2YCP - JenaLib

Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   F448H MUTANT OF TYROSINE PHENOL-LYASE FROM CITROBACTER FREUNDII IN COMPLEX WITH QUINONOID INTERMEDIATE FORMED WITH 3-FLUORO-L-TYROSINE

Authors :   D. Milic, T. V. Demidkina, N. G. Faleev, R. S. Phillips, D. Matkovic-Cal A. A. Antson

Date :   16 Mar 11 (Deposition) - 14 Sep 11 (Release) - 26 Oct 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

Chains :   Asym./Biol. Unit : A,B,C,D

Keywords :   Lyase, Pyridoxal 5'-Phosphate Dependent Enzyme, Beta-Elimination (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   D. Milic, T. V. Demidkina, N. G. Faleev, R. S. Phillips, D. Matkovic-Calogovic, A. A. Antson
Crystallographic Snapshots Of Tyrosine Phenol-Lyase Show That Substrate Strain Plays A Role In C-C Bond Cleavage
J. Am. Chem. Soc. V. 133 16468 2011
PubMed-ID: 21899319 | Reference-DOI: 10.1021/JA203361G

Molecule 1 - TYROSINE PHENOL-LYASE
	Atcc	:	13316
	Chains	:	A, B, C, D
	EC Number	:	4.1.99.2
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PTZTPL/PHE448HIS
	Expression System Strain	:	SVS 370
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Mutation	:	YES
	Organism Scientific	:	CITROBACTER FREUNDII
	Organism Taxid	:	546
	Synonym	:	BETA-TYROSINASE

		1	2	3	4
Asymmetric/Biological Unit	:	A	B	C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (8, 32)

No.	Name	Count	Type	Full Name
1	1PE	1	Ligand/Ion	PENTAETHYLENE GLYCOL
2	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
3	K	4	Ligand/Ion	POTASSIUM ION
4	P33	2	Ligand/Ion	3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL
5	P61	4	Ligand/Ion	(2E)-3-(3-FLUORO-4-HYDROXYPHENYL)-2-{[(Z)-{3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4(1H)-YLIDENE}METHYL]IMINO}PROPANOICACID
6	PEG	2	Ligand/Ion	DI(HYDROXYETHYL)ETHER
7	PG4	5	Ligand/Ion	TETRAETHYLENE GLYCOL
8	PGE	13	Ligand/Ion	TRIETHYLENE GLYCOL

Asymmetric Unit (32, 32)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	PHE A:36 , THR A:49 , GLN A:98 , GLY A:99 , ARG A:100 , GLU A:103 , PHE A:123 , THR A:124 , THR A:125 , ASN A:185 , ASP A:214 , ARG A:217 , SER A:254 , LYS A:257 , MET A:379 , ARG A:381 , ARG A:404 , HIS A:448 , PHE A:449 , HOH A:2095	BINDING SITE FOR RESIDUE P61 A 600
02	AC2	SOFTWARE	ASP A:139 , LYS A:162 , LYS A:165 , GLU A:169 , LYS A:170 , HOH A:2476	BINDING SITE FOR RESIDUE PGE A1457
03	AC3	SOFTWARE	LYS A:226 , GLU A:227 , GLU A:233 , HOH A:2477 , HOH A:2478	BINDING SITE FOR RESIDUE PGE A1458
04	AC4	SOFTWARE	GLU A:313 , HOH A:2481 , VAL D:16 , SER D:17 , HOH D:2023	BINDING SITE FOR RESIDUE PGE A1459
05	AC5	SOFTWARE	LYS A:444 , PGE A:1461 , SER B:277	BINDING SITE FOR RESIDUE PG4 A1460
06	AC6	SOFTWARE	GLU A:442 , LYS A:444 , PG4 A:1460 , HOH A:2483	BINDING SITE FOR RESIDUE PGE A1461
07	AC7	SOFTWARE	GLY A:52 , ASN A:262 , HOH A:2094 , GLU B:69 , HOH B:2321	BINDING SITE FOR RESIDUE K A1462
08	AC8	SOFTWARE	GLU A:69 , HOH A:2332 , GLY B:52 , ASN B:262 , HOH B:2095	BINDING SITE FOR RESIDUE K A1463
09	AC9	SOFTWARE	VAL A:16 , SER A:17 , MET A:18 , TYR A:44 , HOH A:2484 , GLN D:311 , GLU D:313	BINDING SITE FOR RESIDUE PG4 A1464
10	BC1	SOFTWARE	PHE B:36 , THR B:49 , GLN B:98 , GLY B:99 , ARG B:100 , GLU B:103 , PHE B:123 , THR B:124 , ASN B:185 , ASP B:214 , ARG B:217 , SER B:254 , LYS B:257 , MET B:379 , ARG B:381 , ARG B:404 , HIS B:448 , PHE B:449 , HOH B:2236 , HOH B:2442	BINDING SITE FOR RESIDUE P61 B 600
11	BC2	SOFTWARE	ASP B:139 , LYS B:162 , GLU B:169 , HOH B:2225 , HOH B:2443	BINDING SITE FOR RESIDUE PG4 B1457
12	BC3	SOFTWARE	LYS B:226 , GLU B:233 , TYR B:312 , GLU B:313	BINDING SITE FOR RESIDUE PGE B1458
13	BC4	SOFTWARE	SER A:277 , LYS B:444 , EDO B:1460 , HOH B:2445	BINDING SITE FOR RESIDUE PG4 B1459
14	BC5	SOFTWARE	GLU B:442 , PG4 B:1459 , HOH B:2446	BINDING SITE FOR RESIDUE EDO B1460
15	BC6	SOFTWARE	LYS B:59 , MET B:66 , HOH B:2104 , HOH B:2447 , HOH B:2449 , LYS D:59 , MET D:66	BINDING SITE FOR RESIDUE PGE B1461
16	BC7	SOFTWARE	VAL B:16 , MET B:18 , HOH B:2450 , GLU C:313	BINDING SITE FOR RESIDUE 1PE B1462
17	BC8	SOFTWARE	PHE C:36 , THR C:49 , GLN C:98 , GLY C:99 , ARG C:100 , GLU C:103 , PHE C:123 , THR C:124 , ASN C:185 , ASP C:214 , ARG C:217 , SER C:254 , LYS C:257 , MET C:379 , ARG C:381 , ARG C:404 , HIS C:448 , PHE C:449 , HOH C:2235 , HOH C:2472	BINDING SITE FOR RESIDUE P61 C 600
18	BC9	SOFTWARE	MET B:1 , TYR B:3 , TYR B:324 , TYR B:414 , ASP B:422 , HOH B:2413 , MET C:1 , TYR C:3 , ASP C:422 , HOH C:2426	BINDING SITE FOR RESIDUE P33 C1457
19	CC1	SOFTWARE	GLN B:311 , GLU B:313 , VAL C:16 , SER C:17 , TYR C:44	BINDING SITE FOR RESIDUE PGE C1458
20	CC2	SOFTWARE	VAL C:138 , ASP C:139 , LYS C:165 , LEU C:166 , GLU C:169 , LYS C:170 , HOH C:2474	BINDING SITE FOR RESIDUE PGE C1459
21	CC3	SOFTWARE	LYS C:226 , TYR C:312 , HOH C:2278 , HOH C:2476 , HOH C:2477	BINDING SITE FOR RESIDUE PGE C1460
22	CC4	SOFTWARE	LYS C:444 , HOH C:2480 , SER D:277 , GLU D:280	BINDING SITE FOR RESIDUE PGE C1461
23	CC5	SOFTWARE	GLU C:442 , HOH C:2481	BINDING SITE FOR RESIDUE PEG C1462
24	CC6	SOFTWARE	GLY C:52 , ASN C:262 , GLU D:69 , HOH D:2098 , HOH D:2305	BINDING SITE FOR RESIDUE K C1463
25	CC7	SOFTWARE	GLU C:69 , HOH C:2325 , GLY D:52 , ASN D:262 , HOH D:2079	BINDING SITE FOR RESIDUE K C1464
26	CC8	SOFTWARE	PHE D:36 , THR D:49 , GLN D:98 , GLY D:99 , ARG D:100 , GLU D:103 , PHE D:123 , THR D:124 , ASN D:185 , ASP D:214 , THR D:216 , ARG D:217 , SER D:254 , LYS D:257 , MET D:379 , ARG D:381 , ARG D:404 , HIS D:448 , PHE D:449 , HOH D:2080	BINDING SITE FOR RESIDUE P61 D 600
27	CC9	SOFTWARE	MET A:1 , TYR A:3 , TYR A:324 , TYR A:414 , ALA A:415 , ASP A:422 , HOH A:2435 , MET D:1 , TYR D:3 , TYR D:324 , TYR D:414 , ASP D:422	BINDING SITE FOR RESIDUE P33 D1457
28	DC1	SOFTWARE	TYR D:116 , ASP D:139 , LYS D:162 , LYS D:165 , LEU D:166 , GLU D:169 , LYS D:170 , HOH D:2442	BINDING SITE FOR RESIDUE PGE D1458
29	DC2	SOFTWARE	GLU D:233 , HOH D:2244 , HOH D:2259	BINDING SITE FOR RESIDUE PGE D1459
30	DC3	SOFTWARE	SER C:277 , GLU C:280 , LYS D:444	BINDING SITE FOR RESIDUE PG4 D1460
31	DC4	SOFTWARE	GLU D:442 , LYS D:444	BINDING SITE FOR RESIDUE PGE D1461
32	DC5	SOFTWARE	LEU D:109 , ILE D:111 , LYS D:112	BINDING SITE FOR RESIDUE PEG D1462

(no "SS Bond" information available for 2YCP)

Asymmetric/Biological Unit

No.	Residues
1	Val A:182	-	Thr A:183
2	Glu A:338	-	Pro A:339
3	Val B:182	-	Thr B:183
4	Glu B:338	-	Pro B:339
5	Val C:182	-	Thr C:183
6	Glu C:338	-	Pro C:339
7	Val D:182	-	Thr D:183
8	Glu D:338	-	Pro D:339

(no "SAP(SNP)/Variant" information available for 2YCP)

Asymmetric/Biological Unit (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	BETA_ELIM_LYASE	PS00853	Beta-eliminating lyases pyridoxal-phosphate attachment site.	TPL_CITFR	247-265	4	A:247-265 B:247-265 C:247-265 D:247-265

(no "Exon" information available for 2YCP)

Asymmetric/Biological Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
	(details for a mapped element are shown in a popup box when the mouse pointer rests over it)

Chain A from PDB  Type:PROTEIN  Length:456
 aligned with TPL_CITFR | P31013 from UniProtKB/Swiss-Prot  Length:456

    Alignment length:456
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450      
            TPL_CITFR     1 MNYPAEPFRIKSVETVSMIPRDERLKKMQEAGYNTFLLNSKDIYIDLLTDSGTNAMSDKQWAGMMMGDEAYAGSENFYHLERTVQELFGFKHIVPTHQGRGAENLLSQLAIKPGQYVAGNMYFTTTRYHQEKNGAVFVDIVRDEAHDAGLNIAFKGDIDLKKLQKLIDEKGAENIAYICLAVTVNLAGGQPVSMANMRAVRELTEAHGIKVFYDATRCVENAYFIKEQEQGFENKSIAEIVHEMFSYADGCTMSGKKDCLVNIGGFLCMNDDEMFSSAKELVVVYEGMPSYGGLAGRDMEAMAIGLREAMQYEYIEHRVKQVRYLGDKLKAAGVPIVEPVGGHAVFLDARRFCEHLTQDEFPAQSLAASIYVETGVRSMERGIISAGRNNVTGEHHRPKLETVRLTIPRRVYTYAHMDVVADGIIKLYQHKEDIRGLKFIYEPKQLRFFTARFDYI 456
               SCOP domains d2ycpa_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......eeeeeeee....hhhhhhhhhhhh..hhhhhhhhhh.ee.........eehhhhhhhh........hhhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhh....eeee...hhhhhhhhhhh..eeee..hhhhhh...........hhhhhhhhhhhhh...eeeeeee...........hhhhhhhhhhhhhhh...eeee..hhhhhhhhhhhhh......hhhhhhhhhhh...eeeee..........eeeee.hhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...........eeeeehhhhh...hhhhhhhhhhhhhhhhhhhee.eeehhhhhh..............eeeee......hhhhhhhhhhhhhhhhhhhhhh..eeeee....hhhhh.eeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------BETA_ELIM_LYASE    ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2ycp A   1 MNYPAEPFRIKSVETVSMIPRDERLKKMQEAGYNTFLLNSKDIYIDLLTDSGTNAMSDKQWAGMMMGDEAYAGSENFYHLERTVQELFGFKHIVPTHQGRGAENLLSQLAIKPGQYVAGNMYFTTTRYHQEKNGAVFVDIVRDEAHDAGLNIAFKGDIDLKKLQKLIDEKGAENIAYICLAVTVNLAGGQPVSMANMRAVRELTEAHGIKVFYDATRCVENAYFIKEQEQGFENKSIAEIVHEMFSYADGCTMSGKKDCLVNIGGFLCMNDDEMFSSAKELVVVYEGMPSYGGLAGRDMEAMAIGLREAMQYEYIEHRVKQVRYLGDKLKAAGVPIVEPVGGHAVFLDARRFCEHLTQDEFPAQSLAASIYVETGVRSMERGIISAGRNNVTGEHHRPKLETVRLTIPRRVYTYAHMDVVADGIIKLYQHKEDIRGLKFIYEPKQLRHFTARFDYI 456
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450

Chain B from PDB  Type:PROTEIN  Length:456
 aligned with TPL_CITFR | P31013 from UniProtKB/Swiss-Prot  Length:456

    Alignment length:456
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450      
            TPL_CITFR     1 MNYPAEPFRIKSVETVSMIPRDERLKKMQEAGYNTFLLNSKDIYIDLLTDSGTNAMSDKQWAGMMMGDEAYAGSENFYHLERTVQELFGFKHIVPTHQGRGAENLLSQLAIKPGQYVAGNMYFTTTRYHQEKNGAVFVDIVRDEAHDAGLNIAFKGDIDLKKLQKLIDEKGAENIAYICLAVTVNLAGGQPVSMANMRAVRELTEAHGIKVFYDATRCVENAYFIKEQEQGFENKSIAEIVHEMFSYADGCTMSGKKDCLVNIGGFLCMNDDEMFSSAKELVVVYEGMPSYGGLAGRDMEAMAIGLREAMQYEYIEHRVKQVRYLGDKLKAAGVPIVEPVGGHAVFLDARRFCEHLTQDEFPAQSLAASIYVETGVRSMERGIISAGRNNVTGEHHRPKLETVRLTIPRRVYTYAHMDVVADGIIKLYQHKEDIRGLKFIYEPKQLRFFTARFDYI 456
               SCOP domains d2ycpb_ B: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......eeeeeeee....hhhhhhhhhhhh..hhhhhhhhhh.ee.........eehhhhhhhh........hhhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhh....eeee...hhhhhhhhhhh..eeee..hhhhhh...........hhhhhhhhhhhhh...eeeeeee...........hhhhhhhhhhhhhhh...eeee..hhhhhhhhhhhhh......hhhhhhhhhhh...eeeee..........eeeee.hhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...........eeeeehhhhh...hhhhhhhhhhhhhhhhhhhee.eeehhhhhh..............eeeee......hhhhhhhhhhhhhhhhhhhhhh..eeeee....hhhhh.eeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------BETA_ELIM_LYASE    ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2ycp B   1 MNYPAEPFRIKSVETVSMIPRDERLKKMQEAGYNTFLLNSKDIYIDLLTDSGTNAMSDKQWAGMMMGDEAYAGSENFYHLERTVQELFGFKHIVPTHQGRGAENLLSQLAIKPGQYVAGNMYFTTTRYHQEKNGAVFVDIVRDEAHDAGLNIAFKGDIDLKKLQKLIDEKGAENIAYICLAVTVNLAGGQPVSMANMRAVRELTEAHGIKVFYDATRCVENAYFIKEQEQGFENKSIAEIVHEMFSYADGCTMSGKKDCLVNIGGFLCMNDDEMFSSAKELVVVYEGMPSYGGLAGRDMEAMAIGLREAMQYEYIEHRVKQVRYLGDKLKAAGVPIVEPVGGHAVFLDARRFCEHLTQDEFPAQSLAASIYVETGVRSMERGIISAGRNNVTGEHHRPKLETVRLTIPRRVYTYAHMDVVADGIIKLYQHKEDIRGLKFIYEPKQLRHFTARFDYI 456
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450

Chain C from PDB  Type:PROTEIN  Length:456
 aligned with TPL_CITFR | P31013 from UniProtKB/Swiss-Prot  Length:456

    Alignment length:456
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450      
            TPL_CITFR     1 MNYPAEPFRIKSVETVSMIPRDERLKKMQEAGYNTFLLNSKDIYIDLLTDSGTNAMSDKQWAGMMMGDEAYAGSENFYHLERTVQELFGFKHIVPTHQGRGAENLLSQLAIKPGQYVAGNMYFTTTRYHQEKNGAVFVDIVRDEAHDAGLNIAFKGDIDLKKLQKLIDEKGAENIAYICLAVTVNLAGGQPVSMANMRAVRELTEAHGIKVFYDATRCVENAYFIKEQEQGFENKSIAEIVHEMFSYADGCTMSGKKDCLVNIGGFLCMNDDEMFSSAKELVVVYEGMPSYGGLAGRDMEAMAIGLREAMQYEYIEHRVKQVRYLGDKLKAAGVPIVEPVGGHAVFLDARRFCEHLTQDEFPAQSLAASIYVETGVRSMERGIISAGRNNVTGEHHRPKLETVRLTIPRRVYTYAHMDVVADGIIKLYQHKEDIRGLKFIYEPKQLRFFTARFDYI 456
               SCOP domains d2ycpc_ C: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......eeeeeeee....hhhhhhhhhhhh..hhhhhhhhhh.ee.........eehhhhhhhh........hhhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhh....eeee...hhhhhhhhhhh..eeee..hhhhhh...........hhhhhhhhhhhhh...eeeeeee...........hhhhhhhhhhhhhhh...eeee..hhhhhhhhhhhhh......hhhhhhhhhhhh..eeeee..........eeeee.hhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...........eeeeehhhhh...hhhhhhhhhhhhhhhhhhhee.eeehhhhhh..............eeeee......hhhhhhhhhhhhhhhhhhhhhh..eeeee....hhhhh.eeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------BETA_ELIM_LYASE    ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2ycp C   1 MNYPAEPFRIKSVETVSMIPRDERLKKMQEAGYNTFLLNSKDIYIDLLTDSGTNAMSDKQWAGMMMGDEAYAGSENFYHLERTVQELFGFKHIVPTHQGRGAENLLSQLAIKPGQYVAGNMYFTTTRYHQEKNGAVFVDIVRDEAHDAGLNIAFKGDIDLKKLQKLIDEKGAENIAYICLAVTVNLAGGQPVSMANMRAVRELTEAHGIKVFYDATRCVENAYFIKEQEQGFENKSIAEIVHEMFSYADGCTMSGKKDCLVNIGGFLCMNDDEMFSSAKELVVVYEGMPSYGGLAGRDMEAMAIGLREAMQYEYIEHRVKQVRYLGDKLKAAGVPIVEPVGGHAVFLDARRFCEHLTQDEFPAQSLAASIYVETGVRSMERGIISAGRNNVTGEHHRPKLETVRLTIPRRVYTYAHMDVVADGIIKLYQHKEDIRGLKFIYEPKQLRHFTARFDYI 456
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450

Chain D from PDB  Type:PROTEIN  Length:456
 aligned with TPL_CITFR | P31013 from UniProtKB/Swiss-Prot  Length:456

    Alignment length:456
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450      
            TPL_CITFR     1 MNYPAEPFRIKSVETVSMIPRDERLKKMQEAGYNTFLLNSKDIYIDLLTDSGTNAMSDKQWAGMMMGDEAYAGSENFYHLERTVQELFGFKHIVPTHQGRGAENLLSQLAIKPGQYVAGNMYFTTTRYHQEKNGAVFVDIVRDEAHDAGLNIAFKGDIDLKKLQKLIDEKGAENIAYICLAVTVNLAGGQPVSMANMRAVRELTEAHGIKVFYDATRCVENAYFIKEQEQGFENKSIAEIVHEMFSYADGCTMSGKKDCLVNIGGFLCMNDDEMFSSAKELVVVYEGMPSYGGLAGRDMEAMAIGLREAMQYEYIEHRVKQVRYLGDKLKAAGVPIVEPVGGHAVFLDARRFCEHLTQDEFPAQSLAASIYVETGVRSMERGIISAGRNNVTGEHHRPKLETVRLTIPRRVYTYAHMDVVADGIIKLYQHKEDIRGLKFIYEPKQLRFFTARFDYI 456
               SCOP domains d2ycpd_ D: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......eeeeeeee....hhhhhhhhhhhh..hhhhhhhhhh.ee.........eehhhhhhhh........hhhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhh....eeee...hhhhhhhhhhh..eeee..hhhhhh...........hhhhhhhhhhhhh...eeeeeee...........hhhhhhhhhhhhhhh...eeee..hhhhhhhhhhhhh......hhhhhhhhhhhh..eeeee..........eeeee.hhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...........eeeeehhhhh...hhhhhhhhhhhhhhhhhhhee.eeehhhhhh..............eeeee......hhhhhhhhhhhhhhhhhhhhhh..eeeee....hhhhh.eeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------BETA_ELIM_LYASE    ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2ycp D   1 MNYPAEPFRIKSVETVSMIPRDERLKKMQEAGYNTFLLNSKDIYIDLLTDSGTNAMSDKQWAGMMMGDEAYAGSENFYHLERTVQELFGFKHIVPTHQGRGAENLLSQLAIKPGQYVAGNMYFTTTRYHQEKNGAVFVDIVRDEAHDAGLNIAFKGDIDLKKLQKLIDEKGAENIAYICLAVTVNLAGGQPVSMANMRAVRELTEAHGIKVFYDATRCVENAYFIKEQEQGFENKSIAEIVHEMFSYADGCTMSGKKDCLVNIGGFLCMNDDEMFSSAKELVVVYEGMPSYGGLAGRDMEAMAIGLREAMQYEYIEHRVKQVRYLGDKLKAAGVPIVEPVGGHAVFLDARRFCEHLTQDEFPAQSLAASIYVETGVRSMERGIISAGRNNVTGEHHRPKLETVRLTIPRRVYTYAHMDVVADGIIKLYQHKEDIRGLKFIYEPKQLRHFTARFDYI 456
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Asymmetric/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: PLP-dependent transferase-like (627)

Superfamily: PLP-dependent transferases (625)

Family: Beta-eliminating lyases (16)

Protein domain: automated matches (8)

Citrobacter freundii [TaxId: 546] (8)

1a	d2ycpa_	A:
1b	d2ycpb_	B:
1c	d2ycpc_	C:
1d	d2ycpd_	D:

(no "CATH Domain" information available for 2YCP)

(no "Pfam Domain" information available for 2YCP)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B,C,D (TPL_CITFR | P31013)

molecular function
	GO:0016830	carbon-carbon lyase activity	Catalysis of the cleavage of C-C bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond.
	GO:0003824	catalytic activity	Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
	GO:0016829	lyase activity	Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
	GO:0050371	tyrosine phenol-lyase activity	Catalysis of the reaction: L-tyrosine + H(2)O = NH(4)(+) + phenol + pyruvate.
biological process
	GO:0009072	aromatic amino acid family metabolic process	The chemical reactions and pathways involving aromatic amino acid family, amino acids with aromatic ring (phenylalanine, tyrosine, tryptophan).
	GO:0006520	cellular amino acid metabolic process	The chemical reactions and pathways involving amino acids, carboxylic acids containing one or more amino groups, as carried out by individual cells.
	GO:0006570	tyrosine metabolic process	The chemical reactions and pathways involving tyrosine, an aromatic amino acid, 2-amino-3-(4-hydroxyphenyl)propanoic acid.

Asymmetric/Biological Unit
	Complete Structure
		Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
		WebMol \| AstexViewer[tm]@PDBe (Java Applets, require no local installation except for Java; loading may be slow)
		STRAP (Java WebStart application, automatic local installation, requires Java; full application with system access!)
		RasMol (require local installation)
		Molscript (VRML) (requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)

	Ligands, Modified Residues, Ions
		1PE	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		EDO	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		K	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		P33	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		P61	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		PEG	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		PG4	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		PGE	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]
		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]
		AC5	[ RasMol ]	+environment [ RasMol ]
		AC6	[ RasMol ]	+environment [ RasMol ]
		AC7	[ RasMol ]	+environment [ RasMol ]
		AC8	[ RasMol ]	+environment [ RasMol ]
		AC9	[ RasMol ]	+environment [ RasMol ]
		BC1	[ RasMol ]	+environment [ RasMol ]
		BC2	[ RasMol ]	+environment [ RasMol ]
		BC3	[ RasMol ]	+environment [ RasMol ]
		BC4	[ RasMol ]	+environment [ RasMol ]
		BC5	[ RasMol ]	+environment [ RasMol ]
		BC6	[ RasMol ]	+environment [ RasMol ]
		BC7	[ RasMol ]	+environment [ RasMol ]
		BC8	[ RasMol ]	+environment [ RasMol ]
		BC9	[ RasMol ]	+environment [ RasMol ]
		CC1	[ RasMol ]	+environment [ RasMol ]
		CC2	[ RasMol ]	+environment [ RasMol ]
		CC3	[ RasMol ]	+environment [ RasMol ]
		CC4	[ RasMol ]	+environment [ RasMol ]
		CC5	[ RasMol ]	+environment [ RasMol ]
		CC6	[ RasMol ]	+environment [ RasMol ]
		CC7	[ RasMol ]	+environment [ RasMol ]
		CC8	[ RasMol ]	+environment [ RasMol ]
		CC9	[ RasMol ]	+environment [ RasMol ]
		DC1	[ RasMol ]	+environment [ RasMol ]
		DC2	[ RasMol ]	+environment [ RasMol ]
		DC3	[ RasMol ]	+environment [ RasMol ]
		DC4	[ RasMol ]	+environment [ RasMol ]
		DC5	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Glu A:338 - Pro A:339	[ RasMol ]
		Glu B:338 - Pro B:339	[ RasMol ]
		Glu C:338 - Pro C:339	[ RasMol ]
		Glu D:338 - Pro D:339	[ RasMol ]
		Val A:182 - Thr A:183	[ RasMol ]
		Val B:182 - Thr B:183	[ RasMol ]
		Val C:182 - Thr C:183	[ RasMol ]
		Val D:182 - Thr D:183	[ RasMol ]

Jmol
	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym./Biol. Unit PNG format \| Asym./Biol. Unit - sites PNG format ](automatic orientation, automatically generated)
Molscript
	protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick [ mono PDF format \| stereo PDF format ](default orientation, automatically generated)

Access by PDB/NDB ID
	2ycp
		Family and Domain Information	:	ProDom \| SYSTERS
		General Structural Information	:	GlycoscienceDB \| MMDB \| NDB \| OCA \| PDB \| PDBe \| PDBj \| PDBsum \| PDBWiki \| PQS \| PROTEOPEDIA
		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
		Structural Genomics	:	GeneCensus
		Structural Neighbours	:	CE \| VAST
		Structure Classification	:	CATH \| Dali \| SCOP
		Validation and Original Data	:	BMRB Data View \| BMRB Restraints Grid \| EDS \| PROCHECK \| RECOORD \| WHAT_CHECK

Access by UniProt ID/Accession number
	TPL_CITFR \| P31013
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt

Access by Enzyme Classificator (EC Number)
	4.1.99.2
		General Enzyme Information	:	BRENDA \| EC-PDB \| Enzyme \| IntEnz
		Pathway	:	KEGG \| MetaCyc

Access by Disease Identifier (MIM ID)
	(no 'MIM ID' available)
		Disease Information	:	OMIM

Access by GenAge ID
	(no 'GenAge ID' available)
		Age Related Information	:	GenAge

Access by PDB/NDB ID
		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
		Ligand-protein Contacts	:	LPC
		Protein Cavities	:	castP
		Sequence and Secondary Structure	:	PDBCartoon
		Structure Alignment	:	STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
		Structure and Sequence Browser	:	STING

Access by UniProt ID/Accession number
	TPL_CITFR \| P31013
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/Swiss-Prot
	TPL_CITFR \| P31013	:	1tpl 2ez1 2ez2 2tpl 2vlf 2vlh 2ycn 2yct 2yhk

2ycn	Y71F MUTANT OF TYROSINE PHENOL-LYASE FROM CITROBACTER FREUNDII IN COMPLEX WITH QUINONOID INTERMEDIATE FORMED WITH 3-FLUORO-L-TYROSINE
2yct	TYROSINE PHENOL-LYASE FROM CITROBACTER FREUNDII IN COMPLEX WITH PYRIDINE N-OXIDE AND THE QUINONOID INTERMEDIATE FORMED WITH L-ALANINE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (8, 32)

Sites (32, 32)

SS Bonds (0, 0)

Cis Peptide Bonds (8, 8)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 4)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 4)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (7, 7)

Visualization

Interactive Views

Still Images

Databases and Analysis Tools

Databases

Analysis Tools

Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File