1PJX - JenaLib

Title :   0.85 ANGSTROM STRUCTURE OF SQUID GANGLION DFPASE

Authors :   J. Koepke, H. Rueterjans, C. Luecke, G. Fritzsch

Date :   04 Jun 03 (Deposition) - 08 Jun 04 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   0.85

Chains :   Asym./Biol. Unit : A

Keywords :   Phosphotriesterase (Pte), Nitrogen-Calcium Coordination, Beta- Propeller, Bond-Length And Bond-Angle Restraints, Torsion Angles, Rotamer Classification, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. Koepke, E. I. Scharff, C. Lucke, H. Ruterjans, G. Fritzsch
Statistical Analysis Of Crystallographic Data Obtained From Squid Ganglion Dfpase At 0. 85 A Resolution.
Acta Crystallogr. , Sect. D V. 59 1744 2003
PubMed-ID: 14501113 | Reference-DOI: 10.1107/S0907444903016135
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (9, 24)

Sites (24, 24)

Asymmetric Unit (24, 24)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	GLU A:21 , ASN A:120 , ASN A:175 , ASP A:229 , HOH A:502 , HOH A:524 , HOH A:604	BINDING SITE FOR RESIDUE CA A 491
02	AC2	SOFTWARE	ASP A:232 , LEU A:273 , HIS A:274 , HOH A:509 , HOH A:615 , HOH A:623	BINDING SITE FOR RESIDUE CA A 492
03	AC3	SOFTWARE	VAL A:5 , GLU A:7 , HIS A:248 , ARG A:264 , MES A:411 , HOH A:976 , HOH A:1047	BINDING SITE FOR RESIDUE ME2 A 471
04	AC4	SOFTWARE	GLU A:7 , LYS A:43 , PRO A:44 , ASN A:67 , GLY A:68 , TYR A:69 , ARG A:91 , ARG A:264 , PHE A:311 , ME2 A:471 , HOH A:508 , HOH A:628 , HOH A:728 , HOH A:1127 , HOH A:1128	BINDING SITE FOR RESIDUE MES A 411
05	AC5	SOFTWARE	GLU A:65 , VAL A:66 , THR A:102 , PHE A:103 , GLN A:258 , HOH A:598 , HOH A:687 , HOH A:1129	BINDING SITE FOR RESIDUE MES A 412
06	AC6	SOFTWARE	LYS A:57 , VAL A:167 , ASP A:168 , ILE A:211 , MXE A:451 , HOH A:859	BINDING SITE FOR RESIDUE EDO A 421
07	AC7	SOFTWARE	PHE A:86 , PHE A:124 , PHE A:158 , THR A:159 , THR A:160 , PEG A:461 , HOH A:517 , HOH A:692 , HOH A:702 , HOH A:858 , HOH A:979	BINDING SITE FOR RESIDUE EDO A 422
08	AC8	SOFTWARE	ARG A:115 , GLU A:138 , ASN A:289 , TRP A:293 , HOH A:516 , HOH A:617 , HOH A:959	BINDING SITE FOR RESIDUE EDO A 423
09	AC9	SOFTWARE	PRO A:196 , LYS A:198 , THR A:223 , HIS A:224 , PGE A:433 , HOH A:647 , HOH A:970	BINDING SITE FOR RESIDUE EDO A 424
10	BC1	SOFTWARE	HIS A:219 , ILE A:220 , PRO A:221 , GLN A:258 , HOH A:876	BINDING SITE FOR RESIDUE EDO A 425
11	BC2	SOFTWARE	MET A:148 , ASP A:184 , GLU A:225 , PHE A:314 , PGE A:433 , HOH A:581 , HOH A:890 , HOH A:906 , HOH A:1001	BINDING SITE FOR RESIDUE EDO A 426
12	BC3	SOFTWARE	GLY A:256 , GLY A:257 , GLN A:258 , LYS A:260 , PEG A:462 , HOH A:877 , HOH A:1123	BINDING SITE FOR RESIDUE EDO A 427
13	BC4	SOFTWARE	HOH A:1082 , HOH A:1125 , HOH A:1126	BINDING SITE FOR RESIDUE EDO A 428
14	BC5	SOFTWARE	MET A:148 , GLN A:172 , ASP A:184 , PRO A:196 , THR A:197 , EDO A:424 , EDO A:426 , HOH A:644 , HOH A:826 , HOH A:970 , HOH A:1102 , HOH A:1103	BINDING SITE FOR RESIDUE PGE A 433
15	BC6	SOFTWARE	ILE A:106 , PHE A:158 , GLY A:162 , GLN A:163 , MET A:164 , THR A:279 , LYS A:280 , THR A:281 , GLU A:296 , HOH A:521 , HOH A:544 , HOH A:685 , HOH A:735	BINDING SITE FOR RESIDUE PGE A 434
16	BC7	SOFTWARE	ARG A:50 , THR A:59 , LYS A:151 , TRP A:201 , LYS A:214 , MXE A:451 , MXE A:452 , HOH A:694 , HOH A:768 , HOH A:824 , HOH A:977	BINDING SITE FOR RESIDUE DXE A 441
17	BC8	SOFTWARE	TRP A:244 , LYS A:269 , HIS A:287 , GOL A:401 , HOH A:734	BINDING SITE FOR RESIDUE DXE A 442
18	BC9	SOFTWARE	PRO A:8 , LYS A:280 , GLU A:296 , TRP A:297 , PEG A:461 , HOH A:532 , HOH A:770 , HOH A:893 , HOH A:954	BINDING SITE FOR RESIDUE DXE A 443
19	CC1	SOFTWARE	LYS A:58 , THR A:59 , ASN A:213 , LYS A:214 , EDO A:421 , DXE A:441 , HOH A:569 , HOH A:768 , HOH A:859 , HOH A:923	BINDING SITE FOR RESIDUE MXE A 451
20	CC2	SOFTWARE	LYS A:151 , THR A:169 , ALA A:170 , PHE A:171 , GLU A:194 , LYS A:214 , DXE A:441 , HOH A:531 , HOH A:670 , HOH A:694	BINDING SITE FOR RESIDUE MXE A 452
21	CC3	SOFTWARE	GLU A:37 , GLY A:312 , ILE A:313 , PHE A:314 , DXE A:442 , HOH A:619	BINDING SITE FOR RESIDUE GOL A 401
22	CC4	SOFTWARE	PRO A:8 , LEU A:9 , PHE A:10 , ASP A:143 , LYS A:310 , HOH A:559 , HOH A:716 , HOH A:728	BINDING SITE FOR RESIDUE GOL A 403
23	CC5	SOFTWARE	GLN A:84 , ILE A:106 , LYS A:280 , EDO A:422 , DXE A:443 , HOH A:639 , HOH A:702 , HOH A:832 , HOH A:858	BINDING SITE FOR RESIDUE PEG A 461
24	CC6	SOFTWARE	LYS A:63 , GLU A:65 , ASP A:255 , GLY A:256 , GLY A:257 , EDO A:427 , HOH A:573 , HOH A:629 , HOH A:844	BINDING SITE FOR RESIDUE PEG A 462

SS Bonds (0, 0)

Cis Peptide Bonds (3, 3)

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)
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	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
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Chain A from PDB  Type:PROTEIN  Length:314
 aligned with DFPA_LOLVU | Q7SIG4 from UniProtKB/Swiss-Prot  Length:314

    Alignment length:314
                                    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    
           DFPA_LOLVU     1 MEIPVIEPLFTKVTEDIPGAEGPVFDKNGDFYIVAPEVEVNGKPAGEILRIDLKTGKKTVICKPEVNGYGGIPAGCQCDRDANQLFVADMRLGLLVVQTDGTFEEIAKKDSEGRRMQGCNDCAFDYEGNLWITAPAGEVAPADYTRSMQEKFGSIYCFTTDGQMIQVDTAFQFPNGIAVRHMNDGRPYQLIVAETPTKKLWSYDIKGPAKIENKKVWGHIPGTHEGGADGMDFDEDNNLLVANWGSSHIEVFGPDGGQPKMRIRCPFEKPSNLHFKPQTKTIFVTEHENNAVWKFEWQRNGKKQYCETLKFGIF 314
               SCOP domains d1pjxa_ A: Diisopropylfluorophosphatase (phosphotriesterase, DFP)                                                                                                                                                                                                                                                          SCOP domains
               CATH domains 1pjxA00 A:1-314 TolB, C-terminal domain                                                                                                                                                                                                                                                                                    CATH domains
               Pfam domains ------------------SGL-1pjxA01 A:19-302                                                                                                                                                                                                                                                                        ------------ Pfam domains
         Sec.struct. author ....ee....eeee......eeeee.....eeeee...ee..ee..eeeee......eeeee..ee..ee..eeeeee.....eeeeee...eeeeee....eee...............eeee.....eeeee..................eeeeee.....eeeeeeee..eeeeeeee.....eeeeeeee....eeeeeeeee..eeeeeeeeee.......eeeeeee.....eeeeee...eeeee........eeee.....eeeeee.....eeeeee....eeeeee.......hhhhh...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1pjx A   1 MEIPVIEPLFTKVTEDIPGAEGPVFDKNGDFYIVAPEVEVNGKPAGEILRIDLKTGKKTVICKPEVNGYGGIPAGCQCDRDANQLFVADMRLGLLVVQTDGTFEEIAKKDSEGRRMQGCNDCAFDYEGNLWITAPAGEVAPADYTRSMQEKFGSIYCFTTDGQMIQVDTAFQFPNGIAVRHMNDGRPYQLIVAETPTKKLWSYDIKGPAKIENKKVWGHIPGTHEGGADGMDFDEDNNLLVANWGSSHIEVFGPDGGQPKMRIRCPFEKPSNLHFKPQTKTIFVTEHENNAVWKFEWQRNGKKQYCETLKFGIF 314
                                    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

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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 (1, 1)

CATH Domains (1, 1)

Pfam Domains (1, 1)

Gene Ontology (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (DFPA_LOLVU | Q7SIG4)

molecular function
	GO:0005509	calcium ion binding	Interacting selectively and non-covalently with calcium ions (Ca2+).
	GO:0047862	diisopropyl-fluorophosphatase activity	Catalysis of the reaction: diisopropyl fluorophosphate + H(2)O = diisopropyl phosphate + 2 H(+) + hydrogen fluoride.
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
biological process
	GO:0008150	biological_process	Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.

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	Cis Peptide Bonds
		Ala A:140 - Pro A:141	[ RasMol ]
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