5L5C - JenaLib

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Title :   PLEXIN A1 FULL EXTRACELLULAR REGION, DOMAINS 1 TO 10, TO 6 ANGSTROM, SPACEGROUP P4(3)2(1)2

Authors :   B. J. C. Janssen, Y. Kong, T. Malinauskas, V. R. Vangoor, C. H. Coles, R. K T. Ni, R. J. C. Gilbert, S. Padilla-Parra, R. J. Pasterkamp, E. Y. Jones

Date :   28 May 16 (Deposition) - 06 Jul 16 (Release) - 17 Aug 16 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   6.00

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

Keywords :   Receptor, Signaling, Axon Guidance, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. Kong, B. J. Janssen, T. Malinauskas, V. R. Vangoor, C. H. Coles, R. Kaufmann, T. Ni, R. J. Gilbert, S. Padilla-Parra, R. J. Pasterkamp, E. Y. Jones
Structural Basis For Plexin Activation And Regulation.
Neuron V. 91 548 2016
PubMed-ID: 27397516 | Reference-DOI: 10.1016/J.NEURON.2016.06.018

Molecule 1 - PLEXIN-A1
	Chains	:	A
	Engineered	:	YES
	Expression System	:	HOMO SAPIENS
	Expression System Cell Line	:	HEK293
	Expression System Common	:	HUMAN
	Expression System Taxid	:	9606
	Fragment	:	UNP RESIDUES 37-1236
	Gene	:	PLXNA1, KIAA4053
	Organism Common	:	HOUSE MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090
	Synonym	:	PLEXIN-1

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 37)

No.	Name	Count	Type	Full Name
1	BMA	7	Ligand/Ion	BETA-D-MANNOSE
2	MAN	12	Ligand/Ion	ALPHA-D-MANNOSE
3	NAG	18	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Biological Unit 1 (3, 74)

No.	Name	Count	Type	Full Name
1	BMA	14	Ligand/Ion	BETA-D-MANNOSE
2	MAN	24	Ligand/Ion	ALPHA-D-MANNOSE
3	NAG	36	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Asymmetric Unit (10, 10)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ARG A:40 , ASN A:75	binding site for Poly-Saccharide residues NAG A 1301 through MAN A 1304 bound to ASN A 75
02	AC2	SOFTWARE	GLN A:567 , ARG A:569 , ASN A:570 , SER A:672	binding site for Poly-Saccharide residues NAG A 1305 through MAN A 1309 bound to ASN A 570
03	AC3	SOFTWARE	ASN A:595 , GLU A:603 , GLU A:605 , LYS A:643	binding site for Poly-Saccharide residues NAG A 1310 through MAN A 1313 bound to ASN A 595
04	AC4	SOFTWARE	ALA A:624 , GLN A:628 , ASN A:658 , VAL A:661	binding site for Poly-Saccharide residues NAG A 1314 through MAN A 1319 bound to ASN A 658
05	AC5	SOFTWARE	ASN A:670	binding site for Poly-Saccharide residues NAG A 1320 through NAG A 1321 bound to ASN A 670
06	AC6	SOFTWARE	PHE A:758 , ASN A:759 , SER A:762 , GLN A:764	binding site for Poly-Saccharide residues NAG A 1322 through MAN A 1326 bound to ASN A 759
07	AC7	SOFTWARE	ASN A:767	binding site for Mono-Saccharide NAG A 1327 bound to ASN A 767
08	AC8	SOFTWARE	ASN A:783 , ASN A:799	binding site for Poly-Saccharide residues NAG A 1328 through BMA A 1330 bound to ASN A 783
09	AC9	SOFTWARE	ARG A:968 , SER A:1021 , ASN A:1041	binding site for Mono-Saccharide NAG A 1331 bound to ASN A 1041
10	AD1	SOFTWARE	ARG A:1050 , ASN A:1096 , THR A:1099	binding site for Poly-Saccharide residues NAG A 1332 through MAN A 1337 bound to ASN A 1096

Asymmetric Unit

No.	Residues
1	A:93	-	A:102
2	A:128	-	A:136
3	A:284	-	A:405
4	A:300	-	A:356
5	A:374	-	A:393
6	A:513	-	A:530
7	A:519	-	A:561
8	A:522	-	A:539
9	A:533	-	A:545
10	A:596	-	A:615
11	A:659	-	A:675
12	A:665	-	A:704
13	A:668	-	A:684
14	A:678	-	A:691
15	A:742	-	A:765
16	A:807	-	A:826
17	A:814	-	A:859
18	A:817	-	A:835
19	A:829	-	A:841
20	A:905	-	A:920
21	A:938	-	A:942
22	A:999	-	A:1011
23	A:1092	-	A:1102
24	A:1195	-	A:1206

(no "Cis Peptide Bond" information available for 5L5C)

(no "SAP(SNP)/Variant" information available for 5L5C)

(no "PROSITE Motif" information available for 5L5C)

(no "Exon" information available for 5L5C)

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
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Chain A from PDB  Type:PROTEIN  Length:1171
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee.....eeeeee......eeeee..eeeee.....eeeeee...eee.................eee.......eee....eee...........eee.....eee...................eeeee.........eeeee............eeeee......................ee..hhhhhhhh.....eeeeeeee..eeeeeeee...........eeeeeeee.........eeeeeeee....eeeeeeeeeee.hhhhhhhhh.......eeeeeeee...........eeeeeeehhhhhhhhhhhhhhhh...........................................ee....eee....eeeeeeeee..eeeeeeee...eeeeee..........eeeeeee.......eeeeeee.....eeeeee..eeeeee..hhhhh.hhhhhhhhh....eee.hhh.eehhhhh........ee.hhhhh.eeee...eee......eeeeeee........eeeeee..eeee.eee..eeeee..hhhhhhhhhh....eeeeeeeeee.....eeeeeeeeee......hhhhhhh.....eee....eee.hhhhh.hhh.ee.hhhhh........eeee....eeeeee.............eeeeee.....eeee.......eeeeeee..........eeeeeeeeee...ee.......eeeee.......hhhhhh.........ee....ee.............ee.............eeeee..eee.....eeeeee.....hhhhhh...ee..eeeee.........eeeeee.........ee.eeee........eee....eeee..eeeee...eee.....eeeeeee.......eeeee..ee.eeeee...eeeee.......eee.eeeee..eee......eeee...eeeee...eee.....eeeeeeehhhhh...eeeeee..eeeeeeeee....eeeee...................eeeee...hhhhh.......eee...........eeee...............eeeee..ee...ee...eeee.....eeeee...ee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5l5c A   37 PAFRTFVASDWGLTHLVVHEQTGEVYVGAVNRIYKLSGNLTLLRAHVTGPVEDNEKCYPPPSVQSCPHGLGSTDNVNKLLLLDYAANRLLACGSASQGICQFLRLDDLFKLGEPHHRKEHYLSSVREAGSMAGVLIAGPPGQGQAKLFVGTPIDGKSEYFPTLSSRRLMANEEDADMFGFVYQDEFVSSQLKIPSDTLSKFPAFDIYYVYSFRSEQFVYYLTLQLDTQLAGEHFFTSKIVRLCVNDPKFYSYVEFPIGCEQAGVEYRLVQDAYLSRPGQALAKQLGLAEDEEVLFTVFAQGQKNRVKPPKESALCLFTLRAIKEKIKERIQSCYRGEGKLSLPWLLNKELGCINSPLQIDDDFCGQDFNQPLGGTVTIEGTPLFVDKEDGLTAVAAYDYQGRTVVFAGTRSGRIRKILVDLANPSGRPALAYESVVAQEGNPILRDLVLSPNRQYLYAMTEKQVTQVPVESCVQYTSCELCLGSRDPHCGWCVLHSICSRQDACERAEEPQRFASDLLQCVQLTVQPRNVSVTMSQVPLVLQAWNVPDLSAGVNCSFEDFTETESILEDGRIHCHSPSAREVAPITQGQGDQRVVKLYLKSKETGKKFASVDFVFYNCSVHQSCLACVNGSFPCHWCKYRHVCTNNAADCAFLEGRVNMSEDCPQILPSTHIYVPVGVVKPITLAARNLPQPQSGQRGYECLFHIPGSPARVTALRFNSSSLQCQNSSYSYEGNDVSDLPVNLSVVWNGNFVIDNPQNIQAHLYKCPALRQSCGLCLKADPRFECGWCVAERRCSLRHHCPADSPASWMHAHHGSSRCTDPKILKLSPETGPRQGGTRLTITGENLGLRFEDVRLGVHVGKVLCSPVESEYISAEQIVCEIGDASTLRAHDALVEVCVRDCSLHYRALSPKRFTFVTPTFYRVSPSRGPLSGGTWIGIEGSHLNAGSDVAVSIGGRPCSFSWRNSREIRCLTPPGHTPGSAPIVININRAQLSNPEVKYNYTEDPTILRIDPEWSINSGGTLLTVTGTNLATVREPRIRAKYGGIERENSCMVYNDTTMVCRAPSIDNPKRSPPELGERPDEIGFIMDNVRTLLVLNSSSFLYYPDPVLEPLSSPLILKGRNLLPPAPGNSRLNYTVLIGSTPCILTVSETQLLCEAPNKVTVRAGGFEFS 1227
                                    46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       271       281       291       301       311       321       331       341       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       691       701       711       721       731       741       751       761       771       781       791       801       811       821       831       841       851       861       871       881       891       901       911       921       931       941       951       961       971       981       991      1001      1011      1021      1031      1041      1051      1061      1071      1081      1091      1101      1111      1121      1131      1141      1151 ||   1171      1181      1191      1201      1216      1226 
                                                                                                                                                                                                                                                              265|                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              1153|                                          1210|           
                                                                                                                                                                                                                                                               271                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               1164                                           1216

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 '\|'

(no "SCOP Domain" information available for 5L5C)

(no "CATH Domain" information available for 5L5C)

(no "Pfam Domain" information available for 5L5C)

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Asymmetric Unit
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Biological Unit
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		Biological Unit 1	[ Jena3D ]

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	5l5c
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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 37)

Sites (10, 10)

SS Bonds (24, 24)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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