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(-) Description

Title :  SOLUTION NMR STRUCTURE OF TUMOR SUPPRESSOR P16INK4A, 18 STRUCTURES
 
Authors :  I. -J. L. Byeon, J. Li, K. Ericson, T. L. Selby, A. Tevelev, H. -J. Kim, P. O'Maille, M. -D. Tsai
Date :  13 Feb 98  (Deposition) - 13 Aug 99  (Release) - 19 May 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (18x)
Keywords :  Cell Cycle, Anti-Oncogene, Repeat, Ank Repeat (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  I. J. Byeon, J. Li, K. Ericson, T. L. Selby, A. Tevelev, H. J. Kim, P. O'Maille, M. D. Tsai
Tumor Suppressor P16Ink4A: Determination Of Solution Structure And Analyses Of Its Interaction With Cyclin-Dependent Kinase 4.
Mol. Cell V. 1 421 1998
PubMed-ID: 9660926  |  Reference-DOI: 10.1016/S1097-2765(00)80042-8
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - TUMOR SUPPRESSOR P16INK4A
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System StrainBL21 (DE3)
    Expression System Taxid469008
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    Other DetailsTUMOR SUPPRESSOR P16INK4A

 Structural Features

(-) Chains, Units

  
NMR Structure (18x)

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1A5E)

(-) Sites  (0, 0)

(no "Site" information available for 1A5E)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1A5E)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1A5E)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (96, 96)

NMR Structure (96, 96)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
01UniProtVAR_001408D14ECDN2A_HUMANUnclassified  ---AD14E
02UniProtVAR_001409L16PCDN2A_HUMANUnclassified  ---AL16P
03UniProtVAR_001410A20PCDN2A_HUMANUnclassified  ---AA20P
04UniProtVAR_001411A20SCDN2A_HUMANUnclassified760065045AA20S
05UniProtVAR_001412G23DCDN2A_HUMANUnclassified  ---AG23D
06UniProtVAR_001413R24CCDN2A_HUMANDisease (CMM2)  ---AR24C
07UniProtVAR_001414R24PCDN2A_HUMANDisease (CMM2)104894097AR24P
08UniProtVAR_058550R24QCDN2A_HUMANPolymorphism104894097AR24Q
09UniProtVAR_001415E26DCDN2A_HUMANUnclassified  ---AE26D
10UniProtVAR_001416L32PCDN2A_HUMANDisease (CMM2)878853650AL32P
11UniProtVAR_001417E33DCDN2A_HUMANUnclassified  ---AE33D
12UniProtVAR_001418G35ACDN2A_HUMANDisease (CMM2)746834149AG35A
13UniProtVAR_001419G35ECDN2A_HUMANDisease (CMM2)746834149AG35E
14UniProtVAR_058551G35VCDN2A_HUMANDisease (CMM2)  ---AG35V
15UniProtVAR_001420P48LCDN2A_HUMANDisease (CMM2)  ---AP48L
16UniProtVAR_001421I49SCDN2A_HUMANUnclassified  ---AI49S
17UniProtVAR_001422I49TCDN2A_HUMANPolymorphism199907548AI49T
18UniProtVAR_001423Q50RCDN2A_HUMANDisease (CMM2)587778189AQ50R
19UniProtVAR_001424M53ICDN2A_HUMANDisease (CMM2)104894095AM53I
20UniProtVAR_001425S56ICDN2A_HUMANPolymorphism104894109AS56I
21UniProtVAR_001426A57VCDN2A_HUMANUnclassified372266620AA57V
22UniProtVAR_053027R58QCDN2A_HUMANPolymorphism36204273AR58Q
23UniProtVAR_001427V59GCDN2A_HUMANDisease (CMM2)104894099AV59G
24UniProtVAR_001428A60TCDN2A_HUMANPolymorphism769382085AA60T
25UniProtVAR_053028A60VCDN2A_HUMANUnclassified36204594AA60V
26UniProtVAR_001430L62PCDN2A_HUMANDisease (CMM2)  ---AL62P
27UniProtVAR_001431H66YCDN2A_HUMANUnclassified  ---AH66Y
28UniProtVAR_058553G67RCDN2A_HUMANDisease (CMM2)758389471AG67R
29UniProtVAR_001432A68LCDN2A_HUMANDisease (CMM2)876658534AA68L
30UniProtVAR_001433A68TCDN2A_HUMANUnclassified  ---AA68T
31UniProtVAR_001434A68VCDN2A_HUMANPolymorphism  ---AA68V
32UniProtVAR_058554E69GCDN2A_HUMANPolymorphism372670098AE69G
33UniProtVAR_001435E69KCDN2A_HUMANUnclassified  ---AE69K
34UniProtVAR_001436E69VCDN2A_HUMANUnclassified  ---AE69V
35UniProtVAR_001437N71KCDN2A_HUMANDisease (CMM2)  ---AN71K
36UniProtVAR_001438N71SCDN2A_HUMANPolymorphism559848002AN71S
37UniProtVAR_001439C72GCDN2A_HUMANUnclassified  ---AC72G
38UniProtVAR_001440D74NCDN2A_HUMANUnclassified  ---AD74N
39UniProtVAR_001441D74VCDN2A_HUMANUnclassified  ---AD74V
40UniProtVAR_058555D74YCDN2A_HUMANDisease (CMM2)760640852AD74Y
41UniProtVAR_058556T77PCDN2A_HUMANDisease (CMM2)  ---AT77P
42UniProtVAR_001442R80LCDN2A_HUMANUnclassified  ---AR80L
43UniProtVAR_058557R80PCDN2A_HUMANDisease (CMM2)  ---AR80P
44UniProtVAR_001443P81LCDN2A_HUMANUnclassified11552823AP81L
45UniProtVAR_058558P81TCDN2A_HUMANDisease (CMM2)  ---AP81T
46UniProtVAR_001445H83NCDN2A_HUMANUnclassified  ---AH83N
47UniProtVAR_053029H83QCDN2A_HUMANPolymorphism34968276AH83Q
48UniProtVAR_001444H83YCDN2A_HUMANUnclassified121913385AH83Y
49UniProtVAR_001446D84ECDN2A_HUMANUnclassified  ---AD84E
50UniProtVAR_001447D84HCDN2A_HUMANUnclassified  ---AD84H
51UniProtVAR_001448D84NCDN2A_HUMANUnclassified11552822AD84N
52UniProtVAR_001449D84YCDN2A_HUMANDisease (CMM2)11552822AD84Y
53UniProtVAR_001450A85TCDN2A_HUMANPolymorphism878853646AA85T
54UniProtVAR_001451R87PCDN2A_HUMANDisease (CMM2)878853647AR87P
55UniProtVAR_012317R87WCDN2A_HUMANDisease (CMM2)749714198AR87W
56UniProtVAR_001452E88DCDN2A_HUMANUnclassified  ---AE88D
57UniProtVAR_001453G89DCDN2A_HUMANDisease (CMM2)137854599AG89D
58UniProtVAR_001454G89SCDN2A_HUMANDisease (CMM2)137854597AG89S
59UniProtVAR_001455T93ACDN2A_HUMANUnclassified  ---AT93A
60UniProtVAR_023604L94QCDN2A_HUMANDisease (CMM2)  ---AL94Q
61UniProtVAR_001456V95ACDN2A_HUMANUnclassified  ---AV95A
62UniProtVAR_001457L97RCDN2A_HUMANDisease (CMM2)  ---AL97R
63UniProtVAR_001458H98PCDN2A_HUMANDisease (CMM2)  ---AH98P
64UniProtVAR_001459H98QCDN2A_HUMANDisease (CMM2)  ---AH98Q
65UniProtVAR_001460R99PCDN2A_HUMANDisease (CMM2)  ---AR99P
66UniProtVAR_001461R99QCDN2A_HUMANUnclassified754806883AR99Q
67UniProtVAR_053030R99WCDN2A_HUMANPolymorphism34886500AR99W
68UniProtVAR_001462A100LCDN2A_HUMANDisease (CMM2)  ---AA100L
69UniProtVAR_001463A100PCDN2A_HUMANPolymorphism  ---AA100P
70UniProtVAR_001464G101WCDN2A_HUMANDisease (CMM2)104894094AG101W
71UniProtVAR_015818A102ECDN2A_HUMANPolymorphism137854598AA102E
72UniProtVAR_053031A102TCDN2A_HUMANPolymorphism35741010AA102T
73UniProtVAR_001466R107CCDN2A_HUMANDisease (CMM2)  ---AR107C
74UniProtVAR_001467R107HCDN2A_HUMANPolymorphism370823171AR107H
75UniProtVAR_001469D108HCDN2A_HUMANUnclassified  ---AD108H
76UniProtVAR_001468D108YCDN2A_HUMANUnclassified121913381AD108Y
77UniProtVAR_001470P114LCDN2A_HUMANUnclassified121913386AP114L
78UniProtVAR_058559P114SCDN2A_HUMANPolymorphism104894104AP114S
79UniProtVAR_001471L117MCDN2A_HUMANDisease (CMM2)  ---AL117M
80UniProtVAR_001472A118TCDN2A_HUMANDisease (CMM2)  ---AA118T
81UniProtVAR_001473E119QCDN2A_HUMANUnclassified  ---AE119Q
82UniProtVAR_001474E120ACDN2A_HUMANUnclassified  ---AE120A
83UniProtVAR_001475E120KCDN2A_HUMANUnclassified  ---AE120K
84UniProtVAR_035069G122RCDN2A_HUMANDisease (CMM2)113798404AG122R
85UniProtVAR_001476G122SCDN2A_HUMANUnclassified113798404AG122S
86UniProtVAR_001477H123QCDN2A_HUMANUnclassified6413463AH123Q
87UniProtVAR_053032R124CCDN2A_HUMANPolymorphism34170727AR124C
88UniProtVAR_001478R124HCDN2A_HUMANUnclassified747621669AR124H
89UniProtVAR_001479V126DCDN2A_HUMANDisease (CMM2)104894098AV126D
90UniProtVAR_001480A127SCDN2A_HUMANUnclassified6413464AA127S
91UniProtVAR_001481A132PCDN2A_HUMANUnclassified  ---AA132P
92UniProtVAR_001482A134VCDN2A_HUMANUnclassified757497674AA134V
93UniProtVAR_001483H142YCDN2A_HUMANUnclassified  ---AH142Y
94UniProtVAR_001484R144CCDN2A_HUMANUnclassified116150891AR144C
95UniProtVAR_001486A148TCDN2A_HUMANPolymorphism3731249AA148T
96UniProtVAR_001487G150VCDN2A_HUMANUnclassified  ---AG150V

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ANK_REP_REGIONPS50297 Ankyrin repeat region circular profile.CDN2A_HUMAN16-130  1A:16-130

(-) Exons   (3, 3)

NMR Structure (3, 3)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.5aENST000003044945aENSE00001833804chr9:21975097-21974677421CDN2A_HUMAN1-50501A:1-5050
1.6cENST000003044946cENSE00001801793chr9:21971207-21970901307CDN2A_HUMAN51-1531031A:51-153103
1.10eENST0000030449410eENSE00001936961chr9:21968241-21967752490CDN2A_HUMAN153-15641A:153-1564

(-) Sequences/Alignments

NMR Structure
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:156
 aligned with CDN2A_HUMAN | P42771 from UniProtKB/Swiss-Prot  Length:156

    Alignment length:156
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150      
          CDN2A_HUMAN     1 MEPAAGSSMEPSADWLATAAARGRVEEVRALLEAGALPNAPNSYGRRPIQVMMMGSARVAELLLLHGAEPNCADPATLTRPVHDAAREGFLDTLVVLHRAGARLDVRDAWGRLPVDLAEELGHRDVARYLRAAAGGTRGSNHARIDAAEGPSDIPD 156
               SCOP domains d1a5ea_ A: Cell cycle inhibitor p16ink4A                                                                                                                     SCOP domains
               CATH domains 1a5eA00 A:1-156  [code=1.25.40.20, no name defined]                                                                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .............hhhhhhhhh..hhhhhhhhhhh...........hhhhh.....hhhhhhhhhh..............hhhhhhhh..hhhhhhhhhh.............hhhhhhhh..hhhhhhhhhhh...................... Sec.struct. author
             SAPs(SNPs) (1) -------------E-P---P--DC-D-----PD-A------------LSR--I--IVQGT-P---YRLG-KG-N--P--LL-NET-PDD---AQA-RPPLWE----CH-----L--MTQA-RQC-DS----P-V-------Y-C---T-V------ SAPs(SNPs) (1)
             SAPs(SNPs) (2) -------------------S---P----------E-------------T----------V-------TK-S--V-----PT-QH--W-S--------QQP-T----HY-----S-----K-S-H-------------------------------- SAPs(SNPs) (2)
             SAPs(SNPs) (3) -----------------------Q----------V--------------------------------VV----Y--------YN--------------W--------------------------------------------------------- SAPs(SNPs) (3)
             SAPs(SNPs) (4) -----------------------------------------------------------------------------------Y------------------------------------------------------------------------ SAPs(SNPs) (4)
                    PROSITE ---------------ANK_REP_REGION  PDB: A:16-130 UniProt: 16-130                                                                      -------------------------- PROSITE
           Transcript 1 (1) Exon 1.5a  PDB: A:1-50 UniProt: 1-50              ------------------------------------------------------------------------------------------------------1.10 Transcript 1 (1)
           Transcript 1 (2) --------------------------------------------------Exon 1.6c  PDB: A:51-153 UniProt: 51-153                                                               --- Transcript 1 (2)
                 1a5e A   1 MEPAAGSSMEPSADWLATAAARGRVEEVRALLEAGALPNAPNSYGRRPIQVMMMGSARVAELLLLHGAEPNCADPATLTRPVHDAAREGFLDTLVVLHRAGARLDVRDAWGRLPVDLAEELGHRDVARYLRAAAGGTRGSNHARIDAAEGPSDIPD 156
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150      

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

NMR Structure

(-) CATH Domains  (1, 1)

NMR Structure

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1A5E)

(-) Gene Ontology  (25, 25)

NMR Structure(hide GO term definitions)
Chain A   (CDN2A_HUMAN | P42771)
molecular function
    GO:0051059    NF-kappaB binding    Interacting selectively and non-covalently with NF-kappaB, a transcription factor for eukaryotic RNA polymerase II promoters.
    GO:0004861    cyclin-dependent protein serine/threonine kinase inhibitor activity    Stops, prevents or reduces the activity of a cyclin-dependent protein serine/threonine kinase.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0019901    protein kinase binding    Interacting selectively and non-covalently with a protein kinase, any enzyme that catalyzes the transfer of a phosphate group, usually from ATP, to a protein substrate.
biological process
    GO:0000082    G1/S transition of mitotic cell cycle    The mitotic cell cycle transition by which a cell in G1 commits to S phase. The process begins with the build up of G1 cyclin-dependent kinase (G1 CDK), resulting in the activation of transcription of G1 cyclins. The process ends with the positive feedback of the G1 cyclins on the G1 CDK which commits the cell to S phase, in which DNA replication is initiated.
    GO:0007265    Ras protein signal transduction    A series of molecular signals within the cell that are mediated by a member of the Ras superfamily of proteins switching to a GTP-bound active state.
    GO:0007049    cell cycle    The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.
    GO:0007050    cell cycle arrest    A regulatory process that halts progression through the cell cycle during one of the normal phases (G1, S, G2, M).
    GO:0090398    cellular senescence    A cell aging process stimulated in response to cellular stress, whereby normal cells lose the ability to divide through irreversible cell cycle arrest.
    GO:0032088    negative regulation of NF-kappaB transcription factor activity    Any process that stops, prevents, or reduces the frequency, rate or extent of the activity of the transcription factor NF-kappaB.
    GO:0030308    negative regulation of cell growth    Any process that stops, prevents, or reduces the frequency, rate, extent or direction of cell growth.
    GO:0008285    negative regulation of cell proliferation    Any process that stops, prevents or reduces the rate or extent of cell proliferation.
    GO:0001953    negative regulation of cell-matrix adhesion    Any process that stops, prevents, or reduces the rate or extent of cell adhesion to the extracellular matrix.
    GO:0045736    negative regulation of cyclin-dependent protein serine/threonine kinase activity    Any process that stops, prevents, or reduces the frequency, rate or extent of cyclin-dependent protein serine/threonine kinase activity.
    GO:0042326    negative regulation of phosphorylation    Any process that stops, prevents or decreases the rate of addition of phosphate groups to a molecule.
    GO:0045892    negative regulation of transcription, DNA-templated    Any process that stops, prevents, or reduces the frequency, rate or extent of cellular DNA-templated transcription.
    GO:2000774    positive regulation of cellular senescence    Any process that activates or increases the frequency, rate or extent of cellular senescence.
    GO:2000111    positive regulation of macrophage apoptotic process    Any process that activates or increases the frequency, rate or extent of macrophage apoptotic process.
    GO:0034393    positive regulation of smooth muscle cell apoptotic process    Any process that activates or increases the frequency, rate, or extent of smooth muscle cell apoptotic process.
    GO:0090399    replicative senescence    A cell aging process associated with the dismantling of a cell as a response to telomere shortening and/or cellular aging.
    GO:0035986    senescence-associated heterochromatin focus assembly    The assembly of chromatin into senescence-associated heterochromatin foci (SAHF), transcriptionally-silent heterochromatin structures present in senescent cells, containing the condensed chromatin of one chromosome, and enriched for histone modifications. Formation of these chromatin structures is thought to repress expression of proliferation-promoting genes.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
    GO:0035985    senescence-associated heterochromatin focus    A transcriptionally-silent heterochromatin structure present in senescent cells. Contains the condensed chromatin of one chromosome and is enriched for histone modifications. Thought to repress expression of proliferation-promoting genes.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        CDN2A_HUMAN | P427711bi7 1dc2 2a5e

(-) Related Entries Specified in the PDB File

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