1ND6 - 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)

Title :   CRYSTAL STRUCTURES OF HUMAN PROSTATIC ACID PHOSPHATASE IN COMPLEX WITH A PHOSPHATE ION AND ALPHA-BENZYLAMINOBENZYLPHOSPHONIC ACID UPDATE THE MECHANISTIC PICTURE AND OFFER NEW INSIGHTS INTO INHIBITOR DESIGN

Authors :   E. Ortlund, M. W. Lacount, L. Lebioda

Date :   07 Dec 02 (Deposition) - 20 Dec 02 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.40

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

Keywords :   Prostatic Acid Phosphatase, Pap, Prostate, Phosphate, Inhibitor, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   E. Ortlund, M. W. Lacount, L. Lebioda
Crystal Structures Of Human Prostatic Acid Phosphatase In Complex With A Phosphate Ion And Alpha-Benzylaminobenzylphosphonic Acid Update The Mechanistic Picture And Offer New Insights Into Inhibitor Design
Biochemistry V. 42 383 2003
PubMed-ID: 12525165 | Reference-DOI: 10.1021/BI0265067

Molecule 1 - PROSTATIC ACID PHOSPHATASE
	Chains	:	A, B, C, D
	EC Number	:	3.1.3.2
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Tissue	:	SEMEN

		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	B	C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (5, 30)

No.	Name	Count	Type	Full Name
1	1PE	4	Ligand/Ion	PENTAETHYLENE GLYCOL
2	GLY	1	Mod. Amino Acid	GLYCINE
3	MAN	9	Ligand/Ion	ALPHA-D-MANNOSE
4	NAG	12	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
5	PO4	4	Ligand/Ion	PHOSPHATE ION

Biological Unit 1 (5, 17)

No.	Name	Count	Type	Full Name
1	1PE	2	Ligand/Ion	PENTAETHYLENE GLYCOL
2	GLY	1	Mod. Amino Acid	GLYCINE
3	MAN	5	Ligand/Ion	ALPHA-D-MANNOSE
4	NAG	7	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
5	PO4	2	Ligand/Ion	PHOSPHATE ION

Biological Unit 2 (4, 13)

No.	Name	Count	Type	Full Name
1	1PE	2	Ligand/Ion	PENTAETHYLENE GLYCOL
2	GLY	-1	Mod. Amino Acid	GLYCINE
3	MAN	4	Ligand/Ion	ALPHA-D-MANNOSE
4	NAG	5	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
5	PO4	2	Ligand/Ion	PHOSPHATE ION

Biological Unit 3 (5, 30)

No.	Name	Count	Type	Full Name
1	1PE	4	Ligand/Ion	PENTAETHYLENE GLYCOL
2	GLY	1	Mod. Amino Acid	GLYCINE
3	MAN	9	Ligand/Ion	ALPHA-D-MANNOSE
4	NAG	12	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
5	PO4	4	Ligand/Ion	PHOSPHATE ION

Asymmetric Unit (30, 30)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	VAL A:186 , HIS A:187 , ASN A:188 , NAG A:5001	BINDING SITE FOR RESIDUE NAG A 5000
02	AC2	SOFTWARE	NAG A:5000 , MAN A:5002	BINDING SITE FOR RESIDUE NAG A 5001
03	AC3	SOFTWARE	NAG A:5001 , MAN A:5003	BINDING SITE FOR RESIDUE MAN A 5002
04	AC4	SOFTWARE	MAN A:5002	BINDING SITE FOR RESIDUE MAN A 5003
05	AC5	SOFTWARE	ASN A:272 , LEU A:274 , ASN A:301 , GLU A:302 , TYR A:308 , NAG A:5005	BINDING SITE FOR RESIDUE NAG A 5004
06	AC6	SOFTWARE	NAG A:5004	BINDING SITE FOR RESIDUE NAG A 5005
07	AC7	SOFTWARE	VAL B:1185 , HIS B:1186 , ASN B:1187	BINDING SITE FOR RESIDUE NAG B 5006
08	AC8	SOFTWARE	ASN B:1271 , LEU B:1273 , ASN B:1300 , GLU B:1301 , TYR B:1307 , HOH B:4176 , HOH B:4177 , NAG B:5008	BINDING SITE FOR RESIDUE NAG B 5007
09	AC9	SOFTWARE	ASN B:1271 , NAG B:5007 , MAN B:5009	BINDING SITE FOR RESIDUE NAG B 5008
10	BC1	SOFTWARE	NAG B:5008 , MAN B:5010 , MAN B:5011	BINDING SITE FOR RESIDUE MAN B 5009
11	BC2	SOFTWARE	MAN B:5009 , GLU D:3288	BINDING SITE FOR RESIDUE MAN B 5010
12	BC3	SOFTWARE	HOH B:4414 , MAN B:5009 , LYS D:3000	BINDING SITE FOR RESIDUE MAN B 5011
13	BC4	SOFTWARE	ASN C:2271 , LEU C:2273 , ASN C:2300 , GLU C:2301 , TYR C:2307 , NAG C:5013	BINDING SITE FOR RESIDUE NAG C 5012
14	BC5	SOFTWARE	TYR C:2307 , NAG C:5012 , MAN C:5014	BINDING SITE FOR RESIDUE NAG C 5013
15	BC6	SOFTWARE	NAG C:5013 , GLN D:3333	BINDING SITE FOR RESIDUE MAN C 5014
16	BC7	SOFTWARE	VAL D:3185 , ASN D:3187	BINDING SITE FOR RESIDUE NAG D 5015
17	BC8	SOFTWARE	ASN D:3271 , LEU D:3273 , ASN D:3300 , GLU D:3301 , TYR D:3307 , NAG D:5017	BINDING SITE FOR RESIDUE NAG D 5016
18	BC9	SOFTWARE	GLY B:1313 , CYS B:1314 , SER B:1315 , TYR D:3307 , NAG D:5016 , MAN D:5018	BINDING SITE FOR RESIDUE NAG D 5017
19	CC1	SOFTWARE	GLU B:1291 , NAG D:5017 , MAN D:5019 , MAN D:5020	BINDING SITE FOR RESIDUE MAN D 5018
20	CC2	SOFTWARE	GLU B:1321 , MAN D:5018 , MAN D:5020	BINDING SITE FOR RESIDUE MAN D 5019
21	CC3	SOFTWARE	ARG B:1322 , GLU B:1325 , MAN D:5018 , MAN D:5019	BINDING SITE FOR RESIDUE MAN D 5020
22	CC4	SOFTWARE	ARG A:11 , HIS A:12 , ARG A:15 , ARG A:79 , HIS A:257 , ASP A:258	BINDING SITE FOR RESIDUE PO4 A 8000
23	CC5	SOFTWARE	ARG B:1010 , HIS B:1011 , ARG B:1014 , ARG B:1078 , HIS B:1256 , ASP B:1257	BINDING SITE FOR RESIDUE PO4 B 8001
24	CC6	SOFTWARE	ARG C:2010 , HIS C:2011 , ARG C:2014 , ARG C:2078 , HIS C:2256 , ASP C:2257	BINDING SITE FOR RESIDUE PO4 C 8002
25	CC7	SOFTWARE	ARG D:3010 , HIS D:3011 , ARG D:3014 , ARG D:3078 , HIS D:3256 , ASP D:3257	BINDING SITE FOR RESIDUE PO4 D 8003
26	CC8	SOFTWARE	HIS B:1304 , GLU B:1305 , TYR B:1307	BINDING SITE FOR RESIDUE GLY B 9000
27	CC9	SOFTWARE	SER A:117 , ASP A:119 , GLN A:120 , PHE A:126 , ASN A:128 , TRP A:336 , LYS D:3160	BINDING SITE FOR RESIDUE 1PE A 6000
28	DC1	SOFTWARE	SER B:1116 , GLN B:1119 , PHE B:1125 , ASN B:1127 , TRP B:1335 , HOH B:4444	BINDING SITE FOR RESIDUE 1PE B 7000
29	DC2	SOFTWARE	HOH A:4285 , SER C:2116 , ASP C:2118 , GLN C:2119 , PHE C:2125 , ASN C:2127 , TRP C:2335	BINDING SITE FOR RESIDUE 1PE C 7001
30	DC3	SOFTWARE	SER D:3116 , ASP D:3118 , GLN D:3119 , PHE D:3125 , ASN D:3127 , TRP D:3335 , HOH D:4439	BINDING SITE FOR RESIDUE 1PE D 7002

Asymmetric Unit

No.	Residues
1	A:129	-	A:340
2	A:315	-	A:319
3	B:1128	-	B:1339
4	B:1314	-	B:1318
5	C:2128	-	C:2339
6	C:2314	-	C:2318
7	D:3128	-	D:3339
8	D:3314	-	D:3318

Asymmetric Unit

No.	Residues
1	Leu A:124	-	Pro A:125
2	Leu B:1123	-	Pro B:1124
3	Leu C:2123	-	Pro C:2124
4	Leu D:3123	-	Pro D:3124

Asymmetric Unit (4, 16)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_047961	F	124	V	PPAP_HUMAN	Polymorphism	17856254	A B C D	F	92 1091 2091 3091	V
2	UniProt	VAR_047962	W	226	R	PPAP_HUMAN	Polymorphism	17856253	A B C D	W	194 1193 2193 3193	R
3	UniProt	VAR_047963	Y	330	H	PPAP_HUMAN	Polymorphism	17851392	A B C D	Y	298 1297 2297 3297	H
4	UniProt	VAR_047964	V	360	A	PPAP_HUMAN	Polymorphism	17850198	A B C D	V	328 1327 2327 3327	A

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 1 (4, 8)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_047961	F	124	V	PPAP_HUMAN	Polymorphism	17856254	A B C A/B	F	92 1091 2091 3091	V
2	UniProt	VAR_047962	W	226	R	PPAP_HUMAN	Polymorphism	17856253	A B C A/B	W	194 1193 2193 3193	R
3	UniProt	VAR_047963	Y	330	H	PPAP_HUMAN	Polymorphism	17851392	A B C A/B	Y	298 1297 2297 3297	H
4	UniProt	VAR_047964	V	360	A	PPAP_HUMAN	Polymorphism	17850198	A B C A/B	V	328 1327 2327 3327	A

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 2 (4, 8)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_047961	F	124	V	PPAP_HUMAN	Polymorphism	17856254	A B C C/D	F	92 1091 2091 3091	V
2	UniProt	VAR_047962	W	226	R	PPAP_HUMAN	Polymorphism	17856253	A B C C/D	W	194 1193 2193 3193	R
3	UniProt	VAR_047963	Y	330	H	PPAP_HUMAN	Polymorphism	17851392	A B C C/D	Y	298 1297 2297 3297	H
4	UniProt	VAR_047964	V	360	A	PPAP_HUMAN	Polymorphism	17850198	A B C C/D	V	328 1327 2327 3327	A

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 3 (4, 16)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_047961	F	124	V	PPAP_HUMAN	Polymorphism	17856254	A B C A/B/C/D	F	92 1091 2091 3091	V
2	UniProt	VAR_047962	W	226	R	PPAP_HUMAN	Polymorphism	17856253	A B C A/B/C/D	W	194 1193 2193 3193	R
3	UniProt	VAR_047963	Y	330	H	PPAP_HUMAN	Polymorphism	17851392	A B C A/B/C/D	Y	298 1297 2297 3297	H
4	UniProt	VAR_047964	V	360	A	PPAP_HUMAN	Polymorphism	17850198	A B C A/B/C/D	V	328 1327 2327 3327	A

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Asymmetric Unit (2, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HIS_ACID_PHOSPHAT_1	PS00616	Histidine acid phosphatases phosphohistidine signature.	PPAP_HUMAN	35-49	4	A:3-17 B:1002-1016 C:2002-2016 D:3002-3016
2	HIS_ACID_PHOSPHAT_2	PS00778	Histidine acid phosphatases active site signature.	PPAP_HUMAN	283-299	4	A:251-267 B:1250-1266 C:2250-2266 D:3250-3266

Biological Unit 1 (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HIS_ACID_PHOSPHAT_1	PS00616	Histidine acid phosphatases phosphohistidine signature.	PPAP_HUMAN	35-49	2	A:3-17 B:1002-1016 - -
2	HIS_ACID_PHOSPHAT_2	PS00778	Histidine acid phosphatases active site signature.	PPAP_HUMAN	283-299	2	A:251-267 B:1250-1266 - -

Biological Unit 2 (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HIS_ACID_PHOSPHAT_1	PS00616	Histidine acid phosphatases phosphohistidine signature.	PPAP_HUMAN	35-49	2	- - C:2002-2016 D:3002-3016
2	HIS_ACID_PHOSPHAT_2	PS00778	Histidine acid phosphatases active site signature.	PPAP_HUMAN	283-299	2	- - C:2250-2266 D:3250-3266

Biological Unit 3 (2, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HIS_ACID_PHOSPHAT_1	PS00616	Histidine acid phosphatases phosphohistidine signature.	PPAP_HUMAN	35-49	4	A:3-17 B:1002-1016 C:2002-2016 D:3002-3016
2	HIS_ACID_PHOSPHAT_2	PS00778	Histidine acid phosphatases active site signature.	PPAP_HUMAN	283-299	4	A:251-267 B:1250-1266 C:2250-2266 D:3250-3266

Asymmetric Unit (10, 40)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1a	ENST00000336375	1a	ENSE00001164343	chr3:132036211-132036420	210	PPAP_HUMAN	1-40	40	4	A:1-8 B:1000-1007 C:2000-2007 D:3000-3007	8 8 8 8
1.2a	ENST00000336375	2a	ENSE00000778260	chr3:132047111-132047206	96	PPAP_HUMAN	41-72	32	4	A:9-40 B:1008-1039 C:2008-2039 D:3008-3039	32 32 32 32
1.3	ENST00000336375	3	ENSE00000778261	chr3:132050491-132050577	87	PPAP_HUMAN	73-101	29	4	A:41-69 B:1040-1068 C:2040-2068 D:3040-3068	29 29 29 29
1.4a	ENST00000336375	4a	ENSE00000885862	chr3:132051036-132051188	153	PPAP_HUMAN	102-152	51	4	A:70-120 B:1069-1119 C:2069-2119 D:3069-3119	51 51 51 51
1.6b	ENST00000336375	6b	ENSE00000778270	chr3:132056300-132056398	99	PPAP_HUMAN	153-185	33	4	A:121-153 B:1120-1152 C:2120-2152 D:3120-3152	33 33 33 33
1.7b	ENST00000336375	7b	ENSE00000441916	chr3:132061396-132061488	93	PPAP_HUMAN	186-216	31	4	A:154-184 B:1153-1183 C:2153-2183 D:3153-3183	31 31 31 31
1.8	ENST00000336375	8	ENSE00000778272	chr3:132063771-132063903	133	PPAP_HUMAN	217-261	45	4	A:185-229 B:1184-1228 C:2184-2228 D:3184-3228	45 45 45 45
1.9	ENST00000336375	9	ENSE00000778273	chr3:132068764-132068846	83	PPAP_HUMAN	261-288	28	4	A:229-256 B:1228-1255 C:2228-2255 D:3228-3255	28 28 28 28
1.10b	ENST00000336375	10b	ENSE00000778274	chr3:132071564-132071667	104	PPAP_HUMAN	289-323	35	4	A:257-291 B:1256-1290 C:2256-2290 D:3256-3290	35 35 35 35
1.11c	ENST00000336375	11c	ENSE00001341899	chr3:132075530-132077596	2067	PPAP_HUMAN	323-386	64	4	A:291-342 B:1290-1342 C:2290-2341 D:3290-3341	52 53 52 52

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:342
 aligned with PPAP_HUMAN | P15309 from UniProtKB/Swiss-Prot  Length:386

    Alignment length:342
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372  
          PPAP_HUMAN     33 KELKFVTLVFRHGDRSPIDTFPTDPIKESSWPQGFGQLTQLGMEQHYELGEYIRKRYRKFLNESYKHEQVYIRSTDVDRTLMSAMTNLAALFPPEGVSIWNPILLWQPIPVHTVPLSEDQLLYLPFRNCPRFQELESETLKSEEFQKRLHPYKDFIATLGKLSGLHGQDLFGIWSKVYDPLYCESVHNFTLPSWATEDTMTKLRELSELSLLSLYGIHKQKEKSRLQGGVLVNEILNHMKRATQIPSYKKLIMYSAHDTTVSGLQMALDVYNGLLPPYASCHLTELYFEKGEYFVEMYYRNETQHEPYPLMLPGCSPSCPLERFAELVGPVIPQDWSTECMT  374
               SCOP domains d1nd6a_ A: Prostatic acid phosphatase                                                                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains 1nd6A00 A:1-342 Phosphoglycerate mutase-like                                                                                                                                                                                                                                                                                                           CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeee...............hhhhh.......hhhhhhhhhhhhhhhhhhh........hhh.eeeeee.hhhhhhhhhhhhhhhh..hhhhh............eeehhhhh.........hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeehhhhhhhhhhhh............eeeeeeeee..eeeeeeeee.......ee........eeehhhhhhhhhhhh..hhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --HIS_ACID_PHOSPH-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------HIS_ACID_PHOSPHAT--------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) 1.1a    Exon 1.2a  PDB: A:9-40          Exon 1.3  PDB: A:41-69       Exon 1.4a  PDB: A:70-120 UniProt: 102-152          Exon 1.6b  PDB: A:121-153        Exon 1.7b  PDB: A:154-184      Exon 1.8  PDB: A:185-229 UniProt: 217-261    ---------------------------Exon 1.10b  PDB: A:257-291         --------------------------------------------------- Transcript 1 (1)
           Transcript 1 (2) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.9  PDB: A:229-256    ----------------------------------Exon 1.11c  PDB: A:291-342 UniProt: 323-386          Transcript 1 (2)
                1nd6 A    1 KELKFVTLVFRHGDRSPIDTFPTDPIKESSWPQGFGQLTQLGMEQHYELGEYIRKRYRKFLNESYKHEQVYIRSTDVDRTLMSAMTNLAALFPPEGVSIWNPILLWQPIPVHTVPLSEDQLLYLPFRNCPRFQELESETLKSEEFQKRLHPYKDFIATLGKLSGLHGQDLFGIWSKVYDPLYCESVHNFTLPSWATEDTMTKLRELSELSLLSLYGIHKQKEKSRLQGGVLVNEILNHMKRATQIPSYKKLIMYSAHDTTVSGLQMALDVYNGLLPPYASCHLTELYFEKGEYFVEMYYRNETQHEPYPLMLPGCSPSCPLERFAELVGPVIPQDWSTECMT  342
                                    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

Chain B from PDB  Type:PROTEIN  Length:343
 aligned with PPAP_HUMAN | P15309 from UniProtKB/Swiss-Prot  Length:386

    Alignment length:343
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372   
          PPAP_HUMAN     33 KELKFVTLVFRHGDRSPIDTFPTDPIKESSWPQGFGQLTQLGMEQHYELGEYIRKRYRKFLNESYKHEQVYIRSTDVDRTLMSAMTNLAALFPPEGVSIWNPILLWQPIPVHTVPLSEDQLLYLPFRNCPRFQELESETLKSEEFQKRLHPYKDFIATLGKLSGLHGQDLFGIWSKVYDPLYCESVHNFTLPSWATEDTMTKLRELSELSLLSLYGIHKQKEKSRLQGGVLVNEILNHMKRATQIPSYKKLIMYSAHDTTVSGLQMALDVYNGLLPPYASCHLTELYFEKGEYFVEMYYRNETQHEPYPLMLPGCSPSCPLERFAELVGPVIPQDWSTECMTT  375
               SCOP domains d1nd6b_ B: Prostatic acid phosphatase                                                                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains 1nd6B00 B:1000-1342 Phosphoglycerate mutase-like                                                                                                                                                                                                                                                                                                        CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeee...............hhhhh.......hhhhhhhhhhhhhhhhhhh............eeeeee.hhhhhhhhhhhhhhhh..hhhhh............eeehhhhh.........hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh.......eeeeeehhhhhhhhhhhh............eeeeeeee....eeeeeeee.......eee........eehhhhhhhhhhhh..hhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --HIS_ACID_PHOSPH-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------HIS_ACID_PHOSPHAT---------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) 1.1a    Exon 1.2a  PDB: B:1008-1039     Exon 1.3  PDB: B:1040-1068   Exon 1.4a  PDB: B:1069-1119 UniProt: 102-152       Exon 1.6b  PDB: B:1120-1152      Exon 1.7b  PDB: B:1153-1183    Exon 1.8  PDB: B:1184-1228 UniProt: 217-261  ---------------------------Exon 1.10b  PDB: B:1256-1290       ---------------------------------------------------- Transcript 1 (1)
           Transcript 1 (2) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.9  PDB: B:1228-1255  ----------------------------------Exon 1.11c  PDB: B:1290-1342 UniProt: 323-386         Transcript 1 (2)
                1nd6 B 1000 KELKFVTLVFRHGDRSPIDTFPTDPIKESSWPQGFGQLTQLGMEQHYELGEYIRKRYRKFLNESYKHEQVYIRSTDVDRTLMSAMTNLAALFPPEGVSIWNPILLWQPIPVHTVPLSEDQLLYLPFRNCPRFQELESETLKSEEFQKRLHPYKDFIATLGKLSGLHGQDLFGIWSKVYDPLYCESVHNFTLPSWATEDTMTKLRELSELSLLSLYGIHKQKEKSRLQGGVLVNEILNHMKRATQIPSYKKLIMYSAHDTTVSGLQMALDVYNGLLPPYASCHLTELYFEKGEYFVEMYYRNETQHEPYPLMLPGCSPSCPLERFAELVGPVIPQDWSTECMTT 1342
                                  1009      1019      1029      1039      1049      1059      1069      1079      1089      1099      1109      1119      1129      1139      1149      1159      1169      1179      1189      1199      1209      1219      1229      1239      1249      1259      1269      1279      1289      1299      1309      1319      1329      1339

Chain C from PDB  Type:PROTEIN  Length:342
 aligned with PPAP_HUMAN | P15309 from UniProtKB/Swiss-Prot  Length:386

    Alignment length:342
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372  
          PPAP_HUMAN     33 KELKFVTLVFRHGDRSPIDTFPTDPIKESSWPQGFGQLTQLGMEQHYELGEYIRKRYRKFLNESYKHEQVYIRSTDVDRTLMSAMTNLAALFPPEGVSIWNPILLWQPIPVHTVPLSEDQLLYLPFRNCPRFQELESETLKSEEFQKRLHPYKDFIATLGKLSGLHGQDLFGIWSKVYDPLYCESVHNFTLPSWATEDTMTKLRELSELSLLSLYGIHKQKEKSRLQGGVLVNEILNHMKRATQIPSYKKLIMYSAHDTTVSGLQMALDVYNGLLPPYASCHLTELYFEKGEYFVEMYYRNETQHEPYPLMLPGCSPSCPLERFAELVGPVIPQDWSTECMT  374
               SCOP domains d1nd6c_ C: Prostatic acid phosphatase                                                                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains 1nd6C00 C:2000-2341 Phosphoglycerate mutase-like                                                                                                                                                                                                                                                                                                       CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeee...............hhhhh.......hhhhhhhhhhhhhhhhhhh............eeeeee.hhhhhhhhhhhhhhhh..hhhhh............eeehhhhh.........hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeehhhhhhhhhhhhh...........eeeeeeee....eeeeeeee.......eee........eehhhhhhhhhhhh..hhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --HIS_ACID_PHOSPH-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------HIS_ACID_PHOSPHAT--------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) 1.1a    Exon 1.2a  PDB: C:2008-2039     Exon 1.3  PDB: C:2040-2068   Exon 1.4a  PDB: C:2069-2119 UniProt: 102-152       Exon 1.6b  PDB: C:2120-2152      Exon 1.7b  PDB: C:2153-2183    Exon 1.8  PDB: C:2184-2228 UniProt: 217-261  ---------------------------Exon 1.10b  PDB: C:2256-2290       --------------------------------------------------- Transcript 1 (1)
           Transcript 1 (2) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.9  PDB: C:2228-2255  ----------------------------------Exon 1.11c  PDB: C:2290-2341 UniProt: 323-386        Transcript 1 (2)
                1nd6 C 2000 KELKFVTLVFRHGDRSPIDTFPTDPIKESSWPQGFGQLTQLGMEQHYELGEYIRKRYRKFLNESYKHEQVYIRSTDVDRTLMSAMTNLAALFPPEGVSIWNPILLWQPIPVHTVPLSEDQLLYLPFRNCPRFQELESETLKSEEFQKRLHPYKDFIATLGKLSGLHGQDLFGIWSKVYDPLYCESVHNFTLPSWATEDTMTKLRELSELSLLSLYGIHKQKEKSRLQGGVLVNEILNHMKRATQIPSYKKLIMYSAHDTTVSGLQMALDVYNGLLPPYASCHLTELYFEKGEYFVEMYYRNETQHEPYPLMLPGCSPSCPLERFAELVGPVIPQDWSTECMT 2341
                                  2009      2019      2029      2039      2049      2059      2069      2079      2089      2099      2109      2119      2129      2139      2149      2159      2169      2179      2189      2199      2209      2219      2229      2239      2249      2259      2269      2279      2289      2299      2309      2319      2329      2339

Chain D from PDB  Type:PROTEIN  Length:342
 aligned with PPAP_HUMAN | P15309 from UniProtKB/Swiss-Prot  Length:386

    Alignment length:342
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372  
          PPAP_HUMAN     33 KELKFVTLVFRHGDRSPIDTFPTDPIKESSWPQGFGQLTQLGMEQHYELGEYIRKRYRKFLNESYKHEQVYIRSTDVDRTLMSAMTNLAALFPPEGVSIWNPILLWQPIPVHTVPLSEDQLLYLPFRNCPRFQELESETLKSEEFQKRLHPYKDFIATLGKLSGLHGQDLFGIWSKVYDPLYCESVHNFTLPSWATEDTMTKLRELSELSLLSLYGIHKQKEKSRLQGGVLVNEILNHMKRATQIPSYKKLIMYSAHDTTVSGLQMALDVYNGLLPPYASCHLTELYFEKGEYFVEMYYRNETQHEPYPLMLPGCSPSCPLERFAELVGPVIPQDWSTECMT  374
               SCOP domains d1nd6d_ D: Prostatic acid phosphatase                                                                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains 1nd6D00 D:3000-3341 Phosphoglycerate mutase-like                                                                                                                                                                                                                                                                                                       CATH domains
           Pfam domains (1) -His_Phos_2-1nd6D01 D:3001-3299                                                                                                                                                                                                                                                                             ------------------------------------------ Pfam domains (1)
           Pfam domains (2) -His_Phos_2-1nd6D02 D:3001-3299                                                                                                                                                                                                                                                                             ------------------------------------------ Pfam domains (2)
           Pfam domains (3) -His_Phos_2-1nd6D03 D:3001-3299                                                                                                                                                                                                                                                                             ------------------------------------------ Pfam domains (3)
           Pfam domains (4) -His_Phos_2-1nd6D04 D:3001-3299                                                                                                                                                                                                                                                                             ------------------------------------------ Pfam domains (4)
         Sec.struct. author .eeeeeeeeee...............hhhhh.......hhhhhhhhhhhhhhhhhhh............eeeeee.hhhhhhhhhhhhhhhh..hhhhh............eeehhhhh.........hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeehhhhhhhhhhhh............eeeeeeee....eeeeeeee.......eee........eehhhhhhhhhhhh..hhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------V-----------------------------------------------------------------------------------------------------R-------------------------------------------------------------------------------------------------------H-----------------------------A-------------- SAPs(SNPs)
                    PROSITE --HIS_ACID_PHOSPH-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------HIS_ACID_PHOSPHAT--------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) 1.1a    Exon 1.2a  PDB: D:3008-3039     Exon 1.3  PDB: D:3040-3068   Exon 1.4a  PDB: D:3069-3119 UniProt: 102-152       Exon 1.6b  PDB: D:3120-3152      Exon 1.7b  PDB: D:3153-3183    Exon 1.8  PDB: D:3184-3228 UniProt: 217-261  ---------------------------Exon 1.10b  PDB: D:3256-3290       --------------------------------------------------- Transcript 1 (1)
           Transcript 1 (2) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.9  PDB: D:3228-3255  ----------------------------------Exon 1.11c  PDB: D:3290-3341 UniProt: 323-386        Transcript 1 (2)
                1nd6 D 3000 KELKFVTLVFRHGDRSPIDTFPTDPIKESSWPQGFGQLTQLGMEQHYELGEYIRKRYRKFLNESYKHEQVYIRSTDVDRTLMSAMTNLAALFPPEGVSIWNPILLWQPIPVHTVPLSEDQLLYLPFRNCPRFQELESETLKSEEFQKRLHPYKDFIATLGKLSGLHGQDLFGIWSKVYDPLYCESVHNFTLPSWATEDTMTKLRELSELSLLSLYGIHKQKEKSRLQGGVLVNEILNHMKRATQIPSYKKLIMYSAHDTTVSGLQMALDVYNGLLPPYASCHLTELYFEKGEYFVEMYYRNETQHEPYPLMLPGCSPSCPLERFAELVGPVIPQDWSTECMT 3341
                                  3009      3019      3029      3039      3049      3059      3069      3079      3089      3099      3109      3119      3129      3139      3149      3159      3169      3179      3189      3199      3209      3219      3229      3239      3249      3259      3269      3279      3289      3299      3309      3319      3329      3339

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 '\|'

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: Phosphoglycerate mutase-like (103)

Superfamily: Phosphoglycerate mutase-like (103)

Family: Histidine acid phosphatase (24)

Protein domain: Prostatic acid phosphatase (6)

Human (Homo sapiens) [TaxId: 9606] (4)

1a	d1nd6a_	A:
1b	d1nd6b_	B:
1c	d1nd6c_	C:
1d	d1nd6d_	D:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Rossmann fold (7312)

Homologous Superfamily: Phosphoglycerate mutase-like (91)

Human (Homo sapiens) (18)

1a	1nd6A00	A:1-342
1b	1nd6C00	C:2000-2341
1c	1nd6D00	D:3000-3341
1d	1nd6B00	B:1000-1342

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: PGM (50)

Family: His_Phos_2 (19)

Homo sapiens (Human) (5)

1a	His_Phos_2-1nd6D01	D:3001-3299
1b	His_Phos_2-1nd6D02	D:3001-3299
1c	His_Phos_2-1nd6D03	D:3001-3299
1d	His_Phos_2-1nd6D04	D:3001-3299

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (PPAP_HUMAN | P15309)

molecular function
	GO:0008253	5'-nucleotidase activity	Catalysis of the reaction: a 5'-ribonucleotide + H2O = a ribonucleoside + phosphate.
	GO:0003993	acid phosphatase activity	Catalysis of the reaction: an orthophosphoric monoester + H2O = an alcohol + phosphate, with an acid pH optimum.
	GO:0033265	choline binding	Interacting selectively and non-covalently with choline, the amine 2-hydroxy-N,N,N-trimethylethanaminium.
	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:0042802	identical protein binding	Interacting selectively and non-covalently with an identical protein or proteins.
	GO:0052642	lysophosphatidic acid phosphatase activity	Catalysis of the reaction: lysophosphatidic acid + H2O = phosphate + monoacylglycerol.
	GO:0016791	phosphatase activity	Catalysis of the hydrolysis of phosphoric monoesters, releasing inorganic phosphate.
	GO:0042131	thiamine phosphate phosphatase activity	Catalysis of the reaction: thiamine phosphate + H2O = thiamine + phosphate.
biological process
	GO:0046085	adenosine metabolic process	The chemical reactions and pathways involving adenosine, adenine riboside, a ribonucleoside found widely distributed in cells of every type as the free nucleoside and in combination in nucleic acids and various nucleoside coenzymes.
	GO:0016311	dephosphorylation	The process of removing one or more phosphoric (ester or anhydride) residues from a molecule.
	GO:0009117	nucleotide metabolic process	The chemical reactions and pathways involving a nucleotide, a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the glycose moiety; may be mono-, di- or triphosphate; this definition includes cyclic nucleotides (nucleoside cyclic phosphates).
	GO:0060168	positive regulation of adenosine receptor signaling pathway	Any process that activates or increases the frequency, rate or extent of the adenosine receptor signaling pathway. The adenosine receptor pathway is the series of molecular signals generated as a consequence of an adenosine receptor binding to one of its physiological ligands.
	GO:0006144	purine nucleobase metabolic process	The chemical reactions and pathways involving purine nucleobases, one of the two classes of nitrogen-containing ring compounds found in DNA and RNA, which include adenine and guanine.
	GO:0051930	regulation of sensory perception of pain	Any process that modulates the frequency, rate or extent of the sensory perception of pain, the series of events required for an organism to receive a painful stimulus, convert it to a molecular signal, and recognize and characterize the signal.
	GO:0006772	thiamine metabolic process	The chemical reactions and pathways involving thiamine (vitamin B1), a water soluble vitamin present in fresh vegetables and meats, especially liver.
cellular component
	GO:0031985	Golgi cisterna	Any of the thin, flattened membrane-bounded compartments that form the central portion of the Golgi complex.
	GO:0045177	apical part of cell	The region of a polarized cell that forms a tip or is distal to a base. For example, in a polarized epithelial cell, the apical region has an exposed surface and lies opposite to the basal lamina that separates the epithelium from other tissue.
	GO:0070062	extracellular exosome	A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
	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.
	GO:0005615	extracellular space	That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.
	GO:0030175	filopodium	Thin, stiff, actin-based protrusion extended by the leading edge of a motile cell such as a crawling fibroblast or amoeba, or an axonal or dendritic growth cone, or a dendritic shaft.
	GO:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0005622	intracellular	The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.
	GO:0005765	lysosomal membrane	The lipid bilayer surrounding the lysosome and separating its contents from the cell cytoplasm.
	GO:0005764	lysosome	A small lytic vacuole that has cell cycle-independent morphology and is found in most animal cells and that contains a variety of hydrolases, most of which have their maximal activities in the pH range 5-6. The contained enzymes display latency if properly isolated. About 40 different lysosomal hydrolases are known and lysosomes have a great variety of morphologies and functions.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005771	multivesicular body	A type of endosome in which regions of the limiting endosomal membrane invaginate to form internal vesicles; membrane proteins that enter the internal vesicles are sequestered from the cytoplasm.
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
	GO:0005886	plasma membrane	The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
	GO:0030141	secretory granule	A small subcellular vesicle, surrounded by a membrane, that is formed from the Golgi apparatus and contains a highly concentrated protein destined for secretion. Secretory granules move towards the periphery of the cell and upon stimulation, their membranes fuse with the cell membrane, and their protein load is exteriorized. Processing of the contained protein may take place in secretory granules.
	GO:0012506	vesicle membrane	The lipid bilayer surrounding any membrane-bounded vesicle in the cell.

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	Cis Peptide Bonds
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	PPAP_HUMAN \| P15309	:	1cvi 1nd5 2hpa 2l3h 2l77 2l79 2mg0 3ppd

Description

Compounds

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Chains, Units

Ligands, Modified Residues, Ions (5, 30)

Sites (30, 30)

SS Bonds (8, 8)

Cis Peptide Bonds (4, 4)

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