4YPB

Precleavage 70S structure of the P. vulgaris HigB DeltaH92 toxin bound to the AAA codon


Sequence Similarity Clusters for the Entities in PDB 4YPB

Entity #1 | Chains: QA,XA
16S rRNA rna, length: 1522 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #10 | Chains: QJ,XJ
30S ribosomal protein S10 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 168 325 33
95 % 168 326 54
90 % 168 326 58
70 % 168 326 66
50 % 197 511 22
40 % 197 511 32
30 % 197 533 30
Entity #11 | Chains: QK,XK
30S ribosomal protein S11 protein, length: 129 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 168 327 29
95 % 168 327 51
90 % 168 327 53
70 % 168 327 62
50 % 196 510 24
40 % 196 510 34
30 % 196 510 38
Entity #12 | Chains: QL,XL
30S ribosomal protein S12 protein, length: 132 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 96 240 52
95 % 168 334 41
90 % 168 334 45
70 % 197 514 15
50 % 197 529 16
40 % 197 529 25
30 % 197 529 32
Entity #13 | Chains: QM,XM
30S ribosomal protein S13 protein, length: 126 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 168 328 28
95 % 168 328 47
90 % 168 328 51
70 % 168 328 59
50 % 199 514 23
40 % 199 514 33
30 % 199 514 37
Entity #14 | Chains: QN,XN
30S ribosomal protein S14 protein, length: 61 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 168 326 32
95 % 168 326 53
90 % 168 326 57
70 % 168 344 50
50 % 168 344 85
40 % 168 344 100
30 % 168 344 102
Entity #15 | Chains: QO,XO
30S ribosomal protein S15 protein, length: 89 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 168 330 26
95 % 172 335 40
90 % 172 335 44
70 % 172 335 53
50 % 203 523 17
40 % 203 523 28
30 % 203 523 33
Entity #16 | Chains: QP,XP
30S ribosomal protein S16 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 168 322 34
95 % 168 327 49
90 % 168 327 55
70 % 168 327 60
50 % 168 327 87
40 % 168 327 102
30 % 168 327 104
Entity #17 | Chains: QQ,XQ
30S ribosomal protein S17 protein, length: 105 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 128 219 53
95 % 167 320 56
90 % 168 324 59
70 % 168 324 67
50 % 168 324 89
40 % 168 324 104
30 % 168 324 108
Entity #18 | Chains: QR,XR
30S ribosomal protein S18 protein, length: 88 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 129 217 57
95 % 146 271 71
90 % 146 271 73
70 % 146 271 83
50 % 146 271 106
40 % 146 271 126
30 % 146 271 135
Entity #19 | Chains: QS,XS
30S ribosomal protein S19 protein, length: 93 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 151 285 42
95 % 151 285 61
90 % 151 285 67
70 % 169 330 55
50 % 197 516 20
40 % 197 516 30
30 % 197 516 35
Entity #2 | Chains: QB,XB
30S ribosomal protein S2 protein, length: 256 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 168 326 31
95 % 168 328 44
90 % 168 328 49
70 % 168 328 57
50 % 196 503 26
40 % 196 509 35
30 % 196 509 39
Entity #20 | Chains: QT,XT
30S ribosomal protein S20 protein, length: 106 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 152 270 46
95 % 168 326 52
90 % 168 326 56
70 % 168 326 64
50 % 168 326 88
40 % 168 326 103
30 % 168 326 105
Entity #21 | Chains: QU,XU
30S ribosomal protein Thx protein, length: 27 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 154 284 43
95 % 154 284 65
90 % 154 284 70
70 % 154 284 80
50 % 154 284 101
40 % 154 284 121
30 % 154 284 130
Entity #22 | Chains: QV,QW,XV,XW
tRNA fMet rna, length: 77 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #23 | Chains: QX,XX
messenger RNA rna, length: 25 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #24 | Chains: QY,XY
Host inhibition of growth B protein, length: 117 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 3 3 16951
95 % 6 8 3785
90 % 6 8 3850
70 % 6 8 3892
50 % 6 8 3820
40 % 6 8 3758
30 % 6 8 3682
Entity #25 | Chains: RA,YA
23S rRNA rna, length: 2916 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #26 | Chains: RB,YB
5S rRNA rna, length: 124 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #27 | Chains: RD,YD
50S ribosomal protein L2 protein, length: 276 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 195 67
95 % 93 195 94
90 % 93 195 100
70 % 96 219 89
50 % 127 430 49
40 % 127 430 58
30 % 127 430 59
Entity #28 | Chains: RE,YE
50S ribosomal protein L3 protein, length: 206 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 194 66
95 % 92 194 92
90 % 92 194 98
70 % 92 194 111
50 % 133 436 50
40 % 133 440 54
30 % 133 441 56
Entity #29 | Chains: RF,YF
50S ribosomal protein L4 protein, length: 210 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 179 83
95 % 93 195 86
90 % 93 195 97
70 % 93 195 107
50 % 96 224 114
40 % 96 234 133
30 % 128 422 66
Entity #3 | Chains: QC,XC
30S ribosomal protein S3 protein, length: 239 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 145 271 48
95 % 145 271 72
90 % 145 271 74
70 % 145 271 84
50 % 151 348 84
40 % 151 348 99
30 % 151 348 101
Entity #30 | Chains: RG,YG
50S ribosomal protein L5 protein, length: 182 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 94 180 80
95 % 95 197 80
90 % 95 197 86
70 % 98 221 85
50 % 133 427 51
40 % 133 427 59
30 % 133 427 60
Entity #31 | Chains: RH,YH
50S ribosomal protein L6 protein, length: 180 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 194 64
95 % 92 194 88
90 % 92 194 94
70 % 92 194 109
50 % 96 240 108
40 % 127 433 55
30 % 127 437 55
Entity #32 | Chains: RI,YI
50S ribosomal protein L9 protein, length: 148 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 80 138 103
95 % 81 160 122
90 % 81 160 127
70 % 81 160 139
50 % 81 165 158
40 % 107 338 96
30 % 107 341 96
Entity #33 | Chains: RN,YN
50S ribosomal protein L13 protein, length: 140 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 190 73
95 % 92 191 100
90 % 92 191 104
70 % 92 191 116
50 % 93 196 132
40 % 124 403 72
30 % 124 403 73
Entity #34 | Chains: RO,YO
50S ribosomal protein L14 protein, length: 122 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 91 169 89
95 % 92 194 89
90 % 92 194 95
70 % 99 261 77
50 % 127 443 44
40 % 127 443 51
30 % 127 443 52
Entity #35 | Chains: RP,YP
50S ribosomal protein L15 protein, length: 150 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 194 65
95 % 92 194 90
90 % 92 194 96
70 % 92 194 110
50 % 95 228 111
40 % 126 425 63
30 % 126 425 64
Entity #36 | Chains: RQ,YQ
50S ribosomal protein L16 protein, length: 141 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 91 178 84
95 % 92 195 82
90 % 92 195 88
70 % 95 222 87
50 % 126 431 47
40 % 126 431 56
30 % 126 431 57
Entity #37 | Chains: RR,YR
50S ribosomal protein L17 protein, length: 118 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 199 51
95 % 93 199 76
90 % 93 199 81
70 % 93 199 96
50 % 124 396 57
40 % 127 427 53
30 % 127 429 54
Entity #38 | Chains: RS,YS
50S ribosomal protein L18 protein, length: 112 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 179 81
95 % 92 179 108
90 % 92 179 114
70 % 92 179 125
50 % 126 411 59
40 % 126 411 74
30 % 126 411 76
Entity #39 | Chains: RT,YT
50S ribosomal protein L19 protein, length: 146 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 91 175 86
95 % 92 192 97
90 % 92 192 102
70 % 88 184 122
50 % 88 184 141
40 % 88 184 157
30 % 88 184 160
Entity #4 | Chains: QD,XD
30S ribosomal protein S4 protein, length: 209 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 166 320 36
95 % 168 328 45
90 % 168 328 50
70 % 168 328 58
50 % 196 490 32
40 % 196 517 29
30 % 196 517 34
Entity #40 | Chains: RU,YU
50S ribosomal protein L20 protein, length: 118 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 189 74
95 % 92 194 93
90 % 92 194 99
70 % 92 194 112
50 % 127 430 46
40 % 127 438 52
30 % 127 438 53
Entity #41 | Chains: RV,YV
50S ribosomal protein L21 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 194 68
95 % 92 194 96
90 % 92 194 93
70 % 92 194 114
50 % 98 246 105
40 % 126 425 61
30 % 126 425 62
Entity #42 | Chains: RW,YW
50S ribosomal protein L22 protein, length: 113 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 202 55
95 % 94 203 78
90 % 94 203 84
70 % 94 203 98
50 % 125 399 60
40 % 125 399 76
30 % 125 399 77
Entity #43 | Chains: RX,YX
50S ribosomal protein L23 protein, length: 96 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 195 59
95 % 92 195 84
90 % 92 195 90
70 % 92 195 105
50 % 95 221 116
40 % 98 255 122
30 % 98 255 132
Entity #44 | Chains: RY,YY
50S ribosomal protein L24 protein, length: 110 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 194 69
95 % 92 194 95
90 % 92 194 101
70 % 92 194 113
50 % 123 403 58
40 % 123 403 73
30 % 123 405 74
Entity #45 | Chains: RZ,YZ
50S ribosomal protein L25 protein, length: 206 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 194 70
95 % 94 195 83
90 % 94 195 89
70 % 94 195 104
50 % 94 195 133
40 % 94 195 149
30 % 97 207 148
Entity #46 | Chains: R0,Y0
50S ribosomal protein L27 protein, length: 85 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 89 176 85
95 % 93 195 81
90 % 93 195 87
70 % 93 195 103
50 % 128 428 48
40 % 128 428 57
30 % 128 428 58
Entity #47 | Chains: R1,Y1
50S ribosomal protein L28 protein, length: 98 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 91 165 92
95 % 92 186 101
90 % 92 186 106
70 % 92 186 117
50 % 92 186 138
40 % 92 186 155
30 % 92 186 158
Entity #48 | Chains: R2,Y2
50S ribosomal protein L29 protein, length: 72 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 179 77
95 % 92 187 104
90 % 92 187 108
70 % 92 187 121
50 % 92 187 139
40 % 120 364 88
30 % 123 390 81
Entity #49 | Chains: R3,Y3
50S ribosomal protein L30 protein, length: 60 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 201 54
95 % 93 201 79
90 % 93 201 85
70 % 93 201 100
50 % 93 201 127
40 % 127 421 65
30 % 127 421 65
Entity #5 | Chains: QE,XE
30S ribosomal protein S5 protein, length: 162 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 168 327 30
95 % 168 327 50
90 % 168 327 54
70 % 168 327 63
50 % 197 507 25
40 % 197 507 36
30 % 197 507 40
Entity #50 | Chains: R4,Y4
50S ribosomal protein L31 protein, length: 71 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 177 90
95 % 92 177 117
90 % 92 177 121
70 % 92 177 132
50 % 92 193 146
40 % 92 264 128
30 % 92 265 137
Entity #51 | Chains: R5,Y5
50S ribosomal protein L32 protein, length: 60 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 91 178 82
95 % 92 189 102
90 % 92 189 107
70 % 92 189 119
50 % 98 246 107
40 % 126 417 68
30 % 126 417 70
Entity #52 | Chains: R6,Y6
50S ribosomal protein L33 protein, length: 54 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 76 174 88
95 % 76 175 115
90 % 76 175 119
70 % 76 175 131
50 % 76 195 143
40 % 107 389 84
30 % 107 389 85
Entity #53 | Chains: R7,Y7
50S ribosomal protein L34 protein, length: 49 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 92 194 62
95 % 92 194 91
90 % 92 194 92
70 % 92 194 108
50 % 123 407 54
40 % 123 407 69
30 % 123 407 71
Entity #54 | Chains: R8,Y8
50S ribosomal protein L35 protein, length: 65 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 93 195 61
95 % 93 195 87
90 % 93 195 91
70 % 93 195 106
50 % 96 223 115
40 % 127 419 67
30 % 127 419 68
Entity #55 | Chains: R9,Y9
50S ribosomal protein L36 protein, length: 37 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 60 144 107
95 % 60 144 139
90 % 60 144 143
70 % 64 202 130
50 % 91 369 79
40 % 91 369 95
30 % 91 369 94
Entity #6 | Chains: QF,XF
30S ribosomal protein S6 protein, length: 101 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 170 332 24
95 % 176 338 39
90 % 176 338 43
70 % 176 338 52
50 % 176 338 86
40 % 176 338 101
30 % 177 360 95
Entity #7 | Chains: QG,XG
30S ribosomal protein S7 protein, length: 156 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 169 331 25
95 % 169 332 43
90 % 169 332 48
70 % 169 330 56
50 % 197 445 53
40 % 197 451 62
30 % 197 451 63
Entity #8 | Chains: QH,XH
30S ribosomal protein S8 protein, length: 138 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 168 327 27
95 % 168 327 46
90 % 169 331 47
70 % 169 331 54
50 % 199 516 19
40 % 199 522 27
30 % 226 680 26
Entity #9 | Chains: QI,XI
30S ribosomal protein S9 protein, length: 128 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 139 226 63
95 % 168 327 48
90 % 168 327 52
70 % 168 327 61
50 % 196 501 28
40 % 196 501 37
30 % 196 501 41

Instructions

In the table for each entity, view a list of similar sequences by selecting the link associated with the percentage cutoff.



View more detailed documentation on the redundancy reduction and sequence clustering procedure used by RCSB PDB.

You can also use the structure comparison tool to compare any 2 given structures