1Z83 - 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 STRUCTURE OF HUMAN AK1A IN COMPLEX WITH AP5A

Authors :   P. Filippakopoulos, G. Bunkoczi, A. Jansson, A. Schreurs, S. Knapp, A. F. Von Delft, M. Sundstrom, Structural Genomics Consortium (Sgc

Date :   29 Mar 05 (Deposition) - 26 Apr 05 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

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

Keywords :   Adenylate Kinase, Humna, Ap5A, Diadenosine Pentaphosphate, Nucleotide Kinase, Structural Genomics, Structural Genomics Consortium, Sgc, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   P. Filippakopoulos, G. Bunkoczi, A. Jansson, A. Schreurs, S. Knapp, A. Edwards, F. Von Delft, M. Sundstrom
Crystal Structure Of Human Ak1A In Complex With Ap5A
To Be Published
PubMed: search

Molecule 1 - ADENYLATE KINASE 1
	Chains	:	A, B, C
	EC Number	:	2.7.4.3
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	HAK1A-PLIC
	Expression System Strain	:	BL21-DE3
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLIC-SGC
	Gene	:	AK1
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	ATP-AMP TRANSPHOSPHORYLASE, AK1, MYOKINASE

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 14)

No.	Name	Count	Type	Full Name
1	AP5	3	Ligand/Ion	BIS(ADENOSINE)-5'-PENTAPHOSPHATE
2	SO4	3	Ligand/Ion	SULFATE ION
3	ZN	8	Ligand/Ion	ZINC ION

Biological Unit 1 (2, 5)

No.	Name	Count	Type	Full Name
1	AP5	2	Ligand/Ion	BIS(ADENOSINE)-5'-PENTAPHOSPHATE
2	SO4	3	Ligand/Ion	SULFATE ION
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (2, 4)

No.	Name	Count	Type	Full Name
1	AP5	2	Ligand/Ion	BIS(ADENOSINE)-5'-PENTAPHOSPHATE
2	SO4	2	Ligand/Ion	SULFATE ION
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 3 (1, 1)

No.	Name	Count	Type	Full Name
1	AP5	1	Ligand/Ion	BIS(ADENOSINE)-5'-PENTAPHOSPHATE
2	SO4	-1	Ligand/Ion	SULFATE ION
3	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (14, 14)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	AP5 A:631 , HOH A:703 , HOH A:704 , HOH A:838 , HOH A:845	BINDING SITE FOR RESIDUE ZN A 601
02	AC2	SOFTWARE	AP5 B:632 , HOH B:704 , HOH B:776 , HOH B:805 , HOH B:811	BINDING SITE FOR RESIDUE ZN B 611
03	AC3	SOFTWARE	AP5 C:633 , HOH C:646 , HOH C:647 , HOH C:732 , HOH C:741	BINDING SITE FOR RESIDUE ZN C 621
04	AC4	SOFTWARE	GLU A:26 , HIS A:36 , GLU A:144 , HOH A:840 , HOH A:846	BINDING SITE FOR RESIDUE ZN A 641
05	AC5	SOFTWARE	GLU A:70 , ASP A:74 , GLU B:70 , GLU B:104 , ARG B:108	BINDING SITE FOR RESIDUE ZN B 642
06	AC6	SOFTWARE	GLU B:26 , HIS B:36 , HOH B:806 , HOH B:812 , GLU C:144	BINDING SITE FOR RESIDUE ZN B 643
07	AC7	SOFTWARE	GLU B:144 , GLU C:26 , HIS C:36 , HOH C:733 , HOH C:742	BINDING SITE FOR RESIDUE ZN C 644
08	AC8	SOFTWARE	GLU C:70 , ASP C:74 , ARG C:108	BINDING SITE FOR RESIDUE ZN C 645
09	AC9	SOFTWARE	THR B:35 , LYS B:83 , THR B:86 , SER B:87	BINDING SITE FOR RESIDUE SO4 B 701
10	BC1	SOFTWARE	ARG A:107 , HOH A:858 , ARG B:53	BINDING SITE FOR RESIDUE SO4 A 702
11	BC2	SOFTWARE	ALA A:82 , LYS A:83 , HOH A:872 , SER B:0 , MET B:1 , HOH B:740	BINDING SITE FOR RESIDUE SO4 B 703
12	BC3	SOFTWARE	PRO A:17 , GLY A:18 , SER A:19 , GLY A:20 , LYS A:21 , GLY A:22 , THR A:23 , THR A:39 , GLY A:40 , LEU A:43 , ARG A:44 , MET A:61 , GLN A:65 , LEU A:66 , VAL A:67 , GLY A:94 , TYR A:95 , ARG A:97 , GLN A:101 , ARG A:128 , ARG A:132 , ARG A:138 , ARG A:149 , GLY A:177 , SER A:178 , VAL A:179 , ZN A:601 , HOH A:703 , HOH A:704 , HOH A:707 , HOH A:709 , HOH A:710 , HOH A:720 , HOH A:723 , HOH A:725 , HOH A:732 , HOH A:738 , HOH A:755 , HOH A:783 , HOH A:789 , HOH A:820 , HOH A:838 , HOH A:845	BINDING SITE FOR RESIDUE AP5 A 631
13	BC4	SOFTWARE	GLY B:16 , PRO B:17 , GLY B:18 , SER B:19 , GLY B:20 , LYS B:21 , GLY B:22 , THR B:23 , THR B:39 , GLY B:40 , LEU B:43 , ARG B:44 , MET B:61 , GLN B:65 , LEU B:66 , VAL B:67 , GLY B:94 , TYR B:95 , ARG B:97 , GLN B:101 , ARG B:128 , LEU B:129 , ARG B:132 , ARG B:138 , ARG B:149 , GLY B:177 , VAL B:179 , ZN B:611 , HOH B:704 , HOH B:705 , HOH B:711 , HOH B:726 , HOH B:728 , HOH B:776 , HOH B:778 , HOH B:797 , HOH B:803 , HOH B:805 , HOH B:811 , HOH B:838	BINDING SITE FOR RESIDUE AP5 B 632
14	BC5	SOFTWARE	LYS B:63 , GLY C:16 , PRO C:17 , GLY C:18 , SER C:19 , GLY C:20 , LYS C:21 , GLY C:22 , THR C:23 , THR C:39 , GLY C:40 , LEU C:43 , ARG C:44 , MET C:61 , GLN C:65 , LEU C:66 , VAL C:67 , GLY C:94 , TYR C:95 , ARG C:97 , GLN C:101 , ARG C:128 , ARG C:132 , ARG C:138 , ARG C:149 , GLY C:177 , VAL C:179 , ZN C:621 , HOH C:646 , HOH C:647 , HOH C:649 , HOH C:659 , HOH C:663 , HOH C:672 , HOH C:674 , HOH C:684 , HOH C:688 , HOH C:701 , HOH C:703 , HOH C:710 , HOH C:732	BINDING SITE FOR RESIDUE AP5 C 633

(no "SS Bond" information available for 1Z83)

Asymmetric Unit

No.	Residues
1	Tyr A:95	-	Pro A:96
2	Tyr B:95	-	Pro B:96
3	Tyr C:95	-	Pro C:96
4	Ser C:136	-	Gly C:137

Asymmetric Unit (5, 15)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_055337	G	40	R	KAD1_HUMAN	Disease (HAAKD)	137853204	A/B/C	G	40	R
2	UniProt	VAR_055338	G	64	R	KAD1_HUMAN	Disease (HAAKD)	137853205	A/B/C	G	64	R
3	UniProt	VAR_034046	E	123	Q	KAD1_HUMAN	Polymorphism	8192462	A/B/C	E	123	Q
4	UniProt	VAR_004021	R	128	W	KAD1_HUMAN	Disease (HAAKD)	28930974	A/B/C	R	128	W
5	UniProt	VAR_055340	Y	164	C	KAD1_HUMAN	Disease (HAAKD)	137853203	A/B/C	Y	164	C

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

Biological Unit 1 (5, 10)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_055337	G	40	R	KAD1_HUMAN	Disease (HAAKD)	137853204	A/B	G	40	R
2	UniProt	VAR_055338	G	64	R	KAD1_HUMAN	Disease (HAAKD)	137853205	A/B	G	64	R
3	UniProt	VAR_034046	E	123	Q	KAD1_HUMAN	Polymorphism	8192462	A/B	E	123	Q
4	UniProt	VAR_004021	R	128	W	KAD1_HUMAN	Disease (HAAKD)	28930974	A/B	R	128	W
5	UniProt	VAR_055340	Y	164	C	KAD1_HUMAN	Disease (HAAKD)	137853203	A/B	Y	164	C

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

Biological Unit 2 (5, 10)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_055337	G	40	R	KAD1_HUMAN	Disease (HAAKD)	137853204	B/C	G	40	R
2	UniProt	VAR_055338	G	64	R	KAD1_HUMAN	Disease (HAAKD)	137853205	B/C	G	64	R
3	UniProt	VAR_034046	E	123	Q	KAD1_HUMAN	Polymorphism	8192462	B/C	E	123	Q
4	UniProt	VAR_004021	R	128	W	KAD1_HUMAN	Disease (HAAKD)	28930974	B/C	R	128	W
5	UniProt	VAR_055340	Y	164	C	KAD1_HUMAN	Disease (HAAKD)	137853203	B/C	Y	164	C

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

Biological Unit 3 (5, 5)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_055337	G	40	R	KAD1_HUMAN	Disease (HAAKD)	137853204	C	G	40	R
2	UniProt	VAR_055338	G	64	R	KAD1_HUMAN	Disease (HAAKD)	137853205	C	G	64	R
3	UniProt	VAR_034046	E	123	Q	KAD1_HUMAN	Polymorphism	8192462	C	E	123	Q
4	UniProt	VAR_004021	R	128	W	KAD1_HUMAN	Disease (HAAKD)	28930974	C	R	128	W
5	UniProt	VAR_055340	Y	164	C	KAD1_HUMAN	Disease (HAAKD)	137853203	C	Y	164	C

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

Asymmetric Unit (1, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ADENYLATE_KINASE	PS00113	Adenylate kinase signature.	KAD1_HUMAN	90-101	3	A:90-101 B:90-101 C:90-101

Biological Unit 1 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ADENYLATE_KINASE	PS00113	Adenylate kinase signature.	KAD1_HUMAN	90-101	2	A:90-101 B:90-101 -

Biological Unit 2 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ADENYLATE_KINASE	PS00113	Adenylate kinase signature.	KAD1_HUMAN	90-101	2	- B:90-101 C:90-101

Biological Unit 3 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ADENYLATE_KINASE	PS00113	Adenylate kinase signature.	KAD1_HUMAN	90-101	1	- - C:90-101

Asymmetric Unit (6, 18)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1a	ENST00000373176	1a	ENSE00001459734	chr9:130640022-130639902	121	KAD1_HUMAN	-	0	0	-	-
1.3a	ENST00000373176	3a	ENSE00002044723	chr9:130636928-130636890	39	KAD1_HUMAN	1-3	3	3	A:1-3 B:1-3 C:1-3	3 3 3
1.4c	ENST00000373176	4c	ENSE00001604283	chr9:130635340-130635305	36	KAD1_HUMAN	3-15	13	3	A:3-15 B:3-15 C:3-15	13 13 13
1.4e	ENST00000373176	4e	ENSE00000729990	chr9:130635132-130634969	164	KAD1_HUMAN	15-69	55	3	A:15-69 B:15-69 C:15-69	55 55 55
1.5	ENST00000373176	5	ENSE00000729987	chr9:130634218-130634102	117	KAD1_HUMAN	70-108	39	3	A:70-108 B:70-108 C:70-108	39 39 39
1.6	ENST00000373176	6	ENSE00000729985	chr9:130630791-130630600	192	KAD1_HUMAN	109-172	64	3	A:109-172 B:109-172 C:109-172	64 64 64
1.7e	ENST00000373176	7e	ENSE00001459722	chr9:130630355-130628759	1597	KAD1_HUMAN	173-194	22	3	A:173-194 B:173-194 C:173-194	22 22 22

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:195
 aligned with KAD1_HUMAN | P00568 from UniProtKB/Swiss-Prot  Length:194

    Alignment length:195
                             1                                                                                                                                                                                                 
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189     
           KAD1_HUMAN     - -MEEKLKKTKIIFVVGGPGSGKGTQCEKIVQKYGYTHLSTGDLLRSEVSSGSARGKKLSEIMEKGQLVPLETVLDMLRDAMVAKVNTSKGFLIDGYPREVQQGEEFERRIGQPTLLLYVDAGPETMTQRLLKRGETSGRVDDNEETIKKRLETYYKATEPVIAFYEKRGIVRKVNAEGSVDSVFSQVCTHLDALK 194
               SCOP domains d1z83a_ A: automated matches                                                                                                                                                                        SCOP domains
               CATH domains 1z83A00 A:0-194 P-loop containing nucleotide triphosphate hydrolases                                                                                                                                CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhh..eeeeee....hhhhhhhhhhhhhh.eeeehhhhhhhhhh..hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhhh....eeeeee.hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhh...eeeee...hhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------R-----------------------R----------------------------------------------------------Q----W-----------------------------------C------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------ADENYLATE_KI--------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) -1.3-----------Exon 1.4e  PDB: A:15-69 UniProt: 15-69                 Exon 1.5  PDB: A:70-108 UniProt: 70-108Exon 1.6  PDB: A:109-172 UniProt: 109-172                       Exon 1.7e              Transcript 1 (1)
           Transcript 1 (2) ---Exon 1.4c    ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (2)
                 1z83 A   0 SMEEKLKKTNIIFVVGGPGSGKGTQCEKIVQKYGYTHLSTGDLLRSEVSSGSARGKKLSEIMEKGQLVPLETVLDMLRDAMVAKVNTSKGFLIDGYPREVQQGEEFERRIGQPTLLLYVDAGPETMTQRLLKRGETSGRVDDNEETIKKRLETYYKATEPVIAFYEKRGIVRKVNAEGSVDSVFSQVCTHLDALL 194
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189

Chain B from PDB  Type:PROTEIN  Length:195
 aligned with KAD1_HUMAN | P00568 from UniProtKB/Swiss-Prot  Length:194

    Alignment length:195
                             1                                                                                                                                                                                                 
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189     
           KAD1_HUMAN     - -MEEKLKKTKIIFVVGGPGSGKGTQCEKIVQKYGYTHLSTGDLLRSEVSSGSARGKKLSEIMEKGQLVPLETVLDMLRDAMVAKVNTSKGFLIDGYPREVQQGEEFERRIGQPTLLLYVDAGPETMTQRLLKRGETSGRVDDNEETIKKRLETYYKATEPVIAFYEKRGIVRKVNAEGSVDSVFSQVCTHLDALK 194
               SCOP domains d1z83b_ B: automated matches                                                                                                                                                                        SCOP domains
               CATH domains 1z83B00 B:0-194 P-loop containing nucleotide triphosphate hydrolases                                                                                                                                CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhh...eeeeee....hhhhhhhhhhhhhh.eeeehhhhhhhhhhh.hhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh.....eeee....hhhhhhhhhhhh....eeeeee.hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhh...eeeee...hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------R-----------------------R----------------------------------------------------------Q----W-----------------------------------C------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------ADENYLATE_KI--------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) -1.3-----------Exon 1.4e  PDB: B:15-69 UniProt: 15-69                 Exon 1.5  PDB: B:70-108 UniProt: 70-108Exon 1.6  PDB: B:109-172 UniProt: 109-172                       Exon 1.7e              Transcript 1 (1)
           Transcript 1 (2) ---Exon 1.4c    ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (2)
                 1z83 B   0 SMEEKLKKTNIIFVVGGPGSGKGTQCEKIVQKYGYTHLSTGDLLRSEVSSGSARGKKLSEIMEKGQLVPLETVLDMLRDAMVAKVNTSKGFLIDGYPREVQQGEEFERRIGQPTLLLYVDAGPETMTQRLLKRGETSGRVDDNEETIKKRLETYYKATEPVIAFYEKRGIVRKVNAEGSVDSVFSQVCTHLDALL 194
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189

Chain C from PDB  Type:PROTEIN  Length:195
 aligned with KAD1_HUMAN | P00568 from UniProtKB/Swiss-Prot  Length:194

    Alignment length:195
                             1                                                                                                                                                                                                 
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189     
           KAD1_HUMAN     - -MEEKLKKTKIIFVVGGPGSGKGTQCEKIVQKYGYTHLSTGDLLRSEVSSGSARGKKLSEIMEKGQLVPLETVLDMLRDAMVAKVNTSKGFLIDGYPREVQQGEEFERRIGQPTLLLYVDAGPETMTQRLLKRGETSGRVDDNEETIKKRLETYYKATEPVIAFYEKRGIVRKVNAEGSVDSVFSQVCTHLDALK 194
               SCOP domains d1z83c_ C: automated matches                                                                                                                                                                        SCOP domains
               CATH domains 1z83C00 C:0-194 P-loop containing nucleotide triphosphate hydrolases                                                                                                                                CATH domains
           Pfam domains (1) -------------ADK-1z83C01 C:13-169                                                                                                                                         ------------------------- Pfam domains (1)
           Pfam domains (2) -------------ADK-1z83C02 C:13-169                                                                                                                                         ------------------------- Pfam domains (2)
           Pfam domains (3) -------------ADK-1z83C03 C:13-169                                                                                                                                         ------------------------- Pfam domains (3)
         Sec.struct. author hhhhhhh...eeeeee....hhhhhhhhhhhhhh.eeeehhhhhhhhhhh.hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh.....eeee....hhhhhhhhhhhh....eeeeee.hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhh...eeeee...hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------R-----------------------R----------------------------------------------------------Q----W-----------------------------------C------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------ADENYLATE_KI--------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) -1.3-----------Exon 1.4e  PDB: C:15-69 UniProt: 15-69                 Exon 1.5  PDB: C:70-108 UniProt: 70-108Exon 1.6  PDB: C:109-172 UniProt: 109-172                       Exon 1.7e              Transcript 1 (1)
           Transcript 1 (2) ---Exon 1.4c    ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (2)
                 1z83 C   0 SMEEKLKKTNIIFVVGGPGSGKGTQCEKIVQKYGYTHLSTGDLLRSEVSSGSARGKKLSEIMEKGQLVPLETVLDMLRDAMVAKVNTSKGFLIDGYPREVQQGEEFERRIGQPTLLLYVDAGPETMTQRLLKRGETSGRVDDNEETIKKRLETYYKATEPVIAFYEKRGIVRKVNAEGSVDSVFSQVCTHLDALL 194
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189

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: P-loop containing nucleoside triphosphate hydrolases (2083)

Superfamily: P-loop containing nucleoside triphosphate hydrolases (2083)

Family: Nucleotide and nucleoside kinases (231)

Protein domain: automated matches (25)

Human (Homo sapiens) [TaxId: 9606] (7)

1a	d1z83a_	A:
1b	d1z83b_	B:
1c	d1z83c_	C:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

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

Topology: Rossmann fold (7312)

Homologous Superfamily: P-loop containing nucleotide triphosphate hydrolases (1378)

Human (Homo sapiens) (413)

1a	1z83A00	A:0-194
1b	1z83B00	B:0-194
1c	1z83C00	C:0-194

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: P-loop_NTPase (1112)

Family: ADK (22)

Homo sapiens (Human) (4)

1a	ADK-1z83C01	C:13-169
1b	ADK-1z83C02	C:13-169
1c	ADK-1z83C03	C:13-169

Asymmetric Unit(hide GO term definitions)

Chain A,B,C (KAD1_HUMAN | P00568)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0004017	adenylate kinase activity	Catalysis of the reaction: ATP + AMP = 2 ADP.
	GO:0016301	kinase activity	Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
	GO:0019205	nucleobase-containing compound kinase activity	Catalysis of the transfer of a phosphate group, usually from ATP or GTP, to a nucleobase, nucleoside, nucleotide or polynucleotide substrate.
	GO:0004550	nucleoside diphosphate kinase activity	Catalysis of the reaction: ATP + nucleoside diphosphate = ADP + nucleoside triphosphate.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
	GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
	GO:0006172	ADP biosynthetic process	The chemical reactions and pathways resulting in the formation of ADP, adenosine 5'-diphosphate.
	GO:0046033	AMP metabolic process	The chemical reactions and pathways involving AMP, adenosine monophosphate.
	GO:0046034	ATP metabolic process	The chemical reactions and pathways involving ATP, adenosine triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0007050	cell cycle arrest	A regulatory process that halts progression through the cell cycle during one of the normal phases (G1, S, G2, M).
	GO:0006139	nucleobase-containing compound metabolic process	Any cellular metabolic process involving nucleobases, nucleosides, nucleotides and nucleic acids.
	GO:0015949	nucleobase-containing small molecule interconversion	The chemical reactions and pathways by which a nucleobase, nucleoside or nucleotide small molecule is synthesized from another nucleobase, nucleoside or nucleotide small molecule.
	GO:0006165	nucleoside diphosphate phosphorylation	The process of introducing a phosphate group into a nucleoside diphosphate to produce a nucleoside triphosphate.
	GO:0009142	nucleoside triphosphate biosynthetic process	The chemical reactions and pathways resulting in the formation of a nucleoside triphosphate, a compound consisting of a nucleobase linked to a deoxyribose or ribose sugar esterified with triphosphate on the sugar.
	GO:0016310	phosphorylation	The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
	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:0001520	outer dense fiber	A supramolecular fiber found in the flagella of mammalian sperm that surrounds the nine microtubule doublets. These dense fibers are stiff and noncontractile. In human, they consist of about 10 major and at least 15 minor proteins, where all major proteins are ODF1, ODF2 or ODF2-related proteins.
	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:0036126	sperm flagellum	A microtubule-based flagellum (or cilium) that is part of a sperm, a mature male germ cell that develops from a spermatid.

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	1z83
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(no "Related Entries Specified in the PDB File" available for 1Z83)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 14)

Sites (14, 14)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

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Exons (6, 18)

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