2TMN - JenaLib

Title :   CRYSTALLOGRAPHIC STRUCTURAL ANALYSIS OF PHOSPHORAMIDATES AS INHIBITORS AND TRANSITION-STATE ANALOGS OF THERMOLYSIN

Authors :   D. E. Tronrud, A. F. Monzingo, B. W. Matthews

Date :   29 Jun 87 (Deposition) - 09 Jan 89 (Release) - 13 Jun 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.60

Chains :   Asym./Biol. Unit : E

Keywords :   Hydrolase-Hydrolase Inhibitor Complex, Metalloproteinase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   D. E. Tronrud, A. F. Monzingo, B. W. Matthews
Crystallographic Structural Analysis Of Phosphoramidates As Inhibitors And Transition-State Analogs Of Thermolysin.
Eur. J. Biochem. V. 157 261 1986
PubMed-ID: 3709536 | Reference-DOI: 10.1111/J.1432-1033.1986.TB09664.X
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 6)

Sites (10, 10)

Asymmetric Unit (10, 10)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ASP E:138 , GLU E:177 , ASP E:185 , GLU E:187 , GLU E:190 , HOH E:338	BINDING SITE FOR RESIDUE CA E 317
02	AC2	SOFTWARE	GLU E:177 , ASN E:183 , ASP E:185 , GLU E:190 , HOH E:345 , HOH E:431	BINDING SITE FOR RESIDUE CA E 318
03	AC3	SOFTWARE	ASP E:57 , ASP E:59 , GLN E:61 , HOH E:394 , HOH E:438 , HOH E:454	BINDING SITE FOR RESIDUE CA E 319
04	AC4	SOFTWARE	TYR E:193 , THR E:194 , ILE E:197 , ASP E:200 , HOH E:346 , HOH E:436	BINDING SITE FOR RESIDUE CA E 320
05	AC5	SOFTWARE	HIS E:142 , HIS E:146 , TYR E:157 , GLU E:166 , 0FA E:322	BINDING SITE FOR RESIDUE ZN E 321
06	AC6	SOFTWARE	ASN E:112 , ALA E:113 , HIS E:142 , GLU E:143 , HIS E:146 , TYR E:157 , GLU E:166 , LEU E:202 , ARG E:203 , HIS E:231 , ZN E:321 , HOH E:353 , HOH E:380 , HOH E:490 , HOH E:491	BINDING SITE FOR RESIDUE 0FA E 322
07	S1	AUTHOR	PHE E:114	ACTIVE SITE SUBSITE S1
08	S1P	AUTHOR	PHE E:130 , LEU E:133 , VAL E:139 , ILE E:188 , GLY E:189 , VAL E:192 , LEU E:202	ACTIVE SITE SUBSITE S1 PRIME
09	S2	AUTHOR	TRP E:115	ACTIVE SITE SUBSITE S2
10	S2P	AUTHOR	PHE E:130 , LEU E:202	ACTIVE SITE SUBSITE S2 PRIME

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 1)

Exons (0, 0)

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
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Chain E from PDB  Type:PROTEIN  Length:316
 aligned with THER_BACTH | P00800 from UniProtKB/Swiss-Prot  Length:548

    Alignment length:316
                                   242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542      
           THER_BACTH   233 ITGTSTVGVGRGVLGDQKNINTTYSTYYYLQDNTRGNGIFTYDAKYRTTLPGSLWADADNQFFASYDAPAVDAHYYAGVTYDYYKNVHNRLSYDGNNAAIRSSVHYSQGYNNAFWNGSQMVYGDGDGQTFIPLSGGIDVVAHELTHAVTDYTAGLIYQNESGAINEAISDIFGTLVEFYANKNPDWEIGEDVYTPGISGDSLRSMSDPAKYGDPDHYSKRYTGTQDNGGVHINSGIINKAAYLISQGGTHYGVSVVGIGRDKLGKIFYRALTQYLTPTSNFSQLRAAAVQSATDLYGSTSQEVASVKQAFDAVGVK 548
               SCOP domains d2tmne_ E: Thermolysin                                                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains -----2tmnE01 E:6-154  [code=3.10.170.10, no name defined]                                                                                                 2tmnE02 E:155-315 Neutral Protease Domain 2                                                                                                                      - CATH domains
               Pfam domains ---Peptidase_M4-2tmnE01 E:4-151                                                                                                                        -Peptidase_M4_C-2tmnE02 E:153-315                                                                                                                                   - Pfam domains
         Sec.struct. author .eeeeeeeeee....eeeeeeeeee.eee.ee......eeeee........eeeeee...ee..hhhhhhhhhhhhhhhhhhhhhhh............eeeeeee.....eeee...eeee..........hhh.hhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhh.........hhh...............hhhh.....hhh......hhhh...hhhhhhhhhhhhhh.............hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh....hhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------ZINC_PROTE------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2tmn E   1 ITGTSTVGVGRGVLGDQKNINTTYSTYYYLQDNTRGDGIFTYDAKYRTTLPGSLWADADNQFFASYDAPAVDAHYYAGVTYDYYKNVHNRLSYDGNNAAIRSSVHYSQGYNNAFWNGSEMVYGDGDGQTFIPLSGGIDVVAHELTHAVTDYTAGLIYQNESGAINEAISDIFGTLVEFYANKNPDWEIGEDVYTPGISGDSLRSMSDPAKYGDPDHYSKRYTGTQDNGGVHINSGIINKAAYLISQGGTHYGVSVVGIGRDKLGKIFYRALTQYLTPTSNFSQLRAAAVQSATDLYGSTSQEVASVKQAFDAVGVK 316
                                    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

Legend:		→ Mismatch	(orange background)
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	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)

CATH Domains (2, 2)

Pfam Domains (2, 2)

Gene Ontology (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)

Chain E (THER_BACTH | P00800)

molecular function
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0004222	metalloendopeptidase activity	Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which water acts as a nucleophile, one or two metal ions hold the water molecule in place, and charged amino acid side chains are ligands for the metal ions.
	GO:0008237	metallopeptidase activity	Catalysis of the hydrolysis of peptide bonds by a mechanism in which water acts as a nucleophile, one or two metal ions hold the water molecule in place, and charged amino acid side chains are ligands for the metal ions.
	GO:0008233	peptidase activity	Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid.
biological process
	GO:0006508	proteolysis	The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
cellular component
	GO:0005576	extracellular region	The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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