- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.40 Å
- Oligo State
- hetero-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-2-1-mer
- Ligands
- 138 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)
- 3 x K: POTASSIUM ION(Non-functional Binders)(Non-covalent)
K.109: 3 residues within 4Å:- Chain A: G.2095, G.2475, C.2529
No protein-ligand interaction detected (PLIP)K.211: 2 residues within 4Å:- Chain A: G.183, U.427
No protein-ligand interaction detected (PLIP)K.246: 2 residues within 4Å:- Chain Q: D.81, F.82
3 PLIP interactions:1 interactions with chain Q, 2 Ligand-Water interactions- Metal complexes: Q:D.81, H2O.271, H2O.273
- 85 x NA: SODIUM ION(Non-functional Binders)
NA.110: 3 residues within 4Å:- Chain A: C.1062, G.1065, G.1080
Ligand excluded by PLIPNA.111: 5 residues within 4Å:- Chain A: G.1112, U.1113, G.1114, U.1115
- Ligands: MG.25
Ligand excluded by PLIPNA.112: 6 residues within 4Å:- Chain A: A.636, G.637, U.897, C.1346, G.1347
- Chain N: R.9
Ligand excluded by PLIPNA.113: 3 residues within 4Å:- Chain A: A.623, A.624, A.2067
Ligand excluded by PLIPNA.114: 5 residues within 4Å:- Chain A: G.2085, G.2086, G.2087, A.2605, A.2642
Ligand excluded by PLIPNA.115: 4 residues within 4Å:- Chain A: C.33, G.34, A.435, C.436
Ligand excluded by PLIPNA.116: 4 residues within 4Å:- Chain A: C.1387, U.1425, G.1426, U.1717
Ligand excluded by PLIPNA.117: 3 residues within 4Å:- Chain A: A.2570, G.2571, G.2572
Ligand excluded by PLIPNA.118: 2 residues within 4Å:- Chain A: C.2486, G.2518
Ligand excluded by PLIPNA.119: 3 residues within 4Å:- Chain A: A.2391, G.2392, G.2393
Ligand excluded by PLIPNA.120: 4 residues within 4Å:- Chain A: U.2534, U.2600, C.2601
- Chain D: W.243
Ligand excluded by PLIPNA.121: 4 residues within 4Å:- Chain A: A.158, A.159, A.160
- Ligands: MG.73
Ligand excluded by PLIPNA.122: 2 residues within 4Å:- Chain A: C.889, A.890
Ligand excluded by PLIPNA.123: 4 residues within 4Å:- Chain 3: W.43, N.46
- Chain A: G.1409, G.1410
Ligand excluded by PLIPNA.124: 3 residues within 4Å:- Chain A: G.2536, G.2537
- Ligands: NA.126
Ligand excluded by PLIPNA.125: 3 residues within 4Å:- Chain A: A.2458, G.2459
- Chain N: D.37
Ligand excluded by PLIPNA.126: 6 residues within 4Å:- Chain A: G.2536, G.2537, G.2604, C.2607, U.2608
- Ligands: NA.124
Ligand excluded by PLIPNA.127: 6 residues within 4Å:- Chain A: G.829, U.830, A.1729, A.1730
- Chain D: R.230, G.232
Ligand excluded by PLIPNA.128: 5 residues within 4Å:- Chain A: G.878, A.2105, G.2106, C.2468, C.2469
Ligand excluded by PLIPNA.129: 4 residues within 4Å:- Chain A: A.38, C.123, U.139, G.140
Ligand excluded by PLIPNA.130: 5 residues within 4Å:- Chain A: A.769, U.770, U.772, A.773
- Ligands: MG.31
Ligand excluded by PLIPNA.131: 4 residues within 4Å:- Chain A: G.1964, G.2002, A.2003, U.2005
Ligand excluded by PLIPNA.132: 5 residues within 4Å:- Chain A: U.814, C.846, G.847, U.1824, G.1825
Ligand excluded by PLIPNA.133: 5 residues within 4Å:- Chain A: G.49, A.52, A.53, G.54, C.55
Ligand excluded by PLIPNA.134: 3 residues within 4Å:- Chain A: G.59, U.100, U.101
Ligand excluded by PLIPNA.135: 3 residues within 4Å:- Chain A: G.133, C.134, G.135
Ligand excluded by PLIPNA.136: 5 residues within 4Å:- Chain A: U.163, C.164, C.211, G.212, G.214
Ligand excluded by PLIPNA.137: 5 residues within 4Å:- Chain A: G.379, G.380, G.381, C.394, U.395
Ligand excluded by PLIPNA.138: 5 residues within 4Å:- Chain A: C.1887, U.1890, G.1891, U.1932
- Ligands: NA.139
Ligand excluded by PLIPNA.139: 6 residues within 4Å:- Chain A: C.1887, A.1888, G.1889, U.1890, A.1935
- Ligands: NA.138
Ligand excluded by PLIPNA.140: 6 residues within 4Å:- Chain A: C.614, G.615, U.616, A.621, A.623, A.625
Ligand excluded by PLIPNA.141: 2 residues within 4Å:- Chain A: G.1699, G.1700
Ligand excluded by PLIPNA.142: 5 residues within 4Å:- Chain A: U.2652, G.2653
- Chain T: V.73, W.76
- Ligands: NA.248
Ligand excluded by PLIPNA.143: 5 residues within 4Å:- Chain A: G.2533, G.2604, G.2609, U.2638
- Ligands: MG.82
Ligand excluded by PLIPNA.144: 3 residues within 4Å:- Chain A: U.1733, U.1734, G.2026
Ligand excluded by PLIPNA.145: 3 residues within 4Å:- Chain A: G.674, A.675, G.676
Ligand excluded by PLIPNA.146: 3 residues within 4Å:- Chain A: G.884, G.885, C.886
Ligand excluded by PLIPNA.147: 5 residues within 4Å:- Chain A: U.2656, A.2804, A.2805, A.2809, G.2810
Ligand excluded by PLIPNA.148: 5 residues within 4Å:- Chain A: A.907, C.908, C.1036, C.1037, G.1038
Ligand excluded by PLIPNA.149: 4 residues within 4Å:- Chain A: U.616, U.617, C.626, G.894
Ligand excluded by PLIPNA.150: 3 residues within 4Å:- Chain A: A.948
- Chain B: C.81, U.82
Ligand excluded by PLIPNA.151: 4 residues within 4Å:- Chain A: A.1033, G.1288, A.1289
- Chain N: G.15
Ligand excluded by PLIPNA.152: 4 residues within 4Å:- Chain A: U.761, C.762, G.2104, A.2105
Ligand excluded by PLIPNA.153: 5 residues within 4Å:- Chain A: G.1112, C.1236, U.1237
- Chain L: I.46, T.47
Ligand excluded by PLIPNA.154: 5 residues within 4Å:- Chain A: C.913, U.2271, G.2272, A.2456, A.2460
Ligand excluded by PLIPNA.155: 4 residues within 4Å:- Chain A: G.934, U.935, G.1017, C.1018
Ligand excluded by PLIPNA.156: 3 residues within 4Å:- Chain A: G.2604
- Chain D: W.243
- Ligands: MG.9
Ligand excluded by PLIPNA.157: 5 residues within 4Å:- Chain A: G.891, A.915, A.916, G.917, U.2102
Ligand excluded by PLIPNA.158: 4 residues within 4Å:- Chain A: A.446, U.447, C.471, G.472
Ligand excluded by PLIPNA.159: 4 residues within 4Å:- Chain A: U.830
- Chain D: Q.231, G.232, W.233
Ligand excluded by PLIPNA.160: 5 residues within 4Å:- Chain A: A.160, C.161, G.2103, G.2104, U.2270
Ligand excluded by PLIPNA.161: 3 residues within 4Å:- Chain A: U.1352, C.1353
- Chain E: G.66
Ligand excluded by PLIPNA.162: 3 residues within 4Å:- Chain A: G.629, U.2050, G.2051
Ligand excluded by PLIPNA.163: 7 residues within 4Å:- Chain A: U.384, U.385, U.391, C.392
- Chain O: K.194, G.195, K.196
Ligand excluded by PLIPNA.164: 5 residues within 4Å:- Chain A: G.537, G.538, C.539, G.603, U.604
Ligand excluded by PLIPNA.165: 3 residues within 4Å:- Chain A: G.457, G.468
- Chain E: R.55
Ligand excluded by PLIPNA.166: 5 residues within 4Å:- Chain A: G.791, C.792, G.807, U.808, G.809
Ligand excluded by PLIPNA.167: 3 residues within 4Å:- Chain A: G.383, U.384, U.391
Ligand excluded by PLIPNA.168: 2 residues within 4Å:- Chain A: G.1825, A.2015
Ligand excluded by PLIPNA.169: 5 residues within 4Å:- Chain A: G.2484, U.2485, U.2521, G.2522, C.2523
Ligand excluded by PLIPNA.170: 4 residues within 4Å:- Chain A: U.912, G.914, A.915, G.917
Ligand excluded by PLIPNA.171: 5 residues within 4Å:- Chain A: G.1569, U.1570, G.1611, G.1612, C.1613
Ligand excluded by PLIPNA.172: 4 residues within 4Å:- Chain A: C.188, G.189, A.408, G.409
Ligand excluded by PLIPNA.173: 4 residues within 4Å:- Chain A: G.861, G.862, A.879, G.880
Ligand excluded by PLIPNA.174: 6 residues within 4Å:- Chain A: A.625, C.626, U.2528, C.2529, A.2531, U.2532
Ligand excluded by PLIPNA.175: 4 residues within 4Å:- Chain A: G.904, U.1286, A.1287, G.1288
Ligand excluded by PLIPNA.176: 3 residues within 4Å:- Chain A: U.824, U.825, G.826
Ligand excluded by PLIPNA.177: 5 residues within 4Å:- Chain A: G.2578, U.2579, U.2580, G.2585, C.2586
Ligand excluded by PLIPNA.178: 1 residues within 4Å:- Chain A: G.2765
Ligand excluded by PLIPNA.179: 1 residues within 4Å:- Chain A: C.190
Ligand excluded by PLIPNA.180: 3 residues within 4Å:- Chain A: G.1070, A.1072, C.1073
Ligand excluded by PLIPNA.192: 6 residues within 4Å:- Chain A: U.301, U.328, A.332, C.335
- Chain V: S.95, N.96
Ligand excluded by PLIPNA.216: 6 residues within 4Å:- Chain B: G.21, G.22, U.55, A.57, G.58, C.59
Ligand excluded by PLIPNA.221: 6 residues within 4Å:- Chain A: A.2626
- Chain C: F.202, G.203, G.204, H.209, P.210
Ligand excluded by PLIPNA.225: 4 residues within 4Å:- Chain E: D.45, T.94, E.95, K.96
Ligand excluded by PLIPNA.228: 6 residues within 4Å:- Chain A: A.1126, G.1127
- Chain J: Y.157, I.160, T.161, P.162
Ligand excluded by PLIPNA.229: 2 residues within 4Å:- Chain A: C.2280
- Chain J: R.117
Ligand excluded by PLIPNA.230: 4 residues within 4Å:- Chain L: R.60, V.61, I.63, Y.69
Ligand excluded by PLIPNA.235: 6 residues within 4Å:- Chain A: C.755, G.895, U.896
- Chain N: H.19, N.21, R.22
Ligand excluded by PLIPNA.236: 7 residues within 4Å:- Chain N: R.28, G.29, G.30, G.32, A.34, E.40
- Ligands: MG.238
Ligand excluded by PLIPNA.239: 4 residues within 4Å:- Chain O: S.107, F.110, P.111, L.113
Ligand excluded by PLIPNA.247: 5 residues within 4Å:- Chain S: N.17, D.21, G.23, S.25, S.47
Ligand excluded by PLIPNA.248: 5 residues within 4Å:- Chain T: S.71, K.72, V.73, D.74
- Ligands: NA.142
Ligand excluded by PLIPNA.249: 4 residues within 4Å:- Chain A: G.6
- Chain T: K.61, Q.62, N.64
Ligand excluded by PLIPNA.252: 2 residues within 4Å:- Chain U: H.8, E.62
Ligand excluded by PLIP- 30 x CL: CHLORIDE ION(Non-functional Binders)
CL.181: 3 residues within 4Å:- Chain 3: K.3
- Chain A: G.1445, G.1669
Ligand excluded by PLIPCL.182: 4 residues within 4Å:- Chain A: C.190, G.194, U.195, G.222
Ligand excluded by PLIPCL.183: 4 residues within 4Å:- Chain A: C.2381
- Chain S: F.53, H.54, F.57
Ligand excluded by PLIPCL.184: 6 residues within 4Å:- Chain A: G.2575, A.2589
- Chain M: K.14, I.32, S.33, P.45
Ligand excluded by PLIPCL.185: 4 residues within 4Å:- Chain A: G.1292, G.1293, A.1321, G.1322
Ligand excluded by PLIPCL.186: 3 residues within 4Å:- Chain A: G.637
- Chain N: Q.8, H.14
Ligand excluded by PLIPCL.187: 4 residues within 4Å:- Chain A: A.1590, A.1591, G.1639, G.1640
Ligand excluded by PLIPCL.188: 4 residues within 4Å:- Chain A: G.1112, C.1236
- Chain L: Q.52, K.56
Ligand excluded by PLIPCL.189: 3 residues within 4Å:- Chain 0: R.116
- Chain A: C.587, U.588
Ligand excluded by PLIPCL.190: 3 residues within 4Å:- Chain A: G.1065, G.1080, A.1284
Ligand excluded by PLIPCL.209: 2 residues within 4Å:- Chain A: G.554, A.590
Ligand excluded by PLIPCL.210: 2 residues within 4Å:- Chain A: G.2537
- Chain D: H.228
Ligand excluded by PLIPCL.217: 2 residues within 4Å:- Chain B: C.40
- Chain F: K.54
Ligand excluded by PLIPCL.222: 2 residues within 4Å:- Chain C: K.179, M.180
Ligand excluded by PLIPCL.223: 4 residues within 4Å:- Chain A: U.2538
- Chain D: R.224, K.225, H.228
Ligand excluded by PLIPCL.224: 5 residues within 4Å:- Chain D: Y.200, N.267, P.318, N.319, D.320
Ligand excluded by PLIPCL.226: 4 residues within 4Å:- Chain H: Q.56, P.57, E.58
- Chain O: R.28
Ligand excluded by PLIPCL.227: 2 residues within 4Å:- Chain I: G.82, Q.83
Ligand excluded by PLIPCL.231: 4 residues within 4Å:- Chain G: P.37
- Chain L: N.126, I.127, K.128
Ligand excluded by PLIPCL.232: 4 residues within 4Å:- Chain L: P.88, H.89, K.90, K.91
Ligand excluded by PLIPCL.233: 5 residues within 4Å:- Chain L: G.64, N.65, G.68, Y.69, F.70
Ligand excluded by PLIPCL.237: 4 residues within 4Å:- Chain A: A.686
- Chain N: K.53, R.54, Q.59
Ligand excluded by PLIPCL.240: 6 residues within 4Å:- Chain O: S.107, R.114, V.115, D.158, R.159, V.160
Ligand excluded by PLIPCL.241: 4 residues within 4Å:- Chain F: K.147
- Chain P: R.38, K.39, N.108
Ligand excluded by PLIPCL.244: 3 residues within 4Å:- Chain A: G.738
- Chain Q: N.45, R.48
Ligand excluded by PLIPCL.245: 2 residues within 4Å:- Chain Q: Q.54, E.55
Ligand excluded by PLIPCL.250: 1 residues within 4Å:- Chain T: K.119
Ligand excluded by PLIPCL.251: 6 residues within 4Å:- Chain T: A.31, R.34, F.60, K.61, Q.62, H.63
Ligand excluded by PLIPCL.257: 3 residues within 4Å:- Chain 0: R.170
- Chain A: G.1262, A.1321
Ligand excluded by PLIPCL.265: 4 residues within 4Å:- Chain 4: K.24, T.65, D.66, L.67
Ligand excluded by PLIP- 4 x ACY: ACETIC ACID(Non-functional Binders)
ACY.212: 7 residues within 4Å:- Chain A: U.2749, A.2750, G.2854, C.2888, A.2889, C.2890
- Chain D: Q.337
1 PLIP interactions:1 interactions with chain D- Hydrogen bonds: D:Q.337
ACY.213: 3 residues within 4Å:- Chain A: U.959, U.960, G.995
No protein-ligand interaction detected (PLIP)ACY.214: 4 residues within 4Å:- Chain A: G.37, A.38, U.139, G.140
No protein-ligand interaction detected (PLIP)ACY.255: 4 residues within 4Å:- Chain Y: H.2, E.37, R.42, K.140
3 PLIP interactions:3 interactions with chain Y- Hydrophobic interactions: Y:R.42
- Salt bridges: Y:H.2, Y:K.140
- 5 x CD: CADMIUM ION(Non-covalent)
CD.243: 1 residues within 4Å:- Chain Q: H.41
3 PLIP interactions:1 interactions with chain Q, 2 Ligand-Water interactions- Metal complexes: Q:H.41, H2O.272, H2O.273
CD.254: 4 residues within 4Å:- Chain W: C.7, C.10, C.33, C.37
4 PLIP interactions:4 interactions with chain W- Metal complexes: W:C.7, W:C.10, W:C.33, W:C.37
CD.261: 4 residues within 4Å:- Chain 1: C.39, C.42, C.57, C.60
4 PLIP interactions:4 interactions with chain 1- Metal complexes: 1:C.39, 1:C.42, 1:C.57, 1:C.60
CD.262: 4 residues within 4Å:- Chain 2: C.20, C.23, C.35, C.38
4 PLIP interactions:4 interactions with chain 2- Metal complexes: 2:C.20, 2:C.23, 2:C.35, 2:C.38
CD.264: 4 residues within 4Å:- Chain 4: C.11, C.14, C.71, C.74
4 PLIP interactions:4 interactions with chain 4- Metal complexes: 4:C.11, 4:C.14, 4:C.71, 4:C.74
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Gabdulkhakov, A. et al., Revisiting the Haloarcula marismortui 50S ribosomal subunit model. Acta Crystallogr.,Sect.D (2013)
- Release Date
- 2014-07-09
- Peptides
- 50S ribosomal protein L2P: C
50S ribosomal protein L3P: D
50S ribosomal protein L4P: E
50S ribosomal protein L5P: F
50S ribosomal protein L6P: G
50S ribosomal protein L7Ae: H
50S ribosomal protein L10E: I
50S ribosomal protein L10e: J
50S ribosomal protein L11P: K
50S ribosomal protein L13P: L
50S ribosomal protein L14P: M
50S ribosomal protein L15P: N
50S ribosomal protein L15e: O
50S ribosomal protein L18P: P
50S ribosomal protein L18e: Q
50S ribosomal protein L19e: R
50S ribosomal protein L21e: S
50S ribosomal protein L22P: T
50S ribosomal protein L23P: U
50S ribosomal protein L24P: V
50S ribosomal protein L24e: W
50S ribosomal protein L29P: X
50S ribosomal protein L30P: Y
50S ribosomal protein L31e: Z
50S ribosomal protein L32e: 0
50S ribosomal protein L37Ae: 1
50S ribosomal protein L37e: 2
50S ribosomal protein L39e: 3
50S ribosomal protein L44e: 4
50S ribosomal protein L12: 56
50S ribosomal protein LX: 7 - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:C
AD
BE
CF
DG
EH
FI
GJ
HK
IL
JM
KN
LO
MP
NQ
OR
PS
QT
RU
SV
TW
UX
VY
WZ
X0
Y1
Z2
13
24
35
46
57
6
SMTL ID : 4v9f.1
The re-refined crystal structure of the Haloarcula marismortui large ribosomal subunit at 2.4 Angstrom resolution: more complete structure of the L7/L12 and L1 stalk, L5 and LX proteins
50S ribosomal protein L2P
50S ribosomal protein L3P
50S ribosomal protein L4P
50S ribosomal protein L5P
50S ribosomal protein L6P
50S ribosomal protein L7Ae
50S ribosomal protein L10E
50S ribosomal protein L10e
50S ribosomal protein L11P
50S ribosomal protein L13P
50S ribosomal protein L14P
50S ribosomal protein L15P
50S ribosomal protein L15e
50S ribosomal protein L18P
50S ribosomal protein L18e
50S ribosomal protein L19e
50S ribosomal protein L21e
50S ribosomal protein L22P
50S ribosomal protein L23P
50S ribosomal protein L24P
50S ribosomal protein L24e
50S ribosomal protein L29P
50S ribosomal protein L30P
50S ribosomal protein L31e
50S ribosomal protein L32e
50S ribosomal protein L37Ae
50S ribosomal protein L37e
50S ribosomal protein L39e
50S ribosomal protein L44e
50S ribosomal protein L12
50S ribosomal protein LX
Related Entries With Identical Sequence
1jj2.1 | 1k73.1 | 1k8a.1 | 1k9m.1 | 1kc8.1 | 1kd1.1 | 1kqs.1 | 1m1k.1 | 1m90.1 | 1n8r.1 | 1nji.1 | 1q7y.1 | 1q81.1 | 1q82.1 | 1q86.1 | 1qvf.1 | 1qvg.1 | 1s72.1 | 1vq4.1 | 1vq5.1 | 1vq6.1 | 1vq7.1 | 1vq8.1 | 1vq9.1 | 1vqk.1 | 1vql.1 | 1vqm.1 | 1vqn.1 | 1vqo.1 | 1vqp.1 more...less...1w2b.1 | 1yhq.1 | 1yi2.1 | 1yij.1 | 1yit.1 | 1yj9.1 | 1yjn.1 | 1yjw.1 | 2otj.1 | 2otl.1 | 2qa4.1 | 2qex.1 | 3cc2.1 | 3cc4.1 | 3cc7.1 | 3cce.1 | 3ccj.1 | 3ccl.1 | 3ccm.1 | 3ccq.1 | 3ccr.1 | 3ccs.1 | 3ccu.1 | 3ccv.1 | 3cd6.1 | 3cma.1 | 3cme.1 | 3cpw.1 | 3cxc.1 | 3g4s.1 | 3g6e.1 | 3g71.1 | 3i55.1 | 3i56.1 | 3ow2.1 | 4v4p.1 | 4v4r.1 | 4v4s.1 | 4v4t.1 | 4wz7.1 | 6sg9.1