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(-) Description

Title :  SOLUTION STRUCTURE OF A LINKED SHORTENED GRAMICIDIN A IN BENZENE/ACETONE 10:1
 
Authors :  H. D. Arndt, D. Bockelmann, A. Knoll, S. Lamberth, C. Griesinger, U. Koe
Date :  05 Jan 02  (Deposition) - 27 Nov 02  (Release) - 10 Apr 13  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A,B,D,E
NMR Structure *:  A,B,D,E  (1x)
Keywords :  Gramicidin, Antifungal, Antibacterial, Antibiotic, Membrane Ion Channel, Linear Gramicidin, Metal Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. D. Arndt, D. Bockelmann, A. Knoll, S. Lamberth, C. Griesinger, U. Koert
Cation Control In Functional Helical Programming: Structure Of A D, L-Peptide Ion Channel
Angew. Chem. Int. Ed. Engl. V. 41 4062 2002

(-) Compounds

Molecule 1 - MINI-GRAMICIDIN A
    Chains: A, B, D, E
    Engineered: YES
    Organism Scientific: BREVIBACILLUS BREVIS
    Organism Taxid: 1393
    Other Details: GRAMICIDIN A RESIDUES 5-16
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234
NMR Structure : ABDE
NMR Structure * (1x): ABDE

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 26)

NMR Structure (4, 26)
No.NameCountTypeFull Name
1DLE12Mod. Amino AcidD-LEUCINE
2DVA8Mod. Amino AcidD-VALINE
3ETA4Mod. Amino AcidETHANOLAMINE
4SIN2Ligand/IonSUCCINIC ACID
NMR Structure * (4, 26)
No.NameCountTypeFull Name
1DLE12Mod. Amino AcidD-LEUCINE
2DVA8Mod. Amino AcidD-VALINE
3ETA4Mod. Amino AcidETHANOLAMINE
4SIN2Ligand/IonSUCCINIC ACID

(-) Sites  (2, 2)

NMR Structure (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESIN D:0 , ALA D:5 , DVA D:6 , VAL D:7 , DVA D:8 , TRP D:9 , DLE D:10 , TRP D:11 , DLE D:12 , TRP D:13 , DLE D:14 , TRP D:15 , ETA D:16 , ALA E:5 , DVA E:6 , VAL E:7 , DVA E:8 , TRP E:9 , DLE E:10 , TRP E:11 , DLE E:12 , TRP E:13 , DLE E:14 , TRP E:15 , ETA E:16BINDING SITE FOR CHAINS A AND B OF A LINKED GRAMICIDIN
2AC2SOFTWARESIN A:0 , ALA A:5 , DVA A:6 , VAL A:7 , DVA A:8 , TRP A:9 , DLE A:10 , TRP A:11 , DLE A:12 , TRP A:13 , DLE A:14 , TRP A:15 , ETA A:16 , ALA B:5 , DVA B:6 , VAL B:7 , DVA B:8 , TRP B:9 , DLE B:10 , TRP B:11 , DLE B:12 , TRP B:13 , DLE B:14 , TRP B:15 , ETA B:16BINDING SITE FOR CHAINS D AND E OF A LINKED GRAMICIDIN

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1KQE)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1KQE)

(-) Exons   (0, 0)

(no "Exon" information available for 1KQE)

(-) 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:12
                                           
               SCOP domains d1kqea_ A:   SCOP domains
               CATH domains ------------ CATH domains
               Pfam domains ------------ Pfam domains
         Sec.struct. author .eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------ SAPs(SNPs)
                    PROSITE ------------ PROSITE
                 Transcript ------------ Transcript
                  1kqe A  5 AxVxWxWxWxWx 16
                             | | | |14 |
                             | | | | | |
                             6-DVA | | |
                               8-DVA | |
                                10-DLE |
                                  12-DLE
                                    14-DLE
                                      16-ETA


Chain B from PDB  Type:PROTEIN  Length:12
                                           
               SCOP domains d1kqeb_ B:   SCOP domains
               CATH domains ------------ CATH domains
               Pfam domains ------------ Pfam domains
         Sec.struct. author .eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------ SAPs(SNPs)
                    PROSITE ------------ PROSITE
                 Transcript ------------ Transcript
                  1kqe B  5 AxVxWxWxWxWx 16
                             | | | |14 |
                             | | | | | |
                             6-DVA | | |
                               8-DVA | |
                                10-DLE |
                                  12-DLE
                                    14-DLE
                                      16-ETA


Chain D from PDB  Type:PROTEIN  Length:12
                                           
               SCOP domains ------------ SCOP domains
               CATH domains ------------ CATH domains
               Pfam domains ------------ Pfam domains
         Sec.struct. author .eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------ SAPs(SNPs)
                    PROSITE ------------ PROSITE
                 Transcript ------------ Transcript
                  1kqe D  5 AxVxWxWxWxWx 16
                             | | | |14 |
                             | | | | | |
                             6-DVA | | |
                               8-DVA | |
                                10-DLE |
                                  12-DLE
                                    14-DLE
                                      16-ETA


Chain E from PDB  Type:PROTEIN  Length:12
                                           
               SCOP domains ------------ SCOP domains
               CATH domains ------------ CATH domains
               Pfam domains ------------ Pfam domains
         Sec.struct. author .eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------ SAPs(SNPs)
                    PROSITE ------------ PROSITE
                 Transcript ------------ Transcript
                  1kqe E  5 AxVxWxWxWxWx 16
                             | | | |14 |
                             | | | | | |
                             6-DVA | | |
                               8-DVA | |
                                10-DLE |
                                  12-DLE
                                    14-DLE
                                      16-ETA
   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)

NMR Structure
(-)
Class: Peptides (792)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1KQE)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

NMR Structure(hide GO term definitions)
    (no "Gene Ontology" information available for 1KQE)

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 Related Entries

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

(no "Entries Sharing at Least One Protein Chain" available for 1KQE)

(-) Related Entries Specified in the PDB File

1al4 CRYSTAL STRUCTURE OF GRAMICIDIN D IN N-PROPANOL
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1av2 CRYSTAL STRUCTURE OF GRAMICIDIN A COMPLEXED WITH CESIUM CHLORIDE
1bdw CRYSTAL STRUCTURE OF GRAMICIDIN A FROM BACILLUS BREVIS
1c4d CRYSTAL STRUCTURE OF GRAMICIDIN A COMPLEXED WITH CESIUM CHLORIDE
1gmk CRYSTAL STRUCTURE OF GRAMICIDIN A COMPLRXED WITH POTASSIUM THIOCYANATE
1grm SOLUTION STRUCTURE OF THE GRAMICIDIN A
1jno SOLUTION STRUCTURE OF GRAMICIDIN A IN SODIUM DODECYL SULFATE MICELLES
1jo3 SOLUTION STRUCTURE OF GRAMICIDIN B IN SODIUM DODECYL SULFATE MICELLES
1jo4 SOLUTION STRUCTURE OF GRAMICIDIN C IN SODIUM DODECYL SULFATE MICELLES
1mag SOLID STATE NMR STRUCTURE OF GRAMICIDIN A IN HYDRATED DMPC BILAYERS,
1mic SOLUTION STRUCTURE OF GRAMICIDIN A IN METHANOL IN THE PRESENCE OF CACL
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1nrm SOLUTION STRUCTURE OF GRAMICIDIN A IN DODECYL PHOSPHOCHOLINE MICELLES
1nru SOLUTION STRUCTURE OF GRAMICIDIN A IN DODECYL PHOSPHOCHOLINE MICELLES IN THE PRESENCE OF EXCESS NA+
1nt5 SOLUTION STRUCTURE OF GRAMICIDIN A (V1F) IN SODIUM DODECYL SULFATE MICELLES
1nt6 SOLUTION STRUCTURE OF F1-GRAMICIDIN C IN SODIUM DODECYL SULFATE MICELLES
1tk2 CRYSTAL STRUCTURE OF GRAMICIDIN S COMPLEXED WITH ALKALINE PROTEINASE SAVINASE
1tkq SOLUTION STRUCTURE OF A LINKED UNSYMMETRIC GRAMICIDIN A IN A MEMBRANE-ISOELECTRICAL SOLVENTS MIXTURE, IN THE PRESENCE OF CSCL
1w5u CRYSTAL STRUCTURE OF GRAMICIDIN D IN ETHANOL
2izq CRYSTAL STRUCTURE OF GRAMICIDIN D COMPLEX WITH KI IN METHANOL
2xdc CRYSTAL STRUCTURE OF GRAMICIDIN A FROM CRYSTALS GROWN IN A LIPID CUBIC PHASE.
3l8l CRYSTAL STRUCTURE OF GRAMICIDIN D COMPLEX WITH NAI