2V4U - JenaLib

Title :   HUMAN CTP SYNTHETASE 2 - GLUTAMINASE DOMAIN IN COMPLEX WITH 5-OXO-L-NORLEUCINE

Authors :   M. Welin, M. Moche, J. Andersson, C. H. Arrowsmith, H. Berglund, R. Collins, L. G. Dahlgren, A. M. Edwards, S. Flodin, A. Flores, S. Graslund, M. Hammarstrom, A. Johansson, I. Johansson, T. Karlberg, T. Kotenyova, L. Lehtio, M. E. Nilsson, T. Nyman, K. Olesen, C. Persson, J. Sagemark, H. Schueler, A. G. Thorsell, L. Tresaugues, S. Van Den Berg, M. Wisniewska, J. Weigelt, M. Wikstrom, P. Nordlund

Date :   29 Sep 08 (Deposition) - 07 Oct 08 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.30

Chains :   Asym./Biol. Unit : A

Keywords :   Pyrimidine Biosynthesis, Glutamine Amidotransferase, Glutaminase Domain, 5-Oxo-L-Norleucine, Don, Ctps, Ligase, Phosphoprotein, Ctp Synthetase, Cytidine 5'- Triphosphate Synthetase 2, Nucleotide Metabolism, Utp-- Ammonia Ligase 2 (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Welin, M. Moche, J. Andersson, C. H. Arrowsmith, H. Berglund, R. Collins, L. G. Dahlgren, A. M. Edwards, S. Flodin, A. Flores, S. Graslund, M. Hammarstrom, A. Johansson, I. Johansson, T. Karlberg, T. Kotenyova, L. Lehtio, M. E. Nilsson, T. Nyman, K. Olesen, C. Persson, J. Sagemark, H. Schueler, A. G. Thorsell, L. Tresaugues, S. Van Den Berg, M. Wisniewska, J. Weigelt, M. Wikstrom, P. Nordlund
Human Ctp Synthetase 2 - Glutaminase Domain In Complex With 5-Oxo-L-Norleucine
To Be Published
PubMed: search

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 1)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (9, 9)

Asymmetric/Biological Unit (9, 9)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENST00000380241	1	ENSE00001429480	X:16731059-16730845	215	PYRG2_HUMAN	-	0	0	-	-
1.4	ENST00000380241	4	ENSE00002199146	X:16721064-16720860	205	PYRG2_HUMAN	1-56	56	0	-	-
1.5	ENST00000380241	5	ENSE00001708554	X:16717216-16717046	171	PYRG2_HUMAN	56-113	58	0	-	-
1.6	ENST00000380241	6	ENSE00001723130	X:16716459-16716359	101	PYRG2_HUMAN	113-146	34	0	-	-
1.7	ENST00000380241	7	ENSE00001612556	X:16711610-16711494	117	PYRG2_HUMAN	147-185	39	0	-	-
1.8	ENST00000380241	8	ENSE00001733932	X:16711347-16711264	84	PYRG2_HUMAN	186-213	28	0	-	-
1.9	ENST00000380241	9	ENSE00001622171	X:16709743-16709663	81	PYRG2_HUMAN	214-240	27	0	-	-
1.10	ENST00000380241	10	ENSE00001710627	X:16707724-16707573	152	PYRG2_HUMAN	241-291	51	0	-	-
1.11	ENST00000380241	11	ENSE00001778300	X:16701349-16701217	133	PYRG2_HUMAN	291-335	45	1	A:296-335	40
1.12	ENST00000380241	12	ENSE00001150669	X:16696573-16696485	89	PYRG2_HUMAN	336-365	30	1	A:336-365	30
1.13a	ENST00000380241	13a	ENSE00001150661	X:16688797-16688703	95	PYRG2_HUMAN	365-397	33	1	A:365-397	33
1.14	ENST00000380241	14	ENSE00001150654	X:16685847-16685785	63	PYRG2_HUMAN	397-418	22	1	A:397-418	22
1.15	ENST00000380241	15	ENSE00001150648	X:16685680-16685637	44	PYRG2_HUMAN	418-432	15	1	A:418-432	15
1.16	ENST00000380241	16	ENSE00001150642	X:16657366-16657270	97	PYRG2_HUMAN	433-465	33	1	A:433-465	33
1.18	ENST00000380241	18	ENSE00001201953	X:16638455-16638400	56	PYRG2_HUMAN	465-483	19	1	A:465-483	19
1.19	ENST00000380241	19	ENSE00001201948	X:16635369-16635273	97	PYRG2_HUMAN	484-516	33	1	A:484-516	33
1.20	ENST00000380241	20	ENSE00001201944	X:16627808-16627664	145	PYRG2_HUMAN	516-564	49	1	A:516-562	47
1.21b	ENST00000380241	21b	ENSE00001277888	X:16608985-16608875	111	PYRG2_HUMAN	564-586	23	0	-	-
1.22b	ENST00000380241	22b	ENSE00001956669	X:16607898-16606429	1470	PYRG2_HUMAN	-	0	0	-	-

Sequences/Alignments

Asymmetric/Biological 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:267
 aligned with PYRG2_HUMAN | Q9NRF8 from UniProtKB/Swiss-Prot  Length:586

    Alignment length:267
                                   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       555       
          PYRG2_HUMAN   296 QKICSIALVGKYTKLRDCYASVFKALEHSALAINHKLNLMYIDSIDLEKITETEDPVKFHEAWQKLCKADGILVPGGFGIRGTLGKLQAISWARTKKIPFLGVCLGMQLAVIEFARNCLNLKDADSTEFRPNAPVPLVIDMPEHNPGNLGGTMRLGIRRTVFKTENSILRKLYGDVPFIEERHRHRFEVNPNLIKQFEQNDLSFVGQDVDGDRMEIIELANHPYFVGVQFHPEFSSRPMKPSPPYLGLLLAATGNLNAYLQQGCKLS 562
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------GATase-2v4uA01 A:309-546                                                                                                                                                                                                                      ---------------- Pfam domains
         Sec.struct. author .eeeeeeeee.....hhhhhhhhhhhhhhhhhh.eeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhh.eeee.......hhhhhhhhhhhhhhh...eee..hhhhhhhhhhhhhhh....eee........eeeeee.............eeeeeeeee....hhhhhhh....eeeeeeee.eee.hhhhhhhh...eeeeeee.....eeeeee.....eeee...hhhhh.....hhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.11  PDB: A:296-335 [INCOMPLETE]  Exon 1.12  PDB: A:336-365     -------------------------------Exon 1.14             --------------Exon 1.16  PDB: A:433-465        ------------------Exon 1.19  PDB: A:484-516        ---------------------------------------------- Transcript 1 (1)
           Transcript 1 (2) ---------------------------------------------------------------------Exon 1.13a  PDB: A:365-397       --------------------Exon 1.15      --------------------------------Exon 1.18          --------------------------------Exon 1.20  PDB: A:516-562 UniProt: 516-564      Transcript 1 (2)
                 2v4u A 296 MKICSIALVGKYTKLRDCYASVFKALEHSALAINHKLNLMYIDSIDLEKITETEDPVKFHEAWQKLCKADGILVPGGFGIRGTLGKLQAISWARTKKIPFLGVcLGMQLAVIEFARNCLNLKDADSTEFRPNAPVPLVIDMPEHNPGNLGGTMRLGIRRTVFKTENSILRKLYGDVPFIEERHRHRFEVNPNLIKQFEQNDLSFVGQDVDGDRMEIIELANHPYFVGVQFHPEFSSRPMKPSPPYLGLLLAATGNLNAYLQQGCKLS 562
                                   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       555       
                                                                                                                                 399-CYD

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 '\|'

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (1, 1)

Gene Ontology (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (PYRG2_HUMAN | Q9NRF8)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0003883	CTP synthase activity	Catalysis of the reaction: ATP + UTP + NH3 = ADP + phosphate + CTP.
	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: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).
biological process
	GO:0044210	'de novo' CTP biosynthetic process	The chemical reactions and pathways resulting in the formation of cytidine 5'-triphosphate (CTP) from simpler components.
	GO:0006541	glutamine metabolic process	The chemical reactions and pathways involving glutamine, 2-amino-4-carbamoylbutanoic acid.
	GO:0015949	nucleobase-containing small molecule interconversion	The chemical reactions and pathways by which a nucleobase, nucleoside or nucleotide small molecule is synthesized from another nucleobase, nucleoside or nucleotide small molecule.
	GO:0006221	pyrimidine nucleotide biosynthetic process	The chemical reactions and pathways resulting in the formation of a pyrimidine nucleotide, a compound consisting of nucleoside (a pyrimidine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.
	GO:0006220	pyrimidine nucleotide metabolic process	The chemical reactions and pathways involving a pyrimidine nucleotide, a compound consisting of nucleoside (a pyrimidine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.
cellular component
	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:0005739	mitochondrion	A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.

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