4OQO - JenaLib

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Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF THE TRYPTIC GENERATED IRON-FREE C-LOBE OF BOVINE LACTOFERRIN AT 2.42 ANGSTROM RESOLUTION

Authors :   A. Singh, N. Rastogi, S. Pandey, A. Bhushan, M. Sinha, P. Kaur, S. Sharma T. P. Singh

Date :   10 Feb 14 (Deposition) - 12 Mar 14 (Release) - 16 Jul 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.42

Chains :   Asym. Unit : A,B
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)

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

Reference :   N. Rastogi, A. Singh, S. N. Pandey, M. Sinha, A. Bhushan, P. Kaur, S. Sharma, T. P. Singh
Structure Of The Iron-Free True C-Terminal Half Of Bovine Lactoferrin Produced By Tryptic Digestion And Its Functiona Significance In The Gut.
Febs J. V. 281 2871 2014
PubMed-ID: 24798798 | Reference-DOI: 10.1111/FEBS.12827

Molecule 1 - LACTOTRANSFERRIN
	Chains	:	A, B
	EC Number	:	3.4.21.-
	Fragment	:	C-LOBE, UNP RESIDUES 361-708
	Organism Common	:	BOVINE,COW,DOMESTIC CATTLE,DOMESTIC COW
	Organism Scientific	:	BOS TAURUS
	Organism Taxid	:	9913
	Synonym	:	LACTOFERRIN, LACTOFERRICIN-B, LFCIN-B

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 5)

No.	Name	Count	Type	Full Name
1	NAG	5	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	NAG	2	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Biological Unit 2 (1, 3)

No.	Name	Count	Type	Full Name
1	NAG	3	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASN A:476 , LYS A:633 , HOH A:840 , HOH A:968	BINDING SITE FOR MONO-SACCHARIDE NAG A 702 BOUND TO ASN A 476
2	AC2	SOFTWARE	ASN A:545 , ASP A:546 , TRP A:549 , GLN A:585	BINDING SITE FOR MONO-SACCHARIDE NAG A 701 BOUND TO ASN A 545
3	AC3	SOFTWARE	ASN B:476 , THR B:667	BINDING SITE FOR MONO-SACCHARIDE NAG B 703 BOUND TO ASN B 476
4	AC4	SOFTWARE	ASN B:545 , ASP B:546 , TRP B:549 , GLU B:555 , THR B:582 , GLN B:585	BINDING SITE FOR CHAIN B OF SUGAR BOUND TO ASN B 545 RESIDUES 701 TO 702

Asymmetric Unit

No.	Residues
1	A:348	-	A:380
2	A:358	-	A:371
3	A:405	-	A:684
4	A:425	-	A:647
5	A:457	-	A:532
6	A:481	-	A:675
7	A:491	-	A:505
8	A:502	-	A:515
9	A:573	-	A:587
10	A:625	-	A:630
11	B:348	-	B:380
12	B:358	-	B:371
13	B:405	-	B:684
14	B:425	-	B:647
15	B:457	-	B:532
16	B:481	-	B:675
17	B:491	-	B:505
18	B:502	-	B:515
19	B:573	-	B:587
20	B:625	-	B:630

Asymmetric Unit

No.	Residues
1	Leu A:423	-	Asp A:424
2	Gly A:652	-	Gly A:653
3	Leu B:423	-	Asp B:424

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

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

(no "Exon" information available for 4OQO)

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:348
                                                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains d4oqoa_ A: Lactoferrin                                                                                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeeeehhhhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhh.....eeehhhhhhhhhhhheeeeeeeee..................eeeeeee..............eeee........hhhhhhhhhhhhh..hhhhh..eee.......hhhhh....................hhhhhhhhhhhh....eeeeehhhhhhhh............hhh.eeee.....eee.hhhhhh..ee....eeeeehhhhhhhhhhhhhhhhhhh....hhhhhh...............eeeee......hhhhhhhhhhhhhhhhhhhhh.hhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4oqo A 342 YTRVVWCAVGPEEQKKCQQWSQQSGQNVTCATASTTDDCIVLVLKGEADALNLDGGYIYTAGKCGLVPVLAENRKSSKHSSLDCVLRPTEGYLAVAVVKKANEGLTWNSLKDKKSCHTAVDRTAGWNIPMGLIVNQTGSCAFDEFFSQSCAPGADPKSRLCALCAGDDQGLDKCVPNSKEKYYGYTGAFRCLAEDVGDVAFVKNDTVWENTNGESTADWAKNLKREDFRLLCLDGTRKPVTEAQSCHLAVAPNHAVVSRSDRAAHVEQVLLHQQALFGKNGKNCPDKFCLFKSETKNLLFNDNTECLAKLGGRPTYEEYLGTEYVTAIANLKKCSTSPLLEACAFLTR 689
                                   351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611       621       631       641       651       661       671       681

Chain B from PDB  Type:PROTEIN  Length:348
                                                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains d4oqob_ B: Lactoferrin                                                                                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeeeehhhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhh.....eeehhhhhhhhhhhh.eeeeeeee..................eeeeeee......hhhhh...eeee........hhhhhhhhhhhhh.........eee.......hhhhh....................hhhhhhhhhhhh....eeeeehhhhhhh.............hhh.eeee.....eee.hhhhhh..ee....eeeehhhhhhhhhhhhhhhhhhhh.........................eeeeee.....hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4oqo B 342 YTRVVWCAVGPEEQKKCQQWSQQSGQNVTCATASTTDDCIVLVLKGEADALNLDGGYIYTAGKCGLVPVLAENRKSSKHSSLDCVLRPTEGYLAVAVVKKANEGLTWNSLKDKKSCHTAVDRTAGWNIPMGLIVNQTGSCAFDEFFSQSCAPGADPKSRLCALCAGDDQGLDKCVPNSKEKYYGYTGAFRCLAEDVGDVAFVKNDTVWENTNGESTADWAKNLKREDFRLLCLDGTRKPVTEAQSCHLAVAPNHAVVSRSDRAAHVEQVLLHQQALFGKNGKNCPDKFCLFKSETKNLLFNDNTECLAKLGGRPTYEEYLGTEYVTAIANLKKCSTSPLLEACAFLTR 689
                                   351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611       621       631       641       651       661       671       681

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) (23833)

Fold: Periplasmic binding protein-like II (813)

Superfamily: Periplasmic binding protein-like II (813)

Family: Transferrin (82)

Protein domain: Lactoferrin (42)

Cow (Bos taurus) [TaxId: 9913] (8)

1a	d4oqoa_	A:
1b	d4oqob_	B:

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

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

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
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	Cis Peptide Bonds
		Gly A:652 - Gly A:653	[ RasMol ]
		Leu A:423 - Asp A:424	[ RasMol ]
		Leu B:423 - Asp B:424	[ RasMol ]

Biological Units
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		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]

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Description

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Ligands, Modified Residues, Ions (1, 5)

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SS Bonds (20, 20)

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