3THT - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Biological Unit 5 (Jmol Viewer)

Biological Unit 6 (Jmol Viewer)

Biological Unit 7 (Jmol Viewer)

Biological Unit 8 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE AND RNA BINDING PROPERTIES OF THE RRM/ALKB DOMAINS IN HUMAN ABH8, AN ENZYME CATALYZING TRNA HYPERMODIFICATION, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET HR5601B

Authors :   C. Pastore, I. Topalidou, F. Forouhar, A. C. Yan, M. Levy, J. F. Hunt, Nor Structural Genomics Consortium (Nesg)

Date :   19 Aug 11 (Deposition) - 02 Nov 11 (Release) - 10 Oct 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.01

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)
Biol. Unit 4: D  (1x)
Biol. Unit 5: A,B  (2x)
Biol. Unit 6: A,B  (1x)
Biol. Unit 7: C,D  (2x)
Biol. Unit 8: C,D  (1x)

Keywords :   Structural Genomics, Psi-Biology, Northeast Structural Genomics Consortium, Nesg, Alpha-Beta Two Domain Protein Containing A Zinc Structure Motif, Trna Modifying Enzyme, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. Pastore, I. Topalidou, F. Forouhar, A. C. Yan, M. Levy, J. F. Hunt
Crystal Structure And Rna Binding Properties Of The Rna Recognition Motif (Rrm) And Alkb Domains In Human Alkb Homolog 8 (Abh8), An Enzyme Catalyzing Trna Hypermodification.
J. Biol. Chem. V. 287 2130 2012
PubMed-ID: 22065580 | Reference-DOI: 10.1074/JBC.M111.286187

Molecule 1 - ALKYLATED DNA REPAIR PROTEIN ALKB HOMOLOG 8
	Chains	:	A, B, C, D
	EC Number	:	1.14.11.-
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET26
	Expression System Strain	:	ROSETTA 2
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	RRM AND ALKB DOMAINS OF ABH8
	Gene	:	ABH8, ALKBH8
	Mutation	:	YES
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	PROBABLE ALPHA-KETOGLUTARATE-DEPENDENT DIOXYGENASE ABH8

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			C
Biological Unit 4 (1x)	:				D
Biological Unit 5 (2x)	:	A	B
Biological Unit 6 (1x)	:	A	B
Biological Unit 7 (2x)	:			C	D
Biological Unit 8 (1x)	:			C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 12)

No.	Name	Count	Type	Full Name
1	AKG	4	Ligand/Ion	2-OXOGLUTARIC ACID
2	MN	4	Ligand/Ion	MANGANESE (II) ION
3	ZN	4	Ligand/Ion	ZINC ION

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	AKG	1	Ligand/Ion	2-OXOGLUTARIC ACID
2	MN	-1	Ligand/Ion	MANGANESE (II) ION
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	AKG	1	Ligand/Ion	2-OXOGLUTARIC ACID
2	MN	-1	Ligand/Ion	MANGANESE (II) ION
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 3 (1, 1)

No.	Name	Count	Type	Full Name
1	AKG	1	Ligand/Ion	2-OXOGLUTARIC ACID
2	MN	-1	Ligand/Ion	MANGANESE (II) ION
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 4 (1, 1)

No.	Name	Count	Type	Full Name
1	AKG	1	Ligand/Ion	2-OXOGLUTARIC ACID
2	MN	-1	Ligand/Ion	MANGANESE (II) ION
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 5 (1, 4)

No.	Name	Count	Type	Full Name
1	AKG	4	Ligand/Ion	2-OXOGLUTARIC ACID
2	MN	-1	Ligand/Ion	MANGANESE (II) ION
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 6 (1, 2)

No.	Name	Count	Type	Full Name
1	AKG	2	Ligand/Ion	2-OXOGLUTARIC ACID
2	MN	-1	Ligand/Ion	MANGANESE (II) ION
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 7 (1, 4)

No.	Name	Count	Type	Full Name
1	AKG	4	Ligand/Ion	2-OXOGLUTARIC ACID
2	MN	-1	Ligand/Ion	MANGANESE (II) ION
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 8 (1, 2)

No.	Name	Count	Type	Full Name
1	AKG	2	Ligand/Ion	2-OXOGLUTARIC ACID
2	MN	-1	Ligand/Ion	MANGANESE (II) ION
3	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (12, 12)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	HIS A:242 , CYS A:341 , CYS A:343 , CYS A:349	BINDING SITE FOR RESIDUE ZN A 401
02	AC2	SOFTWARE	HIS A:238 , ASP A:240 , HIS A:292 , AKG A:403	BINDING SITE FOR RESIDUE MN A 402
03	AC3	SOFTWARE	ASN A:227 , TYR A:229 , ILE A:235 , HIS A:238 , ASP A:240 , SER A:251 , MET A:260 , HIS A:292 , ARG A:328 , SER A:330 , THR A:332 , ARG A:334 , MN A:402	BINDING SITE FOR RESIDUE AKG A 403
04	AC4	SOFTWARE	HIS B:242 , CYS B:341 , CYS B:343 , CYS B:349	BINDING SITE FOR RESIDUE ZN B 401
05	AC5	SOFTWARE	HIS B:238 , ASP B:240 , HIS B:292 , AKG B:403	BINDING SITE FOR RESIDUE MN B 402
06	AC6	SOFTWARE	ASN B:227 , TYR B:229 , HIS B:238 , SER B:251 , HIS B:292 , ARG B:328 , SER B:330 , ARG B:334 , MN B:402	BINDING SITE FOR RESIDUE AKG B 403
07	AC7	SOFTWARE	HIS C:242 , CYS C:341 , CYS C:343 , CYS C:349	BINDING SITE FOR RESIDUE ZN C 401
08	AC8	SOFTWARE	HIS C:238 , ASP C:240 , HIS C:292 , AKG C:403	BINDING SITE FOR RESIDUE MN C 402
09	AC9	SOFTWARE	ASN C:227 , TYR C:229 , ILE C:235 , HIS C:238 , ASP C:240 , SER C:251 , MET C:260 , HIS C:292 , ILE C:294 , ARG C:328 , SER C:330 , THR C:332 , ARG C:334 , MN C:402	BINDING SITE FOR RESIDUE AKG C 403
10	BC1	SOFTWARE	HIS D:242 , CYS D:341 , CYS D:343 , CYS D:349	BINDING SITE FOR RESIDUE ZN D 401
11	BC2	SOFTWARE	HIS D:238 , ASP D:240 , HIS D:292 , AKG D:403	BINDING SITE FOR RESIDUE MN D 402
12	BC3	SOFTWARE	ASN D:227 , TYR D:229 , ILE D:235 , HIS D:238 , ASP D:240 , SER D:251 , MET D:260 , HIS D:292 , ARG D:328 , SER D:330 , THR D:332 , ARG D:334 , MN D:402	BINDING SITE FOR RESIDUE AKG D 403

(no "SS Bond" information available for 3THT)

(no "Cis Peptide Bond" information available for 3THT)

(no "SAP(SNP)/Variant" information available for 3THT)

Asymmetric Unit (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FE2OG_OXY	PS51471	Fe(2+) 2-oxoglutarate dioxygenase domain profile.	ALKB8_HUMAN	220-337	4	A:220-337 B:220-337 C:220-337 D:220-337

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FE2OG_OXY	PS51471	Fe(2+) 2-oxoglutarate dioxygenase domain profile.	ALKB8_HUMAN	220-337	1	A:220-337 - - -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FE2OG_OXY	PS51471	Fe(2+) 2-oxoglutarate dioxygenase domain profile.	ALKB8_HUMAN	220-337	1	- B:220-337 - -

Biological Unit 3 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FE2OG_OXY	PS51471	Fe(2+) 2-oxoglutarate dioxygenase domain profile.	ALKB8_HUMAN	220-337	1	- - C:220-337 -

Biological Unit 4 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FE2OG_OXY	PS51471	Fe(2+) 2-oxoglutarate dioxygenase domain profile.	ALKB8_HUMAN	220-337	1	- - - D:220-337

Biological Unit 5 (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FE2OG_OXY	PS51471	Fe(2+) 2-oxoglutarate dioxygenase domain profile.	ALKB8_HUMAN	220-337	4	A:220-337 B:220-337 - -

Biological Unit 6 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FE2OG_OXY	PS51471	Fe(2+) 2-oxoglutarate dioxygenase domain profile.	ALKB8_HUMAN	220-337	2	A:220-337 B:220-337 - -

Biological Unit 7 (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FE2OG_OXY	PS51471	Fe(2+) 2-oxoglutarate dioxygenase domain profile.	ALKB8_HUMAN	220-337	4	- - C:220-337 D:220-337

Biological Unit 8 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FE2OG_OXY	PS51471	Fe(2+) 2-oxoglutarate dioxygenase domain profile.	ALKB8_HUMAN	220-337	2	- - C:220-337 D:220-337

Asymmetric Unit (10, 38)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.2	ENST00000389568	2	ENSE00001724312	chr11:107436244-107436179	66	ALKB8_HUMAN	-	0	0	-	-
1.3	ENST00000389568	3	ENSE00001620533	chr11:107435940-107435888	53	ALKB8_HUMAN	-	0	0	-	-
1.4	ENST00000389568	4	ENSE00001769102	chr11:107434462-107434273	190	ALKB8_HUMAN	-	0	0	-	-
1.5	ENST00000389568	5	ENSE00001727109	chr11:107433542-107433425	118	ALKB8_HUMAN	-	0	0	-	-
1.6	ENST00000389568	6	ENSE00002152837	chr11:107431625-107431491	135	ALKB8_HUMAN	1-43	43	4	A:28-43 B:28-43 C:28-43 D:28-43	16 16 16 16
1.7	ENST00000389568	7	ENSE00000990040	chr11:107427729-107427492	238	ALKB8_HUMAN	44-123	80	4	A:44-123 B:44-123 C:44-123 D:44-123	80 80 80 80
1.8a	ENST00000389568	8a	ENSE00000930433	chr11:107424704-107424573	132	ALKB8_HUMAN	123-167	45	4	A:123-157 B:123-158 C:123-158 D:123-159	35 36 36 37
1.9	ENST00000389568	9	ENSE00000930432	chr11:107423929-107423834	96	ALKB8_HUMAN	167-199	33	4	A:174-199 (gaps) B:174-199 (gaps) C:174-199 (gaps) D:173-181	26 26 26 9
1.10b	ENST00000389568	10b	ENSE00000930431	chr11:107422638-107422534	105	ALKB8_HUMAN	199-234	36	4	A:199-234 B:199-234 C:199-234 D:200-234	36 36 36 35
1.11	ENST00000389568	11	ENSE00001506233	chr11:107420549-107420479	71	ALKB8_HUMAN	234-257	24	4	A:234-257 B:234-257 C:234-257 D:234-257	24 24 24 24
1.12b	ENST00000389568	12b	ENSE00001687648	chr11:107403132-107403026	107	ALKB8_HUMAN	258-293	36	4	A:258-293 B:258-293 C:258-293 D:258-293	36 36 36 36
1.13	ENST00000389568	13	ENSE00001697189	chr11:107396318-107396167	152	ALKB8_HUMAN	293-344	52	4	A:293-344 B:293-344 (gaps) C:293-344 (gaps) D:293-344	52 52 52 52
1.14	ENST00000389568	14	ENSE00001611673	chr11:107393281-107393025	257	ALKB8_HUMAN	344-429	86	4	A:344-359 (gaps) B:344-359 (gaps) C:344-356 D:344-360 (gaps)	86 86 13 33
1.15	ENST00000389568	15	ENSE00001634419	chr11:107381762-107381613	150	ALKB8_HUMAN	430-479	50	2	A:360-363 B:360-362 - -	4 3 - -
1.16c	ENST00000389568	16c	ENSE00001763825	chr11:107375941-107375321	621	ALKB8_HUMAN	480-664	185	0	-	-

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:302
 aligned with ALKB8_HUMAN | Q96BT7 from UniProtKB/Swiss-Prot  Length:664

    Alignment length:406
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427      
          ALKB8_HUMAN    28 TLLRHEGIETVSYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNFVEKVQWKELRPQALPPGLMVVEEIISSEEEKMLLESVDWTEDTDNQNSQKSLKHRRVKHFGYEFHYENNNVDKDKPLSGGLPDICESFLEKWLRKGYIKHKPDQMTINQYEPGQGIPAHIDTHSAFEDEIVSLSLGSEIVMDFKHPDGIAVPVMLPRRSLLVMTGESRYLWTHGITCRKFDTVQASESLKSGIITSDVGDLTLSKRGLRTSFTFRKVRQTPCNCSYPLVCDSQRKETPPSFPESDKEASRLEQEYVHQVYEEIAGHFSSTRHTPWPHIVEFLKALPSGSIVADIGCGNGKYLGINKELYMIGCD 433
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................eeeee..hhhhh.hhhhhhhhhhh...eeeee......eeeeee.hhhhhhhhhhhh...eee.....eee.eeee...eeeeeee.......eeee....hhhhhhhhhh...----------------.eee...------------------..hhhhhhhhhhhhhhh.......eeeeeee.....eeee..........eeeeee...eeeeee.....eeeeee...eeeee.hhhhhh.eeee....eeeee.......ee.......eeeee...eeeeeee.....................h----------------------------------------------------------------------hhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------FE2OG_OXY  PDB: A:220-337 UniProt: 220-337                                                                            ------------------------------------------------------------------------------------------------ PROSITE
           Transcript 1 (1) Exon 1.6        Exon 1.7  PDB: A:44-123 UniProt: 44-123                                         ---------------------------------------------------------------------------Exon 1.10b  PDB: A:199-234          -----------------------Exon 1.12b  PDB: A:258-293          --------------------------------------------------Exon 1.14  PDB: A:344-359 (gaps) UniProt: 344-429                                     1.15 Transcript 1 (1)
           Transcript 1 (2) -----------------------------------------------------------------------------------------------Exon 1.8a  PDB: A:123-157 UniProt: 123-167   ------------------------------------------------------------------Exon 1.11  PDB: A:234-25-----------------------------------Exon 1.13  PDB: A:293-344 UniProt: 293-344          ----------------------------------------------------------------------------------------- Transcript 1 (2)
           Transcript 1 (3) -------------------------------------------------------------------------------------------------------------------------------------------Exon 1.9  PDB: A:174-199 (gaps)  ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript 1 (3)
                 3tht A  28 TLLRHEGIETVSYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNFVEKVQWKELRPQALPPGLMVVEEIISSEEEKMLLESVD----------------RRVKHFG------------------GLPDICESFLEKWLRKGYIKHKPDQMTINQYEPGQGIPAHIDTHSAFEDEIVSLSLGSEIVMDFKHPDGIAVPVMLPRRSLLVMTGESRYLWTHGITCRKFDTVQASESLKSGIITSDVGDLTLSKRGLRTSFTFRKVRQTPCNCSYPLVCDSQRKEN----------------------------------------------------------------------LYFQGLE 363
                                    37        47        57        67        77        87        97       107       117       127       137       147       157         -      |177  |      -         - |     207       217       227       237       247       257       267       277       287       297       307       317       327       337       347        |-         -         -         -         -         -         -       357      
                                                                                                                                                           157              174   180                199                                                                                                                                                          356                                                                    357

Chain B from PDB  Type:PROTEIN  Length:312
 aligned with ALKB8_HUMAN | Q96BT7 from UniProtKB/Swiss-Prot  Length:664

    Alignment length:405
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427     
          ALKB8_HUMAN    28 TLLRHEGIETVSYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNFVEKVQWKELRPQALPPGLMVVEEIISSEEEKMLLESVDWTEDTDNQNSQKSLKHRRVKHFGYEFHYENNNVDKDKPLSGGLPDICESFLEKWLRKGYIKHKPDQMTINQYEPGQGIPAHIDTHSAFEDEIVSLSLGSEIVMDFKHPDGIAVPVMLPRRSLLVMTGESRYLWTHGITCRKFDTVQASESLKSGIITSDVGDLTLSKRGLRTSFTFRKVRQTPCNCSYPLVCDSQRKETPPSFPESDKEASRLEQEYVHQVYEEIAGHFSSTRHTPWPHIVEFLKALPSGSIVADIGCGNGKYLGINKELYMIGC 432
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................eeeee..hhhhh.hhhhhhhhhhh...eeeee......eeeeee.hhhhhhhhhhhh...eee.....eee.eeee...eeeeeee.......eeee....hhhhhhhhhhh...---------------.eeeee....-----............hhhhhhhhhhhhhh........eeeeeee.....eeee......eeeeeeeeee...eeeeee.....eeeeee...eeeeehhhhhhh.eeee....eeeee.---...ee.......eeeee...eeeeeeeee........hhhhhhhhhh..----------------------------------------------------------------------...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------FE2OG_OXY  PDB: B:220-337 UniProt: 220-337                                                                            ----------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.6        Exon 1.7  PDB: B:44-123 UniProt: 44-123                                         ---------------------------------------------------------------------------Exon 1.10b  PDB: B:199-234          -----------------------Exon 1.12b  PDB: B:258-293          --------------------------------------------------Exon 1.14  PDB: B:344-359 (gaps) UniProt: 344-429                                     1.1 Transcript 1 (1)
           Transcript 1 (2) -----------------------------------------------------------------------------------------------Exon 1.8a  PDB: B:123-158 UniProt: 123-167   ------------------------------------------------------------------Exon 1.11  PDB: B:234-25-----------------------------------Exon 1.13  PDB: B:293-344 (gaps) UniProt: 293-344   ---------------------------------------------------------------------------------------- Transcript 1 (2)
           Transcript 1 (3) -------------------------------------------------------------------------------------------------------------------------------------------Exon 1.9  PDB: B:174-199 (gaps)  ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (3)
                 3tht B  28 TLLRHEGIETVSYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNFVEKVQWKELRPQALPPGLMVVEEIISSEEEKMLLESVDW---------------RRVKHFGYEF-----NVDKDKPLSGGLPDICESFLEKWLRKGYIKHKPDQMTINQYEPGQGIPAHIDTHSAFEDEIVSLSLGSEIVMDFKHPDGIAVPVMLPRRSLLVMTGESRYLWTHGITCRKFDTVQA---LKSGIITSDVGDLTLSKRGLRTSFTFRKVRQTPCNCSYPLVCDSQRKEN----------------------------------------------------------------------LYFQGL 362
                                    37        47        57        67        77        87        97       107       117       127       137       147       157|        -      |177     |   - |     197       207       217       227       237       247       257       267       277       287       297      |  -|      317       327       337       347        |-         -         -         -         -         -         -       357     
                                                                                                                                                            158             174      183   189                                                                                                                304 308                                             356                                                                    357

Chain C from PDB  Type:PROTEIN  Length:295
 aligned with ALKB8_HUMAN | Q96BT7 from UniProtKB/Swiss-Prot  Length:664

    Alignment length:329
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347         
          ALKB8_HUMAN    28 TLLRHEGIETVSYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNFVEKVQWKELRPQALPPGLMVVEEIISSEEEKMLLESVDWTEDTDNQNSQKSLKHRRVKHFGYEFHYENNNVDKDKPLSGGLPDICESFLEKWLRKGYIKHKPDQMTINQYEPGQGIPAHIDTHSAFEDEIVSLSLGSEIVMDFKHPDGIAVPVMLPRRSLLVMTGESRYLWTHGITCRKFDTVQASESLKSGIITSDVGDLTLSKRGLRTSFTFRKVRQTPCNCSYPLVCDSQRKET 356
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................eeeee..hhhhh.hhhhhhhhhhh...eeeee......eeeeee.hhhhhhhhhhhh...eee.....eee.eeee....eeeee.........eee....hhhhhhhhhh....---------------.eeeee..-----------------..hhhhhhhhhhhhhhh.......eeeeeee.....eeee..........eeeeee...eeeeee.....eeeeee...eeeee.hhhhhh..eee......eee...--..ee.......eee.....eeeeeee..............hhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------FE2OG_OXY  PDB: C:220-337 UniProt: 220-337                                                                            ------------------- PROSITE
           Transcript 1 (1) Exon 1.6        Exon 1.7  PDB: C:44-123 UniProt: 44-123                                         ---------------------------------------------------------------------------Exon 1.10b  PDB: C:199-234          -----------------------Exon 1.12b  PDB: C:258-293          --------------------------------------------------Exon 1.14     Transcript 1 (1)
           Transcript 1 (2) -----------------------------------------------------------------------------------------------Exon 1.8a  PDB: C:123-158 UniProt: 123-167   ------------------------------------------------------------------Exon 1.11  PDB: C:234-25-----------------------------------Exon 1.13  PDB: C:293-344 (gaps) UniProt: 293-344   ------------ Transcript 1 (2)
           Transcript 1 (3) -------------------------------------------------------------------------------------------------------------------------------------------Exon 1.9  PDB: C:174-199 (gaps)  ------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (3)
                 3tht C  28 TLLRHEGIETVSYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNFVEKVQWKELRPQALPPGLMVVEEIISSEEEKMLLESVDW---------------RRVKHFGY-----------------GLPDICESFLEKWLRKGYIKHKPDQMTINQYEPGQGIPAHIDTHSAFEDEIVSLSLGSEIVMDFKHPDGIAVPVMLPRRSLLVMTGESRYLWTHGITCRKFDTVQASE--KSGIITSDVGDLTLSKRGLRTSFTFRKVRQTPCNCSYPLVCDSQRKEN 356
                                    37        47        57        67        77        87        97       107       117       127       137       147       157|        -      |177   |     -         - |     207       217       227       237       247       257       267       277       287       297        |- |     317       327       337       347         
                                                                                                                                                            158             174    181               199                                                                                                        306  |                                               
                                                                                                                                                                                                                                                                                                                   309

Chain D from PDB  Type:PROTEIN  Length:302
 aligned with ALKB8_HUMAN | Q96BT7 from UniProtKB/Swiss-Prot  Length:664

    Alignment length:349
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367         
          ALKB8_HUMAN    28 TLLRHEGIETVSYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNFVEKVQWKELRPQALPPGLMVVEEIISSEEEKMLLESVDWTEDTDNQNSQKSLKHRRVKHFGYEFHYENNNVDKDKPLSGGLPDICESFLEKWLRKGYIKHKPDQMTINQYEPGQGIPAHIDTHSAFEDEIVSLSLGSEIVMDFKHPDGIAVPVMLPRRSLLVMTGESRYLWTHGITCRKFDTVQASESLKSGIITSDVGDLTLSKRGLRTSFTFRKVRQTPCNCSYPLVCDSQRKETPPSFPESDKEASRLEQEYVH 376
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................eeeee..hhhhh.hhhhhhhhhhh...eeeee......eeeeee.hhhhhhhhhhhh...eee.....eee.eeee....eeeee........eeee....hhhhhhhhhhh....-------------..eeeee..------------------.hhhhhhhhhhhhhhh.......eeeeeee.....eeee..........eeeeee...eeeeee.....eeeeee....eeeehhhhhhh.eeee....eeeee................eeeee...eeeeeee..........hhhhhhhhhh----------------hhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------FE2OG_OXY  PDB: D:220-337 UniProt: 220-337                                                                            --------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.6        Exon 1.7  PDB: D:44-123 UniProt: 44-123                                         ---------------------------------------------------------------------------Exon 1.10b  PDB: D:200-234          -----------------------Exon 1.12b  PDB: D:258-293          --------------------------------------------------Exon 1.14  PDB: D:344-360 (gaps)  Transcript 1 (1)
           Transcript 1 (2) -----------------------------------------------------------------------------------------------Exon 1.8a  PDB: D:123-159 UniProt: 123-167   ------------------------------------------------------------------Exon 1.11  PDB: D:234-25-----------------------------------Exon 1.13  PDB: D:293-344 UniProt: 293-344          -------------------------------- Transcript 1 (2)
           Transcript 1 (3) -------------------------------------------------------------------------------------------------------------------------------------------Exon 1.9  PDB: D:173-181         --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (3)
                 3tht D  28 TLLRHEGIETVSYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNFVEKVQWKELRPQALPPGLMVVEEIISSEEEKMLLESVDWT-------------HRRVKHFGY------------------LPDICESFLEKWLRKGYIKHKPDQMTINQYEPGQGIPAHIDTHSAFEDEIVSLSLGSEIVMDFKHPDGIAVPVMLPRRSLLVMTGESRYLWTHGITCRKFDTVQASESLKSGIITSDVGDLTLSKRGLRTSFTFRKVRQTPCNCSYPLVCDSQRK----------------ENLYFQ 360
                                    37        47        57        67        77        87        97       107       117       127       137       147       157 |       -     | 177   |     -         -  |    207       217       227       237       247       257       267       277       287       297       307       317       327       337       347      |  -         -   |     
                                                                                                                                                             159           173     181                200                                                                                                                                                       354              355

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 3THT)

(no "CATH Domain" information available for 3THT)

(no "Pfam Domain" information available for 3THT)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (ALKB8_HUMAN | Q96BT7)

molecular function
	GO:0003723	RNA binding	Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
	GO:0003824	catalytic activity	Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
	GO:0005506	iron ion binding	Interacting selectively and non-covalently with iron (Fe) ions.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0008168	methyltransferase activity	Catalysis of the transfer of a methyl group to an acceptor molecule.
	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:0016491	oxidoreductase activity	Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
	GO:0016706	oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors	Catalysis of the reaction: A + 2-oxoglutarate + O2 = B + succinate + CO2. This is an oxidation-reduction (redox) reaction in which hydrogen or electrons are transferred from 2-oxoglutarate and one other donor, and one atom of oxygen is incorporated into each donor.
	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:0016300	tRNA (uracil) methyltransferase activity	Catalysis of the transfer of a methyl group from a donor to a uracil residue in a tRNA molecule.
	GO:0000049	tRNA binding	Interacting selectively and non-covalently with transfer RNA.
	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.
	GO:0008270	zinc ion binding	Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
	GO:0006974	cellular response to DNA damage stimulus	Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating damage to its DNA from environmental insults or errors during metabolism.
	GO:0008152	metabolic process	The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
	GO:0032259	methylation	The process in which a methyl group is covalently attached to a molecule.
	GO:0055114	oxidation-reduction process	A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
	GO:0030488	tRNA methylation	The posttranscriptional addition of methyl groups to specific residues in a tRNA molecule.
	GO:0002098	tRNA wobble uridine modification	The process in which a uridine in position 34 of a tRNA is post-transcriptionally modified.
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:0015630	microtubule cytoskeleton	The part of the cytoskeleton (the internal framework of a cell) composed of microtubules and associated proteins.
	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.

Asymmetric Unit
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	3tht
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	ALKB8_HUMAN \| Q96BT7
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	1.14.11.-
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	ALKB8_HUMAN \| Q96BT7	:	2cq2 3thp

Description

Compounds

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Chains, Units

Ligands, Modified Residues, Ions (3, 12)

Sites (12, 12)

SS Bonds (0, 0)

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Exons (10, 38)

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