Actin-bound Legionella pneumophila AMPylase LnaB with AMPylated catalytic histidine
Resolution: 2.83 Å
EM Method: Single-particle
Fitted PDBs: 9b2z
Q-score: 0.549
Zhang Z, Patel R, Luo ZQ, Das C
J Mol Biol (2024) 437 pp. 168917-168917 [ DOI: doi:10.1016/j.jmb.2024.168917 Pubmed: 39694182 ]
- Actin (Complex from Homo sapiens)
- Actin, cytoplasmic 1 (41 kDa, Protein from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- Latrunculin b (395 Da, Ligand)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Adenosine monophosphate (347 Da, Ligand)
- Type iv secretion protein dot (58 kDa, Protein from Legionella pneumophila subsp. pneumophila str. Philadelphia 1)
- Actin-bound legionella pneumophila ampylase lnab with ampylated catalytic histidine (Complex)
- Lnab (Complex from Legionella pneumophila subsp. pneumophila str. Philadelphia 1)
Synaptic Vesicle V-ATPase with synaptophysin and SidK, State 3, V1
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 9b8p
Q-score: 0.529
Coupland CE, Karimi R, Bueler SA, Liang Y, Courbon GM, Di Trani JM, Wong CJ, Saghian R, Youn JY, Wang LY, Rubinstein JL
Science (2024) 385 pp. 168-174 [ Pubmed: 38900912 DOI: doi:10.1126/science.adp5577 ]
- Sidk (65 kDa, Protein from Legionella pneumophila subsp. pneumophila str. Philadelphia 1)
- V-type proton atpase subunit e 1 (26 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit b, brain isoform (56 kDa, Protein from Rattus norvegicus)
- Atpase h+-transporting v1 subunit d (28 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit g (13 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit f (13 kDa, Protein from Rattus norvegicus)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Synaptic vesicle v-atpase with synaptophysin and sidk, state 3, v1 (Complex from Rattus norvegicus)
- H(+)-transporting two-sector atpase (71 kDa, Protein from Rattus norvegicus)
Legionella effector protein SidI
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8jhu
Q-score: 0.526
Subramanian A, Wang L, Moss T, Voorhies M, Sangwan S, Stevenson E, Pulido EH, Kwok S, Chalkley RJ, Li KH, Krogan NJ, Swaney DL, Burlingame AL, Floor SN, Sil A, Walter P, Mukherjee S
Nat Cell Biol (2023) 25 pp. 1600-1615 [ DOI: doi:10.1038/s41556-023-01248-z Pubmed: 37857833 ]
- Legionella pneumophila effector proein sidi (100 kDa, Complex from Legionella pneumophila)
- Legionella pneumophila effector protein sidi (134 kDa, Protein from Legionella pneumophila subsp. pneumophila str. Philadelphia 1)
- Legionella pneumophila effector protein sidi (Complex from Legionella pneumophila)
L. pneumophila Type IV Coupling Complex (T4CC) with density for DotY N-terminal and middle domains
Resolution: 3.61 Å
EM Method: Single-particle
Fitted PDBs: 7ovb
Q-score: 0.454
Mace K, Meir A, Lukoyanova N, Liu L, Chetrit D, Hospenthal MK, Roy CR, Waksman G
Mol Microbiol (2022) 117 pp. 307-319 [ Pubmed: 34816517 DOI: doi:10.1111/mmi.14847 ]
- Icmp (dotm) (43 kDa, Protein from Legionella pneumophila subsp. pneumophila str. Philadelphia 1)
- Icmj (dotn) (23 kDa, Protein from Legionella pneumophila subsp. pneumophila str. Philadelphia 1)
- T4cc pentameric core complex with doty middle domain (Complex from Legionella pneumophila subsp. pneumophila str. Philadelphia 1)
- Doty (25 kDa, Protein from Legionella pneumophila subsp. pneumophila str. Philadelphia 1)
- Icmo (dotl) (87 kDa, Protein from Legionella pneumophila subsp. pneumophila str. Philadelphia 1)
- Dotz (33 kDa, Protein from Legionella pneumophila subsp. pneumophila str. Philadelphia 1)
- Zinc ion (65 Da, Ligand)
The V1 region of human V-ATPase in state 1 (focused refinement)
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 6wlz
Q-score: 0.573
Wang L, Wu D, Robinson CV, Wu H, Fu TM
Mol Cell (2020) 80 pp. 501- [ Pubmed: 33065002 DOI: doi:10.1016/j.molcel.2020.09.029 ]
- V-type proton atpase catalytic subunit a (68 kDa, Protein from Homo sapiens)
- V-type proton atpase subunit g 1 (13 kDa, Protein from Homo sapiens)
- V-type proton atpase subunit e 1 (26 kDa, Protein from Homo sapiens)
- Human v-atpase (Complex from Homo sapiens)
- Sidk (65 kDa, Protein from Legionella pneumophila subsp. pneumophila (strain Philadelphia 1 / ATCC 33152 / DSM 7513))
- V-type proton atpase subunit f (13 kDa, Protein from Homo sapiens)
- Human v-atpase and sidk complex (Complex)
- V-type proton atpase subunit b, brain isoform (56 kDa, Protein from Homo sapiens)
- V-type proton atpase subunit d (28 kDa, Protein from Homo sapiens)
- Sidk (Complex from Legionella pneumophila subsp. pneumophila)
- Adenosine-5'-diphosphate (427 Da, Ligand)
Human V-ATPase in state 2 with SidK and ADP
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 6wm3
Q-score: 0.477
Wang L, Wu D, Robinson CV, Wu H, Fu TM
Mol Cell (2020) 80 pp. 501- [ Pubmed: 33065002 DOI: doi:10.1016/j.molcel.2020.09.029 ]
- V-type proton atpase subunit g 1 (13 kDa, Protein from Homo sapiens)
- V-type proton atpase subunit b, brain isoform (56 kDa, Protein from Homo sapiens)
- V-type proton atpase 21 kda proteolipid subunit (21 kDa, Protein from Homo sapiens)
- Renin receptor (39 kDa, Protein from Homo sapiens)
- Human v-atpase with sidk and adp (Complex from Homo sapiens)
- Ribonuclease kappa (15 kDa, Protein from Homo sapiens)
- V-type proton atpase 16 kda proteolipid subunit (15 kDa, Protein from Homo sapiens)
- V-type proton atpase 116 kda subunit a isoform 1 (96 kDa, Protein from Homo sapiens)
- Sidk (65 kDa, Protein from Legionella pneumophila subsp. pneumophila (strain Philadelphia 1 / ATCC 33152 / DSM 7513))
- V-type proton atpase subunit d 1 (40 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- V-type proton atpase subunit s1 (52 kDa, Protein from Homo sapiens)
- V-type proton atpase subunit f (13 kDa, Protein from Homo sapiens)
- V-type proton atpase catalytic subunit a (68 kDa, Protein from Homo sapiens)
- V-type proton atpase subunit c 1 (43 kDa, Protein from Homo sapiens)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- V-type proton atpase subunit d (28 kDa, Protein from Homo sapiens)
- V-type proton atpase subunit e 1 (9 kDa, Protein from Homo sapiens)
- V-type proton atpase subunit h (55 kDa, Protein from Homo sapiens)
- V-type proton atpase subunit e 1 (26 kDa, Protein from Homo sapiens)
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 6vq9
Q-score: 0.434
Abbas YM, Wu D, Bueler SA, Robinson CV, Rubinstein JL
Science (2020) 367 pp. 1240-1246 [ DOI: doi:10.1126/science.aaz2924 Pubmed: 32165585 ]
- V-type proton atpase subunit e 1 (26 kDa, Protein from Rattus norvegicus)
- Effector protein sidk (34 kDa, Protein from Legionella pneumophila subsp. pneumophila (strain Philadelphia 1 / ATCC 33152 / DSM 7513))
- V-type proton atpase subunit b, brain isoform (56 kDa, Protein from Rattus norvegicus)
- Soluble region of rat brain v-atpase composed of subunits a, b2, d, e1, g2, and the legionella pneumophila effector protein sidk (Complex from Rattus norvegicus)
- Atpase h+-transporting v1 subunit d (28 kDa, Protein from Rattus norvegicus)
- Magnesium ion (24 Da, Ligand)
- Atpase h+-transporting v1 subunit a (68 kDa, Protein from Rattus norvegicus)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- V-type proton atpase subunit g (13 kDa, Protein from Rattus norvegicus)
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 6vqa
Q-score: 0.407
Abbas YM, Wu D, Bueler SA, Robinson CV, Rubinstein JL
Science (2020) 367 pp. 1240-1246 [ DOI: doi:10.1126/science.aaz2924 Pubmed: 32165585 ]
- V-type proton atpase subunit e 1 (26 kDa, Protein from Rattus norvegicus)
- Effector protein sidk (34 kDa, Protein from Legionella pneumophila subsp. pneumophila (strain Philadelphia 1 / ATCC 33152 / DSM 7513))
- V-type proton atpase subunit b, brain isoform (56 kDa, Protein from Rattus norvegicus)
- Soluble region of rat brain v-atpase composed of subunits a, b2, d, e1, g2, and the legionella pneumophila effector protein sidk (Complex from Rattus norvegicus)
- Atpase h+-transporting v1 subunit d (28 kDa, Protein from Rattus norvegicus)
- Magnesium ion (24 Da, Ligand)
- Atpase h+-transporting v1 subunit a (68 kDa, Protein from Rattus norvegicus)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- V-type proton atpase subunit g (13 kDa, Protein from Rattus norvegicus)
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 6vqb
Q-score: 0.418
Abbas YM, Wu D, Bueler SA, Robinson CV, Rubinstein JL
Science (2020) 367 pp. 1240-1246 [ DOI: doi:10.1126/science.aaz2924 Pubmed: 32165585 ]
- V-type proton atpase subunit e 1 (26 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit b, brain isoform (56 kDa, Protein from Rattus norvegicus)
- Soluble region of rat brain v-atpase composed of subunits a, b2, d, e1, g2, and the legionella pneumophila effector protein sidk. (Complex from Rattus norvegicus)
- Atpase h+-transporting v1 subunit d (28 kDa, Protein from Rattus norvegicus)
- Atpase h+-transporting v1 subunit a (68 kDa, Protein from Rattus norvegicus)
- Uncharacterized protein (34 kDa, Protein from Legionella pneumophila subsp. pneumophila (strain Philadelphia 1 / ATCC 33152 / DSM 7513))
- Adenosine-5'-diphosphate (427 Da, Ligand)
- V-type proton atpase subunit g (13 kDa, Protein from Rattus norvegicus)