1Y8Q - 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)

Title :   SUMO E1 ACTIVATING ENZYME SAE1-SAE2-MG-ATP COMPLEX

Authors :   L. M. Lois, C. D. Lima

Date :   13 Dec 04 (Deposition) - 25 Jan 05 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.25

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

Keywords :   Sumo; E1; Heterodimer; Activating Enzyme; Ubl, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   L. M. Lois, C. D. Lima
Structures Of The Sumo E1 Provide Mechanistic Insights Into Sumo Activation And E2 Recruitment To E1
Embo J. V. 24 439 2005
PubMed-ID: 15660128 | Reference-DOI: 10.1038/SJ.EMBOJ.7600552
(for further references see the PDB file header)

Molecule 1 - UBIQUITIN-LIKE 1 ACTIVATING ENZYME E1A
	Chains	:	A, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET11C
	Expression System Strain	:	BL21DE3CP
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	UBLE1A, SAE1
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	SUMO-1 ACTIVATING ENZYME SUBUNIT 1

Molecule 2 - UBIQUITIN-LIKE 2 ACTIVATING ENZYME E1B
	Chains	:	B, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET28B
	Expression System Strain	:	BL21DE3CP
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	UBLE1B, SAE2
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	SUMO-1 ACTIVATING ENZYME SUBUNIT 2

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 6)

No.	Name	Count	Type	Full Name
1	ATP	2	Ligand/Ion	ADENOSINE-5'-TRIPHOSPHATE
2	MG	2	Ligand/Ion	MAGNESIUM ION
3	ZN	2	Ligand/Ion	ZINC ION

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	ATP	1	Ligand/Ion	ADENOSINE-5'-TRIPHOSPHATE
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	ATP	1	Ligand/Ion	ADENOSINE-5'-TRIPHOSPHATE
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP D:117 , ATP D:801 , HOH D:851 , HOH D:903 , HOH D:991	BINDING SITE FOR RESIDUE MG D 641
2	AC2	SOFTWARE	ASP B:117 , ATP B:802 , HOH B:935 , HOH B:978 , HOH B:1065	BINDING SITE FOR RESIDUE MG B 641
3	AC3	SOFTWARE	CYS D:158 , CYS D:161 , CYS D:441 , CYS D:444	BINDING SITE FOR RESIDUE ZN D 642
4	AC4	SOFTWARE	CYS B:158 , CYS B:161 , CYS B:441 , CYS B:444	BINDING SITE FOR RESIDUE ZN B 642
5	AC5	SOFTWARE	ARG C:21 , GLY D:26 , GLY D:27 , ASP D:48 , LEU D:49 , ASP D:50 , ASN D:56 , ARG D:59 , GLN D:60 , LYS D:72 , ASP D:94 , SER D:95 , ILE D:96 , LEU D:116 , ASP D:117 , LYS D:346 , MG D:641 , HOH D:837 , HOH D:842 , HOH D:851 , HOH D:866 , HOH D:903 , HOH D:908 , HOH D:991	BINDING SITE FOR RESIDUE ATP D 801
6	AC6	SOFTWARE	ARG A:21 , GLY B:26 , GLY B:27 , ASP B:48 , LEU B:49 , ASP B:50 , ASN B:56 , ARG B:59 , GLN B:60 , LYS B:72 , ASP B:94 , SER B:95 , ILE B:96 , MET B:97 , LEU B:116 , ASP B:117 , ASN B:118 , ALA B:121 , LYS B:346 , MG B:641 , HOH B:818 , HOH B:829 , HOH B:839 , HOH B:875 , HOH B:879 , HOH B:918 , HOH B:935 , HOH B:978 , HOH B:1065	BINDING SITE FOR RESIDUE ATP B 802

(no "SS Bond" information available for 1Y8Q)

Asymmetric Unit

No.	Residues
1	Asn A:326	-	Asn A:327
2	Leu B:7	-	Pro B:8
3	Asn C:326	-	Asn C:327

Asymmetric Unit (1, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_017689	L	307	R	SAE2_HUMAN	Polymorphism	1043062	B/D	L	307	R

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

Biological Unit 1 (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_017689	L	307	R	SAE2_HUMAN	Polymorphism	1043062	B	L	307	R

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

Biological Unit 2 (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_017689	L	307	R	SAE2_HUMAN	Polymorphism	1043062	D	L	307	R

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

Asymmetric Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	UBIQUITIN_ACTIVAT_2	PS00865	Ubiquitin-activating enzyme active site.	SAE2_HUMAN	171-179	2	B:171-179 D:171-179
2	UBIQUITIN_ACTIVAT_1	PS00536	Ubiquitin-activating enzyme signature 1.	SAE2_HUMAN	404-412	2	B:404-412 D:404-412

Biological Unit 1 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	UBIQUITIN_ACTIVAT_2	PS00865	Ubiquitin-activating enzyme active site.	SAE2_HUMAN	171-179	1	B:171-179 -
2	UBIQUITIN_ACTIVAT_1	PS00536	Ubiquitin-activating enzyme signature 1.	SAE2_HUMAN	404-412	1	B:404-412 -

Biological Unit 2 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	UBIQUITIN_ACTIVAT_2	PS00865	Ubiquitin-activating enzyme active site.	SAE2_HUMAN	171-179	1	- D:171-179
2	UBIQUITIN_ACTIVAT_1	PS00536	Ubiquitin-activating enzyme signature 1.	SAE2_HUMAN	404-412	1	- D:404-412

Asymmetric Unit (25, 50)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENST00000246548	1	ENSE00000862687	chr19:34919268-34919475	208	SAE2_HUMAN	1-46	46	2	B:6-46 D:4-46	41 43
1.2	ENST00000246548	2	ENSE00000862688	chr19:34921481-34921564	84	SAE2_HUMAN	47-74	28	2	B:47-74 D:47-74	28 28
1.3	ENST00000246548	3	ENSE00000862689	chr19:34922766-34922836	71	SAE2_HUMAN	75-98	24	2	B:75-98 D:75-98	24 24
1.4	ENST00000246548	4	ENSE00000862690	chr19:34924253-34924317	65	SAE2_HUMAN	98-120	23	2	B:98-120 D:98-120	23 23
1.5	ENST00000246548	5	ENSE00000862691	chr19:34925773-34925873	101	SAE2_HUMAN	120-153	34	2	B:120-153 D:120-153	34 34
1.6	ENST00000246548	6	ENSE00000862692	chr19:34929550-34929671	122	SAE2_HUMAN	154-194	41	2	B:154-194 D:154-194	41 41
1.7	ENST00000246548	7	ENSE00000862693	chr19:34934749-34934816	68	SAE2_HUMAN	194-217	24	2	B:194-217 D:194-217	24 24
1.8	ENST00000246548	8	ENSE00000862694	chr19:34935905-34936026	122	SAE2_HUMAN	217-257	41	2	B:217-257 (gaps) D:217-257 (gaps)	41 41
1.9	ENST00000246548	9	ENSE00000862695	chr19:34941170-34941269	100	SAE2_HUMAN	258-291	34	2	B:258-290 D:258-290	33 33
1.10	ENST00000246548	10	ENSE00000862696	chr19:34942886-34943052	167	SAE2_HUMAN	291-346	56	2	B:305-346 D:305-346	42 42
1.11	ENST00000246548	11	ENSE00000862697	chr19:34945165-34945258	94	SAE2_HUMAN	347-378	32	2	B:347-378 D:347-378	32 32
1.12	ENST00000246548	12	ENSE00000862698	chr19:34945349-34945461	113	SAE2_HUMAN	378-415	38	2	B:378-415 D:378-415	38 38
1.13	ENST00000246548	13	ENSE00000862699	chr19:34949674-34949829	156	SAE2_HUMAN	416-467	52	2	B:416-467 D:416-467	52 52
1.14	ENST00000246548	14	ENSE00000862700	chr19:34951375-34951471	97	SAE2_HUMAN	468-500	33	2	B:468-500 D:468-500	33 33
1.15	ENST00000246548	15	ENSE00000862701	chr19:34954931-34955036	106	SAE2_HUMAN	500-535	36	2	B:500-535 D:500-535	36 36
1.16	ENST00000246548	16	ENSE00000862702	chr19:34957783-34957919	137	SAE2_HUMAN	535-581	47	2	B:535-550 D:535-550	16 16
1.17	ENST00000246548	17	ENSE00000862703	chr19:34959945-34960795	851	SAE2_HUMAN	581-640	60	0	-	-

2.1b	ENST00000270225	1b	ENSE00001602790	chr19:47634144-47634285	142	SAE1_HUMAN	1-33	33	2	A:10-33 C:9-33	24 25
2.2	ENST00000270225	2	ENSE00000953004	chr19:47646751-47646862	112	SAE1_HUMAN	33-70	38	2	A:33-70 C:33-70	38 38
2.3	ENST00000270225	3	ENSE00000953005	chr19:47653459-47653632	174	SAE1_HUMAN	71-128	58	2	A:71-128 C:71-128	58 58
2.4	ENST00000270225	4	ENSE00000953006	chr19:47656155-47656297	143	SAE1_HUMAN	129-176	48	2	A:129-176 C:129-176	48 48
2.5	ENST00000270225	5	ENSE00000953007	chr19:47658371-47658470	100	SAE1_HUMAN	176-209	34	2	A:176-209 (gaps) C:176-209 (gaps)	34 34
2.6	ENST00000270225	6	ENSE00000953008	chr19:47673075-47673180	106	SAE1_HUMAN	210-245	36	2	A:210-245 C:210-245	36 36
2.8	ENST00000270225	8	ENSE00001698339	chr19:47700490-47700634	145	SAE1_HUMAN	245-293	49	2	A:245-293 C:245-293	49 49
2.9	ENST00000270225	9	ENSE00001799877	chr19:47706928-47706997	70	SAE1_HUMAN	293-316	24	2	A:293-316 C:293-316	24 24
2.10b	ENST00000270225	10b	ENSE00001604339	chr19:47712416-47713532	1117	SAE1_HUMAN	317-346	30	2	A:317-345 C:317-345	29 29

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:313
 aligned with SAE1_HUMAN | Q9UBE0 from UniProtKB/Swiss-Prot  Length:346

    Alignment length:336
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339      
           SAE1_HUMAN    10 GISEEEAAQYDRQIRLWGLEAQKRLRASRVLLVGLKGLGAEIAKNLILAGVKGLTMLDHEQVTPEDPGAQFLIRTGSVGRNRAEASLERAQNLNPMVDVKVDTEDIEKKPESFFTQFDAVCLTCCSRDVIVKVDQICHKNSIKFFTGDVFGYHGYTFANLGEHEFVEEKTKVAKVSQGVEDGPDTKRAKLDSSETTMVKKKVVFCPVKEALEVDWSSEKAKAALKRTTSDYFLLQVLLKFRTDKGRDPSSDTYEEDSELLLQIRNDVLDSLGISPDLLPEDFVRYCFSEMAPVCAVVGGILAQEIVKALSQRDPPHNNFFFFDGMKGNGIVECLGP 345
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains 1y8qA00 A:10-345 NAD(P)-binding Rossmann-like Domain                                                                                                                                                                                                                                                                                             CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhh.eeeee..hhhhhhhhhhhhhhh..eeeee........hhhhh..........hhhhhhhhhhhhh....eeeee..hhhhhhhhhhh...eeeee..hhhhhhhhhhhhhhh..eeeeeeee..eeeeeee..eeeeeee..-----------------------...eeeeeee..hhhhhh.....hhhhhhhhh...hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh.......eeeee....eeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
           Transcript 2 (1) Exon 2.1b  PDB: A:10-33 -------------------------------------Exon 2.3  PDB: A:71-128 UniProt: 71-128                   Exon 2.4  PDB: A:129-176 UniProt: 129-176       ---------------------------------Exon 2.6  PDB: A:210-245            -----------------------------------------------Exon 2.9  PDB: A:293-316Exon 2.10b  PDB: A:317-345    Transcript 2 (1)
           Transcript 2 (2) -----------------------Exon 2.2  PDB: A:33-70 UniProt: 33-70 ---------------------------------------------------------------------------------------------------------Exon 2.5  PDB: A:176-209 (gaps)   -----------------------------------Exon 2.8  PDB: A:245-293 UniProt: 245-293        ---------------------------------------------------- Transcript 2 (2)
                 1y8q A  10 GISEEEAAQYDRQIRLWGLEAQKRLRASRVLLVGLKGLGAEIAKNLILAGVKGLTMLDHEQVTPEDPGAQFLIRTGSVGRNRAEASLERAQNLNPMVDVKVDTEDIEKKPESFFTQFDAVCLTCCSRDVIVKVDQICHKNSIKFFTGDVFGYHGYTFANLGEHEFVEEKT-----------------------ETTMVKKKVVFCPVKEALEVDWSSEKAKAALKRTTSDYFLLQVLLKFRTDKGRDPSSDTYEEDSELLLQIRNDVLDSLGISPDLLPEDFVRYCFSEMAPVCAVVGGILAQEIVKALSQRDPPHNNFFFFDGMKGNGIVECLGP 345
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179         -         -   |   209       219       229       239       249       259       269       279       289       299       309       319       329       339      
                                                                                                                                                                                                   179                     203

Chain B from PDB  Type:PROTEIN  Length:510
 aligned with SAE2_HUMAN | Q9UBT2 from UniProtKB/Swiss-Prot  Length:640

    Alignment length:545
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545     
           SAE2_HUMAN     6 GLPRELAEAVAGGRVLVVGAGGIGCELLKNLVLTGFSHIDLIDLDTIDVSNLNRQFLFQKKHVGRSKAQVAKESVLQFYPKANIVAYHDSIMNPDYNVEFFRQFILVMNALDNRAARNHVNRMCLAADVPLIESGTAGYLGQVTTIKKGVTECYECHPKPTQRTFPGCTIRNTPSEPIHCIVWAKYLFNQLFGEEDADQEVSPDRADPEAAWEPTEAEARARASNEDGDIKRISTKEWAKSTGYDPVKLFTKLFKDDIRYLLTMDKLWRKRKPPVPLDWAEVQSQGEETNASDQQNEPQLGLKDQQVLDVKSYARLFSKSIETLRVHLAEKGDGAELIWDKDDPSAMDFVTSAANLRMHIFSMNMKSRFDIKSMAGNIIPAIATTNAVIAGLIVLEGLKILSGKIDQCRTIFLNKQPNPRKKLLVPCALDPPNPNCYVCASKPEVTVRLNVHKVTVLTLQDKIVKEKFAMVAPDVQIEDGKGTILISSEEGETEANNHKKLSEFGIRNGSRLQADDFLQDYTLLINILHSEDLGKDVEFEVVGDA 550
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 1y8qB01 B:6-166,B:386-446 NAD(P)-binding Rossmann-like Domain                                                                                                    1y8qB02 B:167-385 Ubiquitin-like 1 activating enzyme                      e1a, chain B, domain 2                                                                                                                           1y8qB01 B:6-166,B:386-446 NAD(P)-binding Rossmann-like Domain1y8qB03 B:447-550 Ubiquitin-like 2 activating enzyme e1b. Chain:  B, domain 3                            CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhheeeee..hhhhhhhhhhhhhhh..eeeeee....hhhhhhh....hhhhh..hhhhhhhhhhhh.....eeeeee........hhhhhh...eeee...hhhhhhhhhhhhhhhh..eeeeeee..eeeeeee.............................hhhhhhhhhhhhhhhhhh..hhhhh.............---------------------hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhh--------------..hhhhh..hhhhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh.hhhh.eeeee........eeeeeee...............eeeeee.....hhhhhhhh...........eeee......eee........hhhhhhhhhhh.....eeeeee....eeeeeeeee.........eee.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------R--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------UBIQUITIN--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UBIQUITIN------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
           Transcript 1 (1) Exon 1.1  PDB: B:6-46 UniProt: 1-46      Exon 1.2  PDB: B:47-74      Exon 1.3  PDB: B:75-98  ---------------------Exon 1.5  PDB: B:120-153          Exon 1.6  PDB: B:154-194 UniProt: 154-194----------------------Exon 1.8  PDB: B:217-257 (gaps)          ---------------------------------Exon 1.10  PDB: B:305-346 UniProt: 291-346 [INCOMPLETE] Exon 1.11  PDB: B:347-378       -------------------------------------Exon 1.13  PDB: B:416-467 UniProt: 416-467          Exon 1.14  PDB: B:468-500        ----------------------------------Exon 1.16        Transcript 1 (1)
           Transcript 1 (2) --------------------------------------------------------------------------------------------Exon 1.4  PDB: B:98-120-------------------------------------------------------------------------Exon 1.7  PDB: B:194-217----------------------------------------Exon 1.9  PDB: B:258-290          --------------------------------------------------------------------------------------Exon 1.12  PDB: B:378-415             ------------------------------------------------------------------------------------Exon 1.15  PDB: B:500-535           --------------- Transcript 1 (2)
                 1y8q B   6 GLPRELAEAVAGGRVLVVGAGGIGCELLKNLVLTGFSHIDLIDLDTIDVSNLNRQFLFQKKHVGRSKAQVAKESVLQFYPKANIVAYHDSIMNPDYNVEFFRQFILVMNALDNRAARNHVNRMCLAADVPLIESGTAGYLGQVTTIKKGVTECYECHPKPTQRTFPGATIRNTPSEPIHCIVWAKYLFNQLFGEEDADQEVSPDRADPEAAWE---------------------TKEWAKSTGYDPVKLFTKLFKDDIRYLLTMDKLWRKRKPPVPLDWAEVQSQ--------------LGLKDQQVLDVKSYARLFSKSIETLRVHLAEKGDGAELIWDKDDPSAMDFVTSAANLRMHIFSMNMKSRFDIKSMAGNIIPAIATTNAVIAGLIVLEGLKILSGKIDQCRTIFLNKQPNPRKKLLVPCALDPPNPNCYVCASKPEVTVRLNVHKVTVLTLQDKIVKEKFAMVAPDVQIEDGKGTILISSEEGETEANNHKKLSEFGIRNGSRLQADDFLQDYTLLINILHSEDLGKDVEFEVVGDA 550
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215  |      -         -    |  245       255       265       275       285    |    -       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545     
                                                                                                                                                                                                                                              218                   240                                               290            305

Chain C from PDB  Type:PROTEIN  Length:311
 aligned with SAE1_HUMAN | Q9UBE0 from UniProtKB/Swiss-Prot  Length:346

    Alignment length:337
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       
           SAE1_HUMAN     9 GGISEEEAAQYDRQIRLWGLEAQKRLRASRVLLVGLKGLGAEIAKNLILAGVKGLTMLDHEQVTPEDPGAQFLIRTGSVGRNRAEASLERAQNLNPMVDVKVDTEDIEKKPESFFTQFDAVCLTCCSRDVIVKVDQICHKNSIKFFTGDVFGYHGYTFANLGEHEFVEEKTKVAKVSQGVEDGPDTKRAKLDSSETTMVKKKVVFCPVKEALEVDWSSEKAKAALKRTTSDYFLLQVLLKFRTDKGRDPSSDTYEEDSELLLQIRNDVLDSLGISPDLLPEDFVRYCFSEMAPVCAVVGGILAQEIVKALSQRDPPHNNFFFFDGMKGNGIVECLGP 345
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 1y8qC00 C:9-345 NAD(P)-binding Rossmann-like Domain                                                                                                                                                                                                                                                                                               CATH domains
           Pfam domains (1) --------------------------ThiF-1y8qC01 C:35-168                                                                                                                 --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) --------------------------ThiF-1y8qC02 C:35-168                                                                                                                 --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhh.eeeee..hhhhhhhhhhhhhhh..eeeee............................hhhhhhhh....eeeee..hhhhhhhhhhh...eeeee..hhhhhhhhhhhhhhh..eeeeeeee..eeeeeee..eeeeee.--------------------------...eeeeee..hhhhhhh....hhhhhhhh....hhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh.........hhhhh....hhhhhhhhhhhhhhhhhhhhhh.......eeeee....eeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 2 (1) Exon 2.1b  PDB: C:9-33   -------------------------------------Exon 2.3  PDB: C:71-128 UniProt: 71-128                   Exon 2.4  PDB: C:129-176 UniProt: 129-176       ---------------------------------Exon 2.6  PDB: C:210-245            -----------------------------------------------Exon 2.9  PDB: C:293-316Exon 2.10b  PDB: C:317-345    Transcript 2 (1)
           Transcript 2 (2) ------------------------Exon 2.2  PDB: C:33-70 UniProt: 33-70 ---------------------------------------------------------------------------------------------------------Exon 2.5  PDB: C:176-209 (gaps)   -----------------------------------Exon 2.8  PDB: C:245-293 UniProt: 245-293        ---------------------------------------------------- Transcript 2 (2)
                 1y8q C   9 GGISEEEAAQYDRQIRLWGLEAQKRLRASRVLLVGLKGLGAEIAKNLILAGVKGLTMLDHEQVTPEDPGAQFLIRTGSVGRNRAEASLERAQNLNPMVDVKVDTEDIEKKPESFFTQFDAVCLTCCSRDVIVKVDQICHKNSIKFFTGDVFGYHGYTFANLGEHEFVEE--------------------------TTMVKKKVVFCPVKEALEVDWSSEKAKAALKRTTSDYFLLQVLLKFRTDKGRDPSSDTYEEDSELLLQIRNDVLDSLGISPDLLPEDFVRYCFSEMAPVCAVVGGILAQEIVKALSQRDPPHNNFFFFDGMKGNGIVECLGP 345
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168        |-         -         -     | 208       218       228       238       248       258       268       278       288       298       308       318       328       338       
                                                                                                                                                                                                  177                        204

Chain D from PDB  Type:PROTEIN  Length:514
 aligned with SAE2_HUMAN | Q9UBT2 from UniProtKB/Swiss-Prot  Length:640

    Alignment length:547
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       
           SAE2_HUMAN     4 SRGLPRELAEAVAGGRVLVVGAGGIGCELLKNLVLTGFSHIDLIDLDTIDVSNLNRQFLFQKKHVGRSKAQVAKESVLQFYPKANIVAYHDSIMNPDYNVEFFRQFILVMNALDNRAARNHVNRMCLAADVPLIESGTAGYLGQVTTIKKGVTECYECHPKPTQRTFPGCTIRNTPSEPIHCIVWAKYLFNQLFGEEDADQEVSPDRADPEAAWEPTEAEARARASNEDGDIKRISTKEWAKSTGYDPVKLFTKLFKDDIRYLLTMDKLWRKRKPPVPLDWAEVQSQGEETNASDQQNEPQLGLKDQQVLDVKSYARLFSKSIETLRVHLAEKGDGAELIWDKDDPSAMDFVTSAANLRMHIFSMNMKSRFDIKSMAGNIIPAIATTNAVIAGLIVLEGLKILSGKIDQCRTIFLNKQPNPRKKLLVPCALDPPNPNCYVCASKPEVTVRLNVHKVTVLTLQDKIVKEKFAMVAPDVQIEDGKGTILISSEEGETEANNHKKLSEFGIRNGSRLQADDFLQDYTLLINILHSEDLGKDVEFEVVGDA 550
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 1y8qD01 D:4-167,D:383-445 NAD(P)-binding Rossmann-like Domain                                                                                                       1y8qD02 D:168-382 Ubiquitin-like 1 activating enzym                   e e1a, chain B, domain 2                                                                                                                         1y8qD01 D:4-167,D:383-445 NAD(P)-binding Rossmann-like Domain  1y8qD03 D:446-550 Ubiquitin-like 2 activating enzyme e1b. Chain:  B, domain 3                             CATH domains
           Pfam domains (1) ------------ThiF-1y8qD01 D:16-151                                                                                                                   --UBA_e1_thiolCys-1y8qD05 D:154-198            ------------------------------------------------------------------------------------------------------------------------------------------------UBACT-1y8qD03 D:343-409                                            --------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) ------------ThiF-1y8qD02 D:16-151                                                                                                                   --UBA_e1_thiolCys-1y8qD06 D:154-198            ------------------------------------------------------------------------------------------------------------------------------------------------UBACT-1y8qD04 D:343-409                                            --------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author ....hhhhhhhhhhheeeee..hhhhhhhhhhhhhhh..eeeeee....hhhhhhh....hhhhh..hhhhhhhhhhh......eeeeee........hhhhhh...eeee...hhhhhhhhhhhhhhhh..eeeeeee..eeeeeee...................hhhhhhh...hhhhhhhhhhhhhhhhh...hhhhh.............-------------------.hhhhhhhhh..hhhhhhhhhhhhhhhhh................hhhhhh..--------------..hhhhh..hhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhh.eeeee........eeeeeee...............eeeeee.....hhhhhhhh...........eeee......eee.............hhhhhh.....eeeeee....eeeeeeeee.........eee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------R--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------UBIQUITIN--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UBIQUITIN------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
           Transcript 1 (1) Exon 1.1  PDB: D:4-46 UniProt: 1-46        Exon 1.2  PDB: D:47-74      Exon 1.3  PDB: D:75-98  ---------------------Exon 1.5  PDB: D:120-153          Exon 1.6  PDB: D:154-194 UniProt: 154-194----------------------Exon 1.8  PDB: D:217-257 (gaps)          ---------------------------------Exon 1.10  PDB: D:305-346 UniProt: 291-346 [INCOMPLETE] Exon 1.11  PDB: D:347-378       -------------------------------------Exon 1.13  PDB: D:416-467 UniProt: 416-467          Exon 1.14  PDB: D:468-500        ----------------------------------Exon 1.16        Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------------------------------------------Exon 1.4  PDB: D:98-120-------------------------------------------------------------------------Exon 1.7  PDB: D:194-217----------------------------------------Exon 1.9  PDB: D:258-290          --------------------------------------------------------------------------------------Exon 1.12  PDB: D:378-415             ------------------------------------------------------------------------------------Exon 1.15  PDB: D:500-535           --------------- Transcript 1 (2)
                 1y8q D   4 SRGLPRELAEAVAGGRVLVVGAGGIGCELLKNLVLTGFSHIDLIDLDTIDVSNLNRQFLFQKKHVGRSKAQVAKESVLQFYPKANIVAYHDSIMNPDYNVEFFRQFILVMNALDNRAARNHVNRMCLAADVPLIESGTAGYLGQVTTIKKGVTECYECHPKPTQRTFPGATIRNTPSEPIHCIVWAKYLFNQLFGEEDADQEVSPDRADPEAAWE-------------------ISTKEWAKSTGYDPVKLFTKLFKDDIRYLLTMDKLWRKRKPPVPLDWAEVQSQ--------------LGLKDQQVLDVKSYARLFSKSIETLRVHLAEKGDGAELIWDKDDPSAMDFVTSAANLRMHIFSMNMKSRFDIKSMAGNIIPAIATTNAVIAGLIVLEGLKILSGKIDQCRTIFLNKQPNPRKKLLVPCALDPPNPNCYVCASKPEVTVRLNVHKVTVLTLQDKIVKEKFAMVAPDVQIEDGKGTILISSEEGETEANNHKKLSEFGIRNGSRLQADDFLQDYTLLINILHSEDLGKDVEFEVVGDA 550
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213    |    -         -    |  243       253       263       273       283      |  -         - |     313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       
                                                                                                                                                                                                                                                218                 238                                                 290            305

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 1Y8Q)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: NADP_Rossmann (1239)

Family: ThiF (14)

Homo sapiens (Human) (8)

1a	ThiF-1y8qC01	C:35-168
1b	ThiF-1y8qC02	C:35-168
1c	ThiF-1y8qD01	D:16-151
1d	ThiF-1y8qD02	D:16-151

Clan: no clan defined [family: UBACT] (10)

Family: UBACT (10)

Homo sapiens (Human) (9)

2a	UBACT-1y8qD03	D:343-409
2b	UBACT-1y8qD04	D:343-409

Clan: no clan defined [family: UBA_e1_thiolCys] (10)

Family: UBA_e1_thiolCys (10)

Homo sapiens (Human) (9)

3a	UBA_e1_thiolCys-1y8qD05	D:154-198
3b	UBA_e1_thiolCys-1y8qD06	D:154-198

Asymmetric Unit(hide GO term definitions)

Chain A,C (SAE1_HUMAN | Q9UBE0)

molecular function
	GO:0043008	ATP-dependent protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules) using energy from the hydrolysis of ATP.
	GO:0019948	SUMO activating enzyme activity	Catalysis of the activation of the proteolytically processed small ubiquitin-related modifier SUMO, through the formation of an ATP-dependent high-energy thiolester bond.
	GO:0008047	enzyme activator activity	Binds to and increases the activity of an enzyme.
	GO:0016874	ligase activity	Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
	GO:0008022	protein C-terminus binding	Interacting selectively and non-covalently with a protein C-terminus, the end of any peptide chain at which the 1-carboxy function of a constituent amino acid is not attached in peptide linkage to another amino-acid residue.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0046982	protein heterodimerization activity	Interacting selectively and non-covalently with a nonidentical protein to form a heterodimer.
	GO:0008641	small protein activating enzyme activity	Catalysis of the activation of small proteins, such as ubiquitin or ubiquitin-like proteins, through the formation of an ATP-dependent high-energy thiolester bond.
	GO:0004839	ubiquitin activating enzyme activity	Catalysis of the reaction: E1 + ubiquitin + ATP--> E1-ubiquitin + AMP + PPi, where the E1-ubiquitin linkage is a thioester bond between the C-terminal glycine of Ub and a sulfhydryl side group of an E1 cysteine residue. This is the first step in a cascade of reactions in which ubiquitin is ultimately added to a protein substrate.
biological process
	GO:0006464	cellular protein modification process	The covalent alteration of one or more amino acids occurring in proteins, peptides and nascent polypeptides (co-translational, post-translational modifications) occurring at the level of an individual cell. Includes the modification of charged tRNAs that are destined to occur in a protein (pre-translation modification).
	GO:0043085	positive regulation of catalytic activity	Any process that activates or increases the activity of an enzyme.
	GO:1903955	positive regulation of protein targeting to mitochondrion	Any process that activates or increases the frequency, rate or extent of protein targeting to mitochondrion.
	GO:0016925	protein sumoylation	The process in which a SUMO protein (small ubiquitin-related modifier) is conjugated to a target protein via an isopeptide bond between the carboxyl terminus of SUMO with an epsilon-amino group of a lysine residue of the target protein.
	GO:0016567	protein ubiquitination	The process in which one or more ubiquitin groups are added to a protein.
	GO:0007346	regulation of mitotic cell cycle	Any process that modulates the rate or extent of progress through the mitotic cell cycle.
cellular component
	GO:0031510	SUMO activating enzyme complex	A conserved heterodimeric complex with SUMO activating enzyme activity.
	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:0005654	nucleoplasm	That part of the nuclear content other than the chromosomes or the nucleolus.
	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.

Chain B,D (SAE2_HUMAN | Q9UBT2)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0019948	SUMO activating enzyme activity	Catalysis of the activation of the proteolytically processed small ubiquitin-related modifier SUMO, through the formation of an ATP-dependent high-energy thiolester bond.
	GO:0008047	enzyme activator activity	Binds to and increases the activity of an enzyme.
	GO:0016874	ligase activity	Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	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:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0046982	protein heterodimerization activity	Interacting selectively and non-covalently with a nonidentical protein to form a heterodimer.
	GO:0008641	small protein activating enzyme activity	Catalysis of the activation of small proteins, such as ubiquitin or ubiquitin-like proteins, through the formation of an ATP-dependent high-energy thiolester bond.
	GO:0008134	transcription factor binding	Interacting selectively and non-covalently with a transcription factor, any protein required to initiate or regulate transcription.
biological process
	GO:0043085	positive regulation of catalytic activity	Any process that activates or increases the activity of an enzyme.
	GO:0016925	protein sumoylation	The process in which a SUMO protein (small ubiquitin-related modifier) is conjugated to a target protein via an isopeptide bond between the carboxyl terminus of SUMO with an epsilon-amino group of a lysine residue of the target protein.
cellular component
	GO:0031510	SUMO activating enzyme complex	A conserved heterodimeric complex with SUMO activating enzyme activity.
	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:0005654	nucleoplasm	That part of the nuclear content other than the chromosomes or the nucleolus.
	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.

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	1y8q
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	SAE2_HUMAN \| Q9UBT2
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UniProtKB/Swiss-Prot
	SAE1_HUMAN \| Q9UBE0	:	1y8r 3kyc 3kyd
	SAE2_HUMAN \| Q9UBT2	:	1y8r 2px9 3kyc 3kyd 4w5v 5fq2

1y8r	SUMO E1 SAE1-SAE2-SUMO1-MG-ATP COMPLEX

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 6)

Sites (6, 6)

SS Bonds (0, 0)

Cis Peptide Bonds (3, 3)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (1, 2)

PROSITE Motifs (2, 4)

Exons (25, 50)

Sequences/Alignments

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (3, 8)

Pfam Domains (3, 8)

Gene Ontology (24, 36)

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File