5GP1 - JenaLib

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Title :   CRYSTAL STRUCTURE OF ZIKV NS5 METHYLTRANSFERASE IN COMPLEX WITH GTP AND SAH

Authors :   C. Zhang, T. Jin

Date :   30 Jul 16 (Deposition) - 07 Dec 16 (Release) - 07 Dec 16 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.44

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

Keywords :   Methyltransferase Gtp Complex, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. Zhang, T. Feng, J. Cheng, Y. Li, X. Yin, W. Zeng, X. Jin, Y. Li, F. Guo, T. Jin
Structure Of The Ns5 Methyltransferase From Zika Virus And Implications In Inhibitor Design
Biochem. Biophys. Res. Commun. 2016
PubMed-ID: 27866982 | Reference-DOI: 10.1016/J.BBRC.2016.11.098

Molecule 1 - RNA-DIRECTED RNA POLYMERASE NS5
	Chains	:	A, B, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	UNP RESIDUES 2524-2785
	Organism Common	:	ZIKV
	Organism Scientific	:	ZIKA VIRUS
	Organism Taxid	:	64320
	Strain	:	MR 766
	Synonym	:	NS5 METHYLTRANSFERASE

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 15)

No.	Name	Count	Type	Full Name
1	GTA	3	Ligand/Ion	P1-7-METHYLGUANOSINE-P3-ADENOSINE-5',5'-TRIPHOSPHATE
2	NI	1	Ligand/Ion	NICKEL (II) ION
3	SAH	3	Ligand/Ion	S-ADENOSYL-L-HOMOCYSTEINE
4	SO4	8	Ligand/Ion	SULFATE ION

Biological Unit 1 (3, 7)

No.	Name	Count	Type	Full Name
1	GTA	1	Ligand/Ion	P1-7-METHYLGUANOSINE-P3-ADENOSINE-5',5'-TRIPHOSPHATE
2	NI	-1	Ligand/Ion	NICKEL (II) ION
3	SAH	1	Ligand/Ion	S-ADENOSYL-L-HOMOCYSTEINE
4	SO4	5	Ligand/Ion	SULFATE ION

Biological Unit 2 (3, 4)

No.	Name	Count	Type	Full Name
1	GTA	1	Ligand/Ion	P1-7-METHYLGUANOSINE-P3-ADENOSINE-5',5'-TRIPHOSPHATE
2	NI	-1	Ligand/Ion	NICKEL (II) ION
3	SAH	1	Ligand/Ion	S-ADENOSYL-L-HOMOCYSTEINE
4	SO4	2	Ligand/Ion	SULFATE ION

Biological Unit 3 (3, 3)

No.	Name	Count	Type	Full Name
1	GTA	1	Ligand/Ion	P1-7-METHYLGUANOSINE-P3-ADENOSINE-5',5'-TRIPHOSPHATE
2	NI	-1	Ligand/Ion	NICKEL (II) ION
3	SAH	1	Ligand/Ion	S-ADENOSYL-L-HOMOCYSTEINE
4	SO4	1	Ligand/Ion	SULFATE ION

Asymmetric Unit (15, 15)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	LYS A:29 , GLU A:34 , ARG A:57 , ARG A:213	binding site for residue SO4 A 301
02	AC2	SOFTWARE	ARG A:37 , ARG A:41 , LEU A:44 , VAL A:55 , ARG A:57 , ARG A:84 , SO4 A:305	binding site for residue SO4 A 302
03	AC3	SOFTWARE	GLU A:155 , GLU A:158 , LEU A:206 , SER A:227 , SER A:232	binding site for residue SO4 A 303
04	AC4	SOFTWARE	ARG A:160 , LYS A:252	binding site for residue SO4 A 304
05	AC5	SOFTWARE	ARG A:84 , GLU A:111 , SO4 A:302	binding site for residue SO4 A 305
06	AC6	SOFTWARE	LYS A:13 , LEU A:16 , ASN A:17 , MET A:19 , PHE A:24 , LYS A:28 , SER A:151 , SER A:152 , SER A:215 , HOH A:413 , HOH A:418	binding site for residue GTA A 306
07	AC7	SOFTWARE	SER A:56 , GLY A:58 , ASP A:79 , GLY A:81 , CYS A:82 , GLY A:83 , GLY A:86 , TRP A:87 , THR A:104 , HIS A:110 , VAL A:130 , ASP A:131 , VAL A:132 , PHE A:133 , ASP A:146 , ILE A:147	binding site for residue SAH A 307
08	AC8	SOFTWARE	ARG B:37 , ARG B:41 , ARG B:57 , ARG B:84	binding site for residue SO4 B 301
09	AC9	SOFTWARE	LYS B:29 , ARG B:41 , ARG B:213	binding site for residue SO4 B 302
10	AD1	SOFTWARE	LYS B:13 , LEU B:16 , ASN B:17 , MET B:19 , PHE B:24 , LYS B:28 , SER B:150 , SER B:151 , SER B:152 , SER B:215 , THR B:216	binding site for residue GTA B 303
11	AD2	SOFTWARE	SER B:56 , GLY B:58 , GLY B:81 , CYS B:82 , GLY B:83 , ARG B:84 , GLY B:85 , GLY B:86 , TRP B:87 , THR B:104 , LYS B:105 , HIS B:110 , GLU B:111 , VAL B:130 , ASP B:131 , VAL B:132 , PHE B:133 , ASP B:146	binding site for residue SAH B 304
12	AD3	SOFTWARE	ARG C:37 , ARG C:57 , ARG C:84	binding site for residue SO4 C 301
13	AD4	SOFTWARE	HIS C:110 , GLU C:111	binding site for residue NI C 302
14	AD5	SOFTWARE	LYS C:13 , LEU C:16 , ASN C:17 , MET C:19 , PHE C:24 , LYS C:28 , SER C:150 , SER C:151 , SER C:152 , SER C:215 , THR C:216	binding site for residue GTA C 303
15	AD6	SOFTWARE	SER C:56 , GLY C:58 , GLY C:81 , CYS C:82 , GLY C:83 , GLY C:85 , GLY C:86 , THR C:104 , LYS C:105 , HIS C:110 , GLU C:111 , VAL C:130 , ASP C:131 , VAL C:132 , PHE C:133 , ASP C:146 , ILE C:147	binding site for residue SAH C 304

(no "SS Bond" information available for 5GP1)

(no "Cis Peptide Bond" information available for 5GP1)

(no "SAP(SNP)/Variant" information available for 5GP1)

(no "PROSITE Motif" information available for 5GP1)

(no "Exon" information available for 5GP1)

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
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Chain A from PDB  Type:PROTEIN  Length:262
                                                                                                                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhh.hhhhhhhhhh...eeeehhhhhhhhh...........hhhhhhhhhhh.......eeeeee....hhhhhhhhhh..eeeeeee................hhh.eeee...hhhhh......eeee.......hhhhhhhhhhhhhhhhhhhhh....eeeeee....hhhhhhhhhhhhhhhh.eee...........eeee.....hhhhhhhhhhhhhhhh........eeee.......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5gp1 A   4 TGETLGEKWKARLNQMSALEFYSYKKSGITEVCREEARRALKDGVATGGHAVSRGSAKLRWLVERGYLQPYGKVIDLGCGRGGWSYYAATIRKVQEVKGYTKGGPGHEEPMLVQSYGWNIVRLKSGVDVFHMAAEPCDTLLCDIGESSSSPEVEEARTLRVLSMVGDWLEKRPGAFCIKVLCPYTSTMMETLERLQRRYGGGLVRVPLSRNSTHEMYWVSGAKSNTIKSVSTTSQLLLGRMDGPRRPVKYEEDVNLGSGTRA 265
                                    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

Chain B from PDB  Type:PROTEIN  Length:260
                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh..hhhhhhhhhh...eee.hhhhhhhhhh..........hhhhhhhhhhh.......eeeeee....hhhhhhhh....eeeeeee................hhh.eeee...hhhhh......eeee.......hhhhhhhhhhhhhhhhhhhhhh...eeeeee....hhhhhhhhhhhhhhhh.eee...........eeee.....hhhhhhhhhhhhhhhhhhh.....eee........... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5gp1 B   6 ETLGEKWKARLNQMSALEFYSYKKSGITEVCREEARRALKDGVATGGHAVSRGSAKLRWLVERGYLQPYGKVIDLGCGRGGWSYYAATIRKVQEVKGYTKGGPGHEEPMLVQSYGWNIVRLKSGVDVFHMAAEPCDTLLCDIGESSSSPEVEEARTLRVLSMVGDWLEKRPGAFCIKVLCPYTSTMMETLERLQRRYGGGLVRVPLSRNSTHEMYWVSGAKSNTIKSVSTTSQLLLGRMDGPRRPVKYEEDVNLGSGTRA 265
                                    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

Chain C from PDB  Type:PROTEIN  Length:261
                                                                                                                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhh...eee.hhhhhhhhhh..........hhhhhhhhhhh.......eeeeee....hhhhhhhh....eeeeeee................hhh.eeee...hhhhh......eeee.......hhhhhhhhhhhhhhhhhhhhh....eeeeee....hhhhhhhhhhhhhhhh.eee...........eeee.....hhhhhhhhhhhhhhh.........eee.......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5gp1 C   4 TGETLGEKWKARLNQMSALEFYSYKKSGITEVCREEARRALKDGVATGGHAVSRGSAKLRWLVERGYLQPYGKVIDLGCGRGGWSYYAATIRKVQEVKGYTKGGPGHEEPMLVQSYGWNIVRLKSGVDVFHMAAEPCDTLLCDIGESSSSPEVEEARTLRVLSMVGDWLEKRPGAFCIKVLCPYTSTMMETLERLQRRYGGGLVRVPLSRNSTHEMYWVSGAKSNTIKSVSTTSQLLLGRMDGPRRPVKYEEDVNLGSGTR 264
                                    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

Legend:		→ Mismatch	(orange background)
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	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

(no "SCOP Domain" information available for 5GP1)

(no "CATH Domain" information available for 5GP1)

(no "Pfam Domain" information available for 5GP1)

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	H9A910_ZIKV \| H9A910
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	H9A910_ZIKV \| H9A910	:	5goz 5gxj 5gzn 5gzo 5kqr 5kqs 5m5b
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	A0A024B7W1_Z \| A0A024B7W1	:	5goz 5h30 5h32 5h37 5ire 5iz7 5jmt 5kqr 5kqs 5kve 5lbs 5lbv 5lcv 5m5b 5mrk 5u4w 5uhy

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 15)

Sites (15, 15)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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Gene Ontology (44, 44)

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