4X8L - JenaLib

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Title :   CRYSTAL STRUCTURE OF E. COLI ADENYLATE KINASE P177A MUTANT IN COMPLEX WITH INHIBITOR AP5A

Authors :   A. E. Sauer-Eriksson, M. Kovermann, J. Aden, C. Grundstrom, M. Wolf-Wa U. H. Sauer

Date :   10 Dec 14 (Deposition) - 22 Jul 15 (Release) - 22 Jul 15 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.70

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

Keywords :   Adenylate Kinase, P177A, Ap5A, Protein Dynamics, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Kovermann, J. Aden, C. Grundstrom, A. Elisabeth Sauer-Eriksson, U. H. Sauer, M. Wolf-Watz
Structural Basis For Catalytically Restrictive Dynamics Of High-Energy Enzyme State.
Nat Commun V. 6 7644 2015
PubMed-ID: 26138143 | Reference-DOI: 10.1038/NCOMMS8644

Molecule 1 - ADENYLATE KINASE
	Chains	:	A, B
	EC Number	:	2.7.4.3
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	ADK, DNAW, PLSA, B0474, JW0463
	Mutation	:	YES
	Organism Scientific	:	ESCHERICHIA COLI K-12
	Organism Taxid	:	83333

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 6)

No.	Name	Count	Type	Full Name
1	AP5	2	Ligand/Ion	BIS(ADENOSINE)-5'-PENTAPHOSPHATE
2	MG	2	Ligand/Ion	MAGNESIUM ION
3	NA	2	Ligand/Ion	SODIUM ION

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	AP5	1	Ligand/Ion	BIS(ADENOSINE)-5'-PENTAPHOSPHATE
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	NA	-1	Ligand/Ion	SODIUM ION

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	AP5	1	Ligand/Ion	BIS(ADENOSINE)-5'-PENTAPHOSPHATE
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	NA	-1	Ligand/Ion	SODIUM ION

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	PRO A:9 , GLY A:10 , ALA A:11 , GLY A:12 , LYS A:13 , GLY A:14 , THR A:15 , THR A:31 , GLY A:32 , LEU A:35 , ARG A:36 , MET A:53 , LYS A:57 , VAL A:59 , GLU A:62 , VAL A:64 , GLY A:85 , ARG A:88 , GLN A:92 , ARG A:119 , ARG A:123 , VAL A:132 , TYR A:133 , HIS A:134 , PHE A:137 , ARG A:156 , ARG A:167 , GLY A:198 , LYS A:200 , VAL A:202 , MG A:302 , HOH A:442 , HOH A:529 , HOH A:545 , HOH A:552 , HOH A:560 , HOH A:758 , HOH A:806 , HOH A:829	binding site for residue AP5 A 301
2	AC2	SOFTWARE	ASP A:84 , AP5 A:301 , HOH A:829	binding site for residue MG A 302
3	AC3	SOFTWARE	VAL A:103 , ASN A:190 , HOH A:431 , HOH A:466 , HOH A:485	binding site for residue NA A 303
4	AC4	SOFTWARE	PRO B:9 , GLY B:10 , ALA B:11 , GLY B:12 , LYS B:13 , GLY B:14 , THR B:15 , THR B:31 , GLY B:32 , LEU B:35 , ARG B:36 , MET B:53 , LYS B:57 , VAL B:59 , VAL B:64 , GLY B:85 , ARG B:88 , GLN B:92 , ARG B:119 , ARG B:123 , TYR B:133 , HIS B:134 , PHE B:137 , ARG B:156 , ASP B:158 , ARG B:167 , GLY B:198 , LYS B:200 , VAL B:202 , MG B:302 , HOH B:454 , HOH B:536 , HOH B:540 , HOH B:545 , HOH B:547 , HOH B:573 , HOH B:611 , HOH B:636 , HOH B:698 , HOH B:737	binding site for residue AP5 B 301
5	AC5	SOFTWARE	GLY B:14 , ASP B:84 , AP5 B:301	binding site for residue MG B 302
6	AC6	SOFTWARE	ASN B:190 , HOH B:419 , HOH B:423 , HOH B:452 , HOH B:453	binding site for residue NA B 303

(no "SS Bond" information available for 4X8L)

Asymmetric Unit

No.	Residues
1	Phe A:86	-	Pro A:87
2	Phe B:86	-	Pro B:87

(no "SAP(SNP)/Variant" information available for 4X8L)

(no "PROSITE Motif" information available for 4X8L)

(no "Exon" information available for 4X8L)

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)
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Chain A from PDB  Type:PROTEIN  Length:214
                                                                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee....hhhhhhhhhhhhhh..eeehhhhhhhhhhhh...hhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhhh....eeeeee.hhhhhhhhhh.eee......eee.........................hhhhhhhhhhhhhhhh.hhhhhhhhhhhh...eeeeee...hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4x8l A   1 MRIILLGAPGAGKGTQAQFIMEKYGIPQISTGDMLRAAVKSGSELGKQAKDIMDAGKLVTDELVIALVKERIAQEDCRNGFLLDGFPRTIPQADAMKEAGINVDYVLEFDVPDELIVDRIVGRRVHAPSGRVYHVKFNPPKVEGKDDVTGEELTTRKDDQEETVRKRLVEYHQMTAALIGYYSKEAEAGNTKYAKVDGTKPVAEVRADLEKILG 214
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210

Chain B from PDB  Type:PROTEIN  Length:214
                                                                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee....hhhhhhhhhhhhhh..eeehhhhhhhhhhhh...hhhhhhhhhh....hhhhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhhh....eeeeee.hhhhhhhhhh.eee......eee.........................hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee...hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4x8l B   1 MRIILLGAPGAGKGTQAQFIMEKYGIPQISTGDMLRAAVKSGSELGKQAKDIMDAGKLVTDELVIALVKERIAQEDCRNGFLLDGFPRTIPQADAMKEAGINVDYVLEFDVPDELIVDRIVGRRVHAPSGRVYHVKFNPPKVEGKDDVTGEELTTRKDDQEETVRKRLVEYHQMTAALIGYYSKEAEAGNTKYAKVDGTKPVAEVRADLEKILG 214
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210

Legend:		→ Mismatch	(orange background)
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	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 4X8L)

(no "CATH Domain" information available for 4X8L)

(no "Pfam Domain" information available for 4X8L)

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	Cis Peptide Bonds
		Phe A:86 - Pro A:87	[ RasMol ]
		Phe B:86 - Pro B:87	[ RasMol ]

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	4x8l
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	KAD_ECOLI \| P69441	:	1ake 1ank 1e4v 1e4y 2eck 3hpq 3hpr 4ake 4x8h 4x8m 4x8o 5eje

1ake	1AKE CONTAINS THE WT PROTEIN IN COMPLEX WITH AP5A

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 6)

Sites (6, 6)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

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