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(-) Description

Title :  CRYSTAL STRUCTURE OF LMO2 AND ANTI-LMO2 VH COMPLEX
 
Authors :  H. Sewell, T. Tanaka, K. El Omari, A. Cruz-Migoni, E. J. Mancini, N. Fue Fernandez, J. Chambers, T. H. Rabbitts
Date :  28 Apr 13  (Deposition) - 22 Jan 14  (Release) - 22 Jan 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,C  (1x)
Biol. Unit 2:  B,D  (1x)
Biol. Unit 3:  A,C  (6x)
Biol. Unit 4:  B,D  (6x)
Keywords :  Oncoprotein, T-Cell Leukemia, Proto-Oncogene, Transcription, Developmental Protein, Lim Domain, Transcription Factor, Nucleus (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Sewell, T. Tanaka, K. E. Omari, E. J. Mancini, A. Cruz, N. Fernandez-Fuentes, J. Chambers, T. H. Rabbitts
Conformational Flexibility Of The Oncogenic Protein Lmo2 Primes The Formation Of The Multi-Protein Transcription Complex.
Sci Rep V. 4 3643 2014
PubMed-ID: 24407558  |  Reference-DOI: 10.1038/SREP03643

(-) Compounds

Molecule 1 - LMO-2
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 9-158
    Gene: LMO2, RBTN2, RBTNL1, RHOM2, TTG2
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: RHOMBOTIN-2, CYSTEINE-RICH PROTEIN TTG-2, LIM DOMAIN ONLY PROTEIN 2, T-CELL TRANSLOCATION PROTEIN 2
 
Molecule 2 - ANTI-LMO2 VH
    Chains: C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: ANTI-LMO2 VH
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A C 
Biological Unit 2 (1x):  B D
Biological Unit 3 (6x): A C 
Biological Unit 4 (6x):  B D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 8)

Asymmetric Unit (1, 8)
No.NameCountTypeFull Name
1ZN8Ligand/IonZINC ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 4 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:30 , CYS A:33 , HIS A:51 , CYS A:54BINDING SITE FOR RESIDUE ZN A 201
2AC2SOFTWARECYS A:57 , CYS A:60 , CYS A:80 , ASP A:83BINDING SITE FOR RESIDUE ZN A 202
3AC3SOFTWARECYS A:94 , CYS A:97 , HIS A:116 , CYS A:119BINDING SITE FOR RESIDUE ZN A 203
4AC4SOFTWARECYS A:122 , CYS A:125 , CYS A:144 , ASP A:147BINDING SITE FOR RESIDUE ZN A 204
5AC5SOFTWARECYS B:30 , CYS B:33 , HIS B:51 , CYS B:54BINDING SITE FOR RESIDUE ZN B 201
6AC6SOFTWARECYS B:57 , CYS B:60 , CYS B:80 , ASP B:83BINDING SITE FOR RESIDUE ZN B 202
7AC7SOFTWARECYS B:94 , CYS B:97 , HIS B:116 , CYS B:119BINDING SITE FOR RESIDUE ZN B 203
8AC8SOFTWARECYS B:122 , CYS B:125 , CYS B:144 , GLN B:146 , ASP B:147BINDING SITE FOR RESIDUE ZN B 204

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4KFZ)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4KFZ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4KFZ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4KFZ)

(-) Exons   (0, 0)

(no "Exon" information available for 4KFZ)

(-) Sequences/Alignments

Asymmetric Unit
   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:146
                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................................eee..eee.....................eee..eeehhhhhhhhh..................eeee..eeee..................eeee..eeeehhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kfz A  11 DPSEEPVDEVLQIPPSLLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIYEWTKING 156
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150      


Chain B from PDB  Type:PROTEIN  Length:148
                                                                                                                                                                                    
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..................................eee..eee.....................eee..eeehhhhhhhhh..................eeee..eeee..................eeee..eeeehhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kfz B   9 SLDPSEEPVDEVLQIPPSLLTCGGCQQNIGDRYFLKAIDQYWHEDCLSCDLCGCRLGEVGRRLYYKLGRKLCRRDYLRLFGQDGLCASCDKRIRAYEMTMRVKDKVYHLECFKCAACQKHFCVGDRYLLINSDIVCEQDIYEWTKING 156
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148        


Chain C from PDB  Type:PROTEIN  Length:127
                                                                                                                                                               
               SCOP domains d4kfzc_ C: automated matches                                                                                                    SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee..eee.....eeeeeeee..hhhhh.eeeeee......eeeeee......eee.hhhh..eeeeee....eeeeee...hhhhheeeeeee......eee.hhhhhh...eeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kfz C  -2 SMAEVQLLESGGGLVQPGGSLRLSCAASGFSFSHSPMNWVRQAPGKGLEWVSYISYNSSSIYYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCARGLTESLELTADWFDYWGQGTLVTVSS 124
                                     7        17        27        37        47        57        67        77        87        97       107       117       


Chain D from PDB  Type:PROTEIN  Length:127
                                                                                                                                                               
               SCOP domains d4kfzd_ D: automated matches                                                                                                    SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeee..eee.....eeeeeeee..hhhhh.eeeeee.....eeeeeee......eee.hhhh..eeeeee....eeeeee...hhhhheeeeeee......eee.hhhhhh...eeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kfz D  -3 GSMAEVQLLESGGGLVQPGGSLRLSCAASGFSFSHSPMNWVRQAPGKGLEWVSYISYNSSSIYYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCARGLTESLELTADWFDYWGQGTLVTVS 123
                                     6        16        26        36        46        56        66        76        86        96       106       116
   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, 2)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4KFZ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4KFZ)

(-) Gene Ontology  (40, 40)

Asymmetric Unit(hide GO term definitions)

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  4kfz
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 Related Entries

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

UniProtKB/Swiss-Prot
        HV323_HUMAN | P01764: 1hou 1ohq 3bn9 3upc 3zhd 3zhk 3zhl
        RBTN2_HUMAN | P25791: 2xjy 2xjz 2ypa

(-) Related Entries Specified in the PDB File

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