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(-) Description

Title :  MCG IMMUNOGLOBULIN VARIABLE DOMAIN WITH METHYLENE BLUE
 
Authors :  B. Brumshtein, S. R. Esswein, L. Salwinski, M. L. Phillips, A. T. Ly, D. C M. R. Sawaya, D. S. Eisenberg
Date :  17 Aug 15  (Deposition) - 02 Dec 15  (Release) - 22 Mar 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.05
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Immune System, Mcg, Immunoglobulin Variable Domain, Methylene Blue (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Brumshtein, S. R. Esswein, L. Salwinski, M. L. Phillips, A. T. Ly, D. Cascio, M. R. Sawaya, D. S. Eisenberg
Inhibition By Small-Molecule Ligands Of Formation Of Amyloi Fibrils Of An Immunoglobulin Light Chain Variable Domain.
Elife V. 4 10935 2015
PubMed-ID: 26576950  |  Reference-DOI: 10.7554/ELIFE.10935

(-) Compounds

Molecule 1 - MCG
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Fragment: IG LAMBDA CHAIN V-II REGION MGC
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Tissue: BLOOD

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 8)

Asymmetric Unit (3, 8)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2MBT1Ligand/Ion3,7-BIS(DIMETHYLAMINO)PHENOTHIAZIN-5-IUM
3SO46Ligand/IonSULFATE ION
Biological Unit 1 (2, 5)
No.NameCountTypeFull Name
1GOL-1Ligand/IonGLYCEROL
2MBT1Ligand/Ion3,7-BIS(DIMETHYLAMINO)PHENOTHIAZIN-5-IUM
3SO44Ligand/IonSULFATE ION
Biological Unit 2 (2, 3)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2MBT-1Ligand/Ion3,7-BIS(DIMETHYLAMINO)PHENOTHIAZIN-5-IUM
3SO42Ligand/IonSULFATE ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:34 , TYR A:93 , ASP A:97 , PHE A:99 , SO4 A:1113 , TYR B:93 , ASP B:97 , PHE B:99BINDING SITE FOR RESIDUE MBT A 1111
2AC2SOFTWARETYR A:34 , SER A:36 , TYR A:38 , HOH A:2045 , HOH A:2050 , HOH A:2110 , HOH A:2111BINDING SITE FOR RESIDUE SO4 A 1112
3AC3SOFTWARETYR B:32 , ASN B:33 , HOH B:2044 , HOH B:2094BINDING SITE FOR RESIDUE SO4 B 1111
4AC4SOFTWARETYR A:32 , ASN A:33 , MBT A:1111 , HOH A:2038BINDING SITE FOR RESIDUE SO4 A 1113
5AC5SOFTWARESER B:2 , ALA B:3 , TYR B:51 , LYS B:55 , THR B:103 , HOH B:2060BINDING SITE FOR RESIDUE SO4 B 1112
6AC6SOFTWAREPRO A:61 , ARG A:63 , GLN A:81BINDING SITE FOR RESIDUE SO4 A 1114
7AC7SOFTWAREALA A:3 , TYR A:51 , LYS A:55 , THR A:103 , HOH A:2004 , HOH A:2005 , HOH A:2063BINDING SITE FOR RESIDUE SO4 A 1115
8AC8SOFTWARESER B:17 , VAL B:18 , THR B:19BINDING SITE FOR RESIDUE GOL B 1113

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:22 -A:90
2B:22 -B:90

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5ACM)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5ACM)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5ACM)

(-) Exons   (0, 0)

(no "Exon" information available for 5ACM)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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  UniProt sequence: complete  aligned part    
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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:109
                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeee.....eeeeee...........eeeeee......eeee.............eeeeee..eeeeee...hhhhheeeeeeee.....eee...eeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------- Transcript
                 5acm A   2 SALTQPPSASGSLGQSVTISCTGTSSDVGGYNYVSWYQQHAGKAPKVIIYEVNKRPSGVPDRFSGSKSGNTASLTVSGLQAEDEADYYCSSYEGSDNFVFGTGTKVTVL 110
                                    11        21        31        41        51        61        71        81        91       101         


Chain B from PDB  Type:PROTEIN  Length:109
                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeee...eeeeeee...........eeeeee......eeee.............eeeeee..eeeeeee..hhhhheeeeeeee.....eee...eeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------- Transcript
                 5acm B   2 SALTQPPSASGSLGQSVTISCTGTSSDVGGYNYVSWYQQHAGKAPKVIIYEVNKRPSGVPDRFSGSKSGNTASLTVSGLQAEDEADYYCSSYEGSDNFVFGTGTKVTVL 110
                                    11        21        31        41        51        61        71        81        91       101
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 5ACM)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5ACM)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5ACM)

(-) Gene Ontology  (12, 12)

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        LV208_HUMAN | P01709: 1a8j 1dcl 1mcw 2mcg 3mcg 4unt 4unu 4unv 5acl

(-) Related Entries Specified in the PDB File

5acl MCG IMMUNOGLOBULIN VARIABLE DOMAIN WITH METHYLENE BLUE