- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- hetero-9-9-9-mer
- Ligands
- 9 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)
- 27 x MG: MAGNESIUM ION(Non-covalent)
MG.2: 5 residues within 4Å:- Chain A: Q.11, E.71, V.74
- Chain B: K.252
- Ligands: GTP.1
No protein-ligand interaction detected (PLIP)MG.4: 4 residues within 4Å:- Chain B: Q.11, E.69, T.72
- Ligands: G2P.3
No protein-ligand interaction detected (PLIP)MG.6: 5 residues within 4Å:- Chain C: K.115, T.116, S.225, D.257
- Ligands: ANP.5
2 PLIP interactions:2 interactions with chain C- Metal complexes: C:T.116, C:S.225
MG.8: 5 residues within 4Å:- Chain D: Q.11, E.71, V.74
- Chain E: K.252
- Ligands: GTP.7
No protein-ligand interaction detected (PLIP)MG.10: 4 residues within 4Å:- Chain E: Q.11, E.69, T.72
- Ligands: G2P.9
No protein-ligand interaction detected (PLIP)MG.12: 5 residues within 4Å:- Chain F: K.115, T.116, S.225, D.257
- Ligands: ANP.11
2 PLIP interactions:2 interactions with chain F- Metal complexes: F:T.116, F:S.225
MG.14: 5 residues within 4Å:- Chain G: Q.11, E.71, V.74
- Chain H: K.252
- Ligands: GTP.13
No protein-ligand interaction detected (PLIP)MG.16: 4 residues within 4Å:- Chain H: Q.11, E.69, T.72
- Ligands: G2P.15
No protein-ligand interaction detected (PLIP)MG.18: 5 residues within 4Å:- Chain I: K.115, T.116, S.225, D.257
- Ligands: ANP.17
2 PLIP interactions:2 interactions with chain I- Metal complexes: I:T.116, I:S.225
MG.20: 5 residues within 4Å:- Chain J: Q.11, E.71, V.74
- Chain K: K.252
- Ligands: GTP.19
No protein-ligand interaction detected (PLIP)MG.22: 4 residues within 4Å:- Chain K: Q.11, E.69, T.72
- Ligands: G2P.21
No protein-ligand interaction detected (PLIP)MG.24: 5 residues within 4Å:- Chain L: K.115, T.116, S.225, D.257
- Ligands: ANP.23
2 PLIP interactions:2 interactions with chain L- Metal complexes: L:T.116, L:S.225
MG.26: 5 residues within 4Å:- Chain M: Q.11, E.71, V.74
- Chain N: K.252
- Ligands: GTP.25
No protein-ligand interaction detected (PLIP)MG.28: 4 residues within 4Å:- Chain N: Q.11, E.69, T.72
- Ligands: G2P.27
No protein-ligand interaction detected (PLIP)MG.30: 5 residues within 4Å:- Chain O: K.115, T.116, S.225, D.257
- Ligands: ANP.29
2 PLIP interactions:2 interactions with chain O- Metal complexes: O:T.116, O:S.225
MG.32: 5 residues within 4Å:- Chain P: Q.11, E.71, V.74
- Chain Q: K.252
- Ligands: GTP.31
No protein-ligand interaction detected (PLIP)MG.34: 4 residues within 4Å:- Chain Q: Q.11, E.69, T.72
- Ligands: G2P.33
No protein-ligand interaction detected (PLIP)MG.36: 5 residues within 4Å:- Chain R: K.115, T.116, S.225, D.257
- Ligands: ANP.35
2 PLIP interactions:2 interactions with chain R- Metal complexes: R:T.116, R:S.225
MG.38: 5 residues within 4Å:- Chain S: Q.11, E.71, V.74
- Chain T: K.252
- Ligands: GTP.37
No protein-ligand interaction detected (PLIP)MG.40: 4 residues within 4Å:- Chain T: Q.11, E.69, T.72
- Ligands: G2P.39
No protein-ligand interaction detected (PLIP)MG.42: 5 residues within 4Å:- Chain U: K.115, T.116, S.225, D.257
- Ligands: ANP.41
2 PLIP interactions:2 interactions with chain U- Metal complexes: U:T.116, U:S.225
MG.44: 5 residues within 4Å:- Chain V: Q.11, E.71, V.74
- Chain W: K.252
- Ligands: GTP.43
No protein-ligand interaction detected (PLIP)MG.46: 4 residues within 4Å:- Chain W: Q.11, E.69, T.72
- Ligands: G2P.45
No protein-ligand interaction detected (PLIP)MG.48: 5 residues within 4Å:- Chain X: K.115, T.116, S.225, D.257
- Ligands: ANP.47
2 PLIP interactions:2 interactions with chain X- Metal complexes: X:T.116, X:S.225
MG.50: 5 residues within 4Å:- Chain Y: Q.11, E.71, V.74
- Chain Z: K.252
- Ligands: GTP.49
No protein-ligand interaction detected (PLIP)MG.52: 4 residues within 4Å:- Chain Z: Q.11, E.69, T.72
- Ligands: G2P.51
No protein-ligand interaction detected (PLIP)MG.54: 5 residues within 4Å:- Chain 0: K.115, T.116, S.225, D.257
- Ligands: ANP.53
2 PLIP interactions:2 interactions with chain 0- Metal complexes: 0:T.116, 0:S.225
- 9 x G2P: PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER(Non-covalent)
G2P.3: 28 residues within 4Å:- Chain B: G.10, Q.11, C.12, Q.15, I.16, L.68, G.96, A.97, G.98, N.99, N.100, S.138, G.140, G.141, G.142, T.143, G.144, V.169, D.177, I.202, N.204, L.207, Y.222, L.225, N.226, V.229
- Chain J: L.248
- Ligands: MG.4
17 PLIP interactions:17 interactions with chain B- Hydrogen bonds: B:Q.11, B:C.12, B:A.97, B:G.98, B:N.99, B:S.138, B:T.143, B:T.143, B:G.144, B:D.177, B:D.177, B:D.177, B:N.204, B:N.204, B:Y.222, B:N.226, B:N.226
G2P.9: 28 residues within 4Å:- Chain E: G.10, Q.11, C.12, Q.15, I.16, L.68, G.96, A.97, G.98, N.99, N.100, S.138, G.140, G.141, G.142, T.143, G.144, V.169, D.177, I.202, N.204, L.207, Y.222, L.225, N.226, V.229
- Chain V: L.248
- Ligands: MG.10
17 PLIP interactions:17 interactions with chain E- Hydrogen bonds: E:Q.11, E:C.12, E:A.97, E:G.98, E:N.99, E:S.138, E:T.143, E:T.143, E:G.144, E:D.177, E:D.177, E:D.177, E:N.204, E:N.204, E:Y.222, E:N.226, E:N.226
G2P.15: 28 residues within 4Å:- Chain H: G.10, Q.11, C.12, Q.15, I.16, L.68, G.96, A.97, G.98, N.99, N.100, S.138, G.140, G.141, G.142, T.143, G.144, V.169, D.177, I.202, N.204, L.207, Y.222, L.225, N.226, V.229
- Chain P: L.248
- Ligands: MG.16
17 PLIP interactions:17 interactions with chain H- Hydrogen bonds: H:Q.11, H:C.12, H:A.97, H:G.98, H:N.99, H:S.138, H:T.143, H:T.143, H:G.144, H:D.177, H:D.177, H:D.177, H:N.204, H:N.204, H:Y.222, H:N.226, H:N.226
G2P.21: 27 residues within 4Å:- Chain K: G.10, Q.11, C.12, Q.15, I.16, L.68, G.96, A.97, G.98, N.99, N.100, S.138, G.140, G.141, G.142, T.143, G.144, V.169, D.177, I.202, N.204, L.207, Y.222, L.225, N.226, V.229
- Ligands: MG.22
17 PLIP interactions:17 interactions with chain K- Hydrogen bonds: K:Q.11, K:C.12, K:A.97, K:G.98, K:N.99, K:S.138, K:T.143, K:T.143, K:G.144, K:D.177, K:D.177, K:D.177, K:N.204, K:N.204, K:Y.222, K:N.226, K:N.226
G2P.27: 28 residues within 4Å:- Chain A: L.248
- Chain N: G.10, Q.11, C.12, Q.15, I.16, L.68, G.96, A.97, G.98, N.99, N.100, S.138, G.140, G.141, G.142, T.143, G.144, V.169, D.177, I.202, N.204, L.207, Y.222, L.225, N.226, V.229
- Ligands: MG.28
17 PLIP interactions:17 interactions with chain N- Hydrogen bonds: N:Q.11, N:C.12, N:A.97, N:G.98, N:N.99, N:S.138, N:T.143, N:T.143, N:G.144, N:D.177, N:D.177, N:D.177, N:N.204, N:N.204, N:Y.222, N:N.226, N:N.226
G2P.33: 27 residues within 4Å:- Chain Q: G.10, Q.11, C.12, Q.15, I.16, L.68, G.96, A.97, G.98, N.99, N.100, S.138, G.140, G.141, G.142, T.143, G.144, V.169, D.177, I.202, N.204, L.207, Y.222, L.225, N.226, V.229
- Ligands: MG.34
17 PLIP interactions:17 interactions with chain Q- Hydrogen bonds: Q:Q.11, Q:C.12, Q:A.97, Q:G.98, Q:N.99, Q:S.138, Q:T.143, Q:T.143, Q:G.144, Q:D.177, Q:D.177, Q:D.177, Q:N.204, Q:N.204, Q:Y.222, Q:N.226, Q:N.226
G2P.39: 28 residues within 4Å:- Chain G: L.248
- Chain T: G.10, Q.11, C.12, Q.15, I.16, L.68, G.96, A.97, G.98, N.99, N.100, S.138, G.140, G.141, G.142, T.143, G.144, V.169, D.177, I.202, N.204, L.207, Y.222, L.225, N.226, V.229
- Ligands: MG.40
17 PLIP interactions:17 interactions with chain T- Hydrogen bonds: T:Q.11, T:C.12, T:A.97, T:G.98, T:N.99, T:S.138, T:T.143, T:T.143, T:G.144, T:D.177, T:D.177, T:D.177, T:N.204, T:N.204, T:Y.222, T:N.226, T:N.226
G2P.45: 27 residues within 4Å:- Chain W: G.10, Q.11, C.12, Q.15, I.16, L.68, G.96, A.97, G.98, N.99, N.100, S.138, G.140, G.141, G.142, T.143, G.144, V.169, D.177, I.202, N.204, L.207, Y.222, L.225, N.226, V.229
- Ligands: MG.46
17 PLIP interactions:17 interactions with chain W- Hydrogen bonds: W:Q.11, W:C.12, W:A.97, W:G.98, W:N.99, W:S.138, W:T.143, W:T.143, W:G.144, W:D.177, W:D.177, W:D.177, W:N.204, W:N.204, W:Y.222, W:N.226, W:N.226
G2P.51: 28 residues within 4Å:- Chain D: L.248
- Chain Z: G.10, Q.11, C.12, Q.15, I.16, L.68, G.96, A.97, G.98, N.99, N.100, S.138, G.140, G.141, G.142, T.143, G.144, V.169, D.177, I.202, N.204, L.207, Y.222, L.225, N.226, V.229
- Ligands: MG.52
17 PLIP interactions:17 interactions with chain Z- Hydrogen bonds: Z:Q.11, Z:C.12, Z:A.97, Z:G.98, Z:N.99, Z:S.138, Z:T.143, Z:T.143, Z:G.144, Z:D.177, Z:D.177, Z:D.177, Z:N.204, Z:N.204, Z:Y.222, Z:N.226, Z:N.226
- 9 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)
ANP.5: 17 residues within 4Å:- Chain C: R.16, R.18, P.19, T.111, G.112, C.113, G.114, K.115, T.116, Y.117, N.221, S.224, S.225, L.258, A.259, G.260
- Ligands: MG.6
15 PLIP interactions:15 interactions with chain C- Hydrogen bonds: C:R.16, C:T.111, C:T.111, C:G.112, C:C.113, C:G.114, C:G.114, C:K.115, C:K.115, C:T.116, C:Y.117, C:S.225, C:A.259
- pi-Stacking: C:Y.117, C:Y.117
ANP.11: 17 residues within 4Å:- Chain F: R.16, R.18, P.19, T.111, G.112, C.113, G.114, K.115, T.116, Y.117, N.221, S.224, S.225, L.258, A.259, G.260
- Ligands: MG.12
15 PLIP interactions:15 interactions with chain F- Hydrogen bonds: F:R.16, F:T.111, F:T.111, F:G.112, F:C.113, F:G.114, F:G.114, F:K.115, F:K.115, F:T.116, F:Y.117, F:S.225, F:A.259
- pi-Stacking: F:Y.117, F:Y.117
ANP.17: 17 residues within 4Å:- Chain I: R.16, R.18, P.19, T.111, G.112, C.113, G.114, K.115, T.116, Y.117, N.221, S.224, S.225, L.258, A.259, G.260
- Ligands: MG.18
15 PLIP interactions:15 interactions with chain I- Hydrogen bonds: I:R.16, I:T.111, I:T.111, I:G.112, I:C.113, I:G.114, I:G.114, I:K.115, I:K.115, I:T.116, I:Y.117, I:S.225, I:A.259
- pi-Stacking: I:Y.117, I:Y.117
ANP.23: 17 residues within 4Å:- Chain L: R.16, R.18, P.19, T.111, G.112, C.113, G.114, K.115, T.116, Y.117, N.221, S.224, S.225, L.258, A.259, G.260
- Ligands: MG.24
15 PLIP interactions:15 interactions with chain L- Hydrogen bonds: L:R.16, L:T.111, L:T.111, L:G.112, L:C.113, L:G.114, L:G.114, L:K.115, L:K.115, L:T.116, L:Y.117, L:S.225, L:A.259
- pi-Stacking: L:Y.117, L:Y.117
ANP.29: 17 residues within 4Å:- Chain O: R.16, R.18, P.19, T.111, G.112, C.113, G.114, K.115, T.116, Y.117, N.221, S.224, S.225, L.258, A.259, G.260
- Ligands: MG.30
15 PLIP interactions:15 interactions with chain O- Hydrogen bonds: O:R.16, O:T.111, O:T.111, O:G.112, O:C.113, O:G.114, O:G.114, O:K.115, O:K.115, O:T.116, O:Y.117, O:S.225, O:A.259
- pi-Stacking: O:Y.117, O:Y.117
ANP.35: 17 residues within 4Å:- Chain R: R.16, R.18, P.19, T.111, G.112, C.113, G.114, K.115, T.116, Y.117, N.221, S.224, S.225, L.258, A.259, G.260
- Ligands: MG.36
15 PLIP interactions:15 interactions with chain R- Hydrogen bonds: R:R.16, R:T.111, R:T.111, R:G.112, R:C.113, R:G.114, R:G.114, R:K.115, R:K.115, R:T.116, R:Y.117, R:S.225, R:A.259
- pi-Stacking: R:Y.117, R:Y.117
ANP.41: 17 residues within 4Å:- Chain U: R.16, R.18, P.19, T.111, G.112, C.113, G.114, K.115, T.116, Y.117, N.221, S.224, S.225, L.258, A.259, G.260
- Ligands: MG.42
15 PLIP interactions:15 interactions with chain U- Hydrogen bonds: U:R.16, U:T.111, U:T.111, U:G.112, U:C.113, U:G.114, U:G.114, U:K.115, U:K.115, U:T.116, U:Y.117, U:S.225, U:A.259
- pi-Stacking: U:Y.117, U:Y.117
ANP.47: 17 residues within 4Å:- Chain X: R.16, R.18, P.19, T.111, G.112, C.113, G.114, K.115, T.116, Y.117, N.221, S.224, S.225, L.258, A.259, G.260
- Ligands: MG.48
15 PLIP interactions:15 interactions with chain X- Hydrogen bonds: X:R.16, X:T.111, X:T.111, X:G.112, X:C.113, X:G.114, X:G.114, X:K.115, X:K.115, X:T.116, X:Y.117, X:S.225, X:A.259
- pi-Stacking: X:Y.117, X:Y.117
ANP.53: 17 residues within 4Å:- Chain 0: R.16, R.18, P.19, T.111, G.112, C.113, G.114, K.115, T.116, Y.117, N.221, S.224, S.225, L.258, A.259, G.260
- Ligands: MG.54
15 PLIP interactions:15 interactions with chain 0- Hydrogen bonds: 0:R.16, 0:T.111, 0:T.111, 0:G.112, 0:C.113, 0:G.114, 0:G.114, 0:K.115, 0:K.115, 0:T.116, 0:Y.117, 0:S.225, 0:A.259
- pi-Stacking: 0:Y.117, 0:Y.117
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Arellano-Santoyo, H. et al., Multimodal tubulin binding by the yeast kinesin-8, Kip3, underlies its motility and depolymerization. Biorxiv (2024)
- Release Date
- 2022-08-17
- Peptides
- Tubulin alpha-1B chain: ADGJMPSVY
Tubulin beta chain: BEHKNQTWZ
kinesin-8/ Kip3: CFILORUX0 - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AD
CG
EJ
GM
IP
LS
NV
PY
RB
BE
DH
FK
HN
JQ
MT
OW
QZ
SC
KF
aI
bL
cO
dR
eU
fX
g0
h
SMTL ID : 7rs6.1
Cryo-EM structure of Kip3 (AMPPNP) bound to GMPCPP-Stabilized Microtubules
Tubulin alpha-1B chain
Toggle Identical (ADGJMPSVY)Tubulin beta chain
Toggle Identical (BEHKNQTWZ)kinesin-8/ Kip3
Toggle Identical (CFILORUX0)Related Entries With Identical Sequence
1ffx.1 | 1ia0.1 | 1jff.1 | 1sa0.1 | 1sa1.1 | 2hxf.1 | 2hxh.1 | 2p4n.1 | 2wbe.2 | 3dco.1 | 3edl.1 | 3edl.2 | 3iz0.1 | 3j2u.1 | 3j2u.2 | 3j6p.1 | 3j7i.1 | 3j8x.1 | 3j8y.1 | 3jak.1 | 3jal.1 | 3jao.1 | 3jao.2 | 3jar.1 | 3jas.1 | 3jat.1 | 3jaw.1 | 3ryc.1 | 3ryf.1 | 3ryh.1 more...less...3ryi.1 | 3ut5.1 | 4abo.1 | 4eb6.1 | 4f61.1 | 4f6r.1 | 4hna.1 | 4i50.1 | 4iij.1 | 4lnu.1 | 4o2a.1 | 4o2b.1 | 4o4h.1 | 4o4i.1 | 4o4j.1 | 4o4l.1 | 4tuy.1 | 4tv8.1 | 4tv9.1 | 4yj2.1 | 4yj3.1 | 4zhq.1 | 4zi7.1 | 4zol.1 | 5bmv.1 | 5ca0.1 | 5eib.1 | 5eyp.1 | 5fnv.1 | 5itz.1 | 5iyz.1 | 5j2t.1 | 5j2u.1 | 5jcb.1 | 5jqg.1 | 5jvd.1 | 5la6.1 | 5lov.1 | 5lxs.1 | 5lxt.1 | 5lyj.1 | 5m7e.1 | 5m7g.1 | 5m8d.1 | 5m8g.1 | 5mf4.1 | 5mio.1 | 5nfz.1 | 5ng1.1 | 5nm5.1 | 5nqt.1 | 5nqu.1 | 5o7a.1 | 5oam.1 | 5ocu.1 | 5ogc.1 | 5osk.1 | 5ov7.1 | 5s4l.1 | 5s4m.1 | 5s4n.1 | 5s4o.1 | 5s4p.1 | 5s4q.1 | 5s4r.1 | 5s4s.1 | 5s4t.1 | 5s4u.1 | 5s4v.1 | 5s4w.1 | 5s4x.1 | 5s4y.1 | 5s4z.1 | 5s50.1 | 5s51.1 | 5s52.1 | 5s53.1 | 5s54.1 | 5s55.1 | 5s56.1 | 5s57.1 | 5s58.1 | 5s59.1 | 5s5a.1 | 5s5b.1 | 5s5c.1 | 5s5d.1 | 5s5e.1 | 5s5f.1 | 5s5g.1 | 5s5h.1 | 5s5i.1 | 5s5j.1 | 5s5k.1 | 5s5l.1 | 5s5m.1 | 5s5n.1 | 5s5o.1 | 5s5p.1 | 5s5q.1 | 5s5r.1 | 5s5s.1 | 5s5t.1 | 5s5u.1 | 5s5v.1 | 5s5w.1 | 5s5x.1 | 5s5y.1 | 5s5z.1 | 5s60.1 | 5s61.1 | 5s62.1 | 5s63.1 | 5s64.1 | 5s65.1 | 5s66.1 | 5s67.1 | 5sb3.1 | 5sb4.1 | 5sb5.1 | 5sb6.1 | 5sb7.1 | 5sb8.1 | 5sb9.1 | 5sba.1 | 5sbb.1 | 5sbc.1 | 5sbd.1 | 5sbe.1 | 5xaf.1 | 5xag.1 | 5xiw.1 | 5xke.1 | 5xkf.1 | 5xkg.1 | 5xkh.1 | 5xp3.1 | 5yl2.1 | 5ylj.1 | 5yls.1 | 6b0c.1 | 6b0c.2 | 6b0i.1 | 6b0i.2 | 6b0l.1 | 6b0l.2 | 6bbn.1 | 6bjc.1 | 6cvj.1 | 6cvj.2 | 6cvn.1 | 6cvn.2 | 6dpu.1 | 6dpv.1 | 6dpw.1 | 6evx.1 | 6evy.1 | 6evz.1 | 6ew0.1 | 6f7c.1 | 6fii.1 | 6fjf.1 | 6fjm.1 | 6fkj.1 | 6fkl.1 | 6gf3.1 | 6gj4.1 | 6gvm.1 | 6gvn.1 | 6gwc.1 | 6gwd.1 | 6gx7.1 | 6gx7.2 | 6hx8.1 | 6i2i.1 | 6ls4.1 | 6mlq.1 | 6mlr.1 | 6mze.1 | 6mze.2 | 6mzf.1 | 6mzf.2 | 6mzg.1 | 6mzg.2 | 6o2q.1 | 6o2r.1 | 6o2s.1 | 6o2s.2 | 6o2s.3 | 6o2s.4 | 6o2s.5 | 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