2NQL - JenaLib

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Title :   CRYSTAL STRUCTURE OF A MEMBER OF THE ENOLASE SUPERFAMILY FROM AGROBACTERIUM TUMEFACIENS

Authors :   Y. Patskovsky, U. Ramagopal, R. Toro, J. M. Sauder, M. Dickey, J. M. Adam S. Ozyurt, S. R. Wasserman, J. Gerlt, S. K. Burley, S. C. Almo, New York Research Center For Structural Genomics (Nysgxrc)

Date :   31 Oct 06 (Deposition) - 14 Nov 06 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

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

Keywords :   Enolase, Structural Genomics, Protein Structure Initiative, Psi, Nysgxrc, New York Sgx Research Center For Structural Genomics Structural Genomics, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. Patskovsky, U. Ramagopal, R. Toro, J. M. Sauder, M. Dickey, J. M. Adams, S. Ozyurt, S. R. Wasserman, J. Gerlt, S. K. Burley, S. C. Alm
Crystal Structure Of Enolase From Agrobacterium Tumefaciens C58
To Be Published
PubMed: search

Molecule 1 - ISOMERASE/LACTONIZING ENZYME
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Gene	:	AGR_PAT_674
	Organism Scientific	:	AGROBACTERIUM TUMEFACIENS STR.
	Organism Taxid	:	176299
	Strain	:	C58
	Synonym	:	AGR_PAT_674P

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 21)

No.	Name	Count	Type	Full Name
1	GOL	6	Ligand/Ion	GLYCEROL
2	NA	2	Ligand/Ion	SODIUM ION
3	SO4	11	Ligand/Ion	SULFATE ION
4	UNL	2	Ligand/Ion	UNKNOWN LIGAND

Biological Unit 1 (3, 19)

No.	Name	Count	Type	Full Name
1	GOL	6	Ligand/Ion	GLYCEROL
2	NA	-1	Ligand/Ion	SODIUM ION
3	SO4	11	Ligand/Ion	SULFATE ION
4	UNL	2	Ligand/Ion	UNKNOWN LIGAND

Biological Unit 2 (3, 22)

No.	Name	Count	Type	Full Name
1	GOL	6	Ligand/Ion	GLYCEROL
2	NA	-1	Ligand/Ion	SODIUM ION
3	SO4	14	Ligand/Ion	SULFATE ION
4	UNL	2	Ligand/Ion	UNKNOWN LIGAND

Asymmetric Unit (21, 21)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ARG A:112 , TYR B:70 , HIS B:315 , THR B:317 , HOH B:1228 , HOH B:1281 , HOH B:1330 , HOH B:1364 , HOH B:1386 , HOH B:1392	BINDING SITE FOR RESIDUE SO4 B 1001
02	AC2	SOFTWARE	PRO A:154 , ARG A:364 , HOH A:1501	BINDING SITE FOR RESIDUE SO4 A 1002
03	AC3	SOFTWARE	VAL A:111 , ASN B:42 , THR B:44 , TYR B:46 , HIS B:216 , HOH B:1230 , HOH B:1453	BINDING SITE FOR RESIDUE SO4 B 1003
04	AC4	SOFTWARE	ARG B:163 , THR B:164 , LEU B:165 , ARG B:168 , ALA B:190 , ASP B:191 , HOH B:1432	BINDING SITE FOR RESIDUE SO4 B 1004
05	AC5	SOFTWARE	ARG A:178 , ASP B:151 , SER B:152 , ARG B:352 , HIS B:366 , HOH B:1456 , HOH B:1596 , HOH B:1640	BINDING SITE FOR RESIDUE SO4 B 1006
06	AC6	SOFTWARE	TYR A:46 , HIS A:216 , GOL A:1107 , HOH A:1499 , HOH A:1567	BINDING SITE FOR RESIDUE SO4 A 1007
07	AC7	SOFTWARE	GLU A:386 , ARG A:387 , HOH A:1507 , HOH A:1571	BINDING SITE FOR RESIDUE SO4 A 1008
08	AC8	SOFTWARE	PRO A:33 , ASN A:34 , GLY A:35 , ARG B:26 , GLU B:27 , HOH B:1388	BINDING SITE FOR RESIDUE SO4 B 1009
09	AC9	SOFTWARE	LYS B:256 , ARG B:282	BINDING SITE FOR RESIDUE SO4 B 1010
10	BC1	SOFTWARE	GLY B:302 , ALA B:306 , THR B:333 , LEU B:334 , SER B:335 , HOH B:1224 , HOH B:1241 , HOH B:1549	BINDING SITE FOR RESIDUE SO4 B 1011
11	BC2	SOFTWARE	ASP A:151 , SER A:152 , HOH A:1221 , HOH A:1292 , HOH A:1363 , HOH A:1516 , HOH A:1585 , LYS B:338	BINDING SITE FOR RESIDUE SO4 A 1012
12	BC3	SOFTWARE	GLU A:240 , GLU A:266 , HIS A:315 , HOH A:1224 , HOH A:1360	BINDING SITE FOR RESIDUE NA A 401
13	BC4	SOFTWARE	LYS B:184 , GLU B:240 , GLU B:266 , GLN B:287 , HIS B:315 , GLU B:341	BINDING SITE FOR RESIDUE NA B 402
14	BC5	SOFTWARE	TYR A:174 , HOH A:1394 , PRO B:16 , ARG B:352 , LEU B:353 , HOH B:1358 , HOH B:1677	BINDING SITE FOR RESIDUE UNL B 1201
15	BC6	SOFTWARE	PRO A:154 , ALA A:155 , TYR A:156 , ASN A:181 , ALA A:182 , LYS A:210 , TRP A:237 , LYS A:338 , GLY A:339 , HOH A:1299 , HOH A:1306	BINDING SITE FOR RESIDUE UNL A 1202
16	BC7	SOFTWARE	ARG A:300 , HOH A:1390 , HOH A:1417 , HOH A:1599	BINDING SITE FOR RESIDUE GOL A 1101
17	BC8	SOFTWARE	ARG B:300 , HOH B:1462 , HOH B:1593	BINDING SITE FOR RESIDUE GOL B 1102
18	BC9	SOFTWARE	GLY A:302 , THR A:333 , LEU A:334 , SER A:335 , HOH A:1288 , HOH A:1308 , HOH A:1458	BINDING SITE FOR RESIDUE GOL A 1103
19	CC1	SOFTWARE	ARG A:51 , HOH A:1274 , HOH A:1415 , ARG B:163	BINDING SITE FOR RESIDUE GOL B 1105
20	CC2	SOFTWARE	ASP B:355 , GLY B:356 , GLY B:374 , VAL B:375 , ARG B:376 , HOH B:1601	BINDING SITE FOR RESIDUE GOL B 1106
21	CC3	SOFTWARE	TYR A:70 , ILE A:72 , GLU A:266 , HIS A:315 , THR A:317 , SO4 A:1007 , HOH A:1212 , HOH A:1217 , HOH A:1473 , HOH A:1489 , HOH A:1567 , ARG B:112	BINDING SITE FOR RESIDUE GOL A 1107

(no "SS Bond" information available for 2NQL)

(no "Cis Peptide Bond" information available for 2NQL)

(no "SAP(SNP)/Variant" information available for 2NQL)

(no "PROSITE Motif" information available for 2NQL)

(no "Exon" information available for 2NQL)

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:388
 aligned with A9CL63_AGRFC | A9CL63 from UniProtKB/TrEMBL  Length:388

    Alignment length:388
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380        
         A9CL63_AGRFC     1 MNSPIATVEVFTLTQPRKVPYLGALREGEVVNPNGYIVRKGNRTVYPTFDRSVLVRMTTEAGTVGWGETYGIVAPGAVAALINDLLAGFVIGRDASDPSAVYDDLYDMMRVRGYTGGFYVDALAALDIALWDIAGQEAGKSIRDLLGGGVDSFPAYVSGLPERTLKARGELAKYWQDRGFNAFKFATPVADDGPAAEIANLRQVLGPQAKIAADMHWNQTPERALELIAEMQPFDPWFAEAPVWTEDIAGLEKVSKNTDVPIAVGEEWRTHWDMRARIERCRIAIVQPEMGHKGITNFIRIGALAAEHGIDVIPHATVGAGIFLAASLQASSTLSMLKGHEFQHSIFEPNRRLLDGDMDCREGRYHLPSGPGLGVRPSEAALGLIERI 388
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2nqlA01 A:1-148,A:369-388 Enolase-like, N-terminal domain                                                                                           2nqlA02 A:149-368 Enolase superfamily                                                                                                                                                                                       2nqlA01              CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeeeeee.....hhhhh......hhh.eee......eee..eeeeeeeeee....eeeeeee....hhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhh.....eeeeeee.....hhhhhhhhhhhhhhh...eeeee.hhh..hhhhhhhhhhhhhh...eeeee.....hhhhhhhhhhhhhhhh...ee......hhhhhhhhhh.....eee.....hhhhhhhhhh.....ee..hhhhhhhhhhhhhhhhhhhh..ee........hhhhhhhhhhhh.......eeehhhhhhhhhh.ee...eee..eee.........eehhhhhhhhee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2nql A   1 MNSPIATVEVFTLTQPRKVPYLGALREGEVVNPNGYIVRKGNRTVYPTFDRSVLVRMTTEAGTVGWGETYGIVAPGAVAALINDLLAGFVIGRDASDPSAVYDDLYDMMRVRGYTGGFYVDALAALDIALWDIAGQEAGKSIRDLLGGGVDSFPAYVSGLPERTLKARGELAKYWQDRGFNAFKFATPVADDGPAAEIANLRQVLGPQAKIAADMHWNQTPERALELIAEMQPFDPWFAEAPVWTEDIAGLEKVSKNTDVPIAVGEEWRTHWDMRARIERCRIAIVQPEMGHKGITNFIRIGALAAEHGIDVIPHATVGAGIFLAASLQASSTLSMLKGHEFQHSIFEPNRRLLDGDMDCREGRYHLPSGPGLGVRPSEAALGLIERI 388
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380

Chain B from PDB  Type:PROTEIN  Length:388
 aligned with A9CL63_AGRFC | A9CL63 from UniProtKB/TrEMBL  Length:388

    Alignment length:388
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380        
         A9CL63_AGRFC     1 MNSPIATVEVFTLTQPRKVPYLGALREGEVVNPNGYIVRKGNRTVYPTFDRSVLVRMTTEAGTVGWGETYGIVAPGAVAALINDLLAGFVIGRDASDPSAVYDDLYDMMRVRGYTGGFYVDALAALDIALWDIAGQEAGKSIRDLLGGGVDSFPAYVSGLPERTLKARGELAKYWQDRGFNAFKFATPVADDGPAAEIANLRQVLGPQAKIAADMHWNQTPERALELIAEMQPFDPWFAEAPVWTEDIAGLEKVSKNTDVPIAVGEEWRTHWDMRARIERCRIAIVQPEMGHKGITNFIRIGALAAEHGIDVIPHATVGAGIFLAASLQASSTLSMLKGHEFQHSIFEPNRRLLDGDMDCREGRYHLPSGPGLGVRPSEAALGLIERI 388
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2nqlB01 B:1-148,B:369-388 Enolase-like, N-terminal domain                                                                                           2nqlB02 B:149-368 Enolase superfamily                                                                                                                                                                                       2nqlB01              CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeeeee.....................eee......eee...eeeeeeeee....eeeeeee....hhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhh.....eeeeee......hhhhhhhhhhhhhhh...eeeee......hhhhhhhhhhhhhh...eeeee.....hhhhhhhhhhhhh...eeeee......hhhhhhhhhh.....eee.....hhhhhhhhhh.....ee..hhhhhhhhhhhhhhhhhhhh..ee........hhhhhhhhhhhh.......eeehhhhhhhhhhheee..eee..eee........eeehhhhhhhhee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2nql B   1 MNSPIATVEVFTLTQPRKVPYLGALREGEVVNPNGYIVRKGNRTVYPTFDRSVLVRMTTEAGTVGWGETYGIVAPGAVAALINDLLAGFVIGRDASDPSAVYDDLYDMMRVRGYTGGFYVDALAALDIALWDIAGQEAGKSIRDLLGGGVDSFPAYVSGLPERTLKARGELAKYWQDRGFNAFKFATPVADDGPAAEIANLRQVLGPQAKIAADMHWNQTPERALELIAEMQPFDPWFAEAPVWTEDIAGLEKVSKNTDVPIAVGEEWRTHWDMRARIERCRIAIVQPEMGHKGITNFIRIGALAAEHGIDVIPHATVGAGIFLAASLQASSTLSMLKGHEFQHSIFEPNRRLLDGDMDCREGRYHLPSGPGLGVRPSEAALGLIERI 388
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380

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 2NQL)

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Enolase-like; domain 1 (252)

Homologous Superfamily: Enolase-like, N-terminal domain (130)

C58 (Agrobacterium tumefaciens str) (2)

1a	2nqlA01	A:1-148,A:369-388
1b	2nqlB01	B:1-148,B:369-388

Architecture: Alpha-Beta Barrel (2994)

Topology: TIM Barrel (2806)

Homologous Superfamily: Enolase superfamily (142)

C58 (Agrobacterium tumefaciens str) (2)

2a	2nqlA02	A:149-368
2b	2nqlB02	B:149-368

(no "Pfam Domain" information available for 2NQL)

Asymmetric Unit(hide GO term definitions)

Chain A,B (A9CL63_AGRFC | A9CL63)

molecular function
	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:0016853	isomerase activity	Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
biological process
	GO:0009063	cellular amino acid catabolic process	The chemical reactions and pathways resulting in the breakdown of amino acids, organic acids containing one or more amino substituents.
	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.

Asymmetric Unit
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