2V3Q - JenaLib

Title :   SERENDIPITOUS DISCOVERY AND X-RAY STRUCTURE OF A HUMAN PHOSPHATE BINDING APOLIPOPROTEIN

Authors :   R. Morales, A. Berna, P. Carpentier, M. Elias, C. Contreras-Martel, F. M. Nicodeme, M. -L. Chesne-Seck, F. Bernier, J. Dupuy, C. Schaeffer, H A. Van Dorsselaer, J. C. Fontecilla, P. Masson, D. Rochu, E. Chabrier

Date :   20 Jun 07 (Deposition) - 22 Jul 08 (Release) - 27 Jan 16 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.89

Chains :   Asym./Biol. Unit : A

Keywords :   Atherosclerosis, Hdl, Missing Gene, Paraoxonase, Phosphatemia, Transport Protein, Transporter (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   H. Diemer, M. Elias, F. Renault, D. Rochu, C. Contreras-Martel, C. Schaeffer, A. Van Dorsselaer, E. Chabriere
Tandem Use Of X-Ray Crystallography And Mass Spectrometry To Obtain Ab Initio The Complete And Exact Amino Acids Sequence Of Hpbp, A Human 38Kda Apolipoprotein
Proteins: Struct. , Funct. , V. 71 1708 2008 Bioinf.
PubMed-ID: 18076037 | Reference-DOI: 10.1002/PROT.21866
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 17)

Sites (17, 17)

Asymmetric Unit (17, 17)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	SER A:327 , ALA A:328 , ASN A:329 , HOH A:2587 , HOH A:2588 , HOH A:2661 , HOH A:2662	BINDING SITE FOR RESIDUE GOL A1377
02	AC2	SOFTWARE	THR A:168 , THR A:169 , THR A:170 , HOH A:2665 , HOH A:2666	BINDING SITE FOR RESIDUE GOL A1378
03	AC3	SOFTWARE	ALA A:7 , THR A:8 , LEU A:9 , GLY A:31 , SER A:32 , ASP A:61 , ARG A:140 , SER A:144 , GLY A:145 , THR A:146	BINDING SITE FOR RESIDUE PO4 A1379
04	AC4	SOFTWARE	ASP A:1 , ASN A:3 , LYS A:53 , HOH A:2165 , HOH A:2660 , HOH A:2667 , HOH A:2668 , HOH A:2669	BINDING SITE FOR RESIDUE GOL A1382
05	AC5	SOFTWARE	ASP A:1 , GLN A:312 , GLN A:376 , HOH A:2007 , HOH A:2288 , HOH A:2570 , HOH A:2660	BINDING SITE FOR RESIDUE EDO A1383
06	AC6	SOFTWARE	GLY A:101 , ALA A:102 , GLY A:130 , GLY A:283 , HOH A:2268	BINDING SITE FOR RESIDUE EDO A1384
07	AC7	SOFTWARE	ARG A:119 , ALA A:121 , ASP A:122 , HOH A:2672	BINDING SITE FOR RESIDUE EDO A1385
08	AC8	SOFTWARE	ARG A:317 , HOH A:2579 , HOH A:2673 , HOH A:2674 , HOH A:2685	BINDING SITE FOR RESIDUE EDO A1386
09	AC9	SOFTWARE	LEU A:69 , ASN A:269 , HOH A:2224 , HOH A:2675 , HOH A:2676 , HOH A:2677 , HOH A:2678	BINDING SITE FOR RESIDUE EDO A1387
10	BC1	SOFTWARE	ASN A:103 , GLY A:128 , ALA A:129 , GLY A:130 , EDO A:1392 , HOH A:2266 , HOH A:2679	BINDING SITE FOR RESIDUE EDO A1388
11	BC2	SOFTWARE	PRO A:289 , ASP A:290 , SER A:291 , HOH A:2545 , HOH A:2680 , HOH A:2681	BINDING SITE FOR RESIDUE EDO A1389
12	BC3	SOFTWARE	ARG A:317 , LEU A:355 , ALA A:357 , HOH A:2682 , HOH A:2683 , HOH A:2684 , HOH A:2685	BINDING SITE FOR RESIDUE EDO A1390
13	BC4	SOFTWARE	ARG A:119 , HOH A:2686 , HOH A:2687	BINDING SITE FOR RESIDUE EDO A1391
14	BC5	SOFTWARE	THR A:127 , GLY A:128 , EDO A:1388 , HOH A:2066 , HOH A:2155 , HOH A:2511 , HOH A:2515 , HOH A:2517	BINDING SITE FOR RESIDUE EDO A1392
15	BC6	SOFTWARE	VAL A:259 , PRO A:260 , PRO A:262 , VAL A:272 , PRO A:275 , GLY A:284 , HOH A:2536 , HOH A:2688 , HOH A:2689	BINDING SITE FOR RESIDUE GOL A1393
16	BC7	SOFTWARE	LYS A:99 , ARG A:131 , SER A:132 , GLY A:283 , HOH A:2261 , HOH A:2319 , HOH A:2690 , HOH A:2692 , HOH A:2693	BINDING SITE FOR RESIDUE EDO A1394
17	BC8	SOFTWARE	THR A:219 , ALA A:221 , HOH A:2450	BINDING SITE FOR RESIDUE EDO A1395

SS Bonds (2, 2)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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 A from PDB  Type:PROTEIN  Length:376
 aligned with PHBP_UNKP | P85173 from UniProtKB/Swiss-Prot  Length:376

    Alignment length:376
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370      
            PHBP_UNKP     1 DINGGGATLPQKLYLTPDVLTAGFAPYIGVGSGKGKIAFLENKYNQFGTDTTKNVHWAGSDSKLTATELATYAADKEPGWGKLIQVPSVATSVAIPFRKAGANAVDLSVKELCGVFSGRIADWSGITGAGRSGPIQVVYRAESSGTTELFTRFLNAKCTTEPGTFAVTTTFANSYSLGLTPLAGAVAATGSDGVMAALNDTTVAEGRITYISPDFAAPTLAGLDDATKVARVGKGVVNGVAVEGKSPAAANVSAAISVVPLPAAADRGNPDVWVPVFGATTGGGVVAYPDSGYPILGFTNLIFSQCYANATQTGQVRDFFTKHYGTSANNDAAIEANAFVPLPSNWKAAVRASFLTASNALSIGNTNVCNGKGRPQ 376
               SCOP domains d2v3qa1 A:1-376 PstS-like phosphate-binding protein                                                                                                                                                                                                                                                                                                                                      SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains PBP_like_2-2v3qA01 A:1-327                                                                                                                                                                                                                                                                                                             ------------------------------------------------- Pfam domains
         Sec.struct. author ...eee...hhhhhh............ee.hhhhhhhhhhhhhhhhh.........eeee....hhhhhhhhhhhhhhhhh.eeeeeeeeee.............eehhhhhhhhhhh....hhhh.........eeeee...hhhhhhhhhhhhhhh...........hhhhh...........eeehhhhhhhhhhhh......ee...hhhhhh.hhhhhhh.....ee..eee..eee......hhhhhhhhhh....hhhhh.hhhhhh.eee......eee........eeeeeeeee....hhhhhhhhhhhhhhhh.....hhhhhhhh.....hhhhhhhhhhhhh.........hhhhhh...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2v3q A   1 DINGGGATLPQKLYLTPDVLTAGFAPYIGVGSGKGKIAFLENKYNQFGTDTTKNVHWAGSDSKLTATELATYAADKEPGWGKLIQVPSVATSVAIPFRKAGANAVDLSVKELCGVFSGRIADWSGITGAGRSGPIQVVYRAESSGTTELFTRFLNAKCTTEPGTFAVTTTFANSYSLGLTPLAGAVAATGSDGVMAALNDTTVAEGRITYISPDFAAPTLAGLDDATKVARVGKGVVNGVAVEGKSPAAANVSAAISVVPLPAAADRGNPDVWVPVFGATTGGGVVAYPDSGYPILGFTNLIFSQCYANATQTGQVRDFFTKHYGTSANNDAAIEANAFVPLPSNWKAAVRASFLTASNALSIGNTNVCNGKGRPQ 376
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370

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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 (1, 1)

CATH Domains (0, 0)

Pfam Domains (1, 1)

Gene Ontology (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (PHBP_UNKP | P85173)

biological process
	GO:0006817	phosphate ion transport	The directed movement of phosphate into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	GO:0006810	transport	The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
	GO:0005576	extracellular region	The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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