PHYRE Protein Fold Recognition Server

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Protein Homology/analogY Recognition Engine V 2.0

Fold library entry viewer: c5exrG_

Fold library id	PDB Header	Molecule	Title
c5exrG_	3.60	PDB header: replication	Chain: G: PDB Molecule: dna polymerase alpha catalytic subunit;

Links to external resources
Added to library: Sat Mar 26 08:39:02 2016

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

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

Predicted secondary structure

SS confidence

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

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

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

Predicted secondary structure

SS confidence

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

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

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

Predicted secondary structure

SS confidence

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

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

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

Predicted secondary structure

SS confidence

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

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

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

Predicted secondary structure

SS confidence

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

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

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

Predicted secondary structure

SS confidence

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

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

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

Predicted secondary structure

SS confidence

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

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

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

Predicted secondary structure

SS confidence

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

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

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

Predicted secondary structure

SS confidence

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

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

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

Predicted secondary structure

SS confidence

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

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

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

Predicted secondary structure

SS confidence

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

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

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

Predicted secondary structure

SS confidence

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

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

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

Predicted secondary structure

SS confidence

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

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

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

Predicted secondary structure

SS confidence

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

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

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

Predicted secondary structure

SS confidence

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

. . . . . . .

Sequence N L S K L F A

Predicted secondary structure

SS confidence

Known secondary structure (DSSP)

Download: PDB structure FASTA sequence
Hidden Markov model

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Kelley LA et al. Nature Protocols 10, 845-858 (2015) [paper] [Citation link]

© Structural Bioinformatics Group, Imperial College, London

Michael Sternberg

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