released: 28 Apr 2021
Model geometry
Fit model/data
7lt9
7lt9
7lt9
Crystal structure of Rsu1/PINCH1_LIM45C complex
Yang H, Wei Z, Cong Y
Elife (2021) [PMID: 33587032  ]
Source organism: Homo sapiens  
Assembly composition: protein/protein complex
Bound ligands: MLI    GOL    ZN    ZN   
Assembly name: LIM and senescent cell antigen-like-containing domain protein 1 and Ras suppressor protein 1 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-155701 (Preferred)   search this ID
PDBe-KB: P48059    Q15404   
X-ray diffraction
3.15Å resolution
Released: 24 Feb 2021
Model geometry
Fit model/data
7d2u
7d2u
7d2u
Crystal structure of Rsu1/PINCH1_LIM5C complex
Yang H, Wei Z, Cong Y
Elife (2021) [PMID: 33587032  ]
Source organism: Homo sapiens  
Assembly composition: protein/protein complex
Bound ligands: GOL    ZN    ZN   
Assembly name: LIM and senescent cell antigen-like-containing domain protein 1 and Ras suppressor protein 1 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-155701 (Preferred)   search this ID
PDBe-KB: P48059    Q15404   
X-ray diffraction
1.653Å resolution
Released: 24 Feb 2021
Model geometry
Fit model/data
7d2s
7d2s
7d2s
Crystal structure of Rsu1/PINCH1_LIM45C complex
Yang H, Wei Z, Yu C
Elife (2021) [PMID: 33587032  ]
Source organism: Homo sapiens  
Assembly composition: protein/protein complex
Bound ligands: GOL    ZN    TRS    ZN    TRS    PGE    PGE   
Assembly name: LIM and senescent cell antigen-like-containing domain protein 1 and Ras suppressor protein 1 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-155701 (Preferred)   search this ID
PDBe-KB: P48059    Q15404   
X-ray diffraction
2.2Å resolution
Released: 24 Feb 2021
Model geometry
Fit model/data
7d2t
7d2t
7d2t
Lim5 domain of PINCH1 protein
Qin J, Vaynberg J
Nat Commun (2018) [PMID: 30367047  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: ZN    ZN   
Assembly name: LIM and senescent cell antigen-like-containing domain protein 1 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-155699 (Preferred)   search this ID
PDBe-KB: P48059   
Solution NMR
Released: 31 Oct 2018
Model geometry
Fit model/data
Data not analysed
6mif
6mif
6mif
4th LIM domain of PINCH protein
Velyvis A, Vaynberg J, Vinogradova O, Zhang Y, Wu C, Qin J
Nat Struct Biol (2003) [PMID: 12794636  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: ZN    ZN   
Assembly name: LIM and senescent cell antigen-like-containing domain protein 1 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-155699 (Preferred)   search this ID
PDBe-KB: P48059   
Solution NMR
Released: 1 Jul 2003
Model geometry
Fit model/data
Data not analysed
1nyp
1nyp
1nyp
1ST LIM DOMAIN OF PINCH PROTEIN
Velyvis A, Yang Y, Wu C, Qin J
J Biol Chem (2001) [PMID: 11078733  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: ZN    ZN   
Assembly name: LIM and senescent cell antigen-like-containing domain protein 1 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-155699 (Preferred)   search this ID
PDBe-KB: P48059   
Solution NMR
Released: 21 Feb 2001
Model geometry
Fit model/data
Data not analysed
1g47
1g47
1g47
Solution structure of ILK-PINCH complex
Qin J
To be published
Source organism: Homo sapiens  
Assembly composition: protein/protein complex
Bound ligands: ZN    ZN   
Assembly name: LIM and senescent cell antigen-like-containing domain protein 1 and Scaffold protein ILK (Preferred)   search this complex
PDBe complex ID: PDB-CPX-155700 (Preferred)   search this ID
PDBe-KB: P48059    Q13418   
Solution NMR
Released: 30 Dec 2008
Model geometry
Fit model/data
Data not analysed
2kbx
2kbx
2kbx
Solution structure of the third LIM domain of particularly interesting new Cys-His protein
Qin XR, Nagashima T, Hayashi F, Yokoyama S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
To be published
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: ZN    ZN   
Assembly name: LIM and senescent cell antigen-like-containing domain protein 1 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-155699 (Preferred)   search this ID
PDBe-KB: P48059   
Solution NMR
Released: 18 Nov 2005
Model geometry
Fit model/data
Data not analysed
2cor
2cor
2cor
NMR structure of the complex between Nck-2 SH3 domain and PINCH-1 LIM4 domain
Vaynberg J, Fukuda T, Vinogradova O, Velyvis A, Ng L, Wu C, Qin J
Mol Cell (2005) [PMID: 15721255  ]
Source organism: Homo sapiens  
Assembly composition: protein/protein complex
Bound ligands: ZN    ZN   
Assembly name: LIM and senescent cell antigen-like-containing domain protein 1 and Cytoplasmic protein NCK2 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-129044 (Preferred)   search this ID
PDBe-KB: P48059    O43639   
Solution NMR
Released: 5 Apr 2005
Model geometry
Fit model/data
Data not deposited
1u5s
1u5s
1u5s
Entries 1 to 10 of 14
Entries 1 to 10 of 14