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Title :   CRYSTAL STRUCTURE OF BLA G 2 COMPLEXED WITH FAB 4C3

Authors :   M. Li, A. Gustchina, J. Glesner, S. Wunschmann, A. Pomes, A. Wlodawer

Date :   25 Jan 10 (Deposition) - 15 Dec 10 (Release) - 26 Nov 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

Chains :   Asym./Biol. Unit : A,H,L

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

Reference :   J. Glesner, S. Wunschmann, M. Li, A. Gustchina, A. Wlodawer, M. Himly, M. D. Chapman, A. Pomes
Mechanisms Of Allergen-Antibody Interaction Of Cockroach Allergen Bla G 2 With Monoclonal Antibodies That Inhibit Ig Antibody Binding.
Plos One V. 6 22223 2011
PubMed-ID: 21789239 | Reference-DOI: 10.1371/JOURNAL.PONE.0022223

Molecule 1 - ASPARTIC PROTEASE BLA G 2
	Chains	:	A
	EC Number	:	3.4.23.-
	Engineered	:	YES
	Expression System	:	PICHIA PASTORIS
	Expression System Plasmid	:	PGAPZA
	Expression System Taxid	:	4922
	Expression System Vector Type	:	PLASMID
	Mutation	:	YES
	Organism Common	:	GERMAN COCKROACH
	Organism Scientific	:	BLATTELLA GERMANICA
	Organism Taxid	:	6973
	Synonym	:	ALLERGEN BLA G II

Molecule 2 - 4C3 MONOCLONAL ANTIBODY LIGHT CHAIN
	Chains	:	L
	Organism Common	:	MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090
	Other Details	:	HYBRIDOMAS

Molecule 3 - 4C3 MONOCLONAL ANTIBODY HEAVY CHAIN
	Chains	:	H
	Organism Common	:	MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090
	Other Details	:	HYBRIDOMAS

		1	2	3
Asymmetric/Biological Unit	:	A	H	L

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (6, 21)

No.	Name	Count	Type	Full Name
1	BMA	1	Ligand/Ion	BETA-D-MANNOSE
2	CD	3	Ligand/Ion	CADMIUM ION
3	EDO	6	Ligand/Ion	1,2-ETHANEDIOL
4	MAN	1	Ligand/Ion	ALPHA-D-MANNOSE
5	NAG	3	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
6	ZN	7	Ligand/Ion	ZINC ION

Asymmetric Unit (21, 21)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ASN A:268 , ILE A:269 , SER A:270 , TYR A:273 , HIS A:308 , ARG A:324 , HOH A:361 , HOH A:414 , NAG A:502 , HOH A:813 , ASN H:74	BINDING SITE FOR RESIDUE NAG A 501
02	AC2	SOFTWARE	ARG A:324 , NAG A:501 , BMA A:503 , MAN A:504 , HOH A:534 , HOH A:600 , HOH A:813 , ASN H:54 , ALA H:56 , HOH H:420	BINDING SITE FOR RESIDUE NAG A 502
03	AC3	SOFTWARE	NAG A:502 , MAN A:504 , ALA H:56	BINDING SITE FOR RESIDUE BMA A 503
04	AC4	SOFTWARE	NAG A:502 , BMA A:503 , HOH A:534	BINDING SITE FOR RESIDUE MAN A 504
05	AC5	SOFTWARE	VAL A:150 , ASN A:314 , GLU A:316 , ASN A:317 , HOH A:498 , HOH A:537 , HOH A:612 , HOH A:666	BINDING SITE FOR RESIDUE NAG A 601
06	AC6	SOFTWARE	HIS A:308 , GLU A:327 , HOH A:347 , HOH A:361 , HOH A:447	BINDING SITE FOR RESIDUE CD A 330
07	AC7	SOFTWARE	HIS A:3 , HOH A:345 , HOH A:448 , HOH A:449 , GLU L:79	BINDING SITE FOR RESIDUE CD A 331
08	AC8	SOFTWARE	GLU A:138 , GLU A:142 , GLU L:185 , HIS L:189 , HOH L:346	BINDING SITE FOR RESIDUE CD A 332
09	AC9	SOFTWARE	HIS A:155 , HIS A:161 , ASP A:303 , ASP A:307	BINDING SITE FOR RESIDUE ZN A 333
10	BC1	SOFTWARE	ASP A:248 , SER A:250 , HOH A:443 , HOH A:877 , GLU L:93	BINDING SITE FOR RESIDUE ZN A 334
11	BC2	SOFTWARE	ASP A:100 , HOH A:450 , HOH A:648	BINDING SITE FOR RESIDUE ZN A 335
12	BC3	SOFTWARE	LYS A:191 , ASP A:297 , HIS A:298	BINDING SITE FOR RESIDUE ZN A 336
13	BC4	SOFTWARE	CYS A:289 , HIS A:291 , HOH A:559	BINDING SITE FOR RESIDUE ZN A 337
14	BC5	SOFTWARE	ALA A:226 , TYR A:227 , HOH A:407 , HOH A:549	BINDING SITE FOR RESIDUE EDO A 338
15	BC6	SOFTWARE	ARG A:157 , GLN A:272 , TYR A:273 , ILE A:275 , GLN A:276 , GLN A:277 , HOH A:357 , HOH A:512 , HOH A:561	BINDING SITE FOR RESIDUE EDO A 339
16	BC7	SOFTWARE	ARG A:193 , LEU A:194 , ASP A:195 , ALA A:207 , GLY A:208 , HOH A:466 , HOH A:499 , HOH A:573 , HOH A:581	BINDING SITE FOR RESIDUE EDO A 340
17	BC8	SOFTWARE	PHE A:5 , GLU A:160 , HOH A:492	BINDING SITE FOR RESIDUE EDO A 341
18	BC9	SOFTWARE	TYR A:273 , HOH A:484 , HOH A:566	BINDING SITE FOR RESIDUE EDO A 342
19	CC1	SOFTWARE	PHE A:158 , ASP A:159A , GLU A:160 , HOH A:826	BINDING SITE FOR RESIDUE EDO A 343
20	CC2	SOFTWARE	HOH A:108 , ASP A:248 , LYS A:251 , ASP L:92 , GLU L:93 , HOH L:410 , HOH L:445 , HOH L:446	BINDING SITE FOR RESIDUE ZN L 212
21	CC3	SOFTWARE	HIS H:170 , HOH H:451 , ASN L:138 , HOH L:214	BINDING SITE FOR RESIDUE ZN L 213

Asymmetric/Biological Unit

No.	Residues
1	A:36	-	A:127
2	A:45	-	A:50
3	A:51A	-	A:113
4	A:237	-	A:245
5	A:249	-	A:282
6	H:22	-	H:96
7	H:146	-	H:201
8	L:23	-	L:88
9	L:134	-	L:194

Asymmetric/Biological Unit

No.	Residues
1	Ser L:7	-	Pro L:8
2	Leu L:94	-	Pro L:95
3	Tyr L:140	-	Pro L:141
4	Phe H:152	-	Pro H:153
5	Glu H:154	-	Pro H:155
6	Trp H:194	-	Pro H:195

(no "SAP(SNP)/Variant" information available for 3LIZ)

Asymmetric/Biological Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PEPTIDASE_A1	PS51767	Peptidase family A1 domain profile.	ASP2_BLAGE	39-346	1	A:14-323

(no "Exon" information available for 3LIZ)

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:329
 aligned with ASP2_BLAGE | P54958 from UniProtKB/Swiss-Prot  Length:352

    Alignment length:329
                                    32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342         
          ASP2_BLAGE     23 QRVPLYKLVHVFINTQYAGITKIGNQNFLTVFDSTSCNVVVASQECVGGACVCPNLQKYEKLKPKYISDGNVQVKFFDTGSAVGRGIEDSLTISNLTTSQQDIVLADELSQEVCILSADVVVGIAAPGCPNALKGKTVLENFVEENLIAPVFSIHHARFQDGEHFGEIIFGGSDWKYVDGEFTYVPLVGDDSWKFRLDGVKIGDTTVAPAGTQAIIDTSKAIIVGPKAYVNPINEAIGCVVEKTTTRRICKLDCSKIPSLPDVTFVINGRNFNISSQYYIQQNGNLCYSGFQPCGHSDHFFIGDFFVDHYYSEFNWENKTMGFGRSVES  351
               SCOP domains d3liza_ A: automated matches                                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------Asp-3lizA01 A:13-325                                                                                                                                                                                                                                                                                                   --- Pfam domains
         Sec.struct. author ........eeeee....eeeeee..eeeeeeee.....eeee.....hhhhhh...........ee.....eeeee...eeeeeeeeeeeeee..eeeeeeeeeeeeee.hhhhhh...eeee.............hhhhhhhhh.....eeeeeeee.....eeeeeee...hhh.eeeeeeeee........ee..eeee..eeee....eeee......eeeehhhhhhhhhhhh.eeee....eeeeehhhhhhhh..eeeee..eeeeehhhhheeee..eeee.eeee.....eeehhhhhh.eeeeee....eeeeeee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------PEPTIDASE_A1  PDB: A:14-323 UniProt: 39-346                                                                                                                                                                                                                                                                         ----- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3liz A   -6 SIVPLYKLVHVFINTQYAGITKIGNQNFLTVFDSTSCNVVVASQECVGGACVCPNLQKYEKLKPKYISDGNVQVKFFDTGSAVGRGIEDSLTISQLTTSQQDIVLADELSQEVCILSADVVVGIAAPGCPNALKGKTVLENFVEENLIAPVFSIHHARFQDGEHFGEIIFGGSDWKYVDGEFTYVPLVGDDSWKFRLDGVKIGDTTVAPAGTQAIIDTSKAIIVGPKAYVNPINEAIGCVVEKTTTRRICKLDCSKIPSLPDVTFVINGRNFNISSQYYIQQNGNLCYSGFQPCGHSDHFFIGDFFVDHYYSEFNWENKTMGFGRSVES  328
                                     3    ||  17   ||   29        39        49  ||    57   ||   69      | 78        88        98       109       119       128       138       149       159||     167       177       187       197       207||     218       228       238    |||245       255       265       275       285      |299       309       319         
                                          8|      21|                         51A|        61| 68A     75A                             107|              126A                 146|        159A|                                              208|                             242A||                                               292|                               
                                          13       24                          51B         65                                          109                                    148         159B                                               210                              242B|                                                297                               
                                                                                                                                                                                                                                                                               242C

Chain H from PDB  Type:PROTEIN  Length:213
                                                                                                                                                                                                                                                      
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...ee.....eeeeeeee..hhhhh.eeeeee.....eeeeeee......ee.........eeeeehhh.eeeeee...hhhhheeeeeee.........ee...eeeee........eeeee....eeeeeeeeeee.....eeee.hhh....eee...eee..eeeeeeeeeee.........eeeeeehhhheeeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3liz H    1 EVQLVESGGGLVQPGGSLKLSCAASGFTFSSFAMSWGRQTPDKRLELVATINSNGASTYYPDTVKGRFTISRDNAKNTLFLQMSSLKSEDTAMYYCTRDPAGRAWFAYWGQGTLVTVSAAKTTPPSVYPLAPNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSETVTCNVAHPASSTKVDKKIVPR  219
                                    10        20        30        40        50        60        70        80        90       100       110       120       130 ||    146       156       166       176       186       196       206       216   
                                                                                                                                                             132|                                                                                
                                                                                                                                                              139

Chain L from PDB  Type:PROTEIN  Length:211
                                                                                                                                                                                                                                                    
               SCOP domains d3lizl1 L:1-107 automated matches                                                                          d3lizl2 L:108-211 automated matches                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee.......eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhheeeeeee......ee...eeeee.......eeeee..hhhhhhh.eeeeeeeeeee.....eeeeee..eee...eeeee.........eeeeeeeeeehhhhh...eeeeeee.......eeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3liz L    1 QIVLTQSPSSMYASLGERVTITCKASQDINNYLSWFQQKPGKSPKTLIYRADRLVDGVPSRVSGSGSGQDYSLTISSLEYEDLGIYYCLQYDELPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNR  211
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210

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: All beta proteins (24004)

Fold: Acid proteases (1120)

Superfamily: Acid proteases (1120)

Family: automated matches (23)

Protein domain: automated matches (23)

Blattella germanica [TaxId: 6973] (3)

d3liza_

Fold: Immunoglobulin-like beta-sandwich (7299)

Superfamily: Immunoglobulin (5995)

Family: automated matches (864)

Protein domain: automated matches (864)

Mouse (Mus musculus) [TaxId: 10090] (360)

d3lizl1

L:1-107

Family: C1 set domains (antibody constant domain-like) (3013)

Protein domain: automated matches (652)

Mouse (Mus musculus) [TaxId: 10090] (309)

d3lizl2

L:108-211

(no "CATH Domain" information available for 3LIZ)

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Peptidase_AA (368)

Family: Asp (155)

Blattella germanica (German cockroach) (Blatta germanica) (2)

Asp-3lizA01

A:13-325

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (ASP2_BLAGE | P54958)

molecular function
	GO:0004190	aspartic-type endopeptidase activity	Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which a water molecule bound by the side chains of aspartic residues at the active center acts as a nucleophile.
	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: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.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Glu H:154 - Pro H:155	[ RasMol ]
		Leu L:94 - Pro L:95	[ RasMol ]
		Phe H:152 - Pro H:153	[ RasMol ]
		Ser L:7 - Pro L:8	[ RasMol ]
		Trp H:194 - Pro H:195	[ RasMol ]
		Tyr L:140 - Pro L:141	[ RasMol ]

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Access by PDB/NDB ID
	3liz
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	ASP2_BLAGE \| P54958
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	3.4.23.-
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	ASP2_BLAGE \| P54958
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	ASP2_BLAGE \| P54958	:	1yg9 2nr6 4rld

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (6, 21)

Sites (21, 21)

SS Bonds (9, 9)

Cis Peptide Bonds (6, 6)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 1)

Exons (0, 0)

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