4AXM - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Biological Unit 5 (Jmol Viewer)

Biological Unit 6 (Jmol Viewer)

Title :   TRIAZINE CATHEPSIN INHIBITOR COMPLEX

Authors :   V. Ehmke, F. Diederich, D. W. Banner, J. Benz

Date :   13 Jun 12 (Deposition) - 08 May 13 (Release) - 12 Jun 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.80

Chains :   Asym. Unit : A,B,F,I,L,O
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: F  (1x)
Biol. Unit 4: I  (1x)
Biol. Unit 5: L  (1x)
Biol. Unit 6: O  (1x)

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

Reference :   V. Ehmke, E. Winkler, D. W. Banner, W. Haap, W. B. Schweizer, M. Rottmann, M. Kaiser, C. Freymond, T. Schirmeister, F. Diederich
Optimization Of Triazine Nitriles As Rhodesain Inhibitors: Structure-Activity Relationships, Bioisosteric Imidazopyridine Nitriles, And X-Ray Crystal Structure Analysis With Human Cathepsin L
Chemmedchem V. 8 967 2013
PubMed-ID: 23658062 | Reference-DOI: 10.1002/CMDC.201300112

Molecule 1 - CATHEPSIN L1
	Chains	:	A, B, F, I, L, O
	EC Number	:	3.4.22.15
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Fragment	:	CATALYTIC, RESIDUES 114-333
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	CATHEPSIN L, MAJOR EXCRETED PROTEIN, MEP, CATHEPSIN L1 HEAVY CHAIN, CATHEPSIN L1 LIGHT CHAIN

		1	2	3	4	5	6
Asymmetric Unit	:	A	B	F	I	L	O
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			F
Biological Unit 4 (1x)	:				I
Biological Unit 5 (1x)	:					L
Biological Unit 6 (1x)	:						O

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 12)

No.	Name	Count	Type	Full Name
1	GOL	6	Ligand/Ion	GLYCEROL
2	V65	6	Ligand/Ion	4-[(4-CHLOROBENZYL)(CYCLOHEXYL)AMINO]-6-MORPHOLIN-4-YL-1,3,5-TRIAZINE-2-CARBOXAMIDE

Biological Unit 1 (2, 2)

No.	Name	Count	Type	Full Name
1	GOL	1	Ligand/Ion	GLYCEROL
2	V65	1	Ligand/Ion	4-[(4-CHLOROBENZYL)(CYCLOHEXYL)AMINO]-6-MORPHOLIN-4-YL-1,3,5-TRIAZINE-2-CARBOXAMIDE

Biological Unit 2 (2, 2)

No.	Name	Count	Type	Full Name
1	GOL	1	Ligand/Ion	GLYCEROL
2	V65	1	Ligand/Ion	4-[(4-CHLOROBENZYL)(CYCLOHEXYL)AMINO]-6-MORPHOLIN-4-YL-1,3,5-TRIAZINE-2-CARBOXAMIDE

Biological Unit 3 (2, 2)

No.	Name	Count	Type	Full Name
1	GOL	1	Ligand/Ion	GLYCEROL
2	V65	1	Ligand/Ion	4-[(4-CHLOROBENZYL)(CYCLOHEXYL)AMINO]-6-MORPHOLIN-4-YL-1,3,5-TRIAZINE-2-CARBOXAMIDE

Biological Unit 4 (2, 2)

No.	Name	Count	Type	Full Name
1	GOL	1	Ligand/Ion	GLYCEROL
2	V65	1	Ligand/Ion	4-[(4-CHLOROBENZYL)(CYCLOHEXYL)AMINO]-6-MORPHOLIN-4-YL-1,3,5-TRIAZINE-2-CARBOXAMIDE

Biological Unit 5 (2, 2)

No.	Name	Count	Type	Full Name
1	GOL	1	Ligand/Ion	GLYCEROL
2	V65	1	Ligand/Ion	4-[(4-CHLOROBENZYL)(CYCLOHEXYL)AMINO]-6-MORPHOLIN-4-YL-1,3,5-TRIAZINE-2-CARBOXAMIDE

Biological Unit 6 (2, 2)

No.	Name	Count	Type	Full Name
1	GOL	1	Ligand/Ion	GLYCEROL
2	V65	1	Ligand/Ion	4-[(4-CHLOROBENZYL)(CYCLOHEXYL)AMINO]-6-MORPHOLIN-4-YL-1,3,5-TRIAZINE-2-CARBOXAMIDE

Asymmetric Unit (11, 11)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ASN A:18 , GLY A:20	BINDING SITE FOR RESIDUE GOL A1221
02	AC2	SOFTWARE	GLN A:19 , GLY A:23 , SER A:24 , CYS A:25 , GLY A:61 , GLU A:63 , GLY A:68 , LEU A:69 , ALA A:135 , ASP A:162 , HIS A:163 , GLY A:164 , ARG I:206	BINDING SITE FOR RESIDUE V65 A1222
03	AC3	SOFTWARE	ASN F:18	BINDING SITE FOR RESIDUE GOL F1221
04	AC4	SOFTWARE	GLN B:19 , GLY B:23 , SER B:24 , CYS B:25 , ASN B:66 , GLY B:67 , GLY B:68 , LEU B:69 , ARG F:206	BINDING SITE FOR RESIDUE V65 B1222
05	AC5	SOFTWARE	ASN I:18	BINDING SITE FOR RESIDUE GOL I1221
06	AC6	SOFTWARE	GLN F:19 , GLY F:23 , CYS F:25 , GLU F:63 , CYS F:65 , ASN F:66 , GLY F:67 , GLY F:68 , LEU F:69 , MET F:161 , ASP F:162 , ARG L:206	BINDING SITE FOR RESIDUE V65 F1222
07	AC7	SOFTWARE	ASN L:18	BINDING SITE FOR RESIDUE GOL L1221
08	AC8	SOFTWARE	GLN I:19 , GLY I:23 , SER I:24 , CYS I:25 , CYS I:65 , GLY I:67 , GLY I:68 , ASP I:162 , ARG O:206	BINDING SITE FOR RESIDUE V65 I1222
09	AC9	SOFTWARE	GLY O:20 , LEU O:144	BINDING SITE FOR RESIDUE GOL O1221
10	BC1	SOFTWARE	ARG A:206 , GLN L:19 , GLY L:23 , CYS L:25 , ASN L:66 , GLY L:68 , LEU L:69 , ALA L:135 , ASP L:162	BINDING SITE FOR RESIDUE V65 L1222
11	BC2	SOFTWARE	GLY O:23 , CYS O:25 , ASN O:66 , GLY O:67 , GLY O:68 , LEU O:69 , ALA O:135 , MET O:161 , ASP O:162 , HIS O:163 , GLY O:164	BINDING SITE FOR RESIDUE V65 O1222

Asymmetric Unit

No.	Residues
1	A:22	-	A:65
2	A:56	-	A:98
3	A:156	-	A:209
4	B:22	-	B:65
5	B:56	-	B:98
6	B:156	-	B:209
7	F:22	-	F:65
8	F:56	-	F:98
9	F:156	-	F:209
10	I:22	-	I:65
11	I:56	-	I:98
12	I:156	-	I:209
13	L:22	-	L:65
14	L:56	-	L:98
15	L:156	-	L:209
16	O:22	-	O:65
17	O:56	-	O:98
18	O:156	-	O:209

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

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

Asymmetric Unit (3, 18)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	THIOL_PROTEASE_CYS	PS00139	Eukaryotic thiol (cysteine) proteases cysteine active site.	CATL1_HUMAN	132-143	6	A:19-30 B:19-30 F:19-30 I:19-30 L:19-30 O:19-30
2	THIOL_PROTEASE_HIS	PS00639	Eukaryotic thiol (cysteine) proteases histidine active site.	CATL1_HUMAN	274-284	6	A:161-171 B:161-171 F:161-171 I:161-171 L:161-171 O:161-171
3	THIOL_PROTEASE_ASN	PS00640	Eukaryotic thiol (cysteine) proteases asparagine active site.	CATL1_HUMAN	295-314	6	A:182-201 B:182-201 F:182-201 I:182-201 L:182-201 O:182-201

Biological Unit 1 (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	THIOL_PROTEASE_CYS	PS00139	Eukaryotic thiol (cysteine) proteases cysteine active site.	CATL1_HUMAN	132-143	1	A:19-30 - - - - -
2	THIOL_PROTEASE_HIS	PS00639	Eukaryotic thiol (cysteine) proteases histidine active site.	CATL1_HUMAN	274-284	1	A:161-171 - - - - -
3	THIOL_PROTEASE_ASN	PS00640	Eukaryotic thiol (cysteine) proteases asparagine active site.	CATL1_HUMAN	295-314	1	A:182-201 - - - - -

Biological Unit 2 (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	THIOL_PROTEASE_CYS	PS00139	Eukaryotic thiol (cysteine) proteases cysteine active site.	CATL1_HUMAN	132-143	1	- B:19-30 - - - -
2	THIOL_PROTEASE_HIS	PS00639	Eukaryotic thiol (cysteine) proteases histidine active site.	CATL1_HUMAN	274-284	1	- B:161-171 - - - -
3	THIOL_PROTEASE_ASN	PS00640	Eukaryotic thiol (cysteine) proteases asparagine active site.	CATL1_HUMAN	295-314	1	- B:182-201 - - - -

Biological Unit 3 (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	THIOL_PROTEASE_CYS	PS00139	Eukaryotic thiol (cysteine) proteases cysteine active site.	CATL1_HUMAN	132-143	1	- - F:19-30 - - -
2	THIOL_PROTEASE_HIS	PS00639	Eukaryotic thiol (cysteine) proteases histidine active site.	CATL1_HUMAN	274-284	1	- - F:161-171 - - -
3	THIOL_PROTEASE_ASN	PS00640	Eukaryotic thiol (cysteine) proteases asparagine active site.	CATL1_HUMAN	295-314	1	- - F:182-201 - - -

Biological Unit 4 (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	THIOL_PROTEASE_CYS	PS00139	Eukaryotic thiol (cysteine) proteases cysteine active site.	CATL1_HUMAN	132-143	1	- - - I:19-30 - -
2	THIOL_PROTEASE_HIS	PS00639	Eukaryotic thiol (cysteine) proteases histidine active site.	CATL1_HUMAN	274-284	1	- - - I:161-171 - -
3	THIOL_PROTEASE_ASN	PS00640	Eukaryotic thiol (cysteine) proteases asparagine active site.	CATL1_HUMAN	295-314	1	- - - I:182-201 - -

Biological Unit 5 (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	THIOL_PROTEASE_CYS	PS00139	Eukaryotic thiol (cysteine) proteases cysteine active site.	CATL1_HUMAN	132-143	1	- - - - L:19-30 -
2	THIOL_PROTEASE_HIS	PS00639	Eukaryotic thiol (cysteine) proteases histidine active site.	CATL1_HUMAN	274-284	1	- - - - L:161-171 -
3	THIOL_PROTEASE_ASN	PS00640	Eukaryotic thiol (cysteine) proteases asparagine active site.	CATL1_HUMAN	295-314	1	- - - - L:182-201 -

Biological Unit 6 (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	THIOL_PROTEASE_CYS	PS00139	Eukaryotic thiol (cysteine) proteases cysteine active site.	CATL1_HUMAN	132-143	1	- - - - - O:19-30
2	THIOL_PROTEASE_HIS	PS00639	Eukaryotic thiol (cysteine) proteases histidine active site.	CATL1_HUMAN	274-284	1	- - - - - O:161-171
3	THIOL_PROTEASE_ASN	PS00640	Eukaryotic thiol (cysteine) proteases asparagine active site.	CATL1_HUMAN	295-314	1	- - - - - O:182-201

Asymmetric Unit (5, 30)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1a	ENST00000343150	1a	ENSE00001886667	chr9:90340434-90341313	880	CATL1_HUMAN	-	0	0	-	-
1.2b	ENST00000343150	2b	ENSE00002159545	chr9:90342509-90342644	136	CATL1_HUMAN	1-42	42	0	-	-
1.3a	ENST00000343150	3a	ENSE00001686191	chr9:90342942-90343064	123	CATL1_HUMAN	43-83	41	0	-	-
1.4	ENST00000343150	4	ENSE00001692924	chr9:90343165-90343311	147	CATL1_HUMAN	84-132	49	6	A:1-19 B:1-19 F:1-19 I:1-19 L:1-19 O:1-19	19 19 19 19 19 19
1.5a	ENST00000343150	5a	ENSE00000917752	chr9:90343500-90343724	225	CATL1_HUMAN	133-207	75	6	A:20-94 B:20-94 F:20-94 I:20-94 L:20-94 O:20-94	75 75 75 75 75 75
1.6b	ENST00000343150	6b	ENSE00000917753	chr9:90344488-90344650	163	CATL1_HUMAN	208-262	55	6	A:95-149 B:95-149 F:95-149 I:95-149 L:95-149 O:95-149	55 55 55 55 55 55
1.7	ENST00000343150	7	ENSE00001618315	chr9:90345296-90345413	118	CATL1_HUMAN	262-301	40	6	A:149-188 (gaps) B:149-188 (gaps) F:149-188 (gaps) I:149-188 (gaps) L:149-188 (gaps) O:149-188 (gaps)	40 40 40 40 40 40
1.8c	ENST00000343150	8c	ENSE00001931704	chr9:90345923-90346307	385	CATL1_HUMAN	301-333	33	6	A:188-220 B:188-220 F:188-220 I:188-220 L:188-220 O:188-220	33 33 33 33 33 33

Asymmetric 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:218
 aligned with CATL1_HUMAN | P07711 from UniProtKB/Swiss-Prot  Length:333

    Alignment length:220
                                   123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333
          CATL1_HUMAN   114 APRSVDWREKGYVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFESTESDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGIASAASYPTV 333
               SCOP domains d4axma_ A: automated matches                                                                                                                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee.................hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhh.....hhh...hhhhhhhhhhhhh.ee................hhh.eee....eee...hhhhhhhhhhhhh.eeeee...hhhhhh....ee...........eeeeeeeeee..--....eeeeee...........eeeee....hhhhhhhh.eee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------THIOL_PROTEA----------------------------------------------------------------------------------------------------------------------------------THIOL_PROTE----------THIOL_PROTEASE_ASN  ------------------- PROSITE
           Transcript 1 (1) Exon 1.4           Exon 1.5a  PDB: A:20-94 UniProt: 133-207                                   Exon 1.6b  PDB: A:95-149 UniProt: 208-262              --------------------------------------Exon 1.8c  PDB: A:188-220         Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.7  PDB: A:149-188 (gaps)         -------------------------------- Transcript 1 (2)
                 4axm A   1 APRSVDWREKGYVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFES--SDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGIASAASYPTV 220
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170   |  |180       190       200       210       220
                                                                                                                                                                                                       174  |                                           
                                                                                                                                                                                                          177

Chain B from PDB  Type:PROTEIN  Length:219
 aligned with CATL1_HUMAN | P07711 from UniProtKB/Swiss-Prot  Length:333

    Alignment length:220
                                   123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333
          CATL1_HUMAN   114 APRSVDWREKGYVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFESTESDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGIASAASYPTV 333
               SCOP domains d4axmb_ B: automated matches                                                                                                                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee.................hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhh.hhh...hhhhhhhhhhhhh.ee................hhh.eee...eeee...hhhhhhhhhhhhh.eeeee...hhhhhh....ee...........eeeeeeeeee....-...eeeeee...........eeeee....hhhhh....eeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------THIOL_PROTEA----------------------------------------------------------------------------------------------------------------------------------THIOL_PROTE----------THIOL_PROTEASE_ASN  ------------------- PROSITE
           Transcript 1 (1) Exon 1.4           Exon 1.5a  PDB: B:20-94 UniProt: 133-207                                   Exon 1.6b  PDB: B:95-149 UniProt: 208-262              --------------------------------------Exon 1.8c  PDB: B:188-220         Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.7  PDB: B:149-188 (gaps)         -------------------------------- Transcript 1 (2)
                 4axm B   1 APRSVDWREKGYVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFESTE-DNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGIASAASYPTV 220
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170     | 180       190       200       210       220
                                                                                                                                                                                                         176 |                                          
                                                                                                                                                                                                           178

Chain F from PDB  Type:PROTEIN  Length:216
 aligned with CATL1_HUMAN | P07711 from UniProtKB/Swiss-Prot  Length:333

    Alignment length:220
                                   123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333
          CATL1_HUMAN   114 APRSVDWREKGYVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFESTESDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGIASAASYPTV 333
               SCOP domains d4axmf_ F: automated matches                                                                                                                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee.hhhh............hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhh.....hhh...hhhhhhhhhhhhh.ee.hhhh...........hhh.eee...eeee...hhhhhhhhhhhhh.eeeee...hhhhhh....ee...........eeeeeeeeee..----..eeeeee...........eeeee....hhhhh....eeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------THIOL_PROTEA----------------------------------------------------------------------------------------------------------------------------------THIOL_PROTE----------THIOL_PROTEASE_ASN  ------------------- PROSITE
           Transcript 1 (1) Exon 1.4           Exon 1.5a  PDB: F:20-94 UniProt: 133-207                                   Exon 1.6b  PDB: F:95-149 UniProt: 208-262              --------------------------------------Exon 1.8c  PDB: F:188-220         Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.7  PDB: F:149-188 (gaps)         -------------------------------- Transcript 1 (2)
                 4axm F   1 APRSVDWREKGYVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFES----NNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGIASAASYPTV 220
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170   |   180       190       200       210       220
                                                                                                                                                                                                       174  179

Chain I from PDB  Type:PROTEIN  Length:217
 aligned with CATL1_HUMAN | P07711 from UniProtKB/Swiss-Prot  Length:333

    Alignment length:220
                                   123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333
          CATL1_HUMAN   114 APRSVDWREKGYVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFESTESDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGIASAASYPTV 333
               SCOP domains d4axmi_ I: automated matches                                                                                                                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee.hhhh............hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhh.hhh...hhhhhhhhhhhhh.ee................hhh.eee....eee...hhhhhhhhhhhhh.eeeee...hhhhhh....ee...........eeeeeeeee....---...eeeee...........eeeee....hhhhh...eeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------THIOL_PROTEA----------------------------------------------------------------------------------------------------------------------------------THIOL_PROTE----------THIOL_PROTEASE_ASN  ------------------- PROSITE
           Transcript 1 (1) Exon 1.4           Exon 1.5a  PDB: I:20-94 UniProt: 133-207                                   Exon 1.6b  PDB: I:95-149 UniProt: 208-262              --------------------------------------Exon 1.8c  PDB: I:188-220         Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.7  PDB: I:149-188 (gaps)         -------------------------------- Transcript 1 (2)
                 4axm I   1 APRSVDWREKGYVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFEST---NNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGIASAASYPTV 220
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170    |  180       190       200       210       220
                                                                                                                                                                                                        175 179

Chain L from PDB  Type:PROTEIN  Length:216
 aligned with CATL1_HUMAN | P07711 from UniProtKB/Swiss-Prot  Length:333

    Alignment length:220
                                   123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333
          CATL1_HUMAN   114 APRSVDWREKGYVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFESTESDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGIASAASYPTV 333
               SCOP domains d4axml_ L: automated matches                                                                                                                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee.hhhh............hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhh.....hhh...hhhhhhhhhhhhh...................hhhh.......eee.....hhhhhhhhhh..eeee....hhhhhh....ee............eeeeeeeee..----..eeeeee...........eeeee....hhhhh....eee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------THIOL_PROTEA----------------------------------------------------------------------------------------------------------------------------------THIOL_PROTE----------THIOL_PROTEASE_ASN  ------------------- PROSITE
           Transcript 1 (1) Exon 1.4           Exon 1.5a  PDB: L:20-94 UniProt: 133-207                                   Exon 1.6b  PDB: L:95-149 UniProt: 208-262              --------------------------------------Exon 1.8c  PDB: L:188-220         Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.7  PDB: L:149-188 (gaps)         -------------------------------- Transcript 1 (2)
                 4axm L   1 APRSVDWREKGYVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFES----NNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGIASAASYPTV 220
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170   |   180       190       200       210       220
                                                                                                                                                                                                       174  179

Chain O from PDB  Type:PROTEIN  Length:216
 aligned with CATL1_HUMAN | P07711 from UniProtKB/Swiss-Prot  Length:333

    Alignment length:220
                                   123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333
          CATL1_HUMAN   114 APRSVDWREKGYVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFESTESDNNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGIASAASYPTV 333
               SCOP domains d4axmo_ O: automated matches                                                                                                                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee.hhhh............hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhh.....hhh...hhhhhhhhhhhh..ee................hhh.eee....eee...hhhhhhhhhhhh..eeee....hhhhhh....ee............eeeeeeeee..----..eeeeee...........eeeee....hhhhh....eee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------THIOL_PROTEA----------------------------------------------------------------------------------------------------------------------------------THIOL_PROTE----------THIOL_PROTEASE_ASN  ------------------- PROSITE
           Transcript 1 (1) Exon 1.4           Exon 1.5a  PDB: O:20-94 UniProt: 133-207                                   Exon 1.6b  PDB: O:95-149 UniProt: 208-262              --------------------------------------Exon 1.8c  PDB: O:188-220         Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.7  PDB: O:149-188 (gaps)         -------------------------------- Transcript 1 (2)
                 4axm O   1 APRSVDWREKGYVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQYVQDNGGLDSEESYPYEATEESCKYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDMDHGVLVVGYGFES----NNKYWLVKNSWGEEWGMGGYVKMAKDRRNHCGIASAASYPTV 220
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170   |   180       190       200       210       220
                                                                                                                                                                                                       174  179

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 Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a+b) (23004)

Fold: Cysteine proteinases (392)

Superfamily: Cysteine proteinases (392)

Family: automated matches (52)

Protein domain: automated matches (52)

Human (Homo sapiens) [TaxId: 9606] (30)

1a	d4axma_	A:
1b	d4axmb_	B:
1c	d4axmf_	F:
1d	d4axmi_	I:
1e	d4axml_	L:
1f	d4axmo_	O:

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

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

Asymmetric Unit(hide GO term definitions)

Chain A,B,F,I,L,O (CATL1_HUMAN | P07711)

molecular function
	GO:0005518	collagen binding	Interacting selectively and non-covalently with collagen, a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals. Collagen is highly enriched in glycine (some regions are 33% glycine) and proline, occurring predominantly as 3-hydroxyproline (about 20%).
	GO:0004197	cysteine-type endopeptidase activity	Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile.
	GO:0008234	cysteine-type peptidase activity	Catalysis of the hydrolysis of peptide bonds in a polypeptide chain by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile.
	GO:0001968	fibronectin binding	Interacting selectively and non-covalently with a fibronectin, a group of related adhesive glycoproteins of high molecular weight found on the surface of animal cells, connective tissue matrices, and in extracellular fluids.
	GO:0042393	histone binding	Interacting selectively and non-covalently with a histone, any of a group of water-soluble proteins found in association with the DNA of eukaroytic chromosomes. They are involved in the condensation and coiling of chromosomes during cell division and have also been implicated in nonspecific suppression of gene activity.
	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: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.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0043394	proteoglycan binding	Interacting selectively and non-covalently with a proteoglycan, any glycoprotein in which the carbohydrate units are glycosaminoglycans.
	GO:0004252	serine-type endopeptidase activity	Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile that is activated by a proton relay involving an acidic residue (e.g. aspartate or glutamate) and a basic residue (usually histidine).
	GO:0097655	serpin family protein binding	Interacting selectively and non-covalently with any member of the serpin protein family (serine protease inhibitors or classified inhibitor family I4). Serpins are a broadly distributed family of protease inhibitors that use a conformational change to inhibit target enzymes. They are central in controlling many important proteolytic cascades. The majority of serpins inhibit serine proteases, but serpins that inhibit caspases and papain-like cysteine proteases have also been identified. Rarely, serpins perform a non-inhibitory function; for example, several human serpins function as hormone transporters and certain serpins function as molecular chaperones or tumor suppressors.
biological process
	GO:0002250	adaptive immune response	An immune response mediated by cells expressing specific receptors for antigen produced through a somatic diversification process, and allowing for an enhanced secondary response to subsequent exposures to the same antigen (immunological memory).
	GO:0019882	antigen processing and presentation	The process in which an antigen-presenting cell expresses antigen (peptide or lipid) on its cell surface in association with an MHC protein complex.
	GO:0019886	antigen processing and presentation of exogenous peptide antigen via MHC class II	The process in which an antigen-presenting cell expresses a peptide antigen of exogenous origin on its cell surface in association with an MHC class II protein complex. The peptide antigen is typically, but not always, processed from a whole protein.
	GO:0097067	cellular response to thyroid hormone stimulus	A change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a thyroid hormone stimulus.
	GO:0030574	collagen catabolic process	The proteolytic chemical reactions and pathways resulting in the breakdown of collagen in the extracellular matrix, usually carried out by proteases secreted by nearby cells.
	GO:0022617	extracellular matrix disassembly	A process that results in the breakdown of the extracellular matrix.
	GO:0071888	macrophage apoptotic process	Any apoptotic process in a macrophage, a mononuclear phagocyte present in a variety of tissues.
	GO:0006508	proteolysis	The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
	GO:0051603	proteolysis involved in cellular protein catabolic process	The hydrolysis of a peptide bond or bonds within a protein as part of the chemical reactions and pathways resulting in the breakdown of a protein by individual cells.
	GO:0002224	toll-like receptor signaling pathway	Any series of molecular signals generated as a consequence of binding to a toll-like receptor. Toll-like receptors directly bind pattern motifs from a variety of microbial sources to initiate innate immune response.
cellular component
	GO:0036021	endolysosome lumen	The volume enclosed by the membrane of an endolysosome. An endolysosome is a transient hybrid organelle formed by fusion of a late endosome with a lysosome.
	GO:0070062	extracellular exosome	A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
	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.
	GO:0005615	extracellular space	That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.
	GO:0043202	lysosomal lumen	The volume enclosed within the lysosomal membrane.
	GO:0005764	lysosome	A small lytic vacuole that has cell cycle-independent morphology and is found in most animal cells and that contains a variety of hydrolases, most of which have their maximal activities in the pH range 5-6. The contained enzymes display latency if properly isolated. About 40 different lysosomal hydrolases are known and lysosomes have a great variety of morphologies and functions.
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

Asymmetric 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
		GOL	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		V65	[ 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 ]

	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 4axm)

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]
		Biological Unit 3	[ Jena3D ]
		Biological Unit 4	[ Jena3D ]
		Biological Unit 5	[ Jena3D ]
		Biological Unit 6	[ Jena3D ]

Jmol
	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym. Unit PNG format \| Asym. Unit - sites PNG format \| Biol. Unit 1 PNG format \| Biol. Unit 1 - sites PNG format \| Biol. Unit 2 PNG format \| Biol. Unit 3 PNG format \| Biol. Unit 4 PNG format \| Biol. Unit 5 PNG format \| Biol. Unit 6 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
	4axm
		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
	CATL1_HUMAN \| P07711
		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)
	3.4.22.15
		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
	CATL1_HUMAN \| P07711
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

1cjl	CRYSTAL STRUCTURE OF A CYSTEINE PROTEASE PROFORM
1cs8	CRYSTAL STRUCTURE OF PROCATHEPSIN L
1icf	CRYSTAL STRUCTURE OF MHC CLASS II ASSOCIATED P41 II FRAGMENT IN COMPLEX WITH CATHEPSIN L
1mhw	DESIGN OF NON-COVALENT INHIBITORS OF HUMAN CATHEPSIN L .FROM THE 96-RESIDUE PROREGION TO OPTIMIZED TRIPEPTIDES
2vhs	CATHSILICATEIN, A CHIMERA
2xu1	CATHEPSIN L WITH A NITRILE INHIBITOR
2xu3	CATHEPSIN L WITH A NITRILE INHIBITOR
2xu4	CATHEPSIN L WITH A NITRILE INHIBITOR
2xu5	CATHEPSIN L WITH A NITRILE INHIBITOR
2yj2	CATHEPSIN L WITH A NITRILE INHIBITOR
2yj8	CATHEPSIN L WITH A NITRILE INHIBITOR
2yj9	CATHEPSIN L WITH A NITRILE INHIBITOR
2yjb	CATHEPSIN L WITH A NITRILE INHIBITOR
2yjc	CATHEPSIN L WITH A NITRILE INHIBITOR
4axl	HUMAN CATHEPSIN L APO FORM WITH ZN

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 12)

Sites (11, 11)

SS Bonds (18, 18)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (3, 18)

Exons (5, 30)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 6)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (28, 28)

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