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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Yildiz, O."

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Search Summary

This query matches 125 Structures.

Refinements

Structure Determination Methodology

experimental (125)

Scientific Name of Source Organism

	Polytomella sp. Pringsheim 198.80 (57)
	Methanocaldococcus jannaschii (8)
	Pseudomonas aeruginosa PAO1 (6)
	Arabidopsis thaliana (5)
	Methanocaldococcus jannaschii DSM 2661 (5)
	Alcaligenes (4)
	Alkalihalophilus pseudofirmus OF4 (4)
	Arthrospira platensis (4)
	Homo sapiens (4)
	Escherichia coli K-12 (3)

More...

Taxonomy

	Eukaryota (71)
	Bacteria (38)
	Archaea (16)
	other sequences (1)

Experimental Method

	ELECTRON MICROSCOPY (68)
	X-RAY DIFFRACTION (56)
	ELECTRON CRYSTALLOGRAPHY (1)

Polymer Entity Type

Protein (125)

Refinement Resolution (Å)

	1.0 - 1.5 (3)
	1.5 - 2.0 (15)
	2.0 - 2.5 (21)
	2.5 - 3.0 (23)
	3.0 - 3.5 (37)
	3.5 - 4.0 (16)
	4.0 - 4.5 (7)
	> 4.5 (3)

Release Date

	2005 - 2009 (13)
	2010 - 2014 (20)
	2015 - 2019 (74)
	2020 - 2024 (18)

Enzyme Classification Name

	Translocases (53)
	Hydrolases (17)
	Lyases (3)
	Transferases (4)
	Isomerases (1)

Membrane Protein Annotation

	PDBTM (86)
	OPM (47)
	MemProtMD (44)
	mpstruc (30)

Symmetry Type

	Asymmetric (80)
	Cyclic (35)
	Dihedral (11)

SCOP Classification

	Alpha and beta proteins (a/b) (21)
	Artifacts (7)
	Alpha and beta proteins (a+b) (3)
	All beta proteins (12)
	All alpha proteins (11)
	Membrane and cell surface proteins and peptides (3)

AllSelected

1 to 25 of 125 Structures

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1WA9 \| pdb_00001wa9	Download File View File

Crystal Structure of the PAS repeat region of the Drosophila clock protein PERIOD

Yildiz, O., Doi, M., Yujnovsky, I., Cardone, L., Berndt, A., Hennig, S., Schulze, S., Urbanke, C., Sassone-Corsi, P., Wolf, E.

(2005) Mol Cell 17: 69

Released	2005-01-12
Method	X-RAY DIFFRACTION 3.15 Å
Organisms	Drosophila melanogaster
Macromolecule	PERIOD CIRCADIAN PROTEIN (protein)

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2IWV \| pdb_00002iwv	Download File View File

Structure of the monomeric outer membrane porin OmpG in the open and closed conformation

Yildiz, O., Vinothkumar, K.R., Goswami, P., Kuehlbrandt, W.

(2006) EMBO J 25: 3702

Released	2006-08-14
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Escherichia coli K-12
Macromolecule	OUTER MEMBRANE PROTEIN G (protein)
Unique Ligands	CA, LDA, TAM

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2IWW \| pdb_00002iww	Download File View File

Structure of the monomeric outer membrane porin OmpG in the open and closed conformation

Yildiz, O., Vinothkumar, K.R., Goswami, P., Kuehlbrandt, W.

(2006) EMBO J 25: 3702

Released	2006-08-14
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Escherichia coli K-12
Macromolecule	OUTER MEMBRANE PROTEIN G (protein)
Unique Ligands	BGC, BOG, LDA

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2J9C \| pdb_00002j9c	Download File View File

Structure of GlnK1 with bound effectors indicates regulatory mechanism for ammonia uptake

Yildiz, O., Kalthoff, C., Raunser, S., Kuehlbrandt, W.

(2007) EMBO J 26: 589

Released	2007-01-16
Method	X-RAY DIFFRACTION 1.3 Å
Organisms	Methanocaldococcus jannaschii
Macromolecule	HYPOTHETICAL NITROGEN REGULATORY PII-LIKE PROTEIN MJ0059 (protein)
Unique Ligands	ACT, ATP, CL, EDO, MG

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2J9D \| pdb_00002j9d	Download File View File

Structure of GlnK1 with bound effectors indicates regulatory mechanism for ammonia uptake

Yildiz, O., Kalthoff, C., Raunser, S., Kuehlbrandt, W.

(2007) EMBO J 26: 589

Released	2007-01-16
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Methanocaldococcus jannaschii
Macromolecule	HYPOTHETICAL NITROGEN REGULATORY PII-LIKE PROTEIN MJ0059 (protein)
Unique Ligands	ACT, ADP, AMP, CL

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2J9E \| pdb_00002j9e	Download File View File

Structure of GlnK1 with bound effectors indicates regulatory mechanism for ammonia uptake

Yildiz, O., Kalthoff, C., Raunser, S., Kuehlbrandt, W.

(2007) EMBO J 26: 589

Released	2007-01-16
Method	X-RAY DIFFRACTION 1.62 Å
Organisms	Methanocaldococcus jannaschii
Macromolecule	HYPOTHETICAL NITROGEN REGULATORY PII-LIKE PROTEIN MJ0059 (protein)
Unique Ligands	ACT, AKG, ATP, CL, MG, NA

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2WIE \| pdb_00002wie	Download File View File

High-resolution structure of the rotor ring from a proton dependent ATP synthase

Pogoryelov, D., Yildiz, O., Faraldo-Gomez, J.D., Meier, T.

(2009) Nat Struct Mol Biol 16: 1068

Released	2009-09-29
Method	X-RAY DIFFRACTION 2.13 Å
Organisms	Arthrospira platensis
Macromolecule	ATP SYNTHASE C CHAIN (protein)
Unique Ligands	CVM

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2WJG \| pdb_00002wjg	Download File View File

Structure and function of the FeoB G-domain from Methanococcus jannaschii

Koester, S., Wehner, M., Herrmann, C., Kuehlbrandt, W., Yildiz, O.

(2009) J Mol Biology 392: 405

Released	2009-07-28
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Methanocaldococcus jannaschii synthetic construct
Macromolecule	FERROUS IRON TRANSPORT PROTEIN B HOMOLOG (protein) POLYALANINE (protein)
Unique Ligands	GDP

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2WJH \| pdb_00002wjh	Download File View File

Structure and function of the FeoB G-domain from Methanococcus jannaschii

Koester, S., Wehner, M., Herrmann, C., Kuehlbrandt, W., Yildiz, O.

(2009) J Mol Biology 392: 405

Released	2009-07-28
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Methanocaldococcus jannaschii
Macromolecule	FERROUS IRON TRANSPORT PROTEIN B HOMOLOG (protein)
Unique Ligands	FLC, GDP, MG

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2WJI \| pdb_00002wji	Download File View File

Structure and function of the FeoB G-domain from Methanococcus jannaschii

Koester, S., Wehner, M., Herrmann, C., Kuehlbrandt, W., Yildiz, O.

(2009) J Mol Biology 392: 405

Released	2009-07-28
Method	X-RAY DIFFRACTION 1.903 Å
Organisms	Methanocaldococcus jannaschii
Macromolecule	FERROUS IRON TRANSPORT PROTEIN B HOMOLOG (protein)
Unique Ligands	GNP, MG, PO4

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2WJJ \| pdb_00002wjj	Download File View File

Structure and function of the FeoB G-domain from Methanococcus jannaschii

Koester, S., Wehner, M., Herrmann, C., Kuehlbrandt, W., Yildiz, O.

(2009) J Mol Biology 392: 405

Released	2009-07-28
Method	X-RAY DIFFRACTION 2.405 Å
Organisms	Methanocaldococcus jannaschii
Macromolecule	FERROUS IRON TRANSPORT PROTEIN B HOMOLOG (protein)
Unique Ligands	GDP

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2X2V \| pdb_00002x2v	Download File View File

Structural basis of a novel proton-coordination type in an F1Fo-ATP synthase rotor ring

Preiss, L., Yildiz, O., Hicks, D.B., Krulwich, T.A., Meier, T.

(2010) PLoS Biol 8: 443

Released	2010-08-18
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Alkalihalophilus pseudofirmus OF4
Macromolecule	ATP SYNTHASE SUBUNIT C (protein)
Unique Ligands	DPV, NA

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2X9K \| pdb_00002x9k	Download File View File

Structure of a E.coli porin

Korkmaz-Ozkan, F., Koster, S., Kuhlbrandt, W., Mantele, W., Yildiz, O.

(2010) J Mol Biology 401: 56

Released	2011-01-26
Method	X-RAY DIFFRACTION 2.18 Å
Organisms	Escherichia coli K-12
Macromolecule	OUTER MEMBRANE PROTEIN G (protein)
Unique Ligands	BOG

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2XQS \| pdb_00002xqs	Download File View File

Microscopic rotary mechanism of ion translocation in the Fo complex of ATP synthases

Pogoryelov, D., Krah, A., Langer, J., Yildiz, O., Faraldo-Gomez, J.D., Meier, T.

(2010) Nat Chem Biol 6: 891

Released	2010-10-27
Method	X-RAY DIFFRACTION 3 Å
Organisms	Arthrospira platensis
Macromolecule	ATP SYNTHASE C CHAIN (protein)
Unique Ligands	CVM

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2XQT \| pdb_00002xqt	Download File View File

Microscopic rotary mechanism of ion translocation in the Fo complex of ATP synthases

Pogoryelov, D., Krah, A., Langer, J., Yildiz, O., Faraldo-Gomez, J.D., Meier, T.

(2010) Nat Chem Biol 6: 891

Released	2010-10-27
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Arthrospira platensis
Macromolecule	ATP SYNTHASE C CHAIN (protein)
Unique Ligands	CVM, DCW

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2XQU \| pdb_00002xqu	Download File View File

Microscopic rotary mechanism of ion translocation in the Fo complex of ATP synthases

Pogoryelov, D., Krah, A., Langer, J., Yildiz, O., Faraldo-Gomez, J.D., Meier, T.

(2010) Nat Chem Biol 6: 891

Released	2010-10-27
Method	X-RAY DIFFRACTION 1.84 Å
Organisms	Arthrospira platensis
Macromolecule	ATP SYNTHASE C CHAIN (protein)
Unique Ligands	CVM

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2YGG \| pdb_00002ygg	Download File View File

Complex of CaMBR and CaM

Koester, S., Yildiz, O.

(2011) J Biological Chem 286: 40954

Released	2011-09-28
Method	X-RAY DIFFRACTION 2.227 Å
Organisms	Homo sapiens Rattus norvegicus
Macromolecule	CALMODULIN (protein) SODIUM/HYDROGEN EXCHANGER 1 (protein)
Unique Ligands	CA, MPD, MRD, TAM

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3DDC \| pdb_00003ddc	Download File View File

Crystal Structure of NORE1A in Complex with RAS

Stieglitz, B., Bee, C., Schwarz, D., Yildiz, O., Moshnikova, A., Khokhlatchev, A., Herrmann, C.

(2008) EMBO J 27: 1995-2005

Released	2008-07-15
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	GTPase HRas (protein) Ras association domain-containing family protein 5 (protein)
Unique Ligands	GNP, MG

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3GEC \| pdb_00003gec	Download File View File

Crystal structure of a tandem PAS domain fragment of Drosophila PERIOD

Yildiz, O., Wolf, E.

(2009) PLoS Biol 7: e94-e94

Released	2009-06-16
Method	X-RAY DIFFRACTION 4 Å
Organisms	Drosophila melanogaster
Macromolecule	Period circadian protein (protein)

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3ZK1 \| pdb_00003zk1	Download File View File

Crystal structure of the sodium binding rotor ring at pH 5.3

Schulz, S., Meier, T., Yildiz, O.

(2013) PLoS Biol 11: 01596

Released	2013-05-29
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Fusobacterium nucleatum
Macromolecule	ATP SYNTHASE SUBUNIT C (protein)
Unique Ligands	DMU, LMT, NA, TAM

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3ZK2 \| pdb_00003zk2	Download File View File

Crystal structure of the sodium binding rotor ring at pH 8.7

Schulz, S., Meier, T., Yildiz, O.

(2013) PLoS Biol 11: e1001596-e1001596

Released	2013-05-29
Method	X-RAY DIFFRACTION 2.63 Å
Organisms	Fusobacterium nucleatum
Macromolecule	ATP SYNTHASE SUBUNIT C (protein)
Unique Ligands	DMU, NA

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3ZO6 \| pdb_00003zo6	Download File View File

Crystal structure of Bacillus pseudofirmus OF4 mutant ATP synthase c12 ring.

Preiss, L., Yildiz, O., Meier, T.

(2013) Proc Natl Acad Sci U S A 110: 7874-7879

Released	2013-05-01
Method	X-RAY DIFFRACTION 4.104 Å
Organisms	Alkalihalophilus pseudofirmus OF4
Macromolecule	ATP synthase subunit c (protein)

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4AIN \| pdb_00004ain	Download File View File

Crystal structure of BetP with asymmetric protomers.

Koshy, C., Ziegler, C., Yildiz, O.

(2012) Nature 490: 126

Released	2012-06-06
Method	X-RAY DIFFRACTION 3.1 Å
Organisms	Corynebacterium glutamicum
Macromolecule	GLYCINE BETAINE TRANSPORTER BETP (protein)
Unique Ligands	BET, CL, CM5, FLC, NA, PEG

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4BEM \| pdb_00004bem	Download File View File

Crystal structure of the F-type ATP synthase c-ring from Acetobacterium woodii.

Matthies, D., Meier, T., Yildiz, O.

(2014) Nat Commun 5: 5286

Released	2014-03-26
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Acetobacterium woodii DSM 1030
Macromolecule	F1FO ATPASE C1 SUBUNIT (protein) F1FO ATPASE C2 SUBUNIT (protein)
Unique Ligands	ACT, HTG, MN, NA, P6G, TAM

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4C7R \| pdb_00004c7r	Download File View File

Inward facing conformation of the trimeric betaine transporter BetP in complex with lipids

Koshy, C., Yildiz, O., Ziegler, C.

(2013) EMBO J 32: 3096

Released	2013-10-30
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Corynebacterium glutamicum
Macromolecule	GLYCINE BETAINE TRANSPORTER BETP (protein)
Unique Ligands	CL, CM5, FLC, PEG, PGT

1 to 25 of 125 Structures

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Structure Determination Methodology

Scientific Name of Source Organism

Taxonomy

Experimental Method

Polymer Entity Type

Refinement Resolution (Å)

Release Date

Enzyme Classification Name

Membrane Protein Annotation

Symmetry Type

SCOP Classification

1WA9 | pdb_00001wa9

2IWV | pdb_00002iwv

2IWW | pdb_00002iww

2J9C | pdb_00002j9c

2J9D | pdb_00002j9d

2J9E | pdb_00002j9e

2WIE | pdb_00002wie

2WJG | pdb_00002wjg

2WJH | pdb_00002wjh

2WJI | pdb_00002wji

2WJJ | pdb_00002wjj

2X2V | pdb_00002x2v

2X9K | pdb_00002x9k

2XQS | pdb_00002xqs

2XQT | pdb_00002xqt

2XQU | pdb_00002xqu

2YGG | pdb_00002ygg

3DDC | pdb_00003ddc

3GEC | pdb_00003gec

3ZK1 | pdb_00003zk1

3ZK2 | pdb_00003zk2

3ZO6 | pdb_00003zo6

4AIN | pdb_00004ain

4BEM | pdb_00004bem

4C7R | pdb_00004c7r