3Q9J - JenaLib

Title :   AIIFL SEGMENT DERIVED FROM ALZHEIMER'S AMYLOID-BETA DISPLAYED ON 42-MEMBERED MACROCYCLE SCAFFOLD

Authors :   C. Liu, M. R. Sawaya, D. Eisenberg, J. S. Nowick, P. Cheng, J. Zheng

Date :   07 Jan 11 (Deposition) - 08 Jun 11 (Release) - 08 Jun 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.55

Chains :   Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D  (1x)
Biol. Unit 2: E,F,G,H  (1x)

Keywords :   Beta Sheet Tetramer, Macrocyclic Peptide, Beta-Sheet Mimic, Amyloid- Like Oligomer, Protein Fibril (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. Liu, M. R. Sawaya, P. N. Cheng, J. Zheng, J. S. Nowick, D. Eisenberg
Characteristics Of Amyloid-Related Oligomers Revealed By Crystal Structures Of Macrocyclic Beta-Sheet Mimics.
J. Am. Chem. Soc. V. 133 6736 2011
PubMed-ID: 21473620 | Reference-DOI: 10.1021/JA200222N

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (5, 39)

Sites (15, 15)

Asymmetric Unit (15, 15)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	LYS E:9	BINDING SITE FOR RESIDUE CL E 11
02	AC2	SOFTWARE	LYS D:9	BINDING SITE FOR RESIDUE CL D 11
03	AC3	SOFTWARE	LYS C:9	BINDING SITE FOR RESIDUE CL C 11
04	AC4	SOFTWARE	LYS F:9	BINDING SITE FOR RESIDUE CL F 11
05	AC5	SOFTWARE	HAO G:7 , LYS G:9 , HOH G:12 , HOH G:13 , HOH G:14	BINDING SITE FOR RESIDUE GOL G 11
06	AC6	SOFTWARE	HAO B:7 , TYR B:8	BINDING SITE FOR RESIDUE GOL H 11
07	AC7	SOFTWARE	LYS B:9 , LYS D:9 , HOH G:15	BINDING SITE FOR RESIDUE GOL B 11
08	AC8	SOFTWARE	ORN A:10 , ORN D:10	BINDING SITE FOR RESIDUE ZN A 12
09	AC9	SOFTWARE	ORN B:10 , ORN C:10	BINDING SITE FOR RESIDUE ZN B 13
10	BC1	SOFTWARE	ORN B:6 , HOH B:12 , ORN G:6 , HOH G:23	BINDING SITE FOR RESIDUE ZN B 14
11	BC2	SOFTWARE	ORN C:6 , ORN E:6	BINDING SITE FOR RESIDUE ZN E 15
12	BC3	SOFTWARE	ORN D:6 , ORN F:6 , HOH F:14	BINDING SITE FOR RESIDUE ZN F 16
13	BC4	SOFTWARE	ORN F:10 , ORN G:10	BINDING SITE FOR RESIDUE ZN F 17
14	BC5	SOFTWARE	ORN A:6 , ORN H:6 , HOH H:13 , HOH H:22	BINDING SITE FOR RESIDUE ZN A 18
15	BC6	SOFTWARE	ORN E:10 , ORN H:10	BINDING SITE FOR RESIDUE ZN E 19

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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:10
                                         
               SCOP domains ---------- SCOP domains
               CATH domains ---------- CATH domains
               Pfam domains ---------- Pfam domains
         Sec.struct. author .......... Sec.struct. author
                 SAPs(SNPs) ---------- SAPs(SNPs)
                    PROSITE ---------- PROSITE
                 Transcript ---------- Transcript
                  3q9j A  1 AIIFLaxYKa 10
                                 || 10
                                 6-ORN
                                  7-HAO
                                    10-ORN

Chain B from PDB  Type:PROTEIN  Length:10
                                         
               SCOP domains ---------- SCOP domains
               CATH domains ---------- CATH domains
               Pfam domains ---------- Pfam domains
         Sec.struct. author .......... Sec.struct. author
                 SAPs(SNPs) ---------- SAPs(SNPs)
                    PROSITE ---------- PROSITE
                 Transcript ---------- Transcript
                  3q9j B  1 AIIFLaxYKa 10
                                 || 10
                                 6-ORN
                                  7-HAO
                                    10-ORN

Chain C from PDB  Type:PROTEIN  Length:10
                                         
               SCOP domains ---------- SCOP domains
               CATH domains ---------- CATH domains
               Pfam domains ---------- Pfam domains
         Sec.struct. author .......... Sec.struct. author
                 SAPs(SNPs) ---------- SAPs(SNPs)
                    PROSITE ---------- PROSITE
                 Transcript ---------- Transcript
                  3q9j C  1 AIIFLaxYKa 10
                                 || 10
                                 6-ORN
                                  7-HAO
                                    10-ORN

Chain D from PDB  Type:PROTEIN  Length:10
                                         
               SCOP domains ---------- SCOP domains
               CATH domains ---------- CATH domains
               Pfam domains ---------- Pfam domains
         Sec.struct. author .......... Sec.struct. author
                 SAPs(SNPs) ---------- SAPs(SNPs)
                    PROSITE ---------- PROSITE
                 Transcript ---------- Transcript
                  3q9j D  1 AIIFLaxYKa 10
                                 || 10
                                 6-ORN
                                  7-HAO
                                    10-ORN

Chain E from PDB  Type:PROTEIN  Length:10
                                         
               SCOP domains ---------- SCOP domains
               CATH domains ---------- CATH domains
               Pfam domains ---------- Pfam domains
         Sec.struct. author .......... Sec.struct. author
                 SAPs(SNPs) ---------- SAPs(SNPs)
                    PROSITE ---------- PROSITE
                 Transcript ---------- Transcript
                  3q9j E  1 AIIFLaxYKa 10
                                 || 10
                                 6-ORN
                                  7-HAO
                                    10-ORN

Chain F from PDB  Type:PROTEIN  Length:10
                                         
               SCOP domains ---------- SCOP domains
               CATH domains ---------- CATH domains
               Pfam domains ---------- Pfam domains
         Sec.struct. author .......... Sec.struct. author
                 SAPs(SNPs) ---------- SAPs(SNPs)
                    PROSITE ---------- PROSITE
                 Transcript ---------- Transcript
                  3q9j F  1 AIIFLaxYKa 10
                                 || 10
                                 6-ORN
                                  7-HAO
                                    10-ORN

Chain G from PDB  Type:PROTEIN  Length:10
                                         
               SCOP domains ---------- SCOP domains
               CATH domains ---------- CATH domains
               Pfam domains ---------- Pfam domains
         Sec.struct. author .......... Sec.struct. author
                 SAPs(SNPs) ---------- SAPs(SNPs)
                    PROSITE ---------- PROSITE
                 Transcript ---------- Transcript
                  3q9j G  1 AIIFLaxYKa 10
                                 || 10
                                 6-ORN
                                  7-HAO
                                    10-ORN

Chain H from PDB  Type:PROTEIN  Length:10
                                         
               SCOP domains ---------- SCOP domains
               CATH domains ---------- CATH domains
               Pfam domains ---------- Pfam domains
         Sec.struct. author .......... Sec.struct. author
                 SAPs(SNPs) ---------- SAPs(SNPs)
                    PROSITE ---------- PROSITE
                 Transcript ---------- Transcript
                  3q9j H  1 AIIFLaxYKa 10
                                 || 10
                                 6-ORN
                                  7-HAO
                                    10-ORN

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 (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (0, 0)

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