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(-) Description

Title :  CRYSTAL STRUCTURE OF VOLTAGE SENSING DOMAIN OF CI-VSP WITH FRAGMENT ANTIBODY (R217E, 2.5 A)
 
Authors :  Q. Li
Date :  20 Jul 12  (Deposition) - 05 Feb 14  (Release) - 05 Feb 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym./Biol. Unit :  H,L,S
Keywords :  Membrane Protein, Alpha Helix, Fragment Antibody, Voltage Sensing Domain, Sensing Voltage (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Q. Li, M. Paduch, S. Wanderling, R. E. Hulse, S. Koide, A. Kosiakoff, E. Perozo
Structural Rearrangement In Voltage Sensing Domain Of Ci-Vs
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - FRAGMENT ANTIBODY HEAVY CHAIN
    Chains: H
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PHAGEMID CODING FOR BOTH HEAVY CHAIN AND LIGHT CHAIN OF THE FRAGMENT ANTIBODY
    Expression System Strain: 55244
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 2 - FRAGMENT ANTIBODY LIGHT CHAIN
    Chains: L
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PHAGEMID CODING FOR BOTH HEAVY CHAIN AND LIGHT CHAIN OF THE FRAGMENT ANTIBODY
    Expression System Strain: 55244
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 3 - VOLTAGE-SENSOR CONTAINING PHOSPHATASE
    Chains: S
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PQE32 WITH SEQUENCE CODING FOR CI-VSD
    Expression System Strain: XL10-GOLD
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: CI-VSP
    Mutation: YES
    Organism Common: SEA VASE,YELLOW SEA SQUIRT
    Organism Scientific: CIONA INTESTINALIS
    Organism Taxid: 7719

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : HLS

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 5)

Asymmetric/Biological Unit (3, 5)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2LDA3Ligand/IonLAURYL DIMETHYLAMINE-N-OXIDE
3SIN1Ligand/IonSUCCINIC ACID

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER H:31 , TYR H:55BINDING SITE FOR RESIDUE LDA H 301
2AC2SOFTWAREPRO L:59 , ARG L:61BINDING SITE FOR RESIDUE CL L 301
3AC3SOFTWARESER L:30 , SER L:65 , GLY L:66 , SER L:67 , GLY L:68 , ASP L:70 , PHE L:71 , ASP S:204 , VAL S:207 , GLN S:208BINDING SITE FOR RESIDUE SIN L 302
4AC4SOFTWARESER L:28 , SER L:30 , TYR S:200 , ASP S:204 , LDA S:301BINDING SITE FOR RESIDUE LDA L 303
5AC5SOFTWARESER L:53 , LDA L:303 , GLN S:208 , GLU S:209 , THR S:210BINDING SITE FOR RESIDUE LDA S 301

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1H:22 -H:96
2H:146 -H:202
3L:23 -L:88
4L:134 -L:194

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1Phe H:152 -Pro H:153
2Glu H:154 -Pro H:155
3Ser L:7 -Pro L:8
4Trp L:94 -Pro L:95
5Tyr L:140 -Pro L:141

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4G7V)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4G7V)

(-) Exons   (0, 0)

(no "Exon" information available for 4G7V)

(-) Sequences/Alignments

Asymmetric/Biological 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 H from PDB  Type:PROTEIN  Length:215
                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee..eee.....eeeeeeee..hhhh.eeeeeee......eeeeeee.hhheeee.......eeeeee....eeeeee...hhhhheeeeeeee......eeee...eeeee........eeeee......eeeeeeeeeee.....eeee.hhh....eee..........eeeeeeeeee.hhh....eeeeeeehhhheeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4g7v H   1 EVQLVESGGGLVQPGGSLRLSCAASGFNVSSSSIHWVRQAPGKGLEWVASISSYYGYTSYADSVKGRFTISADTSKNTAYLQMNSLRAEDTAVYYCARSYSWSYAIDYWGQGTLVTVSSASTKGPSVFPLAPSSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEP 219
                                    10        20        30        40        50        60        70        80        90       100       110       120       130   ||  144       154       164       174       184       194       204       214     
                                                                                                                                                               134|                                                                                
                                                                                                                                                                139                                                                                


Chain L from PDB  Type:PROTEIN  Length:211
                                                                                                                                                                                                                                                   
               SCOP domains d4g7vl1 L:1-107 automated matches                                                                          d4g7vl2 L:108-211 automated matches                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeeee....eeeeeee.......eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhheeeeeee......ee...eeeeee......eeeee..hhhhhh..eeeeeeeeeee.....eeeeee..ee....eeeee.........eeeeeeeeeehhhhh...eeeeeee.......eeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4g7v L   1 DIQMTQSPSSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSASSLYSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQYFYWPITFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQAGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNR 211
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210 


Chain S from PDB  Type:PROTEIN  Length:136
                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4g7v S 101 GVGRVQFRVRAVIDHLGMRVFGVFLIFLDIILMIIDLSLPGKSESSQSFYDGMALALSCYFMLDLGLRIFAYGPKNFFTNPWEVADGLIIVVTFVVTIFYTVLDEYVQETGADGLGELVVLARLLRVVRLARIFYS 236
                                   110       120       130       140       150       160       170       180       190       200       210       220       230
   Legend:   → Mismatch (orange background)
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    → 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  (2, 2)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4G7V)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4G7V)

(-) Gene Ontology  (15, 30)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Glu H:154 - Pro H:155   [ RasMol ]  
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 Related Entries

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

UniProtKB/Swiss-Prot
        Q4W8A1_CIOIN | Q4W8A1: 4g80
UniProtKB/TrEMBL
        F6XHE4_CIOIN | F6XHE4: 4g80
        Q4W8A1_CIOIN | Q4W8A1: 3awe 3awf 3awg 3v0d 3v0e 3v0f 3v0g 3v0h 3v0i 3v0j 4g7y

(-) Related Entries Specified in the PDB File

4g7y 4g80