4NN0 - JenaLib

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Title :   CRYSTAL STRUCTURE OF THE C1QTNF5 GLOBULAR DOMAIN IN SPACE GROUP P63

Authors :   X. Tu, K. Palczewski

Date :   15 Nov 13 (Deposition) - 26 Mar 14 (Release) - 23 Apr 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.42

Chains :   Asym. Unit : A,B,C
Biol. Unit 1: A  (3x)
Biol. Unit 2: B  (3x)
Biol. Unit 3: C  (3x)

Keywords :   L-Ormd, Late Onset Retinal Macular Degeneration, S163R, 10-Strand Jelly-Roll Fold, Cellular Adhesion, Cell Adhesion (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   X. Tu, K. Palczewski
The Macular Degeneration-Linked C1Qtnf5 (S163) Mutation Causes Higher-Order Structural Rearrangements.
J. Struct. Biol. V. 186 86 2014
PubMed-ID: 24531000 | Reference-DOI: 10.1016/J.JSB.2014.02.001

Molecule 1 - COMPLEMENT C1Q TUMOR NECROSIS FACTOR-RELATED PROTEIN 5
	Chains	:	A, B, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Fragment	:	GLOBULAR DOMAIN (UNP RESIDUES 103-243)
	Gene	:	C1QTNF5, CTRP5, UNQ303/PRO344
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606

		1	2	3
Asymmetric Unit	:	A	B	C
Biological Unit 1 (3x)	:	A
Biological Unit 2 (3x)	:		B
Biological Unit 3 (3x)	:			C

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 23)

No.	Name	Count	Type	Full Name
1	ACT	2	Ligand/Ion	ACETATE ION
2	EDO	18	Ligand/Ion	1,2-ETHANEDIOL
3	SO4	3	Ligand/Ion	SULFATE ION

Biological Unit 1 (3, 42)

No.	Name	Count	Type	Full Name
1	ACT	3	Ligand/Ion	ACETATE ION
2	EDO	36	Ligand/Ion	1,2-ETHANEDIOL
3	SO4	3	Ligand/Ion	SULFATE ION

Biological Unit 2 (3, 24)

No.	Name	Count	Type	Full Name
1	ACT	3	Ligand/Ion	ACETATE ION
2	EDO	15	Ligand/Ion	1,2-ETHANEDIOL
3	SO4	6	Ligand/Ion	SULFATE ION

Biological Unit 3 (1, 3)

No.	Name	Count	Type	Full Name
1	ACT	-1	Ligand/Ion	ACETATE ION
2	EDO	3	Ligand/Ion	1,2-ETHANEDIOL
3	SO4	-1	Ligand/Ion	SULFATE ION

Asymmetric Unit (23, 23)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ALA A:157 , SER A:190 , LEU A:191 , SER A:192 , HOH A:514	BINDING SITE FOR RESIDUE EDO A 301
02	AC2	SOFTWARE	PHE A:179 , PRO A:188 , EDO A:305 , EDO A:309 , HOH A:416	BINDING SITE FOR RESIDUE EDO A 302
03	AC3	SOFTWARE	LYS A:187 , EDO A:305 , HOH A:459 , HOH A:520 , TYR B:214 , EDO B:301	BINDING SITE FOR RESIDUE EDO A 303
04	AC4	SOFTWARE	PRO A:118 , SER A:119 , ASP A:120 , HOH A:460 , HOH A:470	BINDING SITE FOR RESIDUE EDO A 304
05	AC5	SOFTWARE	TYR A:214 , EDO A:302 , EDO A:303 , HOH A:517 , LYS B:187	BINDING SITE FOR RESIDUE EDO A 305
06	AC6	SOFTWARE	LYS A:142 , GLN A:204 , HOH A:458	BINDING SITE FOR RESIDUE EDO A 306
07	AC7	SOFTWARE	ALA A:102 , TRP A:236 , SER C:234 , ASP C:235 , TRP C:236	BINDING SITE FOR RESIDUE EDO A 307
08	AC8	SOFTWARE	ALA A:102 , ARG A:103 , HOH A:489 , EDO C:301	BINDING SITE FOR RESIDUE EDO A 308
09	AC9	SOFTWARE	TYR A:160 , PRO A:186 , PRO A:188 , TYR A:218 , EDO A:302	BINDING SITE FOR RESIDUE EDO A 309
10	BC1	SOFTWARE	LYS A:109 , VAL A:128	BINDING SITE FOR RESIDUE EDO A 310
11	BC2	SOFTWARE	SER A:234 , ASP A:235 , TRP A:236 , ALA C:102 , TRP C:236	BINDING SITE FOR RESIDUE EDO A 311
12	BC3	SOFTWARE	ARG A:161 , HOH A:421 , ARG B:161 , TYR B:218 , HOH B:512	BINDING SITE FOR RESIDUE EDO A 312
13	BC4	SOFTWARE	TRP A:185 , HOH A:427 , HOH A:429 , HOH A:432	BINDING SITE FOR RESIDUE SO4 A 313
14	BC5	SOFTWARE	SER A:113 , ARG A:161 , TYR A:218 , HOH A:526 , HOH A:533 , ARG B:114	BINDING SITE FOR RESIDUE ACT A 314
15	BC6	SOFTWARE	EDO A:303 , HOH B:420 , HOH B:516	BINDING SITE FOR RESIDUE EDO B 301
16	BC7	SOFTWARE	ALA B:102 , ARG B:103	BINDING SITE FOR RESIDUE EDO B 302
17	BC8	SOFTWARE	ALA B:157 , SER B:190 , LEU B:191 , SER B:192 , HOH B:503	BINDING SITE FOR RESIDUE EDO B 303
18	BC9	SOFTWARE	PRO B:118 , ALA B:121 , PRO B:122 , LEU B:123 , PRO B:124 , HOH B:414 , HOH B:470 , HOH B:493	BINDING SITE FOR RESIDUE EDO B 304
19	CC1	SOFTWARE	LYS B:142 , GLN B:204 , HOH B:457	BINDING SITE FOR RESIDUE EDO B 305
20	CC2	SOFTWARE	TRP B:185 , HOH B:427 , HOH B:429 , HOH B:435	BINDING SITE FOR RESIDUE SO4 B 306
21	CC3	SOFTWARE	ALA B:102 , ARG B:103 , ARG C:114	BINDING SITE FOR RESIDUE SO4 B 307
22	CC4	SOFTWARE	ARG A:114 , SER B:113 , ARG B:161 , TYR B:218 , HOH B:525 , HOH B:526	BINDING SITE FOR RESIDUE ACT B 308
23	CC5	SOFTWARE	EDO A:308 , ALA C:102 , ARG C:103 , HOH C:410	BINDING SITE FOR RESIDUE EDO C 301

(no "SS Bond" information available for 4NN0)

(no "Cis Peptide Bond" information available for 4NN0)

(no "SAP(SNP)/Variant" information available for 4NN0)

(no "PROSITE Motif" information available for 4NN0)

(no "Exon" information available for 4NN0)

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:137
                                                                                                                                                                         
               SCOP domains d4nn0a_ A: automated matches                                                                                                              SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee.................eeee.....ee....eee....eeeeeeeeeeeeeeeeeeeeee..eeeeeeee........eeeeeeeeeee....eeeee......eeee.......eeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nn0 A 102 ARSAFSAKRSESRVPPPSDAPLPFDRVLVNEQGHYDAVTGKFTCQVPGVYYFAVHATVYRASLQFDLVKNGESIASFFQFFGGWPKPASLSGGAMVRLEPEDQVWVQVGVGDYIGIYASIKTDSTFSGFLVYSDWHS 238
                                   111       121       131       141       151       161       171       181       191       201       211       221       231

Chain B from PDB  Type:PROTEIN  Length:141
                                                                                                                                                                             
               SCOP domains d4nn0b_ B: automated matches                                                                                                                  SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee.................eeee.....ee....eee....eeeeeeeeeeeeeeeeeeeeee..eeeeeeee........eeeeeeeeeee....eeeee......eeee.......eeeeeeeee........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nn0 B 102 ARSAFSAKRSESRVPPPSDAPLPFDRVLVNEQGHYDAVTGKFTCQVPGVYYFAVHATVYRASLQFDLVKNGESIASFFQFFGGWPKPASLSGGAMVRLEPEDQVWVQVGVGDYIGIYASIKTDSTFSGFLVYSDWHSSPVF 242
                                   111       121       131       141       151       161       171       181       191       201       211       221       231       241

Chain C from PDB  Type:PROTEIN  Length:138
                                                                                                                                                                          
               SCOP domains d4nn0c_ C: automated matches                                                                                                               SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeee.................eeee............ee....eeeeeeeeeeeeeeeeeeeeee..eeeeeeee........eeeeeeeeeee....eeeee......eeee.......eeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4nn0 C 102 ARSAFSAKRSESRVPPPSDAPLPFDRVLVNEQGHYDAVTGKFTCQVPGVYYFAVHATVYRASLQFDLVKNGESIASFFQFFGGWPKPASLSGGAMVRLEPEDQVWVQVGVGDYIGIYASIKTDSTFSGFLVYSDWHSS 239
                                   111       121       131       141       151       161       171       181       191       201       211       221       231

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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 '\|'

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All beta proteins (24004)

Fold: TNF-like (100)

Superfamily: TNF-like (100)

Family: automated matches (18)

Protein domain: automated matches (18)

Human (Homo sapiens) [TaxId: 9606] (18)

1a	d4nn0a_	A:
1b	d4nn0b_	B:
1c	d4nn0c_	C:

(no "CATH Domain" information available for 4NN0)

(no "Pfam Domain" information available for 4NN0)

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
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	C1QT5_HUMAN \| Q9BXJ0	:	4f3j

4f3j	CRYSTAL STRUCTURE OF C1QTNF5 GLOBULAR DOMAIN IN SPACE GROUP OF H3

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 23)

Sites (23, 23)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

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