1XX1 - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Biological Unit 5 (Jmol Viewer)

Title :   STRUCTURAL BASIS FOR ION-COORDINATION AND THE CATALYTIC MECHANISM OF SPHINGOMYELINASES D

Authors :   M. T. Murakami, D. V. Tambourgi, R. K. Arni

Date :   03 Nov 04 (Deposition) - 18 Jan 05 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.75

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: C,D  (1x)
Biol. Unit 3: A (1x),B (1x),C (1x),D (1x)
Biol. Unit 4: A (1x),B (1x),C (1x),D (1x)
Biol. Unit 5: A (1x),B (1x),C (1x),D (1x)

Keywords :   Structure, Quick Cryo-Soaking, Activity, Smase D, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. T. Murakami, M. F. Fernandes-Pedrosa, D. V. Tambourgi, R. K. Arni
Structural Basis For Metal Ion Coordination And The Catalytic Mechanism Of Sphingomyelinases D
J. Biol. Chem. V. 280 13658 2005
PubMed-ID: 15654080 | Reference-DOI: 10.1074/JBC.M412437200
(for further references see the PDB file header)

Molecule 1 - SPHINGOMYELINASE I
	Chains	:	A, B, C, D
	EC Number	:	3.1.4.41
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Organism Scientific	:	LOXOSCELES LAETA
	Organism Taxid	:	58217
	Synonym	:	SMASE I

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (1x)	:			C	D
Biological Unit 3 (1x)	:	A (1x)	B (1x)	C (1x)	D (1x)
Biological Unit 4 (1x)	:	A (1x)	B (1x)	C (1x)	D (1x)
Biological Unit 5 (1x)	:	A (1x)	B (1x)	C (1x)	D (1x)

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 30)

No.	Name	Count	Type	Full Name
1	EPE	3	Ligand/Ion	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
2	MG	4	Ligand/Ion	MAGNESIUM ION
3	SO4	23	Ligand/Ion	SULFATE ION

Biological Unit 1 (2, 13)

No.	Name	Count	Type	Full Name
1	EPE	1	Ligand/Ion	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	SO4	12	Ligand/Ion	SULFATE ION

Biological Unit 2 (2, 13)

No.	Name	Count	Type	Full Name
1	EPE	2	Ligand/Ion	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	SO4	11	Ligand/Ion	SULFATE ION

Biological Unit 3 (2, 13)

No.	Name	Count	Type	Full Name
1	EPE	1	Ligand/Ion	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	SO4	12	Ligand/Ion	SULFATE ION

Biological Unit 4 (0, 0)

No.	Name	Count	Type	Full Name
1	EPE	-1	Ligand/Ion	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	SO4	-1	Ligand/Ion	SULFATE ION

Biological Unit 5 (1, 6)

No.	Name	Count	Type	Full Name
1	EPE	-1	Ligand/Ion	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	SO4	6	Ligand/Ion	SULFATE ION

Asymmetric Unit (30, 30)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	HIS A:12 , HIS A:47 , LEU A:198 , TRP A:230 , MG A:9001 , HOH A:9102 , HOH A:9251 , HOH A:9252 , PRO B:50	BINDING SITE FOR RESIDUE SO4 A 3001
02	AC2	SOFTWARE	PRO A:50 , HIS B:12 , HIS B:47 , LEU B:198 , TRP B:230 , MG B:9002 , HOH B:9104 , HOH B:9256 , HOH B:9259	BINDING SITE FOR RESIDUE SO4 B 3002
03	AC3	SOFTWARE	HIS C:12 , HIS C:47 , LEU C:198 , TRP C:230 , HOH C:9046 , HOH C:9195 , HOH C:9230 , PRO D:50	BINDING SITE FOR RESIDUE SO4 C 3003
04	AC4	SOFTWARE	PRO C:50 , HIS D:12 , HIS D:47 , LEU D:198 , TRP D:230 , HOH D:9110 , HOH D:9133 , HOH D:9156 , HOH D:9198	BINDING SITE FOR RESIDUE SO4 D 3004
05	AC5	SOFTWARE	ARG A:4 , HOH A:9045 , HOH A:9172 , VAL D:65 , LYS D:68 , EPE D:2004	BINDING SITE FOR RESIDUE SO4 A 4001
06	AC6	SOFTWARE	ARG B:4 , HOH B:9094 , HOH B:9151 , VAL C:65 , LYS C:68 , EPE C:2003	BINDING SITE FOR RESIDUE SO4 B 4002
07	AC7	SOFTWARE	ALA C:1 , ASP C:2 , ARG C:4 , ALA D:1 , ASP D:2 , ASN D:3 , ARG D:4 , ARG D:271	BINDING SITE FOR RESIDUE SO4 C 4003
08	AC8	SOFTWARE	GLY A:39 , SER A:40 , GLN A:101 , HOH A:9015 , HOH A:9210 , HOH B:9146	BINDING SITE FOR RESIDUE SO4 A 5001
09	AC9	SOFTWARE	GLY B:39 , SER B:40 , GLN B:101 , HOH B:9111 , HOH B:9134 , HOH B:9181 , HOH B:9228	BINDING SITE FOR RESIDUE SO4 B 5002
10	BC1	SOFTWARE	GLY C:39 , SER C:40 , GLN C:101 , HOH C:9100	BINDING SITE FOR RESIDUE SO4 C 5003
11	BC2	SOFTWARE	GLY D:39 , SER D:40 , GLN D:101 , HOH D:9101	BINDING SITE FOR RESIDUE SO4 D 5004
12	BC3	SOFTWARE	GLN A:19 , ARG A:55 , ASP A:56 , HOH A:9009 , HOH A:9023 , HOH A:9180 , HOH A:9243 , LYS C:234 , VAL C:235 , HOH C:9045	BINDING SITE FOR RESIDUE SO4 A 6001
13	BC4	SOFTWARE	GLN B:19 , ARG B:55 , ASP B:56 , HOH B:9012 , HOH B:9087 , HOH B:9229 , LYS D:234 , VAL D:235 , HOH D:9088	BINDING SITE FOR RESIDUE SO4 B 6002
14	BC5	SOFTWARE	LYS A:234 , VAL A:235 , HOH A:9161 , GLN C:19 , ARG C:55 , ASP C:56 , HOH C:9009 , HOH C:9019 , HOH C:9057	BINDING SITE FOR RESIDUE SO4 C 6003
15	BC6	SOFTWARE	LYS B:234 , VAL B:235 , GLN D:19 , ARG D:55 , ASP D:56 , HOH D:9007 , HOH D:9009 , HOH D:9061 , HOH D:9127	BINDING SITE FOR RESIDUE SO4 D 6004
16	BC7	SOFTWARE	ARG A:103 , ARG A:143	BINDING SITE FOR RESIDUE SO4 A 7001
17	BC8	SOFTWARE	ARG B:103 , ARG B:143	BINDING SITE FOR RESIDUE SO4 B 7002
18	BC9	SOFTWARE	ARG C:103 , ARG C:143 , HOH C:9214	BINDING SITE FOR RESIDUE SO4 C 7003
19	CC1	SOFTWARE	ARG D:103 , ARG D:143 , HOH D:9144	BINDING SITE FOR RESIDUE SO4 D 7004
20	CC2	SOFTWARE	GLU A:159 , HIS A:191 , HOH A:9144 , HOH A:9146 , HOH A:9213	BINDING SITE FOR RESIDUE SO4 A 8001
21	CC3	SOFTWARE	GLU B:159 , HIS B:191 , HOH B:9052 , HOH B:9082 , HOH B:9119 , HOH B:9133 , HOH B:9176	BINDING SITE FOR RESIDUE SO4 B 8002
22	CC4	SOFTWARE	GLU C:159 , HIS C:191 , HOH C:9071 , HOH C:9106 , HOH C:9167	BINDING SITE FOR RESIDUE SO4 C 8003
23	CC5	SOFTWARE	GLU D:159 , HIS D:191 , HOH D:9055 , HOH D:9163 , HOH D:9186 , HOH D:9194	BINDING SITE FOR RESIDUE SO4 D 8004
24	CC6	SOFTWARE	GLU A:32 , ASP A:34 , ASP A:91 , SO4 A:3001 , HOH A:9245 , HOH A:9251 , HOH A:9252	BINDING SITE FOR RESIDUE MG A 9001
25	CC7	SOFTWARE	GLU B:32 , ASP B:34 , ASP B:91 , SO4 B:3002 , HOH B:9256 , HOH B:9259 , HOH B:9274	BINDING SITE FOR RESIDUE MG B 9002
26	CC8	SOFTWARE	GLU C:32 , ASP C:34 , ASP C:91 , HOH C:9016 , HOH C:9195 , HOH C:9230	BINDING SITE FOR RESIDUE MG C 9003
27	CC9	SOFTWARE	GLU D:32 , ASP D:34 , ASP D:91 , HOH D:9110 , HOH D:9179 , HOH D:9198	BINDING SITE FOR RESIDUE MG D 9004
28	DC1	SOFTWARE	ALA A:16 , ARG A:59 , TRP A:60 , GLU A:61 , TYR A:62 , VAL A:65 , HOH A:9052 , HOH A:9197 , HOH A:9242 , HOH B:9154	BINDING SITE FOR RESIDUE EPE A 2001
29	DC2	SOFTWARE	ARG B:4 , ASN B:267 , ASP B:268 , SO4 B:4002 , HOH B:9197 , ALA C:16 , ARG C:59 , TRP C:60 , GLU C:61 , VAL C:65 , HOH C:9090 , HOH C:9184 , HOH C:9219	BINDING SITE FOR RESIDUE EPE C 2003
30	DC3	SOFTWARE	ARG A:4 , ASN A:267 , ASP A:268 , SO4 A:4001 , ALA D:16 , ARG D:59 , TRP D:60 , GLU D:61 , VAL D:65 , HOH D:9040 , HOH D:9154 , HOH D:9205	BINDING SITE FOR RESIDUE EPE D 2004

Asymmetric Unit

No.	Residues
1	A:51	-	A:57
2	B:51	-	B:57
3	C:51	-	C:57
4	D:51	-	D:57

Asymmetric Unit

No.	Residues
1	Thr A:49	-	Pro A:50
2	Gly A:167	-	Pro A:168
3	Leu A:170	-	Pro A:171
4	Thr B:49	-	Pro B:50
5	Gly B:167	-	Pro B:168
6	Leu B:170	-	Pro B:171
7	Thr C:49	-	Pro C:50
8	Gly C:167	-	Pro C:168
9	Leu C:170	-	Pro C:171
10	Thr D:49	-	Pro D:50
11	Gly D:167	-	Pro D:168
12	Leu D:170	-	Pro D:171
13	Lys D:284	-	Asn D:285

(no "SAP(SNP)/Variant" information available for 1XX1)

(no "PROSITE Motif" information available for 1XX1)

(no "Exon" information available for 1XX1)

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:285
 aligned with A311_LOXLA | Q8I914 from UniProtKB/Swiss-Prot  Length:311

    Alignment length:285
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306     
           A311_LOXLA    27 ADNRRPIWNLAHMVNAVAQIPDFLDLGANALEADVTFKGSVPTYTYHGTPCDFGRDCIRWEYFNVFLKTLREYTTPGNAKYRDGFILFVLDLKTGSLSNDQVRPAGENVAKELLQNYWNNGNNGGRAYVVLSLPDIGHYEFVRGFKEVLKKEGHEDLLEKVGYDFSGPYLPSLPTLDATHEAYKKAGVDGHIWLSDGLTNFSPLGDMARLKEAIKSRDSANGFINKIYYWSVDKVSTTKAALDVGVDGIMTNYPNVLIGVLKESGYNDKYRLATYDDNPWETFKN 311
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 1xx1A00 A:1-285 Phosphatidylinositol (PI) phosphodiesterase                                                                                                                                                                                                                                   CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee......hhhhhhhhhh..eeeeeeeee..eeeeee.............eeehhhhhhhhhhhh............eeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeee.hhhhhhhhhhhhhhhhhh.hhhhhh.eeeee.........hhhhhhhhhhhhh.....eeee.....hhhhhhhhhhhhhhhhh.......eeeee...hhhhhhhhhhhh..eeee.hhhhhhhhhhh......eee............. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xx1 A   1 ADNRRPIWNLAHMVNAVAQIPDFLDLGANALEADVTFKGSVPTYTYHGTPCDFGRDCIRWEYFNVFLKTLREYTTPGNAKYRDGFILFVLDLKTGSLSNDQVRPAGENVAKELLQNYWNNGNNGGRAYVVLSLPDIGHYEFVRGFKEVLKKEGHEDLLEKVGYDFSGPYLPSLPTLDATHEAYKKAGVDGHIWLSDGLTNFSPLGDMARLKEAIKSRDSANGFINKIYYWSVDKVSTTKAALDVGVDGIMTNYPNVLIGVLKESGYNDKYRLATYDDNPWETFKN 285
                                    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

Chain B from PDB  Type:PROTEIN  Length:285
 aligned with A311_LOXLA | Q8I914 from UniProtKB/Swiss-Prot  Length:311

    Alignment length:285
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306     
           A311_LOXLA    27 ADNRRPIWNLAHMVNAVAQIPDFLDLGANALEADVTFKGSVPTYTYHGTPCDFGRDCIRWEYFNVFLKTLREYTTPGNAKYRDGFILFVLDLKTGSLSNDQVRPAGENVAKELLQNYWNNGNNGGRAYVVLSLPDIGHYEFVRGFKEVLKKEGHEDLLEKVGYDFSGPYLPSLPTLDATHEAYKKAGVDGHIWLSDGLTNFSPLGDMARLKEAIKSRDSANGFINKIYYWSVDKVSTTKAALDVGVDGIMTNYPNVLIGVLKESGYNDKYRLATYDDNPWETFKN 311
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 1xx1B00 B:1-285 Phosphatidylinositol (PI) phosphodiesterase                                                                                                                                                                                                                                   CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee......hhhhhhhhhh..eeeeeeeee..eeeeee.............eeehhhhhhhhhhhhh...........eeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeee.hhhhhhhhhhhhhhhhhh.hhhhhh.eeeee.........hhhhhhhhhhhhh.....eeee.....hhhhhhhhhhhhhhhhh.......eeeee...hhhhhhhhhhhh..eeee.hhhhhhhhhhh.hhhh.eee............. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xx1 B   1 ADNRRPIWNLAHMVNAVAQIPDFLDLGANALEADVTFKGSVPTYTYHGTPCDFGRDCIRWEYFNVFLKTLREYTTPGNAKYRDGFILFVLDLKTGSLSNDQVRPAGENVAKELLQNYWNNGNNGGRAYVVLSLPDIGHYEFVRGFKEVLKKEGHEDLLEKVGYDFSGPYLPSLPTLDATHEAYKKAGVDGHIWLSDGLTNFSPLGDMARLKEAIKSRDSANGFINKIYYWSVDKVSTTKAALDVGVDGIMTNYPNVLIGVLKESGYNDKYRLATYDDNPWETFKN 285
                                    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

Chain C from PDB  Type:PROTEIN  Length:285
 aligned with A311_LOXLA | Q8I914 from UniProtKB/Swiss-Prot  Length:311

    Alignment length:285
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306     
           A311_LOXLA    27 ADNRRPIWNLAHMVNAVAQIPDFLDLGANALEADVTFKGSVPTYTYHGTPCDFGRDCIRWEYFNVFLKTLREYTTPGNAKYRDGFILFVLDLKTGSLSNDQVRPAGENVAKELLQNYWNNGNNGGRAYVVLSLPDIGHYEFVRGFKEVLKKEGHEDLLEKVGYDFSGPYLPSLPTLDATHEAYKKAGVDGHIWLSDGLTNFSPLGDMARLKEAIKSRDSANGFINKIYYWSVDKVSTTKAALDVGVDGIMTNYPNVLIGVLKESGYNDKYRLATYDDNPWETFKN 311
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 1xx1C00 C:1-285 Phosphatidylinositol (PI) phosphodiesterase                                                                                                                                                                                                                                   CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee......hhhhhhhhhh..eeeeeeeee..eeeeee.............eeehhhhhhhhhhhh............eeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeee.hhhhhhhhhhhhhhhhhh.hhhhhh.eeeee.........hhhhhhhhhhhhh.....eeee.....hhhhhhhhhhhhhhhhh.......eeee....hhhhhhhhhhhh..eeee.hhhhhhhhh........eee............. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xx1 C   1 ADNRRPIWNLAHMVNAVAQIPDFLDLGANALEADVTFKGSVPTYTYHGTPCDFGRDCIRWEYFNVFLKTLREYTTPGNAKYRDGFILFVLDLKTGSLSNDQVRPAGENVAKELLQNYWNNGNNGGRAYVVLSLPDIGHYEFVRGFKEVLKKEGHEDLLEKVGYDFSGPYLPSLPTLDATHEAYKKAGVDGHIWLSDGLTNFSPLGDMARLKEAIKSRDSANGFINKIYYWSVDKVSTTKAALDVGVDGIMTNYPNVLIGVLKESGYNDKYRLATYDDNPWETFKN 285
                                    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

Chain D from PDB  Type:PROTEIN  Length:285
 aligned with A311_LOXLA | Q8I914 from UniProtKB/Swiss-Prot  Length:311

    Alignment length:285
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306     
           A311_LOXLA    27 ADNRRPIWNLAHMVNAVAQIPDFLDLGANALEADVTFKGSVPTYTYHGTPCDFGRDCIRWEYFNVFLKTLREYTTPGNAKYRDGFILFVLDLKTGSLSNDQVRPAGENVAKELLQNYWNNGNNGGRAYVVLSLPDIGHYEFVRGFKEVLKKEGHEDLLEKVGYDFSGPYLPSLPTLDATHEAYKKAGVDGHIWLSDGLTNFSPLGDMARLKEAIKSRDSANGFINKIYYWSVDKVSTTKAALDVGVDGIMTNYPNVLIGVLKESGYNDKYRLATYDDNPWETFKN 311
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 1xx1D00 D:1-285 Phosphatidylinositol (PI) phosphodiesterase                                                                                                                                                                                                                                   CATH domains
           Pfam domains (1) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GDPD_2-1xx1D01 D:226-255      ------------------------------ Pfam domains (1)
           Pfam domains (2) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GDPD_2-1xx1D02 D:226-255      ------------------------------ Pfam domains (2)
           Pfam domains (3) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GDPD_2-1xx1D03 D:226-255      ------------------------------ Pfam domains (3)
           Pfam domains (4) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GDPD_2-1xx1D04 D:226-255      ------------------------------ Pfam domains (4)
         Sec.struct. author ....eeeeeee......hhhhhhhhhh..eeeeeeeee..eeeeee.............eeehhhhhhhhhhhh............eeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeee.hhhhhhhhhhhhhhhhhh.hhhhhh.eeeee.........hhhhhhhhhhhhh.....eeee.....hhhhhhhhhhhhhhhhhh......eeeee...hhhhhhhhhhhh..eeee.hhhhhhhhhh.......eee............. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xx1 D   1 ADNRRPIWNLAHMVNAVAQIPDFLDLGANALEADVTFKGSVPTYTYHGTPCDFGRDCIRWEYFNVFLKTLREYTTPGNAKYRDGFILFVLDLKTGSLSNDQVRPAGENVAKELLQNYWNNGNNGGRAYVVLSLPDIGHYEFVRGFKEVLKKEGHEDLLEKVGYDFSGPYLPSLPTLDATHEAYKKAGVDGHIWLSDGLTNFSPLGDMARLKEAIKSRDSANGFINKIYYWSVDKVSTTKAALDVGVDGIMTNYPNVLIGVLKESGYNDKYRLATYDDNPWETFKN 285
                                    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

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 '\|'

(no "SCOP Domain" information available for 1XX1)

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Alpha-Beta Barrel (2994)

Topology: TIM Barrel (2806)

Homologous Superfamily: Phosphatidylinositol (PI) phosphodiesterase (37)

Loxosceles laeta. Organism_taxid: 58217. (2)

1a	1xx1A00	A:1-285
1b	1xx1B00	B:1-285
1c	1xx1C00	C:1-285
1d	1xx1D00	D:1-285

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: PLC (20)

Family: GDPD_2 (2)

Loxosceles laeta (South American recluse spider) (Scytodes laeta) (1)

1a	GDPD_2-1xx1D01	D:226-255
1b	GDPD_2-1xx1D02	D:226-255
1c	GDPD_2-1xx1D03	D:226-255
1d	GDPD_2-1xx1D04	D:226-255

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (A311_LOXLA | Q8I914)

molecular function
	GO:0070290	N-acylphosphatidylethanolamine-specific phospholipase D activity	Catalysis of the release of N-acylethanolamine from N-acyl-phosphatidylethanolamine (NAPE) to generate N-acylethanolamine (NAE).
	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.
	GO:0004630	phospholipase D activity	Catalysis of the reaction: a phosphatidylcholine + H2O = choline + a phosphatidate.
	GO:0008081	phosphoric diester hydrolase activity	Catalysis of the hydrolysis of a phosphodiester to give a phosphomonoester and a free hydroxyl group.
biological process
	GO:0019835	cytolysis	The rupture of cell membranes and the loss of cytoplasm.
	GO:0044179	hemolysis in other organism	The cytolytic destruction of red blood cells, with the release of intracellular hemoglobin, in one organism by another.
	GO:0006629	lipid metabolic process	The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids.
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.

Asymmetric Unit
	Complete Structure
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	Ligands, Modified Residues, Ions
		EPE	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		MG	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
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	Sites
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	Cis Peptide Bonds
		Gly A:167 - Pro A:168	[ RasMol ]
		Gly B:167 - Pro B:168	[ RasMol ]
		Gly C:167 - Pro C:168	[ RasMol ]
		Gly D:167 - Pro D:168	[ RasMol ]
		Leu A:170 - Pro A:171	[ RasMol ]
		Leu B:170 - Pro B:171	[ RasMol ]
		Leu C:170 - Pro C:171	[ RasMol ]
		Leu D:170 - Pro D:171	[ RasMol ]
		Lys D:284 - Asn D:285	[ RasMol ]
		Thr A:49 - Pro A:50	[ RasMol ]
		Thr B:49 - Pro B:50	[ RasMol ]
		Thr C:49 - Pro C:50	[ RasMol ]
		Thr D:49 - Pro D:50	[ RasMol ]

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]
		Biological Unit 3	[ Jena3D ]
		Biological Unit 4	[ Jena3D ]
		Biological Unit 5	[ Jena3D ]

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Access by PDB/NDB ID
	1xx1
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		Orientation in Membranes	:	OPM
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Access by UniProt ID/Accession number
	A311_LOXLA \| Q8I914
		Comparative Protein Structure Models	:	ModBase
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	3.1.4.41
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Access by UniProt ID/Accession number
	A311_LOXLA \| Q8I914
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UniProtKB/Swiss-Prot
	A311_LOXLA \| Q8I914	:	2f9r

(no "Related Entries Specified in the PDB File" available for 1XX1)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 30)

Sites (30, 30)

SS Bonds (4, 4)

Cis Peptide Bonds (13, 13)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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SCOP Domains (0, 0)

CATH Domains (1, 4)

Pfam Domains (1, 4)

Gene Ontology (9, 9)

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Related Entries Specified in the PDB File