2X1Z - JenaLib

Title :   STRUCTURE OF PERIDININ-CHLOROPHYLL-PROTEIN RECONSTITUTED WITH CHL-D

Authors :   T. Schulte, R. G. Hiller, E. Hofmann

Date :   09 Jan 10 (Deposition) - 09 Feb 10 (Release) - 09 Mar 10 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

Chains :   Asym. Unit : M
Biol. Unit 1: M  (2x)

Keywords :   Light-Harvesting Polypeptide, Light Harvesting Protein, Alpha Helical, Photosynthesis, Transit Peptide, Chromophore, Chloroplast, Carotenoids (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   T. Schulte, R. G. Hiller, E. Hofmann
X-Ray Structures Of The Peridinin-Chlorophyll- Protein Reconstituted With Different Chlorophylls.
Febs Lett. V. 584 973 2010
PubMed-ID: 20102711 | Reference-DOI: 10.1016/J.FEBSLET.2010.01.041

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (7, 19)

Asymmetric Unit (7, 19)

No.	Name	Count	Type	Full Name
1	CD	6	Ligand/Ion	CADMIUM ION
3	CL	4	Ligand/Ion	CHLORIDE ION
2	CL7	1	Ligand/Ion	CHLOROPHYLL D
4	DGD	1	Ligand/Ion	DIGALACTOSYL DIACYL GLYCEROL (DGDG)
5	NA	2	Ligand/Ion	SODIUM ION
6	PEG	1	Ligand/Ion	DI(HYDROXYETHYL)ETHER
7	PID	4	Ligand/Ion	PERIDININ

Biological Unit 1 (4, 14)

No.	Name	Count	Type	Full Name
1	CD	-1	Ligand/Ion	CADMIUM ION
3	CL	-1	Ligand/Ion	CHLORIDE ION
2	CL7	2	Ligand/Ion	CHLOROPHYLL D
4	DGD	2	Ligand/Ion	DIGALACTOSYL DIACYL GLYCEROL (DGDG)
5	NA	-1	Ligand/Ion	SODIUM ION
6	PEG	2	Ligand/Ion	DI(HYDROXYETHYL)ETHER
7	PID	8	Ligand/Ion	PERIDININ

Sites (19, 19)

Asymmetric Unit (19, 19)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	PHE M:17 , ILE M:48 , ALA M:62 , ALA M:63 , HIS M:66 , LEU M:92 , ALA M:132 , PHE M:139 , PID M:611 , PID M:612 , PID M:613 , PID M:614 , DGD M:1152 , HOH M:2116	BINDING SITE FOR RESIDUE CL7 M1151
02	AC2	SOFTWARE	PHE M:17 , TRP M:23 , PHE M:28 , LEU M:29 , LEU M:35 , PRO M:37 , ALA M:40 , PRO M:120 , ALA M:121 , MET M:123 , LYS M:124 , ALA M:132 , TYR M:136 , CL7 M:1151 , DGD M:1152 , HOH M:2202 , HOH M:2203 , HOH M:2204 , HOH M:2205	BINDING SITE FOR RESIDUE PID M 611
03	AC3	SOFTWARE	ILE M:27 , PHE M:28 , GLN M:30 , ALA M:31 , ILE M:44 , MET M:47 , VAL M:119 , TYR M:122 , MET M:123 , PID M:613 , CL7 M:1151 , DGD M:1152	BINDING SITE FOR RESIDUE PID M 612
04	AC4	SOFTWARE	MET M:47 , LEU M:59 , VAL M:104 , VAL M:107 , TYR M:108 , LYS M:118 , ALA M:121 , LEU M:140 , PID M:612 , PID M:614 , CL7 M:1151 , DGD M:1152 , HOH M:2184 , HOH M:2213	BINDING SITE FOR RESIDUE PID M 613
05	AC5	SOFTWARE	TRP M:23 , LEU M:41 , ALA M:69 , ILE M:70 , GLY M:78 , VAL M:79 , THR M:80 , TRP M:85 , VAL M:88 , ASN M:89 , LEU M:92 , GLU M:101 , PHE M:139 , LYS M:143 , VAL M:146 , PID M:613 , CL7 M:1151 , HOH M:2053 , HOH M:2206 , HOH M:2207 , HOH M:2208	BINDING SITE FOR RESIDUE PID M 614
06	AC6	SOFTWARE	MET M:47 , TYR M:108 , VAL M:111 , SER M:112 , PRO M:120 , GLU M:133 , TYR M:136 , GLU M:137 , LEU M:140 , PID M:611 , PID M:612 , PID M:613 , CL7 M:1151 , HOH M:2166 , HOH M:2184 , HOH M:2203 , HOH M:2209 , HOH M:2211 , HOH M:2212 , HOH M:2213	BINDING SITE FOR RESIDUE DGD M1152
07	AC7	SOFTWARE	GLU M:2 , ASP M:5 , HOH M:2011 , HOH M:2013 , HOH M:2021 , HOH M:2028 , HOH M:2046	BINDING SITE FOR RESIDUE CD M1171
08	AC8	SOFTWARE	ASP M:5 , ASP M:22 , CL M:1161 , HOH M:2007 , HOH M:2047	BINDING SITE FOR RESIDUE CD M1172
09	AC9	SOFTWARE	ASN M:102 , ASP M:106 , HOH M:2093 , HOH M:2148	BINDING SITE FOR RESIDUE CD M1173
10	BC1	SOFTWARE	MET M:105 , ASP M:109 , ASP M:116 , CL M:1167 , HOH M:2154 , HOH M:2156	BINDING SITE FOR RESIDUE CD M1174
11	BC2	SOFTWARE	GLU M:39 , CL M:1162 , HOH M:2080 , HOH M:2160	BINDING SITE FOR RESIDUE CD M1175
12	BC3	SOFTWARE	GLU M:39 , HOH M:2080 , HOH M:2085	BINDING SITE FOR RESIDUE CD M1176
13	BC4	SOFTWARE	ALA M:0 , ASP M:22 , ASN M:25 , CD M:1172	BINDING SITE FOR RESIDUE CL M1161
14	BC5	SOFTWARE	GLN M:36 , PRO M:37 , LEU M:38 , GLU M:39 , CD M:1175	BINDING SITE FOR RESIDUE CL M1162
15	BC6	SOFTWARE	ASP M:55 , NA M:1163 , HOH M:2103	BINDING SITE FOR RESIDUE CL M1166
16	BC7	SOFTWARE	MET M:105 , ASP M:116 , CD M:1174	BINDING SITE FOR RESIDUE CL M1167
17	BC8	SOFTWARE	ASP M:55 , CL M:1166 , HOH M:2102 , HOH M:2103	BINDING SITE FOR RESIDUE NA M1163
18	BC9	SOFTWARE	LYS M:68 , ASP M:84 , HOH M:2127	BINDING SITE FOR RESIDUE NA M1164
19	CC1	SOFTWARE	ALA M:0 , ASP M:1 , GLU M:20 , ARG M:94 , HOH M:2214	BINDING SITE FOR RESIDUE PEG M1165

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)
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	UniProt sequence: complete aligned part

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Chain M from PDB  Type:PROTEIN  Length:151
 aligned with PCP1_AMPCA | P80484 from UniProtKB/Swiss-Prot  Length:370

    Alignment length:151
                                    66        76        86        96       106       116       126       136       146       156       166       176       186       196       206 
           PCP1_AMPCA    57 ADEIGDAAKKLGDASYAFAKEVDWNNGIFLQAPGKLQPLEALKAIDKMIVMGAAADPKLLKAAAEAHHKAIGSVSGPNGVTSRADWDNVNAALGRVIASVPENMVMDVYDSVSKITDPKVPAYMKSLVSGADAEKAYEGFLAFKDVVKKSQ 207
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -PCP-2x1zM01 M:1-146                                                                                                                               ---- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh...hhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh....hhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2x1z M   0 ADEIGDAAKKLGDASYAFAKEVDWNNGIFLQAPGKLQPLEALKAIDKMIVMGAAADPKLLKAAAEAHHKAIGSVSGPNGVTSRADWDSVNAALGRVIASVPENMVMDVYDSVSKITDPKVPAYMKSLVNGADAEKAYEGFLAFKDVVKKSQ 150
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149

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	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 (1, 1)

Gene Ontology (5, 5)

Asymmetric Unit(hide GO term definitions)

Chain M (PCP1_AMPCA | P80484)

molecular function
	GO:0016168	chlorophyll binding	Interacting selectively and non-covalently with chlorophyll; any compound of magnesium complexed in a porphyrin (tetrapyrrole) ring and which functions as a photosynthetic pigment.
biological process
	GO:0018298	protein-chromophore linkage	The covalent or noncovalent attachment of a chromophore to a protein.
cellular component
	GO:0009507	chloroplast	A chlorophyll-containing plastid with thylakoids organized into grana and frets, or stroma thylakoids, and embedded in a stroma.
	GO:0030076	light-harvesting complex	A protein-pigment complex that may be closely or peripherally associated to photosynthetic reaction centers that participate in harvesting and transferring radiant energy to the reaction center.
	GO:0009536	plastid	Any member of a family of organelles found in the cytoplasm of plants and some protists, which are membrane-bounded and contain DNA. Plant plastids develop from a common type, the proplastid.

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