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Asym./Biol. Unit

Asym./Biol. Unit - sites

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Asym./Biol. Unit (Jmol Viewer)

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

Description

Title :   IN SITU TRYPSIN CRYSTALLIZED ON A MITEGEN MICROMESH WITH IMIDAZOLE LIGAND

Authors :   X. Yin, A. Scalia, L. Leroy, C. M. Cuttitta, G. M. Polizzo, D. L. Ericson, C. G. Roessler, O. Campos, R. Agarwal, M. Allaire, A. M. Orville, R. Jac M. Y. Ma, R. M. Sweet, A. S. Soares

Date :   25 Oct 13 (Deposition) - 09 Apr 14 (Release) - 24 Sep 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.42

Chains :   Asym./Biol. Unit : A

Keywords :   Imidazole, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   X. Yin, A. Scalia, L. Leroy, C. M. Cuttitta, G. M. Polizzo, D. L. Ericson C. G. Roessler, O. Campos, M. Y. Ma, R. Agarwal, R. Jackimowicz, M. Allaire, A. M. Orville, R. M. Sweet, A. S. Soares
Hitting The Target: Fragment Screening With Acoustic In Sit Co-Crystallization Of Proteins Plus Fragment Libraries On Pin-Mounted Data-Collection Micromeshes.
Acta Crystallogr. , Sect. D V. 70 1177 2014
PubMed-ID: 24816088 | Reference-DOI: 10.1107/S1399004713034603

Compounds

Molecule 1 - CATIONIC TRYPSIN
	Chains	:	A
	EC Number	:	3.4.21.4
	Fragment	:	UNP RESIDUES 24-246
	Organism Common	:	BOVINE
	Organism Scientific	:	BOS TAURUS
	Organism Taxid	:	9913
	Synonym	:	BETA-TRYPSIN, ALPHA-TRYPSIN CHAIN 1, ALPHA-TRYPSIN CHAIN 2

Structural Features

Chains, Units

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (5, 14)

Asymmetric/Biological Unit (5, 14)

No.	Name	Count	Type	Full Name
1	BEN	1	Ligand/Ion	BENZAMIDINE
2	CA	1	Ligand/Ion	CALCIUM ION
3	EDO	6	Ligand/Ion	1,2-ETHANEDIOL
4	IMD	1	Ligand/Ion	IMIDAZOLE
5	SO4	5	Ligand/Ion	SULFATE ION

Sites (14, 14)

Asymmetric Unit (14, 14)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	GLU A:52 , ASN A:54 , VAL A:57 , GLU A:62 , HOH A:402 , HOH A:410	BINDING SITE FOR RESIDUE CA A 301
02	AC2	SOFTWARE	ASP A:171 , SER A:172 , CYS A:173 , GLN A:174 , SER A:177 , TRP A:193 , GLY A:194 , GLY A:196 , GLY A:204 , HOH A:428 , HOH A:808 , HOH A:810	BINDING SITE FOR RESIDUE BEN A 302
03	AC3	SOFTWARE	ARG A:49 , ILE A:55 , ASN A:56 , VAL A:58 , VAL A:72 , HIS A:73 , PRO A:74 , EDO A:304 , HOH A:410 , HOH A:438	BINDING SITE FOR RESIDUE EDO A 303
04	AC4	SOFTWARE	TYR A:22 , HIS A:23 , ILE A:55 , ASN A:56 , VAL A:72 , EDO A:303 , HOH A:449 , HOH A:712	BINDING SITE FOR RESIDUE EDO A 304
05	AC5	SOFTWARE	CYS A:109 , ALA A:110 , PHE A:161 , GLN A:188 , LYS A:208 , HOH A:417 , HOH A:775	BINDING SITE FOR RESIDUE EDO A 305
06	AC6	SOFTWARE	HOH A:595	BINDING SITE FOR RESIDUE EDO A 306
07	AC7	SOFTWARE	VAL A:58 , ASN A:77 , ASN A:79 , HOH A:424 , HOH A:639	BINDING SITE FOR RESIDUE EDO A 307
08	AC8	SOFTWARE	GLY A:45 , ALA A:67 , SER A:68 , LYS A:69 , SER A:130 , TYR A:131 , HOH A:645 , HOH A:726 , HOH A:805 , HOH A:817	BINDING SITE FOR RESIDUE EDO A 308
09	AC9	SOFTWARE	HIS A:40 , GLN A:174 , GLY A:175 , SER A:177 , HOH A:602 , HOH A:642 , HOH A:644 , HOH A:674 , HOH A:694	BINDING SITE FOR RESIDUE SO4 A 309
10	BC1	SOFTWARE	PRO A:106 , THR A:107 , SER A:108 , GLY A:128 , LYS A:186 , GLN A:188 , IMD A:314 , HOH A:441 , HOH A:627 , HOH A:766	BINDING SITE FOR RESIDUE SO4 A 310
11	BC2	SOFTWARE	LYS A:149 , PRO A:153 , GLY A:154 , HOH A:430 , HOH A:584 , HOH A:604 , HOH A:776	BINDING SITE FOR RESIDUE SO4 A 311
12	BC3	SOFTWARE	LYS A:69 , LYS A:89 , THR A:129 , HOH A:525 , HOH A:623 , HOH A:684 , HOH A:725 , HOH A:766	BINDING SITE FOR RESIDUE SO4 A 312
13	BC4	SOFTWARE	LYS A:125 , SER A:126 , SER A:127 , HOH A:697	BINDING SITE FOR RESIDUE SO4 A 313
14	BC5	SOFTWARE	ASN A:123 , LYS A:125 , SER A:126 , GLY A:128 , GLN A:174 , SER A:184 , LYS A:186 , CYS A:197 , SO4 A:310	BINDING SITE FOR RESIDUE IMD A 314

SS Bonds (6, 6)

Asymmetric/Biological Unit

No.	Residues
1	A:7	-	A:137
2	A:25	-	A:41
3	A:109	-	A:210
4	A:116	-	A:183
5	A:148	-	A:162
6	A:173	-	A:197

Cis Peptide Bonds (0, 0)

(no "Cis Peptide Bond" information available for 4NCY)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

(no "SAP(SNP)/Variant" information available for 4NCY)

PROSITE Motifs (0, 0)

(no "PROSITE Motif" information available for 4NCY)

Exons (0, 0)

(no "Exon" information available for 4NCY)

Sequences/Alignments

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:223
                                                                                                                                                                                                                                                               
               SCOP domains d4ncya_ A: Trypsin(ogen)                                                                                                                                                                                                        SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee........eeeee...eeeeeeeee..eeeehhhhh....eeee............eeeeeeeeee.............eeeee........................eeeeee...............eeeeee..hhhhhhhhh.......eeee................eeee..eeeeeeee..........eeeee...hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ncy A   1 IVGGYTCGANTVPYQVSLNSGYHFCGGSLINSQWVVSAAHCYKSGIQVRLGEDNINVVEGNEQFISASKSIVHPSYNSNTLNNDIMLIKLKSAASLNSRVASISLPTSCASAGTQCLISGWGNTKSSGTSYPDVLKCLKAPILSDSSCKSAYPGQITSNMFCAGYLEGGKDSCQGDSGGPVVCSGKLQGIVSWGSGCAQKNKPGVYTKVCNYVSWIKQTIASN 223
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220

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 '\|'

Classification and Annotation

SCOP Domains (1, 1)

Asymmetric/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All beta proteins (24004)

Fold: Trypsin-like serine proteases (1752)

Superfamily: Trypsin-like serine proteases (1752)

Family: Eukaryotic proteases (1343)

Protein domain: Trypsin(ogen) (500)

Cow (Bos taurus) [TaxId: 9913] (392)

d4ncya_

CATH Domains (0, 0)

(no "CATH Domain" information available for 4NCY)

Pfam Domains (0, 0)

(no "Pfam Domain" information available for 4NCY)

Gene Ontology (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)

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	Cis Peptide Bonds
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	4ncy
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	TRY1_BOVIN \| P00760
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	3.4.21.4
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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
	TRY1_BOVIN \| P00760	:	1aq7 1auj 1az8 1bju 1bjv 1btp 1btw 1btx 1bty 1btz 1c1n 1c1o 1c1p 1c1q 1c1r 1c1s 1c1t 1c2d 1c2e 1c2f 1c2g 1c2h 1c2i 1c2j 1c2k 1c2l 1c2m 1c5p 1c5q 1c5r 1c5s 1c5t 1c5u 1c5v 1c9t 1ce5 1cu7 1cu8 1cu9 1d6r 1eb2 1ejm 1ezx 1f0t 1f0u 1f2s 1g36 1g3b 1g3c 1g3d 1g3e 1g9i 1gbt 1ghz 1gi0 1gi1 1gi2 1gi3 1gi4 1gi5 1gi6 1gj6 1hj9 1j8a 1jir 1jrs 1jrt 1k1i 1k1j 1k1l 1k1m 1k1n 1k1o 1k1p 1lqe 1max 1may 1mts 1mtu 1mtv 1mtw 1n6x 1n6y 1nc6 1ntp 1o2h 1o2i 1o2j 1o2k 1o2l 1o2m 1o2n 1o2o 1o2p 1o2q 1o2r 1o2s 1o2t 1o2u 1o2v 1o2w 1o2x 1o2y 1o2z 1o30 1o31 1o32 1o33 1o34 1o35 1o36 1o37 1o38 1o39 1o3a 1o3b 1o3c 1o3d 1o3e 1o3f 1o3g 1o3h 1o3i 1o3j 1o3k 1o3l 1o3m 1o3n 1o3o 1oph 1ox1 1oyq 1p2i 1p2j 1p2k 1ppc 1ppe 1pph 1qa0 1qb1 1qb6 1qb9 1qbn 1qbo 1qcp 1ql7 1ql8 1rxp 1s0q 1s0r 1sbw 1sfi 1smf 1tab 1taw 1tgb 1tgc 1tgn 1tgs 1tgt 1tio 1tld 1tng 1tnh 1tni 1tnj 1tnk 1tnl 1tpa 1tpo 1tpp 1tps 1tx7 1tx8 1tyn 1utn 1uto 1utp 1utq 1v2j 1v2k 1v2l 1v2m 1v2n 1v2o 1v2p 1v2q 1v2r 1v2s 1v2t 1v2u 1v2v 1v2w 1xuf 1xug 1xuh 1xui 1xuj 1xuk 1y3u 1y3v 1y3w 1y3x 1y3y 1y59 1y5a 1y5b 1y5u 1yp9 1yyy 1zr0 1zzz 2a7h 2age 2agg 2agi 2ah4 2ayw 2blv 2blw 2btc 2by5 2by6 2by7 2by8 2by9 2bya 2bza 2cmy 2d8w 2f3c 2fi3 2fi4 2fi5 2ftl 2ftm 2fx4 2fx6 2g55 2g5n 2g5v 2g81 2g8t 2iln 2j9n 2o9q 2otv 2oxs 2plx 2ptc 2ptn 2qn5 2qyi 2tga 2tgd 2tgp 2tgt 2tio 2tld 2tpi 2uuy 2xtt 2zdk 2zdl 2zdm 2zdn 2zfs 2zft 2zhd 2zq1 2zq2 3a7t 3a7v 3a7w 3a7x 3a7y 3a7z 3a80 3a81 3a82 3a83 3a84 3a85 3a86 3a87 3a88 3a89 3a8a 3a8b 3a8c 3a8d 3aas 3aau 3aav 3ati 3atk 3atl 3atm 3btd 3bte 3btf 3btg 3bth 3btk 3btm 3btq 3btt 3btw 3d65 3e8l 3gy2 3gy3 3gy4 3gy5 3gy6 3gy7 3gy8 3i29 3iti 3ljj 3ljo 3m35 3m7q 3mfj 3mi4 3nk8 3nkk 3otj 3plb 3plk 3plp 3pm3 3pmj 3ptb 3ptn 3pwb 3pwc 3pyh 3q00 3qk1 3rdz 3ru4 3rxa 3rxb 3rxc 3rxd 3rxe 3rxf 3rxg 3rxh 3rxi 3rxj 3rxk 3rxl 3rxm 3rxo 3rxp 3rxq 3rxr 3rxs 3rxt 3rxu 3rxv 3t25 3t26 3t27 3t28 3t29 3tpi 3unq 3unr 3uns 3uop 3upe 3uqo 3uqv 3uuz 3uwi 3uy9 3v0x 3v12 3v13 3veq 3vpk 4ab8 4ab9 4aba 4abb 4abd 4abe 4abf 4abg 4abh 4abi 4abj 4aoq 4aor 4b1t 4b2a 4b2b 4b2c 4gux 4hgc 4i8g 4i8h 4i8j 4i8k 4i8l 4j2y 4kts 4ktu 4mtb 4niv 4niw 4nix 4niy 4tpi 4tpy 4u2w 4xoj 4y0y 4y0z 4y10 4y11 4yta 5eg4 5f6m 5fxl 5gib 5gxp 5jyi 5k7r 5lgo 5lh8 5mn1 5mna 5mnb 5mnc 5mnx 5mny 5mon 5moo 5ptp 5t3h

Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4NCY)