Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	E	Y	K	D	N	L	L	G	E	A	N	S	F	L	E	V	L	E	Q	V	S	H	L	A	P	L	D	K	P	V	L	I	I	G	E	R	G	T	G	K	E	L	I	A	S	R	L	H	Y	L	S	S	R	W	Q	G	P	F
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?																																								?		?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		I	S	L	N	C	A	A	L	N	E	N	L	L	D	S	E	L	F	G	H	E	A	G	A	F	T	G	A	Q	K	R	H	P	G	R	F	E	R	A	D	G	G	T	L	F	L	D	E	L	A	T	A	P	M	M	V	Q	E	K	L
Secondary structure
SS confidence
Disorder																														?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	R	V	I	E	Y	G	E	L	E	R	V	G	G	S	Q	P	L	Q	V	N	V	R	L	V	C	A	T	N	A	D	L	P	A	M	V	N	E	G	T	F	R	A	D	L	L	D	R	L	A	F	D	V	V	Q	L	P	P	L	R
Secondary structure
SS confidence
Disorder													?																										?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		E	R	E	S	D	I	M	L	M	A	E	Y	F	A	I	Q	M	C	R	E	I	K	L	P	L	F	P	G	F	T	E	R	A	R	E	T	L	L	N	Y	R	W	P	G	N	I	R	E	L	K	N	V	V	E	R	S	V	Y	R	H
Secondary structure
SS confidence
Disorder																										?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		G	T	S	D	Y	P	L	D	D	I	I	I	D	P	F	K	R	R	P	P	E	D	A	I	A	V	S	E	T	T	S	L	P	T	L	P	L	D	L	R	E	F	Q	M	Q	Q	E	K	E	L	L	Q	L	S	L	Q	Q	G	K	Y
Secondary structure
SS confidence
Disorder							?					?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?																						?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.
Sequence		N	Q	K	R	A	A	E	L	L	G	L	T	Y	H	Q	F	R	A	L	L	K	K	H	Q	I
Secondary structure
SS confidence
Disorder		?																						?	?	?
Disorder confidence

Confidence Key
High(9)											Low (0)

?	Disordered
	Alpha helix
	Beta strand

Domain analysis

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

Rank Aligned region

PDB 1ny5 chain A Region: 5 - 254 Aligned: 249 Modelled: 250 Confidence: 100.0% Identity: 43% PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator (ntrc family); PDBTitle: crystal structure of sigm54 activator (aaa+ atpase) in the inactive2 state Phyre2 PDB 3dzd chain A Region: 7 - 246 Aligned: 238 Modelled: 240 Confidence: 100.0% Identity: 45% PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator (ntrc family); PDBTitle: crystal structure of sigma54 activator ntrc4 in the inactive2 state Phyre2 PDB 2c99 chain A Region: 8 - 257 Aligned: 243 Modelled: 250 Confidence: 100.0% Identity: 100% PDB header:transcription regulation Chain: A: PDB Molecule:psp operon transcriptional activator; PDBTitle: structural basis of the nucleotide driven conformational2 changes in the aaa domain of transcription activator pspf Phyre2 PDB 1ny5 chain A domain 2 Region: 7 - 254 Aligned: 247 Modelled: 248 Confidence: 100.0% Identity: 43% Fold: P-loop containing nucleoside triphosphate hydrolases Superfamily: P-loop containing nucleoside triphosphate hydrolases Family: Extended AAA-ATPase domain Phyre2 PDB 1ojl chain F Region: 7 - 257 Aligned: 247 Modelled: 251 Confidence: 100.0% Identity: 45% PDB header:response regulator Chain: F: PDB Molecule:transcriptional regulatory protein zrar; PDBTitle: crystal structure of a sigma54-activator suggests the2 mechanism for the conformational switch necessary for3 sigma54 binding Phyre2 PDB 1qvr chain B Region: 5 - 238 Aligned: 218 Modelled: 221 Confidence: 99.9% Identity: 23% PDB header:chaperone Chain: B: PDB Molecule:clpb protein; PDBTitle: crystal structure analysis of clpb Phyre2 PDB 3co5 chain B Region: 11 - 179 Aligned: 132 Modelled: 146 Confidence: 99.9% Identity: 26% PDB header:transcription regulator Chain: B: PDB Molecule:putative two-component system transcriptional response PDBTitle: crystal structure of sigma-54 interaction domain of putative2 transcriptional response regulator from neisseria gonorrhoeae Phyre2 PDB 1r6b chain X domain 3 Region: 5 - 240 Aligned: 231 Modelled: 236 Confidence: 99.9% Identity: 19% Fold: P-loop containing nucleoside triphosphate hydrolases Superfamily: P-loop containing nucleoside triphosphate hydrolases Family: Extended AAA-ATPase domain Phyre2 PDB 1um8 chain A Region: 2 - 240 Aligned: 225 Modelled: 228 Confidence: 99.9% Identity: 21% Fold: P-loop containing nucleoside triphosphate hydrolases Superfamily: P-loop containing nucleoside triphosphate hydrolases Family: Extended AAA-ATPase domain Phyre2 PDB 3pxi chain B Region: 5 - 238 Aligned: 213 Modelled: 218 Confidence: 99.9% Identity: 19% PDB header:protein binding Chain: B: PDB Molecule:negative regulator of genetic competence clpc/mecb; PDBTitle: structure of meca108:clpc Phyre2 PDB 3pfi chain B Region: 5 - 323 Aligned: 251 Modelled: 284 Confidence: 99.9% Identity: 14% PDB header:hydrolase Chain: B: PDB Molecule:holliday junction atp-dependent dna helicase ruvb; PDBTitle: 2.7 angstrom resolution crystal structure of a probable holliday2 junction dna helicase (ruvb) from campylobacter jejuni subsp. jejuni3 nctc 11168 in complex with adenosine-5'-diphosphate Phyre2 PDB 1r6b chain X Region: 2 - 237 Aligned: 230 Modelled: 236 Confidence: 99.9% Identity: 21% PDB header:hydrolase Chain: X: PDB Molecule:clpa protein; PDBTitle: high resolution crystal structure of clpa Phyre2 PDB 1qvr chain A domain 3 Region: 2 - 238 Aligned: 222 Modelled: 224 Confidence: 99.9% Identity: 21% Fold: P-loop containing nucleoside triphosphate hydrolases Superfamily: P-loop containing nucleoside triphosphate hydrolases Family: Extended AAA-ATPase domain Phyre2 PDB 1in8 chain A Region: 5 - 323 Aligned: 253 Modelled: 267 Confidence: 99.8% Identity: 14% PDB header:dna binding protein Chain: A: PDB Molecule:holliday junction dna helicase ruvb; PDBTitle: thermotoga maritima ruvb t158v Phyre2 PDB 3nbx chain X Region: 1 - 303 Aligned: 258 Modelled: 262 Confidence: 99.8% Identity: 17% PDB header:hydrolase Chain: X: PDB Molecule:atpase rava; PDBTitle: crystal structure of e. coli rava (regulatory atpase variant a) in2 complex with adp Phyre2 PDB 3k1j chain A Region: 5 - 255 Aligned: 240 Modelled: 251 Confidence: 99.8% Identity: 24% PDB header:hydrolase Chain: A: PDB Molecule:atp-dependent protease lon; PDBTitle: crystal structure of lon protease from thermococcus onnurineus na1 Phyre2 PDB 3pvs chain A Region: 5 - 309 Aligned: 252 Modelled: 272 Confidence: 99.8% Identity: 13% PDB header:recombination Chain: A: PDB Molecule:replication-associated recombination protein a; PDBTitle: structure and biochemical activities of escherichia coli mgsa Phyre2 PDB 3hte chain C Region: 2 - 250 Aligned: 233 Modelled: 249 Confidence: 99.7% Identity: 18% PDB header:motor protein Chain: C: PDB Molecule:atp-dependent clp protease atp-binding subunit clpx; PDBTitle: crystal structure of nucleotide-free hexameric clpx Phyre2 PDB 2r44 chain A Region: 1 - 320 Aligned: 265 Modelled: 275 Confidence: 99.7% Identity: 18% PDB header:hydrolase Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a putative atpase (chu_0153) from cytophaga2 hutchinsonii atcc 33406 at 2.00 a resolution Phyre2 PDB 1l8q chain A domain 2 Region: 3 - 239 Aligned: 202 Modelled: 237 Confidence: 99.7% Identity: 17% Fold: P-loop containing nucleoside triphosphate hydrolases Superfamily: P-loop containing nucleoside triphosphate hydrolases Family: Extended AAA-ATPase domain Phyre2 1 c1ny5A_ 2 c3dzdA_ 3 c2c99A_ 4 d1ny5a2 5 c1ojlF_ 6 c1qvrB_ 7 c3co5B_ 8 d1r6bx3 9 d1um8a_ 10 c3pxiB_ 11 c3pfiB_ 12 c1r6bX_ 13 d1qvra3 14 c1in8A_ 15 c3nbxX_ 16 c3k1jA_ 17 c3pvsA_ 18 c3hteC_ 19 c2r44A_ 20 d1l8qa2 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 256 257 258 259 260 261 262 263 264 265 266 267 268 269 270 271 272 273 274 275 276 277 278 279 280 281 282 283 284 285 286 287 288 289 290 291 292 293 294 295 296 297 298 299 300 301 302 303 304 305 306 307 308 309 310 311 312 313 314 315 316 317 318 319 320 321 322 323 324 325 326 327 328 329 330 331 332 333 334 335 336 337 338 339 340 341 342 343 344 345 346 347 348 349 350 351 352 353 354 355 356 357 358 359 360 361 362 363 364 365 366 367 368 369 370 371 372 373 374 375 376 377 378 379 380 381 382 383 384 385 386 387 388 389 390 391 392 393 394 395 396 397 398 399 400 401 402 403 404 405 406 407 408 409 410 411 412 413 414 415 416 417 418 419 420 421 422 423 424 425 426 427 428 429 430 431 432 433 434 435 436 437 438 439 440 441 442 443 444 445 446 447 448 449 450 451 452 453 454 455 456 457 458 459 460 461 462 463 464 465 466 467 468 469 470 471 472 473 474 475 476 477 478 479 480 481 482 483 484 485 486 487 488 489 490 491 492 493 494 495 496 497 498 499