Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	H	K	P	A	H	L	L	L	V	D	D	D	P	G	L	L	K	L	L	G	L	R	L	T	S	E	G	Y	S	V	V	T	A	E	S	G	A	E	G	L	R	V	L	N	R	E	K	V	D	L	V	I	S	D	L	R	M	D
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		E	M	D	G	M	Q	L	F	A	E	I	Q	K	V	Q	P	G	M	P	V	I	I	L	T	A	H	G	S	I	P	D	A	V	A	A	T	Q	Q	G	V	F	S	F	L	T	K	P	V	D	K	D	A	L	Y	Q	A	I	D	D	A
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	E	Q	S	A	P	A	T	D	E	R	W	R	E	A	I	V	T	R	S	P	L	M	L	R	L	L	E	Q	A	R	L	V	A	Q	S	D	V	S	V	L	I	N	G	Q	S	G	T	G	K	E	I	F	A	Q	A	I	H	N	A
Secondary structure
SS confidence
Disorder					?	?			?	?		?	?		?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		S	P	R	N	S	K	P	F	I	A	I	N	C	G	A	L	P	E	Q	L	L	E	S	E	L	F	G	H	A	R	G	A	F	T	G	A	V	S	N	R	E	G	L	F	Q	A	A	E	G	G	T	L	F	L	D	E	I	G	D	M
Secondary structure
SS confidence
Disorder			?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		P	A	P	L	Q	V	K	L	L	R	V	L	Q	E	R	K	V	R	P	L	G	S	N	R	D	I	D	I	N	V	R	I	I	S	A	T	H	R	D	L	P	K	A	M	A	R	G	E	F	R	E	D	L	Y	Y	R	L	N	V	V
Secondary structure
SS confidence
Disorder																					?		?																								?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		S	L	K	I	P	A	L	A	E	R	T	E	D	I	P	L	L	A	N	H	L	L	R	Q	A	A	E	R	H	K	P	F	V	R	A	F	S	T	D	A	M	K	R	L	M	T	A	S	W	P	G	N	V	R	Q	L	V	N	V	I
Secondary structure
SS confidence
Disorder																														?	?		?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		E	Q	C	V	A	L	T	S	S	P	V	I	S	D	A	L	V	E	Q	A	L	E	G	E	N	T	A	L	P	T	F	V	E	A	R	N	Q	F	E	L	N	Y	L	R	K	L	L	Q	I	T	K	G	N	V	T	H	A	A	R	M
Secondary structure
SS confidence
Disorder													?	?				?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.
Sequence		A	G	R	N	R	T	E	F	Y	K	L	L	S	R	H	E	L	D	A	N	D	F	K	E
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: 6 - 381 Aligned: 376 Modelled: 376 Confidence: 100.0% Identity: 40% 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 - 374 Aligned: 367 Modelled: 368 Confidence: 100.0% Identity: 37% 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: 136 - 378 Aligned: 236 Modelled: 243 Confidence: 100.0% Identity: 39% 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: 135 - 381 Aligned: 247 Modelled: 247 Confidence: 100.0% Identity: 44% 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: 136 - 384 Aligned: 246 Modelled: 249 Confidence: 100.0% Identity: 52% 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 3co5 chain B Region: 139 - 307 Aligned: 132 Modelled: 146 Confidence: 99.9% Identity: 23% 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 2ayx chain A Region: 1 - 130 Aligned: 130 Modelled: 130 Confidence: 99.9% Identity: 32% PDB header:transferase Chain: A: PDB Molecule:sensor kinase protein rcsc; PDBTitle: solution structure of the e.coli rcsc c-terminus (residues2 700-949) containing linker region and phosphoreceiver3 domain Phyre2 PDB 1w25 chain B Region: 5 - 154 Aligned: 150 Modelled: 150 Confidence: 99.9% Identity: 27% PDB header:signaling protein Chain: B: PDB Molecule:stalked-cell differentiation controlling protein; PDBTitle: response regulator pled in complex with c-digmp Phyre2 PDB 3eq2 chain A Region: 5 - 133 Aligned: 126 Modelled: 129 Confidence: 99.9% Identity: 32% PDB header:signaling protein Chain: A: PDB Molecule:probable two-component response regulator; PDBTitle: structure of hexagonal crystal form of pseudomonas2 aeruginosa rssb Phyre2 PDB 2rjn chain A Region: 4 - 135 Aligned: 132 Modelled: 132 Confidence: 99.9% Identity: 24% PDB header:hydrolase Chain: A: PDB Molecule:response regulator receiver:metal-dependent PDBTitle: crystal structure of an uncharacterized protein q2bku2 from2 neptuniibacter caesariensis Phyre2 PDB 1ys7 chain A domain 2 Region: 5 - 124 Aligned: 120 Modelled: 120 Confidence: 99.9% Identity: 30% Fold: Flavodoxin-like Superfamily: CheY-like Family: CheY-related Phyre2 PDB 1qkk chain A Region: 6 - 134 Aligned: 129 Modelled: 129 Confidence: 99.9% Identity: 36% Fold: Flavodoxin-like Superfamily: CheY-like Family: CheY-related Phyre2 PDB 2ayx chain A domain 1 Region: 1 - 130 Aligned: 130 Modelled: 130 Confidence: 99.9% Identity: 33% Fold: Flavodoxin-like Superfamily: CheY-like Family: CheY-related Phyre2 PDB 1ny5 chain A domain 1 Region: 6 - 131 Aligned: 126 Modelled: 126 Confidence: 99.9% Identity: 29% Fold: Flavodoxin-like Superfamily: CheY-like Family: CheY-related Phyre2 PDB 1mvo chain A Region: 1 - 124 Aligned: 121 Modelled: 124 Confidence: 99.9% Identity: 30% Fold: Flavodoxin-like Superfamily: CheY-like Family: CheY-related Phyre2 PDB 1jbe chain A Region: 2 - 123 Aligned: 122 Modelled: 122 Confidence: 99.9% Identity: 29% Fold: Flavodoxin-like Superfamily: CheY-like Family: CheY-related Phyre2 PDB 2a9p chain A domain 1 Region: 7 - 123 Aligned: 116 Modelled: 117 Confidence: 99.9% Identity: 32% Fold: Flavodoxin-like Superfamily: CheY-like Family: CheY-related Phyre2 PDB 1w25 chain A domain 1 Region: 5 - 135 Aligned: 131 Modelled: 131 Confidence: 99.9% Identity: 31% Fold: Flavodoxin-like Superfamily: CheY-like Family: CheY-related Phyre2 PDB 1dbw chain A Region: 4 - 123 Aligned: 120 Modelled: 120 Confidence: 99.9% Identity: 29% Fold: Flavodoxin-like Superfamily: CheY-like Family: CheY-related Phyre2 PDB 3bre chain A Region: 5 - 123 Aligned: 119 Modelled: 119 Confidence: 99.9% Identity: 24% PDB header:signaling protein Chain: A: PDB Molecule:probable two-component response regulator; PDBTitle: crystal structure of p.aeruginosa pa3702 Phyre2 PDB 3pfi chain B Region: 133 - 435 Aligned: 251 Modelled: 245 Confidence: 99.8% Identity: 15% 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 1ntc chain A Region: 348 - 438 Aligned: 90 Modelled: 90 Confidence: 99.6% Identity: 18% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 1eto chain B Region: 350 - 438 Aligned: 82 Modelled: 82 Confidence: 99.5% Identity: 21% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 1 c1ny5A_ 2 c3dzdA_ 3 c2c99A_ 4 d1ny5a2 5 c1ojlF_ 6 c3co5B_ 7 c2ayxA_ 8 c1w25B_ 9 c3eq2A_ 10 c2rjnA_ 11 d1ys7a2 12 d1qkka_ 13 d2ayxa1 14 d1ny5a1 15 d1mvoa_ 16 d1jbea_ 17 d2a9pa1 18 d1w25a1 19 d1dbwa_ 20 c3breA_ 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 c3pfiB_ 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 d1ntca_ 132 133 134 135 136 137 138 139 140 141 142 143 d1etob_ 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