PHYRE Protein Fold Recognition Server

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Protein Homology/analogY Recognition Engine V 2.2

Fold library entry viewer: c7ye1D_

Fold library id	PDB Header	Molecule	Title
c7ye1D_	3.70	PDB header: transcription	Chain: D: PDB Molecule: dna-directed rna polymerase subunit beta';

Links to external resources
Added to library: Sat Jan 21 13:09:26 2023

1 . . . . . . . . 10 . . . . . . . . . 20 . . . . . . . . . 30 . . . . . . . . . 40 . . . . . . . . . 50 . . . . . . . . . 60 . . . . . . . . . 70

Sequence T F D Q I R I S L A S P E K I R S W S F G E I K K P E T I N Y R T F K P E R D G L F C A R I F G P T K D Y E C L C G K Y K R M K Y K G I I C

Predicted secondary structure

SS confidence

Known secondary structure (DSSP)
S
S S B
S S S
S S S S S
S B T T B
G G G S S T T
S
S S
B

. . . . . . . . . 80 . . . . . . . . . 90 . . . . . . . . . 100 . . . . . . . . . 110 . . . . . . . . . 120 . . . . . . . . . 130 . . . . . . . . . 140

Sequence E K C G V E V T L A R V R R E R M G H I E L A S P V A H I W F L K S L P S R I A M M L D M P L K D I E R V L Y F E Y Y I V T E P G L T P L K

Predicted secondary structure

SS confidence

Known secondary structure (DSSP) T T T
B
G G G G G S
S S
S S S S
G G G
T T
S B S
S S S S

. . . . . . . . . 150 . . . . . . . . . 160 . . . . . . . . . 170 . . . . . . . . . 180 . . . . . . . . . 190 . . . . . . . . . 200 . . . . . . . . . 210

Sequence Q H Q L L S E D D Y M R A Q E E Y G D D S F T A E I G A E A I Q N L L K A I D L E K E A E R L R E E L S G T V S D M K Q K K F S K R L K I L

Predicted secondary structure

SS confidence

Known secondary structure (DSSP) T T
B
S T T T
S
S S S
S
S S S
S S

. . . . . . . . . 220 . . . . . . . . . 230 . . . . . . . . . 240 . . . . . . . . . 250 . . . . . . . . . 260 . . . . . . . . . 270 . . . . . . . . . 280

Sequence E A F Q E S G N R P E W M V L T V V P V I P P E L R P L V P L D G G R F A T S D L N D L Y R R V I N R N N R L K R L I E L R A P D I I I R N

Predicted secondary structure

SS confidence

Known secondary structure (DSSP)
G G G S S
S
T T T S
B
T T S
B
T T

. . . . . . . . . 290 . . . . . . . . . 300 . . . . . . . . . 310 . . . . . . . . . 320 . . . . . . . . . 330 . . . . . . . . . 340 . . . . . . . . . 350

Sequence E K R M L Q E S V D A L F D N G R R G R V I T G A N K R P L K S L A D M L K G K Q G R F R Q N L L G K R V D Y S G R S V I V V G P E L K L H

Predicted secondary structure

SS confidence

Known secondary structure (DSSP) T S S S S S
B
S S
S S B
T T T T S S T T T T S S S S
S S B
S S S
S S

. . . . . . . . . 360 . . . . . . . . . 370 . . . . . . . . . 380 . . . . . . . . . 390 . . . . . . . . . 400 . . . . . . . . . 410 . . . . . . . . . 420

Sequence E C G L P K K M A L E L F K P F I Y A R L D A K G L S G T V K Q S K R M V E R E Q P Q V W D I L E E V I R E H P V L L N R A P T L H R L G I

Predicted secondary structure

SS confidence

Known secondary structure (DSSP) T S S
S T
T T S S S
S S
S G G G

. . . . . . . . . 430 . . . . . . . . . 440 . . . . . . . . . 450 . . . . . . . . . 460 . . . . . . . . . 470 . . . . . . . . . 480 . . . . . . . . . 490

Sequence Q A F E P K L I E G K A I Q L H P L V C A A F N A D F D G D Q M A V H V P L S L E A Q L E A R V L M M S T N N I L S P A N G R P I I V P S Q

Predicted secondary structure

SS confidence

Known secondary structure (DSSP) S S S S B
T T T T
S S S
S S B T T T
B
S S S S
B S
S

. . . . . . . . . 500 . . . . . . . . . 510 . . . . . . . . . 520 . . . . . . . . . 530 . . . . . . . . . 540 . . . . . . . . . 550 . . . . . . . . . 560

Sequence D I V L G L Y Y L S V A R D G E P G E G K I F A D L G E I E A A M D A G V V S L H A K I K A R H T E M T P E G V L L R K V I D T T P G R M K

Predicted secondary structure

SS confidence

Known secondary structure (DSSP)
S
S S
S
S S T S S
S S
T T S S
S S T T T

. . . . . . . . . 570 . . . . . . . . . 580 . . . . . . . . . 590 . . . . . . . . . 600 . . . . . . . . . 610 . . . . . . . . . 620 . . . . . . . . . 630

Sequence I A A L L P H H P Q I G H R L I E K A L T K K E I G N L I D I V Y R H C G Q K A T V I F A D K V M G L G F K E A A K A G I S F G K D D I I I

Predicted secondary structure

SS confidence

Known secondary structure (DSSP) S G G G S
S
T T
S G G G G G S
S
T T S
T T T S

. . . . . . . . . 640 . . . . . . . . . 650 . . . . . . . . . 660 . . . . . . . . . 670 . . . . . . . . . 680 . . . . . . . . . 690 . . . . . . . . . 700

Sequence P V R K T A I V E E T R K L A E E Y E Q Q Y I T K G E K Y N K V V D A W A K A T D R V A D E M M A E L Q M K H K D E N G R E K E I N A I Y M

Predicted secondary structure

SS confidence

Known secondary structure (DSSP)
T T
S
S S S S

. . . . . . . . . 710 . . . . . . . . . 720 . . . . . . . . . 730 . . . . . . . . . 740 . . . . . . . . . 750 . . . . . . . . . 760 . . . . . . . . . 770

Sequence M A H S G A R G S Q A Q M K Q L G G M R G L M A K P S G E I I E T P I V S N F K E G L T V Q E Y F N S T H G A R K G L A D T A L K T A N S G

Predicted secondary structure

SS confidence

Known secondary structure (DSSP) T S S
S
B
T T S S B
S S
S S S

. . . . . . . . . 780 . . . . . . . . . 790 . . . . . . . . . 800 . . . . . . . . . 810 . . . . . . . . . 820 . . . . . . . . . 830 . . . . . . . . . 840

Sequence Y L T R R L V D V A Q D C I I V E E D C G T T K G I T L R A V V E G G D V L V S L G S R V L G R F T A E D V K D P G T G E L V V P A D T Y I

Predicted secondary structure

SS confidence

Known secondary structure (DSSP) S T T
B S
T T S S
T T S B B S S
B
S S S
B
S
S S
B

. . . . . . . . . 850 . . . . . . . . . 860 . . . . . . . . . 870 . . . . . . . . . 880 . . . . . . . . . 890 . . . . . . . . . 900 . . . . . . . . . 910

Sequence D E N I A D A I E A A V V Q S V K V R S V L T C E A K I G V C G A C Y G R D L A R G T P V N I G E A V G V I A A Q S I G E P G T Q L T T G G

Predicted secondary structure

SS confidence

Known secondary structure (DSSP)
S
S S S
S S S
B
S S S S S B
T T
B T T T T
S

. . . . . . . . . 920 . . . . . . . . . 930 . . . . . . . . . 940 . . . . . . . . . 950 . . . . . . . . . 960 . . . . . . . . . 970 . . . . . . . . . 980

Sequence L P R V A E L F E A R R P K D C A V I A E M D G R V E F G K D Y K N K R R I K I T P D K H I A V H D G D Y I T K G E Y I I D G N P D P H D I

Predicted secondary structure

SS confidence

Known secondary structure (DSSP) T
S
S S
S S S S S
S
S S S
T T
S
S S

. . . . . . . . . 990 . . . . . . . . . 1000 . . . . . . . . . 1010 . . . . . . . . . 1020 . . . . . . . . . 1030 . . . . . . . . . 1040 . . . . . . . . . 1050

Sequence L R I L G V E A L A N F L V D E I Q E V Y R L Q G V P I N D K H I E T I V R Q M L Q K V E I L E P G D T G L I K G D H L D K P E F D K E Q E

Predicted secondary structure

SS confidence

Known secondary structure (DSSP) S
T T T
S S
S
T

. . . . . . . . . 1060 . . . . . . . . . 1070 . . . . . . . . . 1080 . . . . . . . . . 1090 . . . . . . . . . 1100 . . . . . . . . . 1110 . . . . . . . . . 1120

Sequence K A I A R G G R P A V T Q P V L L G I T K A S L Q T K S F I S A A S F Q E T T R V L T E A S V H G K T D T L E G L K E N V I V G R L I P A G

Predicted secondary structure

SS confidence

Known secondary structure (DSSP)
S
S
T T T
S
S
T
S T
S S T

. . . . . . . . . 1130 . . . . . . . . . 1140 . . . .

Sequence T G S Y L R S L Q R V A A K R D E Q L A Q Q R E

Predicted secondary structure

SS confidence

Known secondary structure (DSSP)

Download: PDB structure FASTA sequence
Hidden Markov model

Image coloured by rainbow N → C terminus

Interactive 3D view in JSmol

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Accessibility Statement

Please cite: Phyre2.2: A Community Resource for Template-based Protein Structure Prediction

Powell HR et al. Journal of Molecular Biology (2025) in press DOI: https://doi.org/10.1016/j.jmb.2025.168960

© Structural Bioinformatics Group, Imperial College, London

Michael Sternberg

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Phyre2 is part of Genome3D

	1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60	.	.	.	.	.	.	.	.	.	70
Sequence	T	F	D	Q	I	R	I	S	L	A	S	P	E	K	I	R	S	W	S	F	G	E	I	K	K	P	E	T	I	N	Y	R	T	F	K	P	E	R	D	G	L	F	C	A	R	I	F	G	P	T	K	D	Y	E	C	L	C	G	K	Y	K	R	M	K	Y	K	G	I	I	C
Predicted secondary structure
SS confidence
Known secondary structure (DSSP)				S																S	S	B									S	S	S					S	S	S	S	S								S	B	T	T	B		G	G	G	S	S	T	T		S		S	S		B
	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120	.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140
Sequence	E	K	C	G	V	E	V	T	L	A	R	V	R	R	E	R	M	G	H	I	E	L	A	S	P	V	A	H	I	W	F	L	K	S	L	P	S	R	I	A	M	M	L	D	M	P	L	K	D	I	E	R	V	L	Y	F	E	Y	Y	I	V	T	E	P	G	L	T	P	L	K
Predicted secondary structure
SS confidence
Known secondary structure (DSSP)	T	T	T			B				G	G	G	G	G	S								S	S					S					S	S	S						G	G	G											T	T		S	B				S			S	S	S	S
	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180	.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210
Sequence	Q	H	Q	L	L	S	E	D	D	Y	M	R	A	Q	E	E	Y	G	D	D	S	F	T	A	E	I	G	A	E	A	I	Q	N	L	L	K	A	I	D	L	E	K	E	A	E	R	L	R	E	E	L	S	G	T	V	S	D	M	K	Q	K	K	F	S	K	R	L	K	I	L
Predicted secondary structure
SS confidence
Known secondary structure (DSSP)	T	T			B		S						T	T	T		S		S	S	S						S													S												S	S				S	S
	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240	.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280
Sequence	E	A	F	Q	E	S	G	N	R	P	E	W	M	V	L	T	V	V	P	V	I	P	P	E	L	R	P	L	V	P	L	D	G	G	R	F	A	T	S	D	L	N	D	L	Y	R	R	V	I	N	R	N	N	R	L	K	R	L	I	E	L	R	A	P	D	I	I	I	R	N
Predicted secondary structure
SS confidence
Known secondary structure (DSSP)										G	G	G	S	S		S							T	T	T	S				B		T	T	S		B				T																						T
	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300	.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350
Sequence	E	K	R	M	L	Q	E	S	V	D	A	L	F	D	N	G	R	R	G	R	V	I	T	G	A	N	K	R	P	L	K	S	L	A	D	M	L	K	G	K	Q	G	R	F	R	Q	N	L	L	G	K	R	V	D	Y	S	G	R	S	V	I	V	V	G	P	E	L	K	L	H
Predicted secondary structure
SS confidence
Known secondary structure (DSSP)														T	S	S	S	S	S			B		S	S		S	S	B								T	T	T	T	S	S	T	T	T	T	S	S	S	S				S	S						B				S	S	S		S	S
	.	.	.	.	.	.	.	.	.	360	.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence	E	C	G	L	P	K	K	M	A	L	E	L	F	K	P	F	I	Y	A	R	L	D	A	K	G	L	S	G	T	V	K	Q	S	K	R	M	V	E	R	E	Q	P	Q	V	W	D	I	L	E	E	V	I	R	E	H	P	V	L	L	N	R	A	P	T	L	H	R	L	G	I
Predicted secondary structure
SS confidence
Known secondary structure (DSSP)													T												S	S			S											T		T	T									S	S	S								S	S			S	G	G	G
	.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480	.	.	.	.	.	.	.	.	.	490
Sequence	Q	A	F	E	P	K	L	I	E	G	K	A	I	Q	L	H	P	L	V	C	A	A	F	N	A	D	F	D	G	D	Q	M	A	V	H	V	P	L	S	L	E	A	Q	L	E	A	R	V	L	M	M	S	T	N	N	I	L	S	P	A	N	G	R	P	I	I	V	P	S	Q
Predicted secondary structure
SS confidence
Known secondary structure (DSSP)									S	S	S	S	B				T	T	T					T			S	S	S										S											S	B	T	T	T			B		S	S	S	S		B	S					S
	.	.	.	.	.	.	.	.	.	500	.	.	.	.	.	.	.	.	.	510	.	.	.	.	.	.	.	.	.	520	.	.	.	.	.	.	.	.	.	530	.	.	.	.	.	.	.	.	.	540	.	.	.	.	.	.	.	.	.	550	.	.	.	.	.	.	.	.	.	560
Sequence	D	I	V	L	G	L	Y	Y	L	S	V	A	R	D	G	E	P	G	E	G	K	I	F	A	D	L	G	E	I	E	A	A	M	D	A	G	V	V	S	L	H	A	K	I	K	A	R	H	T	E	M	T	P	E	G	V	L	L	R	K	V	I	D	T	T	P	G	R	M	K
Predicted secondary structure
SS confidence
Known secondary structure (DSSP)														S			S	S		S				S	S											T	S	S		S	S											T	T	S	S											S	S	T	T	T
	.	.	.	.	.	.	.	.	.	570	.	.	.	.	.	.	.	.	.	580	.	.	.	.	.	.	.	.	.	590	.	.	.	.	.	.	.	.	.	600	.	.	.	.	.	.	.	.	.	610	.	.	.	.	.	.	.	.	.	620	.	.	.	.	.	.	.	.	.	630
Sequence	I	A	A	L	L	P	H	H	P	Q	I	G	H	R	L	I	E	K	A	L	T	K	K	E	I	G	N	L	I	D	I	V	Y	R	H	C	G	Q	K	A	T	V	I	F	A	D	K	V	M	G	L	G	F	K	E	A	A	K	A	G	I	S	F	G	K	D	D	I	I	I
Predicted secondary structure
SS confidence
Known secondary structure (DSSP)	S	G	G	G	S		S		T	T		S	G	G	G	G	G	S																		S																					T	T	S						T	T	T	S
	.	.	.	.	.	.	.	.	.	640	.	.	.	.	.	.	.	.	.	650	.	.	.	.	.	.	.	.	.	660	.	.	.	.	.	.	.	.	.	670	.	.	.	.	.	.	.	.	.	680	.	.	.	.	.	.	.	.	.	690	.	.	.	.	.	.	.	.	.	700
Sequence	P	V	R	K	T	A	I	V	E	E	T	R	K	L	A	E	E	Y	E	Q	Q	Y	I	T	K	G	E	K	Y	N	K	V	V	D	A	W	A	K	A	T	D	R	V	A	D	E	M	M	A	E	L	Q	M	K	H	K	D	E	N	G	R	E	K	E	I	N	A	I	Y	M
Predicted secondary structure
SS confidence
Known secondary structure (DSSP)		T	T																																																		S					S	S	S	S
	.	.	.	.	.	.	.	.	.	710	.	.	.	.	.	.	.	.	.	720	.	.	.	.	.	.	.	.	.	730	.	.	.	.	.	.	.	.	.	740	.	.	.	.	.	.	.	.	.	750	.	.	.	.	.	.	.	.	.	760	.	.	.	.	.	.	.	.	.	770
Sequence	M	A	H	S	G	A	R	G	S	Q	A	Q	M	K	Q	L	G	G	M	R	G	L	M	A	K	P	S	G	E	I	I	E	T	P	I	V	S	N	F	K	E	G	L	T	V	Q	E	Y	F	N	S	T	H	G	A	R	K	G	L	A	D	T	A	L	K	T	A	N	S	G
Predicted secondary structure
SS confidence
Known secondary structure (DSSP)					T	S	S											S						B		T	T	S	S	B		S	S						S	S	S
	.	.	.	.	.	.	.	.	.	780	.	.	.	.	.	.	.	.	.	790	.	.	.	.	.	.	.	.	.	800	.	.	.	.	.	.	.	.	.	810	.	.	.	.	.	.	.	.	.	820	.	.	.	.	.	.	.	.	.	830	.	.	.	.	.	.	.	.	.	840
Sequence	Y	L	T	R	R	L	V	D	V	A	Q	D	C	I	I	V	E	E	D	C	G	T	T	K	G	I	T	L	R	A	V	V	E	G	G	D	V	L	V	S	L	G	S	R	V	L	G	R	F	T	A	E	D	V	K	D	P	G	T	G	E	L	V	V	P	A	D	T	Y	I
Predicted secondary structure
SS confidence
Known secondary structure (DSSP)										S	T	T		B				S																T	T			S	S							T	T	S	B	B	S	S			B		S	S	S			B		S		S	S		B
	.	.	.	.	.	.	.	.	.	850	.	.	.	.	.	.	.	.	.	860	.	.	.	.	.	.	.	.	.	870	.	.	.	.	.	.	.	.	.	880	.	.	.	.	.	.	.	.	.	890	.	.	.	.	.	.	.	.	.	900	.	.	.	.	.	.	.	.	.	910
Sequence	D	E	N	I	A	D	A	I	E	A	A	V	V	Q	S	V	K	V	R	S	V	L	T	C	E	A	K	I	G	V	C	G	A	C	Y	G	R	D	L	A	R	G	T	P	V	N	I	G	E	A	V	G	V	I	A	A	Q	S	I	G	E	P	G	T	Q	L	T	T	G	G
Predicted secondary structure
SS confidence
Known secondary structure (DSSP)											S										S	S	S				S	S	S								B		S	S	S	S	S	B			T	T		B											T	T	T	T						S
	.	.	.	.	.	.	.	.	.	920	.	.	.	.	.	.	.	.	.	930	.	.	.	.	.	.	.	.	.	940	.	.	.	.	.	.	.	.	.	950	.	.	.	.	.	.	.	.	.	960	.	.	.	.	.	.	.	.	.	970	.	.	.	.	.	.	.	.	.	980
Sequence	L	P	R	V	A	E	L	F	E	A	R	R	P	K	D	C	A	V	I	A	E	M	D	G	R	V	E	F	G	K	D	Y	K	N	K	R	R	I	K	I	T	P	D	K	H	I	A	V	H	D	G	D	Y	I	T	K	G	E	Y	I	I	D	G	N	P	D	P	H	D	I
Predicted secondary structure
SS confidence
Known secondary structure (DSSP)										T				S										S	S						S	S	S	S	S													S		S	S	S				T	T				S		S	S
	.	.	.	.	.	.	.	.	.	990	.	.	.	.	.	.	.	.	.	1000	.	.	.	.	.	.	.	.	.	1010	.	.	.	.	.	.	.	.	.	1020	.	.	.	.	.	.	.	.	.	1030	.	.	.	.	.	.	.	.	.	1040	.	.	.	.	.	.	.	.	.	1050
Sequence	L	R	I	L	G	V	E	A	L	A	N	F	L	V	D	E	I	Q	E	V	Y	R	L	Q	G	V	P	I	N	D	K	H	I	E	T	I	V	R	Q	M	L	Q	K	V	E	I	L	E	P	G	D	T	G	L	I	K	G	D	H	L	D	K	P	E	F	D	K	E	Q	E
Predicted secondary structure
SS confidence
Known secondary structure (DSSP)				S																			T	T	T																									S	S					S				T
	.	.	.	.	.	.	.	.	.	1060	.	.	.	.	.	.	.	.	.	1070	.	.	.	.	.	.	.	.	.	1080	.	.	.	.	.	.	.	.	.	1090	.	.	.	.	.	.	.	.	.	1100	.	.	.	.	.	.	.	.	.	1110	.	.	.	.	.	.	.	.	.	1120
Sequence	K	A	I	A	R	G	G	R	P	A	V	T	Q	P	V	L	L	G	I	T	K	A	S	L	Q	T	K	S	F	I	S	A	A	S	F	Q	E	T	T	R	V	L	T	E	A	S	V	H	G	K	T	D	T	L	E	G	L	K	E	N	V	I	V	G	R	L	I	P	A	G
Predicted secondary structure
SS confidence
Known secondary structure (DSSP)					S		S																T	T	T		S									S													T							S								T				S	S	T
	.	.	.	.	.	.	.	.	.	1130	.	.	.	.	.	.	.	.	.	1140	.	.	.	.
Sequence	T	G	S	Y	L	R	S	L	Q	R	V	A	A	K	R	D	E	Q	L	A	Q	Q	R	E
Predicted secondary structure
SS confidence
Known secondary structure (DSSP)