2X21 - JenaLib

Title :   STRUCTURE OF PERIDININ-CHLOROPHYLL-PROTEIN RECONSTITUTED WITH BCHL-A

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 :   1.75

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

Keywords :   Light-Harvesting Polypeptide, Light Harvesting Protein, Alpha Helical, Photosynthesis, 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 (8, 26)

Asymmetric Unit (8, 26)

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

Biological Unit 1 (4, 14)

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

Sites (26, 26)

Asymmetric Unit (26, 26)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	LEU M:41 , ILE M:48 , HIS M:66 , LEU M:92 , PID M:611 , PID M:612 , PID M:613 , PID M:614 , DGD M:615 , HOH M:2132	BINDING SITE FOR RESIDUE BCL M 601
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 , BCL M:601 , DGD M:615 , HOH M:2062 , HOH M:2225	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 , BCL M:601 , PID M:613 , DGD M:615	BINDING SITE FOR RESIDUE PID M 612
04	AC4	SOFTWARE	MET M:47 , LEU M:59 , VAL M:104 , MET M:105 , VAL M:107 , TYR M:108 , LYS M:118 , ALA M:121 , LEU M:140 , BCL M:601 , PID M:612 , PID M:614 , DGD M:615 , HOH M:2208 , HOH M:2232	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 , GLN M:150 , BCL M:601 , PID M:613 , HOH M:2065 , HOH M:2227	BINDING SITE FOR RESIDUE PID M 614
06	AC6	SOFTWARE	LEU M:29 , TYR M:108 , VAL M:111 , SER M:112 , PRO M:120 , ALA M:121 , GLU M:133 , TYR M:136 , GLU M:137 , BCL M:601 , PID M:611 , PID M:612 , PID M:613 , HOH M:2187 , HOH M:2208 , HOH M:2229 , HOH M:2230 , HOH M:2231 , HOH M:2232 , HOH M:2233	BINDING SITE FOR RESIDUE DGD M 615
07	AC7	SOFTWARE	ASP M:5 , ASP M:22 , CL M:1161 , HOH M:2006 , HOH M:2059	BINDING SITE FOR RESIDUE CD M1151
08	AC8	SOFTWARE	GLU M:2 , ASP M:5 , CL M:1160 , HOH M:2014 , HOH M:2025 , HOH M:2034 , HOH M:2060	BINDING SITE FOR RESIDUE CD M1152
09	AC9	SOFTWARE	ASP M:109 , ASP M:116 , CD M:1157 , CL M:1158 , CL M:1162 , HOH M:2182 , HOH M:2184	BINDING SITE FOR RESIDUE CD M1153
10	BC1	SOFTWARE	ASN M:102 , ASP M:106 , HOH M:2078 , HOH M:2079 , HOH M:2164	BINDING SITE FOR RESIDUE CD M1154
11	BC2	SOFTWARE	GLU M:39 , CL M:1159 , HOH M:2088 , HOH M:2177	BINDING SITE FOR RESIDUE CD M1155
12	BC3	SOFTWARE	GLU M:39 , HOH M:2088 , HOH M:2092	BINDING SITE FOR RESIDUE CD M1156
13	BC4	SOFTWARE	CD M:1153 , CL M:1158 , CL M:1162 , HOH M:2079 , HOH M:2096 , HOH M:2165 , HOH M:2167	BINDING SITE FOR RESIDUE CD M1157
14	BC5	SOFTWARE	MET M:105 , LYS M:118 , CD M:1153 , CD M:1157 , CL M:1162	BINDING SITE FOR RESIDUE CL M1158
15	BC6	SOFTWARE	GLN M:36 , PRO M:37 , LEU M:38 , GLU M:39 , CD M:1155	BINDING SITE FOR RESIDUE CL M1159
16	BC7	SOFTWARE	GLU M:2 , CD M:1152 , HOH M:2014	BINDING SITE FOR RESIDUE CL M1160
17	BC8	SOFTWARE	ALA M:0 , ASP M:22 , ASN M:25 , CD M:1151	BINDING SITE FOR RESIDUE CL M1161
18	BC9	SOFTWARE	LYS M:34 , ASP M:109 , ASP M:116 , CD M:1153 , CD M:1157 , CL M:1158 , HOH M:2170	BINDING SITE FOR RESIDUE CL M1162
19	CC1	SOFTWARE	GLU M:133 , K M:1168	BINDING SITE FOR RESIDUE CL M1163
20	CC2	SOFTWARE	ASP M:55 , NA M:1169 , HOH M:2116	BINDING SITE FOR RESIDUE CL M1164
21	CC3	SOFTWARE	HOH M:2082 , HOH M:2083 , HOH M:2115 , HOH M:2160	BINDING SITE FOR RESIDUE K M1165
22	CC4	SOFTWARE	GLU M:101 , LYS M:147	BINDING SITE FOR RESIDUE K M1166
23	CC5	SOFTWARE	LYS M:68 , ASP M:84 , HOH M:2136 , HOH M:2143	BINDING SITE FOR RESIDUE K M1167
24	CC6	SOFTWARE	GLU M:133 , CL M:1163 , HOH M:2204	BINDING SITE FOR RESIDUE K M1168
25	CC7	SOFTWARE	ASP M:55 , CL M:1164 , HOH M:2114	BINDING SITE FOR RESIDUE NA M1169
26	CC8	SOFTWARE	ALA M:0 , ASP M:1 , HOH M:2157 , HOH M:2234 , HOH M:2235 , HOH M:2236 , HOH M:2237	BINDING SITE FOR RESIDUE PEG M1170

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-2x21M01 M:1-146                                                                                                                               ---- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh...hhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh....hhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2x21 M   0 ADEIGDAAKKLGDASYAFAKEVDWNNGIFLQAPGKLQPLEALKAIDKMIVMGAAADPKLLKAAAEAHHKAIGSVSGPNGVTSRADWDSVNAALGRVIASVPENMVMDVYDSVSKITDPKVPAYMKSLVNGADAEKAYEGFLAFKDVVKKSQ 150
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149

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	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 (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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