2WM3 - JenaLib

Title :   CRYSTAL STRUCTURE OF NMRA-LIKE FAMILY DOMAIN CONTAINING PROTEIN 1 IN COMPLEX WITH NIFLUMIC ACID

Authors :   C. Bhatia, W. W. Yue, F. Niesen, E. Pilka, E. Ugochukwu, P. Savitsky, V. H A. K. Roos, P. Filippakopoulos, F. Von Delft, T. Heightman, C. Arrows J. Weigelt, A. Edwards, C. Bountra, U. Oppermann

Date :   29 Jun 09 (Deposition) - 04 Aug 09 (Release) - 05 Dec 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.85

Chains :   Asym./Biol. Unit : A

Keywords :   Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. Bhatia, W. W. Yue, E. Pilka, E. Ugochukwu, P. Savitsky, V. Hozjan, A. K. Roos, P. Filippakopoulos, F. Von Delft, T. Heightman, C. Arrowsmith, J. Weigelt, A. Edwards, C. Bountra, U. Oppermann
Crystal Structure Of Nmra-Like Family Domain Containing Protein 1 In Complex With Niflumic Acid
To Be Published
PubMed: search

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (5, 6)

Sites (6, 6)

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY A:11 , THR A:13 , GLY A:14 , ALA A:15 , GLN A:16 , THR A:36 , ARG A:37 , LYS A:41 , GLY A:57 , ASP A:58 , GLN A:59 , THR A:79 , ASN A:80 , TYR A:81 , GLU A:90 , GLN A:93 , LYS A:133 , LEU A:152 , PRO A:153 , CYS A:154 , TYR A:155 , ASN A:158 , NFL A:1300 , HOH A:2033 , HOH A:2034 , HOH A:2256 , HOH A:2257 , HOH A:2258 , HOH A:2259 , HOH A:2260 , HOH A:2261 , HOH A:2262 , HOH A:2263 , HOH A:2264	BINDING SITE FOR RESIDUE NAP A1299
2	AC2	SOFTWARE	TRP A:82 , HIS A:129 , CYS A:154 , ASN A:158 , HIS A:162 , PHE A:163 , TYR A:246 , LEU A:249 , GLY A:250 , PHE A:251 , LEU A:257 , MET A:260 , PHE A:261 , TYR A:264 , NAP A:1299	BINDING SITE FOR RESIDUE NFL A1300
3	AC3	SOFTWARE	LYS A:5 , TYR A:73 , HIS A:107 , LEU A:120 , ARG A:151 , PHE A:263 , LEU A:266 , ASP A:269 , PO4 A:1303 , HOH A:2266 , HOH A:2267	BINDING SITE FOR RESIDUE NFL A1301
4	AC4	SOFTWARE	LYS A:5 , TYR A:73 , LEU A:120 , THR A:121 , ARG A:124 , LEU A:201 , NFL A:1301 , HOH A:2268	BINDING SITE FOR RESIDUE PO4 A1303
5	AC5	SOFTWARE	ARG A:218 , ARG A:270 , ASP A:271 , ILE A:272 , GLU A:273 , HOH A:2269	BINDING SITE FOR RESIDUE GOL A1304
6	AC6	SOFTWARE	ALA A:72	BINDING SITE FOR RESIDUE CL A1305

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (2, 2)

PROSITE Motifs (0, 0)

Exons (5, 5)

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:296
 aligned with NMRL1_HUMAN | Q9HBL8 from UniProtKB/Swiss-Prot  Length:299

    Alignment length:296
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292      
          NMRL1_HUMAN     3 DKKLVVVFGGTGAQGGSVARTLLEDGTFKVRVVTRNPRKKAAKELRLQGAEVVQGDQDDQVIMELALNGAYATFIVTNYWESCSQEQEVKQGKLLADLARRLGLHYVVYSGLENIKKLTAGRLAAAHFDGKGEVEEYFRDIGVPMTSVRLPCYFENLLSHFLPQKAPDGKSYLLSLPTGDVPMDGMSVSDLGPVVLSLLKMPEKYVGQNIGLSTCRHTAEEYAALLTKHTRKVVHDAKMTPEDYEKLGFPGARDLANMFRFYALRPDRDIELTLRLNPKALTLDQWLEQHKGDFNL 298
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----NmrA-2wm3A01 A:7-240                                                                                                                                                                                                                      ---------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee...hhhhhhhhhhhhhhh..eeeeee....hhhhhhhhhh..eeee....hhhhhhhhhh...eeee..hhhhh.hhhhhhhhhhhhhhhhhhhh..eeee....hhhhhh.....hhhhhhhhhhhhhhhhhh..eeeee..ee.hhhhh....ee......eee........eeeehhhhhhhhhhhhhhhhhhhh..eee...eeehhhhhhhhhhhhhh..eee....hhhhhh....hhhhhhhhhhhhh.....hhhhhhhhh....hhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------I------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------L---------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.2    -------------------------------------------------------------------------------Exon 1.4  PDB: A:94-177 UniProt: 94-177                                             ---------------------------------------------------------------Exon 1.6b  PDB: A:241-298 UniProt: 241-299 [INCOMPLETE]    Transcript 1 (1)
           Transcript 1 (2) -----------Exon 1.3  PDB: A:14-93 UniProt: 14-93                                           -----------------------------------------------------------------------------------Exon 1.5  PDB: A:177-240 UniProt: 177-240                       ---------------------------------------------------------- Transcript 1 (2)
                 2wm3 A   3 DKKLVVVFGGTGAQGGSVARTLLEDGTFKVRVVTRNPRKKAAKELRLQGAEVVQGDQDDQVIMELALNGAYATFIVTNYWESCSQEQEVKQGKLLADLARRLGLHYVVYSGLENIKKLTAGRLAAAHFDGKGEVEEYFRDIGVPMTSVRLPCYFENLLSHFLPQKAPDGKSYLLSLPTGDVPMDGMSVSDLGPVVLSLLKMPEKYVGQNIGLSTCRHTAEEYAALLTKHTRKVVHDAKMTPEDYEKLGFPGARDLANMFRFYALRPDRDIELTLRLNPKALTLDQWLEQHKGDFNL 298
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292

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 (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (NMRL1_HUMAN | Q9HBL8)

biological process
	GO:0000050	urea cycle	The sequence of reactions by which arginine is synthesized from ornithine, then cleaved to yield urea and regenerate ornithine. The overall reaction equation is NH3 + CO2 + aspartate + 3 ATP + 2 H2O = urea + fumarate + 2 ADP + 2 phosphate + AMP + diphosphate.
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: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.
	GO:0048471	perinuclear region of cytoplasm	Cytoplasm situated near, or occurring around, the nucleus.

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